1
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Chen J, Ham BK, Kochian LV, Lucas WJ. A cucumber protein, Phloem Phosphate Stress-Repressed 1, rapidly degrades in response to a phosphate stress condition. J Exp Bot 2024; 75:2176-2190. [PMID: 38113277 DOI: 10.1093/jxb/erad504] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/01/2023] [Accepted: 12/15/2023] [Indexed: 12/21/2023]
Abstract
Under depleted external phosphate (Pi), many plant species adapt to this stress by initiating downstream signaling cascades. In plants, the vascular system delivers nutrients and signaling agents to control physiological and developmental processes. Currently, limited information is available regarding the direct role of phloem-borne long-distance signals in plant growth and development under Pi stress conditions. Here, we report on the identification and characterization of a cucumber protein, Cucumis sativus Phloem Phosphate Stress-Repressed 1 (CsPPSR1), whose level in the phloem translocation stream rapidly responds to imposed Pi-limiting conditions. CsPPSR1 degradation is mediated by the 26S proteasome; under Pi-sufficient conditions, CsPPSR1 is stabilized by its phosphorylation within the sieve tube system through the action of CsPPSR1 kinase. Further, we discovered that CsPPSR1 kinase was susceptible to Pi starvation-induced degradation in the sieve tube system. Our findings offer insight into a molecular mechanism underlying the response of phloem-borne proteins to Pi-limited stress conditions.
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Affiliation(s)
- Jieyu Chen
- Department of Plant Biology, University of California, Davis, CA, USA
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | - Byung-Kook Ham
- Department of Plant Biology, University of California, Davis, CA, USA
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
- Department of Biology, University of Saskatchewan, Saskatoon, SK, Canada
| | - Leon V Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
- Department of Plant Sciences & Soil Science, University of Saskatchewan, Saskatoon, SK, Canada
| | - William J Lucas
- Department of Plant Biology, University of California, Davis, CA, USA
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2
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Liu Z, Qin T, Atienza M, Zhao Y, Nguyen H, Sheng H, Olukayode T, Song H, Panjvani K, Magalhaes J, Lucas WJ, Kochian LV. Constitutive basis of root system architecture: uncovering a promising trait for breeding nutrient- and drought-resilient crops. aBIOTECH 2023; 4:315-331. [PMID: 38106432 PMCID: PMC10721591 DOI: 10.1007/s42994-023-00112-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/01/2023] [Accepted: 07/20/2023] [Indexed: 12/19/2023]
Abstract
Root system architecture (RSA) plays a pivotal role in efficient uptake of essential nutrients, such as phosphorous (P), nitrogen (N), and water. In soils with heterogeneous nutrient distribution, root plasticity can optimize acquisition and plant growth. Here, we present evidence that a constitutive RSA can confer benefits for sorghum grown under both sufficient and limiting growth conditions. Our studies, using P efficient SC103 and inefficient BTx635 sorghum cultivars, identified significant differences in root traits, with SC103 developing a larger root system with more and longer lateral roots, and enhanced shoot biomass, under both nutrient sufficient and deficient conditions. In addition to this constitutive attribute, under P deficiency, both cultivars exhibited an initial increase in lateral root development; however, SC103 still maintained the larger root biomass. Although N deficiency and drought stress inhibited both root and shoot growth, for both sorghum cultivars, SC103 again maintained the better performance. These findings reveal that SC103, a P efficient sorghum cultivar, also exhibited enhanced growth performance under N deficiency and drought. Our results provide evidence that this constitutive nature of RSA can provide an avenue for breeding nutrient- and drought-resilient crops. Supplementary Information The online version contains supplementary material available at 10.1007/s42994-023-00112-w.
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Affiliation(s)
- Zhigang Liu
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4L8 Canada
| | - Tongfei Qin
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4L8 Canada
| | - Michaella Atienza
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4L8 Canada
| | - Yang Zhao
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4L8 Canada
| | - Hanh Nguyen
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4L8 Canada
| | - Huajin Sheng
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4L8 Canada
| | - Toluwase Olukayode
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4L8 Canada
| | - Hao Song
- Department of Computer Science, University of Saskatchewan, Saskatoon, SK S7N 5C9 Canada
| | - Karim Panjvani
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4L8 Canada
| | - Jurandir Magalhaes
- Embrapa Maize and Sorghum, Brazilian Agricultural Research Corporation, Sete Lagoas, MG 35701-970 Brazil
| | - William J. Lucas
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4L8 Canada
- Department of Plant Biology, College of Biological Sciences, University of California, Davis, CA 95616 USA
| | - Leon V. Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4L8 Canada
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3
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Olukayode T, Chen J, Zhao Y, Quan C, Kochian LV, Ham BK. Phloem-Mobile MYB44 Negatively Regulates Expression of PHOSPHATE TRANSPORTER 1 in Arabidopsis Roots. Plants (Basel) 2023; 12:3617. [PMID: 37896080 PMCID: PMC10610484 DOI: 10.3390/plants12203617] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/12/2023] [Revised: 10/03/2023] [Accepted: 10/17/2023] [Indexed: 10/29/2023]
Abstract
Phosphorus (P) is an essential plant macronutrient; however, its availability is often limited in soils. Plants have evolved complex mechanisms for efficient phosphate (Pi) absorption, which are responsive to changes in external and internal Pi concentration, and orchestrated through local and systemic responses. To explore these systemic Pi responses, here we identified AtMYB44 as a phloem-mobile mRNA, an Arabidopsis homolog of Cucumis sativus MYB44, that is responsive to the Pi-starvation stress. qRT-PCR assays revealed that AtMYB44 was up-regulated and expressed in both shoot and root in response to Pi-starvation stress. The atmyb44 mutant displayed higher shoot and root biomass compared to wild-type plants, under Pi-starvation conditions. Interestingly, the expression of PHOSPHATE TRANSPORTER1;2 (PHT1;2) and PHT1;4 was enhanced in atmyb44 in response to a Pi-starvation treatment. A split-root assay showed that AtMYB44 expression was systemically regulated under Pi-starvation conditions, and in atmyb44, systemic controls on PHT1;2 and PHT1;4 expression were moderately disrupted. Heterografting assays confirmed graft transmission of AtMYB44 transcripts, and PHT1;2 and PHT1;4 expression was decreased in heterografted atmyb44 rootstocks. Taken together, our findings support the hypothesis that mobile AtMYB44 mRNA serves as a long-distance Pi response signal, which negatively regulates Pi transport and utilization in Arabidopsis.
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Affiliation(s)
- Toluwase Olukayode
- Global Institute for Food Security (GIFS), University of Saskatchewan, 421 Downey Rd, Saskatoon, SK S7N 4L8, Canada; (T.O.); (J.C.); (Y.Z.); (C.Q.); (L.V.K.)
- Department of Biology, University of Saskatchewan, 112 Science Place, Saskatoon, SK S7N 5E2, Canada
| | - Jieyu Chen
- Global Institute for Food Security (GIFS), University of Saskatchewan, 421 Downey Rd, Saskatoon, SK S7N 4L8, Canada; (T.O.); (J.C.); (Y.Z.); (C.Q.); (L.V.K.)
| | - Yang Zhao
- Global Institute for Food Security (GIFS), University of Saskatchewan, 421 Downey Rd, Saskatoon, SK S7N 4L8, Canada; (T.O.); (J.C.); (Y.Z.); (C.Q.); (L.V.K.)
| | - Chuanhezi Quan
- Global Institute for Food Security (GIFS), University of Saskatchewan, 421 Downey Rd, Saskatoon, SK S7N 4L8, Canada; (T.O.); (J.C.); (Y.Z.); (C.Q.); (L.V.K.)
- Department of Biology, University of Saskatchewan, 112 Science Place, Saskatoon, SK S7N 5E2, Canada
| | - Leon V. Kochian
- Global Institute for Food Security (GIFS), University of Saskatchewan, 421 Downey Rd, Saskatoon, SK S7N 4L8, Canada; (T.O.); (J.C.); (Y.Z.); (C.Q.); (L.V.K.)
- Department of Plant Science, University of Saskatchewan, 51 Campus Drive, Saskatoon, SK S7N 5A8, Canada
| | - Byung-Kook Ham
- Global Institute for Food Security (GIFS), University of Saskatchewan, 421 Downey Rd, Saskatoon, SK S7N 4L8, Canada; (T.O.); (J.C.); (Y.Z.); (C.Q.); (L.V.K.)
- Department of Biology, University of Saskatchewan, 112 Science Place, Saskatoon, SK S7N 5E2, Canada
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4
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Chandnani R, Qin T, Ye H, Hu H, Panjvani K, Tokizawa M, Macias JM, Medina AA, Bernardino K, Pradier PL, Banik P, Mooney A, V Magalhaes J, T Nguyen H, Kochian LV. Application of an Improved 2-Dimensional High-Throughput Soybean Root Phenotyping Platform to Identify Novel Genetic Variants Regulating Root Architecture Traits. Plant Phenomics 2023; 5:0097. [PMID: 37780968 PMCID: PMC10538525 DOI: 10.34133/plantphenomics.0097] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/05/2023] [Accepted: 09/05/2023] [Indexed: 10/03/2023]
Abstract
Nutrient-efficient root system architecture (RSA) is becoming an important breeding objective for generating crop varieties with improved nutrient and water acquisition efficiency. Genetic variants shaping soybean RSA is key in improving nutrient and water acquisition. Here, we report on the use of an improved 2-dimensional high-throughput root phenotyping platform that minimizes background noise by imaging pouch-grown root systems submerged in water. We also developed a background image cleaning Python pipeline that computationally removes images of small pieces of debris and filter paper fibers, which can be erroneously quantified as root tips. This platform was used to phenotype root traits in 286 soybean lines genotyped with 5.4 million single-nucleotide polymorphisms. There was a substantially higher correlation in manually counted number of root tips with computationally quantified root tips (95% correlation), when the background was cleaned of nonroot materials compared to root images without the background corrected (79%). Improvements in our RSA phenotyping pipeline significantly reduced overestimation of the root traits influenced by the number of root tips. Genome-wide association studies conducted on the root phenotypic data and quantitative gene expression analysis of candidate genes resulted in the identification of 3 putative positive regulators of root system depth, total root length and surface area, and root system volume and surface area of thicker roots (DOF1-like zinc finger transcription factor, protein of unknown function, and C2H2 zinc finger protein). We also identified a putative negative regulator (gibberellin 20 oxidase 3) of the total number of lateral roots.
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Affiliation(s)
- Rahul Chandnani
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
- NRGene Canada, 110 Research Dr Suite 101, Saskatoon, SK, Canada
| | - Tongfei Qin
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | - Heng Ye
- Division of Plant Sciences and Technology, University of Missouri, Columbia, MO 65211, USA
| | - Haifei Hu
- School of Biological Sciences, The University of Western Australia, Crawley, WA 6009, Australia
- Rice Research Institute, Guangdong Academy of Agricultural Sciences & Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China(Co-construction by Ministry and Province), Ministry of Agriculture and Rural Affairs & Guangdong Key Laboratory of New Technology in Rice Breeding & Guangdong Rice Engineering Laboratory, Guangdong, China
| | - Karim Panjvani
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | - Mutsutomo Tokizawa
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | - Javier Mora Macias
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | - Alma Armenta Medina
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | | | - Pierre-Luc Pradier
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | - Pankaj Banik
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | - Ashlyn Mooney
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | | | - Henry T Nguyen
- Division of Plant Sciences and Technology, University of Missouri, Columbia, MO 65211, USA
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | - Leon V Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
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5
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Tokizawa M, Enomoto T, Chandnani R, Mora-Macías J, Burbridge C, Armenta-Medina A, Kobayashi Y, Yamamoto YY, Koyama H, Kochian LV. The transcription factors, STOP1 and TCP20, are required for root system architecture alterations in response to nitrate deficiency. Proc Natl Acad Sci U S A 2023; 120:e2300446120. [PMID: 37611056 PMCID: PMC10469342 DOI: 10.1073/pnas.2300446120] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2023] [Accepted: 06/27/2023] [Indexed: 08/25/2023] Open
Abstract
Nitrate distribution in soils is often heterogeneous. Plants have adapted to this by modifying their root system architecture (RSA). Previous studies showed that NITRATE-TRANSPORTER1.1 (NRT1.1), which also transports auxin, helps inhibit lateral root primordia (LRP) emergence in nitrate-poor patches, by preferentially transporting auxin away from the LRP. In this study, we identified the regulatory system for this response involving the transcription factor (TF), SENSITIVE-TO-PROTON-RHIZOTOXICITY1 (STOP1), which is accumulated in the nuclei of LRP cells under nitrate deficiency and directly regulates Arabidopsis NRT1.1 expression. Mutations in STOP1 mimic the root phenotype of the loss-of-function NRT1.1 mutant under nitrate deficiency, compared to wild-type plants, including increased LR growth and higher DR5promoter activity (i.e., higher LRP auxin signaling/activity). Nitrate deficiency-induced LR growth inhibition was almost completely reversed when STOP1 and the TF, TEOSINTE-BRANCHED1,-CYCLOIDEA,-PCF-DOMAIN-FAMILY-PROTEIN20 (TCP20), a known activator of NRT1.1 expression, were both mutated. Thus, the STOP1-TCP20 system is required for activation of NRT1.1 expression under nitrate deficiency, leading to reduced LR growth in nitrate-poor regions. We found this STOP1-mediated system is more active as growth media becomes more acidic, which correlates with reductions in soil nitrate as the soil pH becomes more acidic. STOP1 has been shown to be involved in RSA modifications in response to phosphate deficiency and increased potassium uptake, hence, our findings indicate that root growth regulation in response to low availability of the major fertilizer nutrients, nitrogen, phosphorus and potassium, all involve STOP1, which may allow plants to maintain appropriate root growth under the complex and varying soil distribution of nutrients.
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Affiliation(s)
- Mutsutomo Tokizawa
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SaskatchewanS7N 4J8, Canada
| | - Takuo Enomoto
- Applied Biological Sciences, Gifu University, Gifu501-1193, Japan
| | - Rahul Chandnani
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SaskatchewanS7N 4J8, Canada
- NRGene Canada Inc., Saskatoon, SKS7N 3R3, Canada
| | - Javier Mora-Macías
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SaskatchewanS7N 4J8, Canada
| | - Connor Burbridge
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SaskatchewanS7N 4J8, Canada
| | - Alma Armenta-Medina
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SaskatchewanS7N 4J8, Canada
| | - Yuriko Kobayashi
- Applied Biological Sciences, Gifu University, Gifu501-1193, Japan
| | - Yoshiharu Y. Yamamoto
- Applied Biological Sciences, Gifu University, Gifu501-1193, Japan
- RIKEN Center for Sustainable Resource Science, Yokohama230-0045, Japan
| | - Hiroyuki Koyama
- Applied Biological Sciences, Gifu University, Gifu501-1193, Japan
| | - Leon V. Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SaskatchewanS7N 4J8, Canada
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6
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Chia JC, Yan J, Rahmati Ishka M, Faulkner MM, Simons E, Huang R, Smieska L, Woll A, Tappero R, Kiss A, Jiao C, Fei Z, Kochian LV, Walker E, Piñeros M, Vatamaniuk OK. Loss of OPT3 function decreases phloem copper levels and impairs crosstalk between copper and iron homeostasis and shoot-to-root signaling in Arabidopsis thaliana. Plant Cell 2023; 35:2157-2185. [PMID: 36814393 PMCID: PMC10226573 DOI: 10.1093/plcell/koad053] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/21/2022] [Revised: 12/16/2022] [Accepted: 02/17/2023] [Indexed: 05/30/2023]
Abstract
Copper (Cu) and iron (Fe) are essential micronutrients that are toxic when accumulating in excess in cells. Thus, their uptake by roots is tightly regulated. While plants sense and respond to local Cu availability, the systemic regulation of Cu uptake has not been documented in contrast to local and systemic control of Fe uptake. Fe abundance in the phloem has been suggested to act systemically, regulating the expression of Fe uptake genes in roots. Consistently, shoot-to-root Fe signaling is disrupted in Arabidopsis thaliana mutants lacking the phloem companion cell-localized Fe transporter, OLIGOPEPTIDE TRANSPORTER 3 (AtOPT3). We report that AtOPT3 also transports Cu in heterologous systems and contributes to its delivery from sources to sinks in planta. The opt3 mutant contained less Cu in the phloem, was sensitive to Cu deficiency and mounted a transcriptional Cu deficiency response in roots and young leaves. Feeding the opt3 mutant and Cu- or Fe-deficient wild-type seedlings with Cu or Fe via the phloem in leaves downregulated the expression of both Cu- and Fe-deficiency marker genes in roots. These data suggest the existence of shoot-to-root Cu signaling, highlight the complexity of Cu/Fe interactions, and the role of AtOPT3 in fine-tuning root transcriptional responses to the plant Cu and Fe needs.
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Affiliation(s)
- Ju-Chen Chia
- Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, NY 14853, USA
| | - Jiapei Yan
- Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, NY 14853, USA
| | - Maryam Rahmati Ishka
- Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, NY 14853, USA
- Boyce Thompson Institute for Plant Research, Ithaca, NY 14853, USA
| | - Marta Marie Faulkner
- Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, NY 14853, USA
| | - Eli Simons
- Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, NY 14853, USA
| | - Rong Huang
- Cornell High Energy Synchrotron Source (CHESS), Cornell University, Ithaca, NY 14853, USA
| | - Louisa Smieska
- Cornell High Energy Synchrotron Source (CHESS), Cornell University, Ithaca, NY 14853, USA
| | - Arthur Woll
- Cornell High Energy Synchrotron Source (CHESS), Cornell University, Ithaca, NY 14853, USA
| | - Ryan Tappero
- National Light Source II, Brookhaven National Laboratory, Upton, NY 11973, USA
| | - Andrew Kiss
- National Light Source II, Brookhaven National Laboratory, Upton, NY 11973, USA
| | - Chen Jiao
- Boyce Thompson Institute for Plant Research, Ithaca, NY 14853, USA
| | - Zhangjun Fei
- Boyce Thompson Institute for Plant Research, Ithaca, NY 14853, USA
- Robert W. Holley Center for Agriculture and Health, USDA-ARS, NY 14853, USA
| | - Leon V Kochian
- Robert W. Holley Center for Agriculture and Health, USDA-ARS, NY 14853, USA
| | - Elsbeth Walker
- Department of Biology, University of Massachusetts, MA 01003, USA
| | - Miguel Piñeros
- Plant Biology Section, School of Integrative Plant Science, Cornell University, Ithaca, NY 14853, USA
- Boyce Thompson Institute for Plant Research, Ithaca, NY 14853, USA
- Robert W. Holley Center for Agriculture and Health, USDA-ARS, NY 14853, USA
| | - Olena K Vatamaniuk
- Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, NY 14853, USA
- Plant Biology Section, School of Integrative Plant Science, Cornell University, Ithaca, NY 14853, USA
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7
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Lyzenga WJ, Liu Z, Olukayode T, Zhao Y, Kochian LV, Ham BK. Getting to the roots of N, P, and K uptake. J Exp Bot 2023; 74:1784-1805. [PMID: 36708176 DOI: 10.1093/jxb/erad035] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/08/2022] [Accepted: 01/26/2023] [Indexed: 06/18/2023]
Abstract
The soil contributes to the main pool of essential mineral nutrients for plants. These mineral nutrients are critical elements for the building blocks of plant biomolecules, play fundamental roles in cell processes, and act in various enzymatic reactions. The roots are the main entry point for mineral nutrients used within the plant to grow, develop, and produce seeds. In this regard, a suite of plant nutrient transport systems, sensors, and signaling proteins function in acquiring mineral nutrients through the roots. Mineral nutrients from chemical fertilizers, composed mainly of nitrogen, phosphorus, and potassium (NPK), are added to agricultural land to maximize crop yields, worldwide. However, improving nutrient uptake and use within crops is critical for economically and environmentally sustainable agriculture. Therefore, we review the molecular basis for N, P, and K nutrient uptake into the roots. Remarkably, plants are responsive to heterogeneous nutrient distribution and align root growth and nutrient uptake with nutrient-rich patches. We highlight the relationship between nutrient distribution in the growth environment and root system architecture. We discuss the exchange of information between the root and shoot systems through the xylem and phloem, which coordinates nutrient uptake with photosynthesis. The size and structure of the root system, along with the abundance and activity of nutrient transporters, largely determine the nutrient acquisition rate. Lastly, we discuss connections between N, P, and K uptake and signaling.
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Affiliation(s)
- Wendy J Lyzenga
- Global Institute for Food Security, University of Saskatchewan, 421 Downey Road, Suite 101, Saskatoon, SK S7N 4L8, Canada
| | - Zhigang Liu
- Global Institute for Food Security, University of Saskatchewan, 421 Downey Road, Suite 101, Saskatoon, SK S7N 4L8, Canada
| | - Toluwase Olukayode
- Global Institute for Food Security, University of Saskatchewan, 421 Downey Road, Suite 101, Saskatoon, SK S7N 4L8, Canada
| | - Yang Zhao
- Global Institute for Food Security, University of Saskatchewan, 421 Downey Road, Suite 101, Saskatoon, SK S7N 4L8, Canada
| | - Leon V Kochian
- Global Institute for Food Security, University of Saskatchewan, 421 Downey Road, Suite 101, Saskatoon, SK S7N 4L8, Canada
| | - Byung-Kook Ham
- Global Institute for Food Security, University of Saskatchewan, 421 Downey Road, Suite 101, Saskatoon, SK S7N 4L8, Canada
- Department of Biology, University of Saskatchewan, Saskatoon, SK S7N 5E2, Canada
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8
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Jia Z, Gao P, Yin F, Quilichini TD, Sheng H, Song J, Yang H, Gao J, Chen T, Yang B, Kochian LV, Zou J, Patterson N, Yang Q, Gillmor CS, Datla R, Li Q, Xiang D. Asymmetric gene expression in grain development of reciprocal crosses between tetraploid and hexaploid wheats. Commun Biol 2022; 5:1412. [PMID: 36564439 PMCID: PMC9789062 DOI: 10.1038/s42003-022-04374-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2022] [Accepted: 12/13/2022] [Indexed: 12/24/2022] Open
Abstract
Production of viable progeny from interploid crosses requires precise regulation of gene expression from maternal and paternal chromosomes, yet the transcripts contributed to hybrid seeds from polyploid parent species have rarely been explored. To investigate the genome-wide maternal and paternal contributions to polyploid grain development, we analyzed the transcriptomes of developing embryos, from zygote to maturity, alongside endosperm in two stages of development, using reciprocal crosses between tetraploid and hexaploid wheats. Reciprocal crosses between species with varied levels of ploidy displayed broad impacts on gene expression, including shifts in alternative splicing events in select crosses, as illustrated by active splicing events, enhanced protein synthesis and chromatin remodeling. Homoeologous gene expression was repressed on the univalent D genome in pentaploids, but this suppression was attenuated in crosses with a higher ploidy maternal parent. Imprinted genes were identified in endosperm and early embryo tissues, supporting predominant maternal effects on early embryogenesis. By systematically investigating the complex transcriptional networks in reciprocal-cross hybrids, this study presents a framework for understanding the genomic incompatibility and transcriptome shock that results from interspecific hybridization and uncovers the transcriptional impacts on hybrid seeds created from agriculturally-relevant polyploid species.
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Affiliation(s)
- Zhen Jia
- grid.35155.370000 0004 1790 4137National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, 430070 Wuhan, China
| | - Peng Gao
- grid.25152.310000 0001 2154 235XGlobal Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4J8 Canada
| | - Feifan Yin
- grid.35155.370000 0004 1790 4137National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, 430070 Wuhan, China ,grid.35155.370000 0004 1790 4137Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, 430070 Wuhan, China
| | - Teagen D. Quilichini
- grid.24433.320000 0004 0449 7958Aquatic and Crop Resource Development, National Research Council Canada, 110 Gymnasium Place, Saskatoon, SK S7N 0W9 Canada
| | - Huajin Sheng
- grid.25152.310000 0001 2154 235XGlobal Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4J8 Canada
| | - Jingpu Song
- grid.24433.320000 0004 0449 7958Aquatic and Crop Resource Development, National Research Council Canada, 110 Gymnasium Place, Saskatoon, SK S7N 0W9 Canada
| | - Hui Yang
- grid.24433.320000 0004 0449 7958Aquatic and Crop Resource Development, National Research Council Canada, 110 Gymnasium Place, Saskatoon, SK S7N 0W9 Canada
| | - Jie Gao
- grid.35155.370000 0004 1790 4137National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, 430070 Wuhan, China
| | - Ting Chen
- grid.35155.370000 0004 1790 4137National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, 430070 Wuhan, China
| | - Bo Yang
- grid.35155.370000 0004 1790 4137National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, 430070 Wuhan, China
| | - Leon V. Kochian
- grid.25152.310000 0001 2154 235XGlobal Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4J8 Canada
| | - Jitao Zou
- grid.24433.320000 0004 0449 7958Aquatic and Crop Resource Development, National Research Council Canada, 110 Gymnasium Place, Saskatoon, SK S7N 0W9 Canada
| | - Nii Patterson
- grid.24433.320000 0004 0449 7958Aquatic and Crop Resource Development, National Research Council Canada, 110 Gymnasium Place, Saskatoon, SK S7N 0W9 Canada
| | - Qingyong Yang
- grid.35155.370000 0004 1790 4137National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, 430070 Wuhan, China ,grid.35155.370000 0004 1790 4137Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, 430070 Wuhan, China
| | - C. Stewart Gillmor
- grid.512574.0Langebio, Unidad de Genómica Avanzada, Centro de Investigación y Estudios Avanzados del IPN (CINVESTAV-IPN), Irapuato, Guanajuato, 36821 México
| | - Raju Datla
- grid.25152.310000 0001 2154 235XGlobal Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4J8 Canada
| | - Qiang Li
- grid.35155.370000 0004 1790 4137National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, 430070 Wuhan, China
| | - Daoquan Xiang
- grid.24433.320000 0004 0449 7958Aquatic and Crop Resource Development, National Research Council Canada, 110 Gymnasium Place, Saskatoon, SK S7N 0W9 Canada
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9
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Gao P, Qin L, Nguyen H, Sheng H, Quilichini TD, Xiang D, Kochian LV, Wei Y, Datla R. Clustered regularly interspaced short palindromic repeats/CRISPR-associated protein 9-generated diallelic mutants reveal Arabidopsis actin-related protein 2 function in the trafficking of syntaxin PEN1. Front Plant Sci 2022; 13:934002. [PMID: 36204067 PMCID: PMC9531028 DOI: 10.3389/fpls.2022.934002] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/01/2022] [Accepted: 08/31/2022] [Indexed: 06/16/2023]
Abstract
In plants, the actin cytoskeleton plays a critical role in defense against diverse pathogens. The formation of actin patches is essential for the intracellular transport of organelles and molecules toward pathogen penetration sites and the formation of papillae for an early cellular response to powdery mildew attack in Arabidopsis thaliana. This response process is regulated by the actin-related protein (ARP)2/3 complex and its activator, the WAVE/SCAR complex (W/SRC). The ARP2/3 complex is also required for maintaining steady-state levels of the defense-associated protein, PENETRATION 1 (PEN1), at the plasma membrane and for its deposition into papillae. However, specific ARP2 functionalities in this context remain unresolved, as knockout mutants expressing GFP-PEN1 reporter constructs could not be obtained by conventional crossing approaches. In this study, employing a CRISPR/Cas9 multiplexing-mediated genome editing approach, we produced an ARP2 knockout expressing the GFP-PEN1 marker in Arabidopsis. This study successfully identified diallelic somatic mutations with both ARP2 alleles edited among the primary T1 transgenic plants, and also obtained independent lines with stable arp2/arp2 mutations in the T2 generation. Further analyses on these arp2/arp2 mutants showed similar biological functions of ARP2 to ARP3 in the accumulation of PEN1 against fungal invasion. Together, this CRISPR/Cas9-based approach offers highly efficient simultaneous disruption of the two ARP2 alleles in GFP-PEN1-expressing lines, and a rapid method for performing live-cell imaging to facilitate the investigation of important plant-pathogen interactions using a well-established and widely applied GFP marker system, thus gaining insights and elucidating the contributions of ARP2 upon fungal attack.
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Affiliation(s)
- Peng Gao
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
- Agriculture and Agri-Food Canada, Saskatoon Research and Development Centre, Saskatoon, SK, Canada
| | - Li Qin
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | - Hanh Nguyen
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | - Huajin Sheng
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | - Teagen D. Quilichini
- Aquatic and Crop Resource Development, National Research Council Canada, Saskatoon, SK, Canada
| | - Daoquan Xiang
- Aquatic and Crop Resource Development, National Research Council Canada, Saskatoon, SK, Canada
| | - Leon V. Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | - Yangdou Wei
- College of Arts and Science, University of Saskatchewan, Saskatoon, SK, Canada
| | - Raju Datla
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
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10
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Gao P, Quilichini TD, Yang H, Li Q, Nilsen KT, Qin L, Babic V, Liu L, Cram D, Pasha A, Esteban E, Condie J, Sidebottom C, Zhang Y, Huang Y, Zhang W, Bhowmik P, Kochian LV, Konkin D, Wei Y, Provart NJ, Kagale S, Smith M, Patterson N, Gillmor CS, Datla R, Xiang D. Evolutionary divergence in embryo and seed coat development of U's Triangle Brassica species illustrated by a spatiotemporal transcriptome atlas. New Phytol 2022; 233:30-51. [PMID: 34687557 DOI: 10.1111/nph.17759] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/16/2021] [Accepted: 07/19/2021] [Indexed: 06/13/2023]
Abstract
The economically valuable Brassica species include the six related members of U's Triangle. Despite the agronomic and economic importance of these Brassicas, the impacts of evolution and relatively recent domestication events on the genetic landscape of seed development have not been comprehensively examined in these species. Here we present a 3D transcriptome atlas for the six species of U's Triangle, producing a unique resource that captures gene expression data for the major subcompartments of the seed, from the unfertilized ovule to the mature embryo and seed coat. This comprehensive dataset for seed development in tetraploid and ancestral diploid Brassicas provides new insights into evolutionary divergence and expression bias at the gene and subgenome levels during the domestication of these valued crop species. Comparisons of gene expression associated with regulatory networks and metabolic pathways operating in the embryo and seed coat during seed development reveal differences in storage reserve accumulation and fatty acid metabolism among the six Brassica species. This study illustrates the genetic underpinnings of seed traits and the selective pressures placed on seed production, providing an immense resource for continued investigation of Brassica polyploid biology, genomics and evolution.
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Affiliation(s)
- Peng Gao
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, S7N 4L8, Canada
| | - Teagen D Quilichini
- Aquatic and Crop Resource Development, National Research Council Canada, 110 Gymnasium Place, Saskatoon, SK, S7N 0W9, Canada
| | - Hui Yang
- Aquatic and Crop Resource Development, National Research Council Canada, 110 Gymnasium Place, Saskatoon, SK, S7N 0W9, Canada
| | - Qiang Li
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, 430070, China
| | - Kirby T Nilsen
- Brandon Research and Development Centre, Agriculture and Agri-Food Canada, 2701 Grand Valley Road, Brandon, MB, R7C 1A1, Canada
| | - Li Qin
- College of Art & Science, University of Saskatchewan, 9 Campus Dr, Saskatoon, SK, S7N 5A5, Canada
| | - Vivijan Babic
- Aquatic and Crop Resource Development, National Research Council Canada, 110 Gymnasium Place, Saskatoon, SK, S7N 0W9, Canada
| | - Li Liu
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, S7N 4L8, Canada
| | - Dustin Cram
- Aquatic and Crop Resource Development, National Research Council Canada, 110 Gymnasium Place, Saskatoon, SK, S7N 0W9, Canada
| | - Asher Pasha
- Department of Cell & Systems Biology, University of Toronto, 25 Willcocks St., Toronto, ON, M5S 3B2, Canada
| | - Eddi Esteban
- Department of Cell & Systems Biology, University of Toronto, 25 Willcocks St., Toronto, ON, M5S 3B2, Canada
| | - Janet Condie
- Aquatic and Crop Resource Development, National Research Council Canada, 110 Gymnasium Place, Saskatoon, SK, S7N 0W9, Canada
| | - Christine Sidebottom
- Aquatic and Crop Resource Development, National Research Council Canada, 110 Gymnasium Place, Saskatoon, SK, S7N 0W9, Canada
| | - Yan Zhang
- Saskatoon Research and Development Centre, Agriculture and Agri-Food Canada, 107 Science Place, Saskatoon, SK, S7N 0X2, Canada
| | - Yi Huang
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture and Rural Affairs, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan, 430062, China
| | - Wentao Zhang
- Aquatic and Crop Resource Development, National Research Council Canada, 110 Gymnasium Place, Saskatoon, SK, S7N 0W9, Canada
| | - Pankaj Bhowmik
- Aquatic and Crop Resource Development, National Research Council Canada, 110 Gymnasium Place, Saskatoon, SK, S7N 0W9, Canada
| | - Leon V Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, S7N 4L8, Canada
| | - David Konkin
- Aquatic and Crop Resource Development, National Research Council Canada, 110 Gymnasium Place, Saskatoon, SK, S7N 0W9, Canada
| | - Yangdou Wei
- College of Art & Science, University of Saskatchewan, 9 Campus Dr, Saskatoon, SK, S7N 5A5, Canada
| | - Nicholas J Provart
- Department of Cell & Systems Biology, University of Toronto, 25 Willcocks St., Toronto, ON, M5S 3B2, Canada
| | - Sateesh Kagale
- Aquatic and Crop Resource Development, National Research Council Canada, 110 Gymnasium Place, Saskatoon, SK, S7N 0W9, Canada
| | - Mark Smith
- Saskatoon Research and Development Centre, Agriculture and Agri-Food Canada, 107 Science Place, Saskatoon, SK, S7N 0X2, Canada
| | - Nii Patterson
- Aquatic and Crop Resource Development, National Research Council Canada, 110 Gymnasium Place, Saskatoon, SK, S7N 0W9, Canada
| | - C Stewart Gillmor
- Laboratorio Nacional de Genómica para la Biodiversidad (Langebio), Unidad de Genómica Avanzada, Centro de Investigación y Estudios Avanzados del IPN (CINVESTAV-IPN), Irapuato, Guanajuato, 36821, México
| | - Raju Datla
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, S7N 4L8, Canada
| | - Daoquan Xiang
- Aquatic and Crop Resource Development, National Research Council Canada, 110 Gymnasium Place, Saskatoon, SK, S7N 0W9, Canada
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11
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Gao P, Quilichini TD, Zhai C, Qin L, Nilsen KT, Li Q, Sharpe AG, Kochian LV, Zou J, Reddy AS, Wei Y, Pozniak C, Patterson N, Gillmor CS, Datla R, Xiang D. Alternative splicing dynamics and evolutionary divergence during embryogenesis in wheat species. Plant Biotechnol J 2021; 19:1624-1643. [PMID: 33706417 PMCID: PMC8384600 DOI: 10.1111/pbi.13579] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/15/2020] [Revised: 02/25/2021] [Accepted: 03/08/2021] [Indexed: 05/07/2023]
Abstract
Among polyploid species with complex genomic architecture, variations in the regulation of alternative splicing (AS) provide opportunities for transcriptional and proteomic plasticity and the potential for generating trait diversities. However, the evolution of AS and its influence on grain development in diploid grass and valuable polyploid wheat crops are poorly understood. To address this knowledge gap, we developed a pipeline for the analysis of alternatively spliced transcript isoforms, which takes the high sequence similarity among polyploid wheat subgenomes into account. Through analysis of synteny and detection of collinearity of homoeologous subgenomes, conserved and specific AS events across five wheat and grass species were identified. A global analysis of the regulation of AS in diploid grass and polyploid wheat grains revealed diversity in AS events not only between the endosperm, pericarp and embryo overdevelopment, but also between subgenomes. Analysis of AS in homoeologous triads of polyploid wheats revealed evolutionary divergence between gene-level and transcript-level regulation of embryogenesis. Evolutionary age analysis indicated that the generation of novel transcript isoforms has occurred in young genes at a more rapid rate than in ancient genes. These findings, together with the development of comprehensive AS resources for wheat and grass species, advance understanding of the evolution of regulatory features of AS during embryogenesis and grain development in wheat.
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Affiliation(s)
- Peng Gao
- Global Institute for Food SecurityUniversity of SaskatchewanSaskatoonSKCanada
| | - Teagen D. Quilichini
- Aquatic and Crop Resource DevelopmentNational Research Council CanadaSaskatoonSKCanada
| | - Chun Zhai
- Agriculture and Agri‐Food CanadaSaskatoon Research and Development CentreSaskatoonSKCanada
| | - Li Qin
- College of Art & ScienceUniversity of SaskatchewanSaskatoonSKCanada
| | - Kirby T. Nilsen
- Agriculture and Agri‐Food CanadaBrandon Research and Development CentreBrandonMBCanada
| | - Qiang Li
- National Key Laboratory of Crop Genetic ImprovementHuazhong Agricultural UniversityWuhanChina
| | - Andrew G. Sharpe
- Global Institute for Food SecurityUniversity of SaskatchewanSaskatoonSKCanada
| | - Leon V. Kochian
- Global Institute for Food SecurityUniversity of SaskatchewanSaskatoonSKCanada
| | - Jitao Zou
- Aquatic and Crop Resource DevelopmentNational Research Council CanadaSaskatoonSKCanada
| | - Anireddy S.N. Reddy
- Department of Biology and Program in Cell and Molecular BiologyColorado State UniversityFort CollinsCOUSA
| | - Yangdou Wei
- College of Art & ScienceUniversity of SaskatchewanSaskatoonSKCanada
| | - Curtis Pozniak
- Crop Development CentreUniversity of SaskatchewanSaskatoonSKCanada
| | - Nii Patterson
- Aquatic and Crop Resource DevelopmentNational Research Council CanadaSaskatoonSKCanada
| | - C. Stewart Gillmor
- Laboratorio Nacional de Genómica para la Biodiversidad (Langebio)Unidad de Genómica AvanzadaCentro de Investigación y Estudios Avanzados del IPN (CINVESTAV‐IPN)IrapuatoGuanajuatoMexico
| | - Raju Datla
- Global Institute for Food SecurityUniversity of SaskatchewanSaskatoonSKCanada
| | - Daoquan Xiang
- Aquatic and Crop Resource DevelopmentNational Research Council CanadaSaskatoonSKCanada
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12
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Cobb JN, Chen C, Shi Y, Maron LG, Liu D, Rutzke M, Greenberg A, Craft E, Shaff J, Paul E, Akther K, Wang S, Kochian LV, Zhang D, Zhang M, McCouch SR. Genetic architecture of root and shoot ionomes in rice (Oryza sativa L.). Theor Appl Genet 2021; 134:2613-2637. [PMID: 34018019 PMCID: PMC8277617 DOI: 10.1007/s00122-021-03848-5] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/22/2020] [Accepted: 04/29/2021] [Indexed: 05/09/2023]
Abstract
KEY MESSAGE Association analysis for ionomic concentrations of 20 elements identified independent genetic factors underlying the root and shoot ionomes of rice, providing a platform for selecting and dissecting causal genetic variants. Understanding the genetic basis of mineral nutrient acquisition is key to fully describing how terrestrial organisms interact with the non-living environment. Rice (Oryza sativa L.) serves both as a model organism for genetic studies and as an important component of the global food system. Studies in rice ionomics have primarily focused on above ground tissues evaluated from field-grown plants. Here, we describe a comprehensive study of the genetic basis of the rice ionome in both roots and shoots of 6-week-old rice plants for 20 elements using a controlled hydroponics growth system. Building on the wealth of publicly available rice genomic resources, including a panel of 373 diverse rice lines, 4.8 M genome-wide single-nucleotide polymorphisms, single- and multi-marker analysis pipelines, an extensive tome of 321 candidate genes and legacy QTLs from across 15 years of rice genetics literature, we used genome-wide association analysis and biparental QTL analysis to identify 114 genomic regions associated with ionomic variation. The genetic basis for root and shoot ionomes was highly distinct; 78 loci were associated with roots and 36 loci with shoots, with no overlapping genomic regions for the same element across tissues. We further describe the distribution of phenotypic variation across haplotypes and identify candidate genes within highly significant regions associated with sulfur, manganese, cadmium, and molybdenum. Our analysis provides critical insight into the genetic basis of natural phenotypic variation for both root and shoot ionomes in rice and provides a comprehensive resource for dissecting and testing causal genetic variants.
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Affiliation(s)
- Joshua N Cobb
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853-1901, USA
- RiceTec Inc, Alvin, TX, 77511, USA
| | - Chen Chen
- Department of Statistics, Purdue University, West Lafayette, IN, 47907-2054, USA
- Ausy Consulting, Esperantolaan 8, 3001, Heverlee, Belgium
| | - Yuxin Shi
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853-1901, USA
| | - Lyza G Maron
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853-1901, USA
| | - Danni Liu
- Department of Statistics, Purdue University, West Lafayette, IN, 47907-2054, USA
| | - Mike Rutzke
- Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853-1901, USA
| | - Anthony Greenberg
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853-1901, USA
- Bayesic Research, LLC, 452 Sheffield Rd, Ithaca, NY, 14850, USA
| | - Eric Craft
- Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853-1901, USA
| | - Jon Shaff
- Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Ithaca, NY, 14853-1901, USA
| | - Edyth Paul
- GeneFlow, Inc, Centreville, VA, 20120, USA
| | - Kazi Akther
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853-1901, USA
| | - Shaokui Wang
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853-1901, USA
- Department of Plant Breeding, South China Agriculture University, Guangdong, 510642, China
| | - Leon V Kochian
- Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Ithaca, NY, 14853-1901, USA
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, S7N 4J8, Canada
| | - Dabao Zhang
- Department of Statistics, Purdue University, West Lafayette, IN, 47907-2054, USA
| | - Min Zhang
- Department of Statistics, Purdue University, West Lafayette, IN, 47907-2054, USA.
| | - Susan R McCouch
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853-1901, USA.
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13
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Cloutier M, Xiang D, Gao P, Kochian LV, Zou J, Datla R, Wang E. Integrative Modeling of Gene Expression and Metabolic Networks of Arabidopsis Embryos for Identification of Seed Oil Causal Genes. Front Plant Sci 2021; 12:642938. [PMID: 33889166 PMCID: PMC8056077 DOI: 10.3389/fpls.2021.642938] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/17/2020] [Accepted: 03/11/2021] [Indexed: 06/12/2023]
Abstract
Fatty acids in crop seeds are a major source for both vegetable oils and industrial applications. Genetic improvement of fatty acid composition and oil content is critical to meet the current and future demands of plant-based renewable seed oils. Addressing this challenge can be approached by network modeling to capture key contributors of seed metabolism and to identify underpinning genetic targets for engineering the traits associated with seed oil composition and content. Here, we present a dynamic model, using an Ordinary Differential Equations model and integrated time-course gene expression data, to describe metabolic networks during Arabidopsis thaliana seed development. Through in silico perturbation of genes, targets were predicted in seed oil traits. Validation and supporting evidence were obtained for several of these predictions using published reports in the scientific literature. Furthermore, we investigated two predicted targets using omics datasets for both gene expression and metabolites from the seed embryo, and demonstrated the applicability of this network-based model. This work highlights that integration of dynamic gene expression atlases generates informative models which can be explored to dissect metabolic pathways and lead to the identification of causal genes associated with seed oil traits.
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Affiliation(s)
- Mathieu Cloutier
- Laboratory of Bioinformatics and Systems Biology, National Research Council Canada, Montreal, QC, Canada
| | - Daoquan Xiang
- Aquatic and Crop Resource Development, National Research Council Canada, Saskatoon, SK, Canada
| | - Peng Gao
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | - Leon V. Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | - Jitao Zou
- Aquatic and Crop Resource Development, National Research Council Canada, Saskatoon, SK, Canada
| | - Raju Datla
- Aquatic and Crop Resource Development, National Research Council Canada, Saskatoon, SK, Canada
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | - Edwin Wang
- Laboratory of Bioinformatics and Systems Biology, National Research Council Canada, Montreal, QC, Canada
- Centre for Health Genomics and Informatics, Cumming School of Medicine, University of Calgary, Calgary, AB, Canada
- Department of Biochemistry and Molecular Biology, Cumming School of Medicine, University of Calgary, Calgary, AB, Canada
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14
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Tokizawa M, Enomoto T, Ito H, Wu L, Kobayashi Y, Mora-Macías J, Armenta-Medina D, Iuchi S, Kobayashi M, Nomoto M, Tada Y, Fujita M, Shinozaki K, Yamamoto YY, Kochian LV, Koyama H. High affinity promoter binding of STOP1 is essential for early expression of novel aluminum-induced resistance genes GDH1 and GDH2 in Arabidopsis. J Exp Bot 2021; 72:2769-2789. [PMID: 33481007 DOI: 10.1093/jxb/erab031] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/19/2021] [Accepted: 01/20/2021] [Indexed: 05/28/2023]
Abstract
Malate efflux from roots, which is regulated by the transcription factor STOP1 (SENSITIVE-TO-PROTON-RHIZOTOXICITY1) and mediates aluminum-induced expression of ALUMINUM-ACTIVATED-MALATE-TRANSPORTER1 (AtALMT1), is critical for aluminum resistance in Arabidopsis thaliana. Several studies showed that AtALMT1 expression in roots is rapidly observed in response to aluminum; this early induction is an important mechanism to immediately protect roots from aluminum toxicity. Identifying the molecular mechanisms that underlie rapid aluminum resistance responses should lead to a better understanding of plant aluminum sensing and signal transduction mechanisms. In this study, we observed that GFP-tagged STOP1 proteins accumulated in the nucleus soon after aluminum treatment. The rapid aluminum-induced STOP1-nuclear localization and AtALMT1 induction were detected in the presence of a protein synthesis inhibitor, suggesting that post-translational regulation is involved in these events. STOP1 also regulated rapid aluminum-induced expression for other genes that carry a functional/high-affinity STOP1-binding site in their promoter, including STOP2, GLUTAMATE-DEHYDROGENASE1 and 2 (GDH1 and 2). However STOP1 did not regulate Al resistance genes which have no functional STOP1-binding site such as ALUMINUM-SENSITIVE3, suggesting that the binding of STOP1 in the promoter is essential for early induction. Finally, we report that GDH1 and 2 which are targets of STOP1, are novel aluminum-resistance genes in Arabidopsis.
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Affiliation(s)
- Mutsutomo Tokizawa
- Applied Biological Sciences, Gifu University, Gifu 501-1193, Japan
- Global Institute for Food Security, University of Saskatchewan, Saskatoon S7N 4J8, Canada
| | - Takuo Enomoto
- Applied Biological Sciences, Gifu University, Gifu 501-1193, Japan
| | - Hiroki Ito
- Applied Biological Sciences, Gifu University, Gifu 501-1193, Japan
| | - Liujie Wu
- Applied Biological Sciences, Gifu University, Gifu 501-1193, Japan
- University of Warwick, UK
| | - Yuriko Kobayashi
- Applied Biological Sciences, Gifu University, Gifu 501-1193, Japan
| | - Javier Mora-Macías
- Global Institute for Food Security, University of Saskatchewan, Saskatoon S7N 4J8, Canada
| | - Dagoberto Armenta-Medina
- CONACyT Consejo Nacional de Ciencia y Tecnología, Dirección de Cátedras, Insurgentes Sur 1582, Crédito Constructor, 03940 Ciudad de México, México
- INFOTEC Centro de Investigación e Innovación en Tecnologías de la Informacion y Comunicación, Circuito Tecnopolo Sur No 112, Fracc. Tecnopolo Pocitos II, 20313 Aguascalientes, México
| | - Satoshi Iuchi
- RIKEN Bioresource Research Center, Ibaraki 305-0074, Japan
| | | | - Mika Nomoto
- Center for Gene Research, Nagoya University, Nagoya 464-8602, Japan
| | - Yasuomi Tada
- Center for Gene Research, Nagoya University, Nagoya 464-8602, Japan
| | - Miki Fujita
- RIKEN Center for Sustainable Resource Science, Yokohama 230-0045, Japan
| | - Kazuo Shinozaki
- RIKEN Center for Sustainable Resource Science, Yokohama 230-0045, Japan
| | - Yoshiharu Y Yamamoto
- Applied Biological Sciences, Gifu University, Gifu 501-1193, Japan
- RIKEN Center for Sustainable Resource Science, Yokohama 230-0045, Japan
| | - Leon V Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon S7N 4J8, Canada
| | - Hiroyuki Koyama
- Applied Biological Sciences, Gifu University, Gifu 501-1193, Japan
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15
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Armenta-Medina A, Gillmor CS, Gao P, Mora-Macias J, Kochian LV, Xiang D, Datla R. Developmental and genomic architecture of plant embryogenesis: from model plant to crops. Plant Commun 2021; 2:100136. [PMID: 33511346 PMCID: PMC7816075 DOI: 10.1016/j.xplc.2020.100136] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/12/2020] [Revised: 12/05/2020] [Accepted: 12/11/2020] [Indexed: 05/08/2023]
Abstract
Embryonic development represents an important reproductive phase of sexually reproducing plant species. The fusion of egg and sperm produces the plant zygote, a totipotent cell that, through cell division and cell identity specification in early embryogenesis, establishes the major cell lineages and tissues of the adult plant. The subsequent morphogenesis phase produces the full-sized embryo, while the late embryogenesis maturation process prepares the seed for dormancy and subsequent germination, ensuring continuation of the plant life cycle. In this review on embryogenesis, we compare the model eudicot Arabidopsis thaliana with monocot crops, focusing on genome activation, paternal and maternal regulation of early zygote development, and key organizers of patterning, such as auxin and WOX transcription factors. While the early stages of embryo development are apparently conserved among plant species, embryo maturation programs have diversified between eudicots and monocots. This diversification in crop species reflects the likely effects of domestication on seed quality traits that are determined during embryo maturation, and also assures seed germination in different environmental conditions. This review describes the most important features of embryonic development in plants, and the scope and applications of genomics in plant embryo studies.
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Affiliation(s)
- Alma Armenta-Medina
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4J8, Canada
- Laboratorio Nacional de Genómica para la Biodiversidad (Langebio), Unidad de Genómica Avanzada, Centro de Investigación y Estudios Avanzados del IPN (CINVESTAV-IPN), Irapuato, Guanajuato, México
| | - C. Stewart Gillmor
- Laboratorio Nacional de Genómica para la Biodiversidad (Langebio), Unidad de Genómica Avanzada, Centro de Investigación y Estudios Avanzados del IPN (CINVESTAV-IPN), Irapuato, Guanajuato, México
| | - Peng Gao
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4J8, Canada
| | - Javier Mora-Macias
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4J8, Canada
| | - Leon V. Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4J8, Canada
| | - Daoquan Xiang
- National Research Council Canada, 110 Gymnasium Place, Saskatoon, SK S7N 0W9, Canada
| | - Raju Datla
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4J8, Canada
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16
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Bernardino KC, de Menezes CB, de Sousa SM, Guimarães CT, Carneiro PCS, Schaffert RE, Kochian LV, Hufnagel B, Pastina MM, Magalhaes JV. Association mapping and genomic selection for sorghum adaptation to tropical soils of Brazil in a sorghum multiparental random mating population. Theor Appl Genet 2021; 134:295-312. [PMID: 33052425 DOI: 10.1007/s00122-020-03697-8] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/17/2019] [Accepted: 09/28/2020] [Indexed: 06/11/2023]
Abstract
A multiparental random mating population used in sorghum breeding is amenable for the detection of QTLs related to tropical soil adaptation, fine mapping of underlying genes and genomic selection approaches. Tropical soils where low phosphorus (P) and aluminum (Al) toxicity limit sorghum [Sorghum bicolor (L.) Moench] production are widespread in the developing world. We report on BRP13R, a multiparental random mating population (MP-RMP), which is commonly used in sorghum recurrent selection targeting tropical soil adaptation. Recombination dissipated much of BRP13R's likely original population structure and average linkage disequilibrium (LD) persisted up to 2.5 Mb, establishing BRP13R as a middle ground between biparental populations and sorghum association panels. Genome-wide association mapping (GWAS) identified conserved QTL from previous studies, such as for root morphology and grain yield under low-P, and indicated the importance of dominance in the genetic architecture of grain yield. By overlapping consensus QTL regions, we mapped two candidate P efficiency genes to a ~ 5 Mb region on chromosomes 6 (ALMT) and 9 (PHO2). Remarkably, we find that only 200 progeny genotyped with ~ 45,000 markers in BRP13R can lead to GWAS-based positional cloning of naturally rare, subpopulation-specific alleles, such as for SbMATE-conditioned Al tolerance. Genomic selection was found to be useful in such MP-RMP, particularly if markers in LD with major genes are fitted as fixed effects into GBLUP models accommodating dominance. Shifts in allele frequencies in progeny contrasting for grain yield indicated that intermediate to minor-effect genes on P efficiency, such as SbPSTOL1 genes, can be employed in pre-breeding via allele mining in the base population. Therefore, MP-RMPs such as BRP13R emerge as multipurpose resources for efficient gene discovery and deployment for breeding sorghum cultivars adapted to tropical soils.
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Affiliation(s)
- Karine C Bernardino
- Universidade Federal de Viçosa, Avenida Peter Henry Rolfs, s/n, Viçosa, MG, 36570-900, Brazil
- Embrapa Milho e Sorgo, Rodovia MG 424 km 65, Sete Lagoas, MG, 35701-970, Brazil
| | - Cícero B de Menezes
- Embrapa Milho e Sorgo, Rodovia MG 424 km 65, Sete Lagoas, MG, 35701-970, Brazil
| | - Sylvia M de Sousa
- Embrapa Milho e Sorgo, Rodovia MG 424 km 65, Sete Lagoas, MG, 35701-970, Brazil
| | - Claudia T Guimarães
- Embrapa Milho e Sorgo, Rodovia MG 424 km 65, Sete Lagoas, MG, 35701-970, Brazil
| | - Pedro C S Carneiro
- Universidade Federal de Viçosa, Avenida Peter Henry Rolfs, s/n, Viçosa, MG, 36570-900, Brazil
| | - Robert E Schaffert
- Embrapa Milho e Sorgo, Rodovia MG 424 km 65, Sete Lagoas, MG, 35701-970, Brazil
| | - Leon V Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, S7N 4J8, Canada
| | - Barbara Hufnagel
- Embrapa Milho e Sorgo, Rodovia MG 424 km 65, Sete Lagoas, MG, 35701-970, Brazil
- BPMP, CNRS, INRAE, SupAgro, University of Montpellier, 34060, Montpellier, France
| | - Maria Marta Pastina
- Embrapa Milho e Sorgo, Rodovia MG 424 km 65, Sete Lagoas, MG, 35701-970, Brazil.
| | - Jurandir V Magalhaes
- Embrapa Milho e Sorgo, Rodovia MG 424 km 65, Sete Lagoas, MG, 35701-970, Brazil.
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17
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Barros VA, Chandnani R, de Sousa SM, Maciel LS, Tokizawa M, Guimaraes CT, Magalhaes JV, Kochian LV. Root Adaptation via Common Genetic Factors Conditioning Tolerance to Multiple Stresses for Crops Cultivated on Acidic Tropical Soils. Front Plant Sci 2020; 11:565339. [PMID: 33281841 PMCID: PMC7688899 DOI: 10.3389/fpls.2020.565339] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/24/2020] [Accepted: 10/20/2020] [Indexed: 06/01/2023]
Abstract
Crop tolerance to multiple abiotic stresses has long been pursued as a Holy Grail in plant breeding efforts that target crop adaptation to tropical soils. On tropical, acidic soils, aluminum (Al) toxicity, low phosphorus (P) availability and drought stress are the major limitations to yield stability. Molecular breeding based on a small suite of pleiotropic genes, particularly those with moderate to major phenotypic effects, could help circumvent the need for complex breeding designs and large population sizes aimed at selecting transgressive progeny accumulating favorable alleles controlling polygenic traits. The underlying question is twofold: do common tolerance mechanisms to Al toxicity, P deficiency and drought exist? And if they do, will they be useful in a plant breeding program that targets stress-prone environments. The selective environments in tropical regions are such that multiple, co-existing regulatory networks may drive the fixation of either distinctly different or a smaller number of pleiotropic abiotic stress tolerance genes. Recent studies suggest that genes contributing to crop adaptation to acidic soils, such as the major Arabidopsis Al tolerance protein, AtALMT1, which encodes an aluminum-activated root malate transporter, may influence both Al tolerance and P acquisition via changes in root system morphology and architecture. However, trans-acting elements such as transcription factors (TFs) may be the best option for pleiotropic control of multiple abiotic stress genes, due to their small and often multiple binding sequences in the genome. One such example is the C2H2-type zinc finger, AtSTOP1, which is a transcriptional regulator of a number of Arabidopsis Al tolerance genes, including AtMATE and AtALMT1, and has been shown to activate AtALMT1, not only in response to Al but also low soil P. The large WRKY family of transcription factors are also known to affect a broad spectrum of phenotypes, some of which are related to acidic soil abiotic stress responses. Hence, we focus here on signaling proteins such as TFs and protein kinases to identify, from the literature, evidence for unifying regulatory networks controlling Al tolerance, P efficiency and, also possibly drought tolerance. Particular emphasis will be given to modification of root system morphology and architecture, which could be an important physiological "hub" leading to crop adaptation to multiple soil-based abiotic stress factors.
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Affiliation(s)
- Vanessa A. Barros
- Embrapa Maize and Sorghum, Sete Lagoas, Brazil
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - Rahul Chandnani
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | | | - Laiane S. Maciel
- Embrapa Maize and Sorghum, Sete Lagoas, Brazil
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | - Mutsutomo Tokizawa
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
| | | | - Jurandir V. Magalhaes
- Embrapa Maize and Sorghum, Sete Lagoas, Brazil
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - Leon V. Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
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18
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Nakano Y, Kusunoki K, Maruyama H, Enomoto T, Tokizawa M, Iuchi S, Kobayashi M, Kochian LV, Koyama H, Kobayashi Y. A single-population GWAS identified AtMATE expression level polymorphism caused by promoter variants is associated with variation in aluminum tolerance in a local Arabidopsis population. Plant Direct 2020; 4:e00250. [PMID: 32793853 PMCID: PMC7419912 DOI: 10.1002/pld3.250] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/25/2020] [Revised: 07/10/2020] [Accepted: 07/13/2020] [Indexed: 05/14/2023]
Abstract
Organic acids (OA) are released from roots in response to aluminum (Al), conferring an Al tolerance to plants that is regulated by OA transporters such as ALMT (Al-activated malate transporter) and multi-drug and toxic compound extrusion (MATE). We have previously reported that the expression level polymorphism (ELP) of AtALMT1 is strongly associated with variation in Al tolerance among natural accessions of Arabidopsis. However, although AtMATE is also expressed following Al exposure and contributes to Al tolerance, whether AtMATE contributes to the variation of Al tolerance and the molecular mechanisms of ELP remains unclear. Here, we dissected the natural variation in AtMATE expression level in response to Al at the root using diverse natural accessions of Arabidopsis. Phylogenetic analysis revealed that more than half of accessions belonging to the Central Asia (CA) population show markedly low AtMATE expression levels, while the majority of European populations show high expression levels. The accessions of the CA population with low AtMATE expression also show significantly weakened Al tolerance. A single-population genome-wide association study (GWAS) of AtMATE expression in the CA population identified a retrotransposon insertion in the AtMATE promoter region associated with low gene expression levels. This may affect the transcriptional regulation of AtMATE by disrupting the effect of a cis-regulatory element located upstream of the insertion site, which includes AtSTOP1 (sensitive to proton rhizotoxicity 1) transcription factor-binding sites revealed by chromatin immunoprecipitation-qPCR analysis. Furthermore, the GWAS performed without the accessions expressing low levels of AtMATE, excluding the effect of AtMATE promoter polymorphism, identified several candidate genes potentially associated with AtMATE expression.
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Affiliation(s)
- Yuki Nakano
- Faculty of Applied Biological SciencesGifu UniversityGifuGifuJapan
| | | | - Haruka Maruyama
- Faculty of Applied Biological SciencesGifu UniversityGifuGifuJapan
| | - Takuo Enomoto
- Faculty of Applied Biological SciencesGifu UniversityGifuGifuJapan
| | - Mutsutomo Tokizawa
- Faculty of Applied Biological SciencesGifu UniversityGifuGifuJapan
- Global Institute for Food SecurityUniversity of SaskatchewanSaskatoonSKCanada
| | - Satoshi Iuchi
- Experimental Plant DivisionRIKEN BioResource Research CenterTsukubaIbarakiJapan
| | - Masatomo Kobayashi
- Experimental Plant DivisionRIKEN BioResource Research CenterTsukubaIbarakiJapan
| | - Leon V. Kochian
- Global Institute for Food SecurityUniversity of SaskatchewanSaskatoonSKCanada
| | - Hiroyuki Koyama
- Faculty of Applied Biological SciencesGifu UniversityGifuGifuJapan
| | - Yuriko Kobayashi
- Faculty of Applied Biological SciencesGifu UniversityGifuGifuJapan
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19
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Sun L, Zhang M, Liu X, Mao Q, Shi C, Kochian LV, Liao H. Aluminium is essential for root growth and development of tea plants (Camellia sinensis). J Integr Plant Biol 2020; 62:984-997. [PMID: 32320136 PMCID: PMC7383589 DOI: 10.1111/jipb.12942] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/02/2020] [Accepted: 04/14/2020] [Indexed: 05/09/2023]
Abstract
On acid soils, the trivalent aluminium ion (Al3+ ) predominates and is very rhizotoxic to most plant species. For some native plant species adapted to acid soils including tea (Camellia sinensis), Al3+ has been regarded as a beneficial mineral element. In this study, we discovered that Al3+ is actually essential for tea root growth and development in all the tested varieties. Aluminum ion promoted new root growth in five representative tea varieties with dose-dependent responses to Al3+ availability. In the absence of Al3+ , the tea plants failed to generate new roots, and the root tips were damaged within 1 d of Al deprivation. Structural analysis of root tips demonstrated that Al was required for root meristem development and activity. In situ morin staining of Al3+ in roots revealed that Al mainly localized to nuclei in root meristem cells, but then gradually moved to the cytosol when Al3+ was subsequently withdrawn. This movement of Al3+ from nuclei to cytosols was accompanied by exacerbated DNA damage, which suggests that the nuclear-targeted Al primarily acts to maintain DNA integrity. Taken together, these results provide novel evidence that Al3+ is essential for root growth in tea plants through maintenance of DNA integrity in meristematic cells.
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Affiliation(s)
- Lili Sun
- Root Biology Center, College of Resources and EnvironmentFujian Agriculture and Forestry UniversityFuzhou350002China
| | - Mengshi Zhang
- Root Biology Center, College of Resources and EnvironmentFujian Agriculture and Forestry UniversityFuzhou350002China
| | - Xiaomei Liu
- Root Biology Center, College of Resources and EnvironmentFujian Agriculture and Forestry UniversityFuzhou350002China
| | - Qianzhuo Mao
- Vector‐Borne Virus Research CenterFujian Agriculture and Forestry UniversityFuzhou350002China
| | - Chen Shi
- Root Biology Center, College of Resources and EnvironmentFujian Agriculture and Forestry UniversityFuzhou350002China
| | - Leon V. Kochian
- Global Institute for Food SecurityUniversity of SaskatchewanSaskatoonS7N 4J8Canada
| | - Hong Liao
- Root Biology Center, College of Resources and EnvironmentFujian Agriculture and Forestry UniversityFuzhou350002China
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20
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Xu JM, Wang ZQ, Wang JY, Li PF, Jin JF, Chen WW, Fan W, Kochian LV, Zheng SJ, Yang JL. Low phosphate represses histone deacetylase complex1 to regulate root system architecture remodeling in Arabidopsis. New Phytol 2020; 225:1732-1745. [PMID: 31608986 DOI: 10.1111/nph.16264] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/11/2018] [Accepted: 10/04/2019] [Indexed: 05/21/2023]
Abstract
The mechanisms involved in the regulation of gene expression in response to phosphate (Pi) deficiency have been extensively studied, but their chromatin-level regulation remains poorly understood. We examined the role of histone acetylation in response to Pi deficiency by using the histone deacetylase complex1 (hdc1) mutant. Genes involved in root system architecture (RSA) remodeling were analyzed by quantitative real-time polymerase chain reaction (qPCR) and chromatin immunoprecipitation qPCR. We demonstrate that histone H3 acetylation increased under Pi deficiency, and the hdc1 mutant was hypersensitive to Pi deficiency, with primary root growth inhibition and increases in root hair number. Concomitantly, Pi deficiency repressed HDC1 protein abundances. Under Pi deficiency, hdc1 accumulated higher concentrations of Fe3+ in the root tips and had higher expression of genes involved in RSA remodeling, such as ALUMINUM-ACTIVATED MALATE TRANSPORTER1 (ALMT1), LOW PHOSPHATE ROOT1 (LPR1), and LPR2 compared with wild-type plants. Furthermore, Pi deficiency enriched the histone H3 acetylation of ALMT1 and LPR1. Finally, genetic evidence showed that LPR1/2 was epistatic to HDC1 in regulating RSA remodeling. Our results suggest a chromatin-level control of Pi starvation responses in which HDC1-mediated histone H3 deacetylation represses the transcriptional activation of genes involved in RSA remodeling in Arabidopsis.
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Affiliation(s)
- Jia Meng Xu
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
- The Key Laboratory of Plant Cell Engineering and Germplasm Innovation, Ministry of Education, College of Life Science, Shandong University, Jinan, 250100, China
| | - Zhan Qi Wang
- Key Laboratory of Vector Biology and Pathogen Control of Zhejiang Province, College of Life Sciences, Huzhou University, Huzhou, 313000, China
| | - Jia Yi Wang
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
| | - Peng Fei Li
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
| | - Jian Feng Jin
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
| | - Wei Wei Chen
- Research Centre for Plant RNA Signaling, College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 310036, China
| | - Wei Fan
- College of Resources and Environment, Yunnan Agricultural University, Kunming, 650201, China
| | - Leon V Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, S7N 4J8, Canada
| | - Shao Jian Zheng
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
| | - Jian Li Yang
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
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21
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Xiang D, Quilichini TD, Liu Z, Gao P, Pan Y, Li Q, Nilsen KT, Venglat P, Esteban E, Pasha A, Wang Y, Wen R, Zhang Z, Hao Z, Wang E, Wei Y, Cuthbert R, Kochian LV, Sharpe A, Provart N, Weijers D, Gillmor CS, Pozniak C, Datla R. The Transcriptional Landscape of Polyploid Wheats and Their Diploid Ancestors during Embryogenesis and Grain Development. Plant Cell 2019; 31:2888-2911. [PMID: 31628162 PMCID: PMC6925018 DOI: 10.1105/tpc.19.00397] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/21/2019] [Revised: 10/07/2019] [Accepted: 10/16/2019] [Indexed: 05/17/2023]
Abstract
Modern wheat production comes from two polyploid species, Triticum aestivum and Triticum turgidum (var durum), which putatively arose from diploid ancestors Triticum urartu, Aegilops speltoides, and Aegilops tauschii How gene expression during embryogenesis and grain development in wheats has been shaped by the differing contributions of diploid genomes through hybridization, polyploidization, and breeding selection is not well understood. This study describes the global landscape of gene activities during wheat embryogenesis and grain development. Using comprehensive transcriptomic analyses of two wheat cultivars and three diploid grasses, we investigated gene expression at seven stages of embryo development, two endosperm stages, and one pericarp stage. We identified transcriptional signatures and developmental similarities and differences among the five species, revealing the evolutionary divergence of gene expression programs and the contributions of A, B, and D subgenomes to grain development in polyploid wheats. The characterization of embryonic transcriptional programming in hexaploid wheat, tetraploid wheat, and diploid grass species provides insight into the landscape of gene expression in modern wheat and its ancestral species. This study presents a framework for understanding the evolution of domesticated wheat and the selective pressures placed on grain production, with important implications for future performance and yield improvements.plantcell;31/12/2888/FX1F1fx1.
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Affiliation(s)
- Daoquan Xiang
- Aquatic and Crop Resource Development, National Research Council Canada, Saskatoon, Saskatchewan S7N 0W9, Canada
| | - Teagen D Quilichini
- Aquatic and Crop Resource Development, National Research Council Canada, Saskatoon, Saskatchewan S7N 0W9, Canada
| | - Ziying Liu
- Digital Technologies Research Centre, National Research Council Canada, Ottawa, Ontario K1A 0R6, Canada
| | - Peng Gao
- Aquatic and Crop Resource Development, National Research Council Canada, Saskatoon, Saskatchewan S7N 0W9, Canada
| | - Youlian Pan
- Digital Technologies Research Centre, National Research Council Canada, Ottawa, Ontario K1A 0R6, Canada
| | - Qiang Li
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China
| | - Kirby T Nilsen
- Crop Development Centre, University of Saskatchewan, Saskatoon, Saskatchewan S7N 5A8, Canada
| | - Prakash Venglat
- Department of Plant Sciences and Crop Development Centre, University of Saskatchewan, Saskatoon, Saskatchewan S7N 5A8, Canada
| | - Eddi Esteban
- Department of Cell and Systems Biology/Centre for the Analysis of Genome Evolution and Function, University of Toronto, Toronto, Ontario M5S 3B2, Canada
| | - Asher Pasha
- Department of Cell and Systems Biology/Centre for the Analysis of Genome Evolution and Function, University of Toronto, Toronto, Ontario M5S 3B2, Canada
| | - Yejun Wang
- Department of Cell Biology and Genetics, School of Basic Medical Sciences, Shenzhen University, Shenzhen 518060, China
| | - Rui Wen
- Aquatic and Crop Resource Development, National Research Council Canada, Saskatoon, Saskatchewan S7N 0W9, Canada
| | - Zhongjuan Zhang
- Laboratory of Biochemistry, Wageningen University, 6703HA Wageningen, The Netherlands
| | - Zhaodong Hao
- Laboratory of Biochemistry, Wageningen University, 6703HA Wageningen, The Netherlands
| | - Edwin Wang
- Cumming School of Medicine, University of Calgary, Calgary, Alberta T2N 1N4, Canada
| | - Yangdou Wei
- College of Art and Science, University of Saskatchewan, Saskatoon, Saskatchewan S7N 5A5, Canada
| | - Richard Cuthbert
- Agriculture and Agri-Food Canada, Swift Current, Saskatchewan S9H 3X2, Canada
| | - Leon V Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, Saskatchewan S7N 4J8, Canada
| | - Andrew Sharpe
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, Saskatchewan S7N 4J8, Canada
| | - Nicholas Provart
- Department of Cell and Systems Biology/Centre for the Analysis of Genome Evolution and Function, University of Toronto, Toronto, Ontario M5S 3B2, Canada
| | - Dolf Weijers
- Laboratory of Biochemistry, Wageningen University, 6703HA Wageningen, The Netherlands
| | - C Stewart Gillmor
- Laboratorio Nacional de Genómica para la Biodiversidad, Unidad de Genómica Avanzada, Centro de Investigación y Estudios Avanzados del Instituto Politécnico Nacional, Irapuato, Guanajuato 36824, México
| | - Curtis Pozniak
- Crop Development Centre, University of Saskatchewan, Saskatoon, Saskatchewan S7N 5A8, Canada
| | - Raju Datla
- Aquatic and Crop Resource Development, National Research Council Canada, Saskatoon, Saskatchewan S7N 0W9, Canada
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22
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Qiu W, Wang N, Dai J, Wang T, Kochian LV, Liu J, Zuo Y. AhFRDL1-mediated citrate secretion contributes to adaptation to iron deficiency and aluminum stress in peanuts. J Exp Bot 2019; 70:2873-2886. [PMID: 30825369 DOI: 10.1093/jxb/erz089] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/30/2018] [Accepted: 03/17/2019] [Indexed: 05/22/2023]
Abstract
Although citrate transporters are involved in iron (Fe) translocation and aluminum (Al) tolerance in plants, to date none of them have been shown to confer both biological functions in plant species that utilize Fe-absorption Strategy I. In this study, we demonstrated that AhFRDL1, a citrate transporter gene from peanut (Arachis hypogaea) that is induced by both Fe-deficiency and Al-stress, participates in both root-to-shoot Fe translocation and Al tolerance. Expression of AhFRDL1 induced by Fe deficiency was located in the root stele, but under Al-stress expression was observed across the entire root-tip cross-section. Overexpression of AhFRDL1 restored efficient Fe translocation in Atfrd3 mutants and Al resistance in AtMATE-knockout mutants. Knocking down AhFRDL1 in the roots resulted in reduced xylem citrate and reduced concentrations of active Fe in young leaves. Furthermore, AhFRDL1-knockdown lines had reduced root citrate exudation and were more sensitive to Al toxicity. Compared to an Al-sensitive variety, enhanced AhFRDL1 expression in an Fe-efficient variety contributed to higher levels of Al tolerance and Fe translocation by promoting citrate secretion. These results indicate that AhFRDL1 plays a significant role in Fe translocation and Al tolerance in Fe-efficient peanut varieties under different soil-stress conditions. Given its dual biological functions, AhFRDL1 may serve as a useful genetic marker for breeding for high Fe efficiency and Al tolerance.
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Affiliation(s)
- Wei Qiu
- Key Laboratory of Plant-Soil Interactions, MOE, College of Resources and Environmental Sciences, China Agricultural University, Beijing, China
| | - Nanqi Wang
- Key Laboratory of Plant-Soil Interactions, MOE, College of Resources and Environmental Sciences, China Agricultural University, Beijing, China
| | - Jing Dai
- Key Laboratory of Plant-Soil Interactions, MOE, College of Resources and Environmental Sciences, China Agricultural University, Beijing, China
| | - Tianqi Wang
- Key Laboratory of Plant-Soil Interactions, MOE, College of Resources and Environmental Sciences, China Agricultural University, Beijing, China
| | - Leon V Kochian
- Robert W. Holley Center, US Department of Agriculture-Agricultural Research Service, Ithaca, NY, USA
| | - Jiping Liu
- Robert W. Holley Center, US Department of Agriculture-Agricultural Research Service, Ithaca, NY, USA
| | - Yuanmei Zuo
- Key Laboratory of Plant-Soil Interactions, MOE, College of Resources and Environmental Sciences, China Agricultural University, Beijing, China
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23
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Bernardino KC, Pastina MM, Menezes CB, de Sousa SM, Maciel LS, Jr GC, Guimarães CT, Barros BA, da Costa e Silva L, Carneiro PCS, Schaffert RE, Kochian LV, Magalhaes JV. The genetic architecture of phosphorus efficiency in sorghum involves pleiotropic QTL for root morphology and grain yield under low phosphorus availability in the soil. BMC Plant Biol 2019; 19:87. [PMID: 30819116 PMCID: PMC6394046 DOI: 10.1186/s12870-019-1689-y] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/22/2018] [Accepted: 02/19/2019] [Indexed: 05/18/2023]
Abstract
BACKGROUND Phosphorus (P) fixation on aluminum (Al) and iron (Fe) oxides in soil clays restricts P availability for crops cultivated on highly weathered tropical soils, which are common in developing countries. Hence, P deficiency becomes a major obstacle for global food security. We used multi-trait quantitative trait loci (QTL) mapping to study the genetic architecture of P efficiency and to explore the importance of root traits on sorghum grain yield on a tropical low-P soil. RESULTS P acquisition efficiency was the most important component of P efficiency, and both traits were highly correlated with grain yield under low P availability. Root surface area was positively associated with grain yield. The guinea parent, SC283, contributed 58% of all favorable alleles detected by single-trait mapping. Multi-trait mapping detected 14 grain yield and/or root morphology QTLs. Tightly linked or pleiotropic QTL underlying the surface area of fine roots (1-2 mm in diameter) and grain yield were detected at positions 1-7 megabase pairs (Mb) and 71 Mb on chromosome 3, respectively, and a root diameter/grain yield QTL was detected at 7 Mb on chromosome 7. All these QTLs were near sorghum homologs of the rice serine/threonine kinase, OsPSTOL1. The SbPSTOL1 genes on chromosome 3, Sb03g006765 at 7 Mb and Sb03g031690 at 60 Mb were more highly expressed in SC283, which donated the favorable alleles at all QTLs found nearby SbPSTOL1 genes. The Al tolerance gene, SbMATE, may also influence a grain yield QTL on chromosome 3. Another PSTOL1-like gene, Sb07g02840, appears to enhance grain yield via small increases in root diameter. Co-localization analyses suggested a role for other genes, such as a sorghum homolog of the Arabidopsis ubiquitin-conjugating E2 enzyme, phosphate 2 (PHO2), on grain yield advantage conferred by the elite parent, BR007 allele. CONCLUSIONS Genetic determinants conferring higher root surface area and slight increases in fine root diameter may favor P uptake, thereby enhancing grain yield under low-P availability in the soil. Molecular markers for SbPSTOL1 genes and for QTL increasing grain yield by non-root morphology-based mechanisms hold promise in breeding strategies aimed at developing sorghum cultivars adapted to low-P soils.
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Affiliation(s)
- Karine C. Bernardino
- Embrapa Milho e Sorgo, Rodovia MG 424, km 65, Caixa Postal 151, Sete Lagoas, MG 35701-970 Brazil
- Universidade Federal de Viçosa, Avenida Peter Henry Rolfs, s/n, Viçosa, MG 36570-900 Brazil
| | - Maria Marta Pastina
- Embrapa Milho e Sorgo, Rodovia MG 424, km 65, Caixa Postal 151, Sete Lagoas, MG 35701-970 Brazil
| | - Cícero B. Menezes
- Embrapa Milho e Sorgo, Rodovia MG 424, km 65, Caixa Postal 151, Sete Lagoas, MG 35701-970 Brazil
| | - Sylvia M. de Sousa
- Embrapa Milho e Sorgo, Rodovia MG 424, km 65, Caixa Postal 151, Sete Lagoas, MG 35701-970 Brazil
| | - Laiane S. Maciel
- Embrapa Milho e Sorgo, Rodovia MG 424, km 65, Caixa Postal 151, Sete Lagoas, MG 35701-970 Brazil
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Avenida Presidente Antônio Carlos, 6627, Belo Horizonte, MG 31270-901 Brazil
| | - Geraldo Carvalho Jr
- Embrapa Milho e Sorgo, Rodovia MG 424, km 65, Caixa Postal 151, Sete Lagoas, MG 35701-970 Brazil
- Present Address: Helix Sementes, Rua Arnaldo Luiz de Oliveira, 75, Setor D, Bela Vista, Patos de Minas, MG 38703-240 Brazil
| | - Claudia T. Guimarães
- Embrapa Milho e Sorgo, Rodovia MG 424, km 65, Caixa Postal 151, Sete Lagoas, MG 35701-970 Brazil
| | - Beatriz A. Barros
- Embrapa Milho e Sorgo, Rodovia MG 424, km 65, Caixa Postal 151, Sete Lagoas, MG 35701-970 Brazil
| | - Luciano da Costa e Silva
- Embrapa Milho e Sorgo, Rodovia MG 424, km 65, Caixa Postal 151, Sete Lagoas, MG 35701-970 Brazil
| | - Pedro C. S. Carneiro
- Universidade Federal de Viçosa, Avenida Peter Henry Rolfs, s/n, Viçosa, MG 36570-900 Brazil
| | - Robert E. Schaffert
- Embrapa Milho e Sorgo, Rodovia MG 424, km 65, Caixa Postal 151, Sete Lagoas, MG 35701-970 Brazil
| | - Leon V. Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4J8 Canada
| | - Jurandir V. Magalhaes
- Embrapa Milho e Sorgo, Rodovia MG 424, km 65, Caixa Postal 151, Sete Lagoas, MG 35701-970 Brazil
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Avenida Presidente Antônio Carlos, 6627, Belo Horizonte, MG 31270-901 Brazil
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Qin L, Walk TC, Han P, Chen L, Zhang S, Li Y, Hu X, Xie L, Yang Y, Liu J, Lu X, Yu C, Tian J, Shaff JE, Kochian LV, Liao X, Liao H. Adaption of Roots to Nitrogen Deficiency Revealed by 3D Quantification and Proteomic Analysis. Plant Physiol 2019; 179:329-347. [PMID: 30455286 PMCID: PMC6324228 DOI: 10.1104/pp.18.00716] [Citation(s) in RCA: 38] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2018] [Accepted: 11/02/2018] [Indexed: 05/16/2023]
Abstract
Rapeseed (Brassica napus) is an important oil crop worldwide. However, severe inhibition of rapeseed production often occurs in the field due to nitrogen (N) deficiency. The root system is the main organ to acquire N for plant growth, but little is known about the mechanisms underlying rapeseed root adaptions to N deficiency. Here, dynamic changes in root architectural traits of N-deficient rapeseed plants were evaluated by 3D in situ quantification. Root proteome responses to N deficiency were analyzed by the tandem mass tag-based proteomics method, and related proteins were characterized further. Under N deficiency, rapeseed roots become longer, with denser cells in the meristematic zone and larger cells in the elongation zone of root tips, and also become softer with reduced solidity. A total of 171 and 755 differentially expressed proteins were identified in short- and long-term N-deficient roots, respectively. The abundance of proteins involved in cell wall organization or biogenesis was highly enhanced, but most identified peroxidases were reduced in the N-deficient roots. Notably, peroxidase activities also were decreased, which might promote root elongation while lowering the solidity of N-deficient roots. These results were consistent with the cell wall components measured in the N-deficient roots. Further functional analysis using transgenic Arabidopsis (Arabidopsis thaliana) plants demonstrated that the two root-related differentially expressed proteins contribute to the enhanced root growth under N deficiency conditions. These results provide insights into the global changes of rapeseed root responses to N deficiency and may facilitate the development of rapeseed cultivars with high N use efficiency through root-based genetic improvements.
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Affiliation(s)
- Lu Qin
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences/Key Laboratory of Biology and Genetics Improvement of Oil Crops of the Ministry of Agriculture, Wuhan 430062, China
| | | | - Peipei Han
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences/Key Laboratory of Biology and Genetics Improvement of Oil Crops of the Ministry of Agriculture, Wuhan 430062, China
| | - Liyu Chen
- Root Biology Center, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Sheng Zhang
- Institute of Biotechnology, Cornell University, Ithaca, New York 14853-2703
| | - Yinshui Li
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences/Key Laboratory of Biology and Genetics Improvement of Oil Crops of the Ministry of Agriculture, Wuhan 430062, China
| | - Xiaojia Hu
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences/Key Laboratory of Biology and Genetics Improvement of Oil Crops of the Ministry of Agriculture, Wuhan 430062, China
| | - Lihua Xie
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences/Key Laboratory of Biology and Genetics Improvement of Oil Crops of the Ministry of Agriculture, Wuhan 430062, China
| | - Yong Yang
- Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14853
| | - Jiping Liu
- Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14853
| | - Xing Lu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Root Biology Center, South China Agricultural University, Guangzhou 510642, China
| | - Changbing Yu
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences/Key Laboratory of Biology and Genetics Improvement of Oil Crops of the Ministry of Agriculture, Wuhan 430062, China
| | - Jiang Tian
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Root Biology Center, South China Agricultural University, Guangzhou 510642, China
| | - Jon E Shaff
- Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14853
| | - Leon V Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon S7N 4J8, Canada
| | - Xing Liao
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences/Key Laboratory of Biology and Genetics Improvement of Oil Crops of the Ministry of Agriculture, Wuhan 430062, China
| | - Hong Liao
- Root Biology Center, Fujian Agriculture and Forestry University, Fuzhou 350002, China
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25
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Chen WW, Jin JF, Lou HQ, Liu L, Kochian LV, Yang JL. LeSPL-CNR negatively regulates Cd acquisition through repressing nitrate reductase-mediated nitric oxide production in tomato. Planta 2018; 248:893-907. [PMID: 29959508 DOI: 10.1007/s00425-018-2949-z] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/07/2018] [Accepted: 06/02/2018] [Indexed: 05/21/2023]
Abstract
An SPL-type transcription factor, LeSPL-CNR, is negatively involved in NO production by modulating SlNR expression and nitrate reductase activity, which contributes to Cd tolerance. Cadmium (Cd) is a highly toxic pollutant. Identifying factors affecting Cd accumulation in plants is a prerequisite for minimizing dietary uptake of Cd from crops grown with contaminated soil. Here, we report the involvement of a SQUAMOSA PROMOTER-BINDING PROTEIN-LIKE (SPL) transcription factor LeSPL-CNR in Cd tolerance in tomato (Solanum lycopersicum). In comparison with the wild-type Ailsa Craig (AC) plants, the Colourless non-ripening (Cnr) epimutant displayed increased Cd accumulation and enhanced sensitivity to Cd, which was in well accordance with the repression of LeSPL-CNR expression. Cd stress-induced NO production was inhibited by nitrate reductase (NR) inhibitor, but not NO synthase-like enzyme inhibitor. Expression of LeSPL-CNR was negatively correlated with SlNR expression and the NR activity. We also demonstrated that LeSPL-CNR inhibited the SlNR promoter activity in vivo and bound to SlNR promoter sequence that does not contain a known SBP-binding motif. In addition, expression of an IRON-REGULATED TRANSPORTER1, SlIRT1, was more abundant in Cnr roots than AC roots under Cd stress. LeSPL-CNR may thus provide a molecular mechanism linking Cd stress response to regulation of NR-dependent NO production, which then contributes to Cd uptake via SlIRT1 expression in tomato.
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Affiliation(s)
- Wei Wei Chen
- Research Centre for Plant RNA Signaling, College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 310036, China
| | - Jian Feng Jin
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
| | - He Qiang Lou
- State Key Laboratory of Subtropical Silviculture, School of Forestry and Biotechnology, Zhejiang A&F University, Lin'an, 311300, Zhejiang, China
| | - Li Liu
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, S7N 4J8, Canada
| | - Leon V Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, S7N 4J8, Canada
| | - Jian Li Yang
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, 310058, China.
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26
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Magalhaes JV, Piñeros MA, Maciel LS, Kochian LV. Emerging Pleiotropic Mechanisms Underlying Aluminum Resistance and Phosphorus Acquisition on Acidic Soils. Front Plant Sci 2018; 9:1420. [PMID: 30319678 PMCID: PMC6168647 DOI: 10.3389/fpls.2018.01420] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/01/2018] [Accepted: 09/06/2018] [Indexed: 05/25/2023]
Abstract
Aluminum (Al) toxicity on acidic soils significantly damages plant roots and inhibits root growth. Hence, crops intoxicated by Al become more sensitive to drought stress and mineral nutrient deficiencies, particularly phosphorus (P) deficiency, which is highly unavailable on tropical soils. Advances in our understanding of the physiological and genetic mechanisms that govern plant Al resistance have led to the identification of Al resistance genes, both in model systems and in crop species. It has long been known that Al resistance has a beneficial effect on crop adaptation to acidic soils. This positive effect happens because the root systems of Al resistant plants show better development in the presence of soil ionic Al3+ and are, consequently, more efficient in absorbing sub-soil water and mineral nutrients. This effect of Al resistance on crop production, by itself, warrants intensified efforts to develop and implement, on a breeding scale, modern selection strategies to profit from the knowledge of the molecular determinants of plant Al resistance. Recent studies now suggest that Al resistance can exert pleiotropic effects on P acquisition, potentially expanding the role of Al resistance on crop adaptation to acidic soils. This appears to occur via both organic acid (OA)- and non-OA transporters governing a joint, iron-dependent interplay between Al resistance and enhanced P uptake, via changes in root system architecture. Current research suggests this interplay to be part of a P stress response, suggesting that this mechanism could have evolved in crop species to improve adaptation to acidic soils. Should this pleiotropism prove functional in crop species grown on acidic soils, molecular breeding based on Al resistance genes may have a much broader impact on crop performance than previously anticipated. To explore this possibility, here we review the components of this putative effect of Al resistance genes on P stress responses and P nutrition to provide the foundation necessary to discuss the recent evidence suggesting pleiotropy as a genetic linkage between Al resistance and P efficiency. We conclude by exploring what may be needed to enhance the utilization of Al resistance genes to improve crop production on acidic soils.
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Affiliation(s)
- Jurandir V. Magalhaes
- Embrapa Maize and Sorghum, Sete Lagoas, Brazil
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - Miguel A. Piñeros
- Robert W. Holley Center for Agriculture and Health, USDA-ARS, Cornell University, Ithaca, NY, United States
| | - Laiane S. Maciel
- Embrapa Maize and Sorghum, Sete Lagoas, Brazil
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - Leon V. Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, Canada
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27
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28
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Hufnagel B, Guimaraes CT, Craft EJ, Shaff JE, Schaffert RE, Kochian LV, Magalhaes JV. Exploiting sorghum genetic diversity for enhanced aluminum tolerance: Allele mining based on the Alt SB locus. Sci Rep 2018; 8:10094. [PMID: 29973700 PMCID: PMC6031643 DOI: 10.1038/s41598-018-27817-z] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2018] [Accepted: 06/07/2018] [Indexed: 01/06/2023] Open
Abstract
Root damage due to aluminum (Al) toxicity restricts crop production on acidic soils, which are extensive in the tropics. The sorghum root Al-activated citrate transporter, SbMATE, underlies the Al tolerance locus, AltSB, and increases grain yield under Al toxicity. Here, AltSB loci associated with Al tolerance were converted into Amplification Refractory Mutation System (ARMS) markers, which are cost effective and easy to use. A DNA pooling strategy allowed us to identify accessions harboring rare favorable AltSB alleles in three germplasm sets while greatly reducing genotyping needs. Population structure analysis revealed that favorable AltSB alleles are predominantly found in subpopulations enriched with guinea sorghums, supporting a possible Western African origin of AltSB. The efficiency of allele mining in recovering Al tolerance accessions was the highest in the largest and highly diverse germplasm set, with a 10-fold reduction in the number of accessions that would need to be phenotyped in the absence of marker information. Finally, Al tolerant accessions were found to rely on SbMATE to exclude Al3+ from sensitive sites in the root apex. This study emphasizes gene-specific markers as important tools for efficiently mining useful rare alleles in diverse germplasm, bridging genetic resource conservation efforts and pre-breeding for Al tolerance.
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Affiliation(s)
- Barbara Hufnagel
- Embrapa Maize and Sorghum, Sete Lagoas, MG, Brazil.,Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, MG, 31270-901, Brazil.,Centre National de la Recherche Scientifique, Biochimie et Physiologie Moléculaire des Plantes, Montpellier SupAgro, 2 Place Pierre Viala, 34060, Montpellier, France
| | - Claudia T Guimaraes
- Embrapa Maize and Sorghum, Sete Lagoas, MG, Brazil.,Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, MG, 31270-901, Brazil
| | - Eric J Craft
- Robert W. Holley Center of Agriculture and health, USDA-ARS, Cornell University, Ithaca, New York, USA
| | - Jon E Shaff
- Robert W. Holley Center of Agriculture and health, USDA-ARS, Cornell University, Ithaca, New York, USA
| | | | - Leon V Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK, S7N 4J8, Canada
| | - Jurandir V Magalhaes
- Embrapa Maize and Sorghum, Sete Lagoas, MG, Brazil. .,Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, MG, 31270-901, Brazil.
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29
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Uga Y, Assaranurak I, Kitomi Y, Larson BG, Craft EJ, Shaff JE, McCouch SR, Kochian LV. Genomic regions responsible for seminal and crown root lengths identified by 2D & 3D root system image analysis. BMC Genomics 2018; 19:273. [PMID: 29678154 PMCID: PMC5910583 DOI: 10.1186/s12864-018-4639-4] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2017] [Accepted: 04/03/2018] [Indexed: 11/25/2022] Open
Abstract
Background Genetic improvement of root system architecture is a promising approach for improved uptake of water and mineral nutrients distributed unevenly in the soil. To identify genomic regions associated with the length of different root types in rice, we quantified root system architecture in a set of 26 chromosome segment substitution lines derived from a cross between lowland indica rice, IR64, and upland tropical japonica rice, Kinandang Patong, (IK-CSSLs), using 2D & 3D root phenotyping platforms. Results Lengths of seminal and crown roots in the IK-CSSLs grown under hydroponic conditions were measured by 2D image analysis (RootReader2D). Twelve CSSLs showed significantly longer seminal root length than the recurrent parent IR64. Of these, 8 CSSLs also exhibited longer total length of the three longest crown roots compared to IR64. Three-dimensional image analysis (RootReader3D) for these CSSLs grown in gellan gum revealed that only one CSSL, SL1003, showed significantly longer total root length than IR64. To characterize the root morphology of SL1003 under soil conditions, SL1003 was grown in Turface, a soil-like growth media, and roots were quantified using RootReader3D. SL1003 had larger total root length and increased total crown root length than did IR64, although its seminal root length was similar to that of IR64. The larger TRL in SL1003 may be due to increased crown root length. Conclusions SL1003 carries an introgression from Kinandang Patong on the long arm of chromosome 1 in the genetic background of IR64. We conclude that this region harbors a QTL controlling crown root elongation. Electronic supplementary material The online version of this article (10.1186/s12864-018-4639-4) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Yusaku Uga
- Institute of Crop Science, National Agriculture and Food Research Organization, 2-1-2 Kannondai, Tsukuba, Ibaraki, 305-8518, Japan
| | - Ithipong Assaranurak
- Department of Plant Breeding and Genetics, Cornell University, Ithaca, NY, 14853, USA
| | - Yuka Kitomi
- Institute of Crop Science, National Agriculture and Food Research Organization, 2-1-2 Kannondai, Tsukuba, Ibaraki, 305-8518, Japan.,Department of Global Agricultural Sciences, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Yayoi, Bunkyo, Tokyo, 113-8657, Japan
| | - Brandon G Larson
- Robert W. Holley Center for Agriculture and Health, USDA-ARS, Cornell University, Ithaca, NY, 14853, USA
| | - Eric J Craft
- Robert W. Holley Center for Agriculture and Health, USDA-ARS, Cornell University, Ithaca, NY, 14853, USA
| | - Jon E Shaff
- Robert W. Holley Center for Agriculture and Health, USDA-ARS, Cornell University, Ithaca, NY, 14853, USA
| | - Susan R McCouch
- Department of Plant Breeding and Genetics, Cornell University, Ithaca, NY, 14853, USA.
| | - Leon V Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, Canada.
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30
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Liu MY, Lou HQ, Chen WW, Piñeros MA, Xu JM, Fan W, Kochian LV, Zheng SJ, Yang JL. Two citrate transporters coordinately regulate citrate secretion from rice bean root tip under aluminum stress. Plant Cell Environ 2018; 41:809-822. [PMID: 29346835 DOI: 10.1111/pce.13150] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/05/2017] [Revised: 12/20/2017] [Accepted: 01/09/2018] [Indexed: 05/25/2023]
Abstract
Aluminum (Al)-induced organic acid secretion from the root apex is an important Al resistance mechanism. However, it remains unclear how plants fine-tune root organic acid secretion which can contribute significantly to the loss of fixed carbon from the plant. Here, we demonstrate that Al-induced citrate secretion from the rice bean root apex is biphasic, consisting of an early phase with low secretion and a later phase of large citrate secretion. We isolated and characterized VuMATE2 as a possible second citrate transporter in rice bean functioning in tandem with VuMATE1, which we previously identified. The time-dependent kinetics of VuMATE2 expression correlates well with the kinetics of early phase root citrate secretion. Ectopic expression of VuMATE2 in Arabidopsis resulted in increased root citrate secretion and Al resistance. Electrophysiological analysis of Xenopus oocytes expressing VuMATE2 indicated VuMATE2 mediates anion efflux. However, the expression regulation of VuMATE2 differs from VuMATE1. While a protein translation inhibitor suppressed Al-induced VuMATE1 expression, it releases VuMATE2 expression. Yeast one-hybrid assays demonstrated that a previously identified transcription factor, VuSTOP1, interacts with the VuMATE2 promoter at a GGGAGG cis-acting motif. Thus, we demonstrate that plants adapt to Al toxicity by fine-tuning root citrate secretion with two separate root citrate transport systems.
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Affiliation(s)
- Mei Ya Liu
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
- Key Laboratory of Tea Biology and Resources Utilization, Ministry of Agriculture, Tea Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, 310008, China
| | - He Qiang Lou
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
| | - Wei Wei Chen
- Institute of Life Sciences, College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 310036, China
| | - Miguel A Piñeros
- Robert Holley Center for Agriculture and Health (USDA-ARS), Department of Plant Biology, Cornell University, Ithaca, NY, 14853, USA
| | - Jia Meng Xu
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
| | - Wei Fan
- College of Resources and Environment, Yunnan Agricultural University, Kunming, 650201, China
| | - Leon V Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, Saskatchewan, S7N 4J8, Canada
| | - Shao Jian Zheng
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
| | - Jian Li Yang
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
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31
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Doshi R, McGrath AP, Piñeros M, Szewczyk P, Garza DM, Kochian LV, Chang G. Functional characterization and discovery of modulators of SbMATE, the agronomically important aluminium tolerance transporter from Sorghum bicolor. Sci Rep 2017; 7:17996. [PMID: 29269936 PMCID: PMC5740117 DOI: 10.1038/s41598-017-18146-8] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2017] [Accepted: 12/01/2017] [Indexed: 12/18/2022] Open
Abstract
About 50% of the world's arable land is strongly acidic (pH ≤ 5). The low pH solubilizes root-toxic ionic aluminium (Al3+) species from clay minerals, driving the evolution of counteractive adaptations in cultivated crops. The food crop Sorghum bicolor upregulates the membrane-embedded transporter protein SbMATE in its roots. SbMATE mediates efflux of the anionic form of the organic acid, citrate, into the soil rhizosphere, chelating Al3+ ions and thereby imparting Al-resistance based on excluding Al+3 from the growing root tip. Here, we use electrophysiological, radiolabeled, and fluorescence-based transport assays in two heterologous expression systems to establish a broad substrate recognition profile of SbMATE, showing the proton and/or sodium-driven transport of 14C-citrate anion, as well as the organic monovalent cation, ethidium, but not its divalent analog, propidium. We further complement our transport assays by measuring substrate binding to detergent-purified SbMATE protein. Finally, we use the purified membrane protein as an antigen to discover native conformation-binding and transport function-altering nanobodies using an animal-free, mRNA/cDNA display technology. Our results demonstrate the utility of using Pichia pastoris as an efficient eukaryotic host to express large quantities of functional plant transporter proteins. The nanobody discovery approach is applicable to other non-immunogenic plant proteins.
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Affiliation(s)
- Rupak Doshi
- Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California at San Diego, La Jolla, California, USA.,InhibRx LLP, 11099 N Torrey Pines Rd., Suite 280, La Jolla, San Diego, CA, 92037, USA.,Department of Electrical Engineering and Computer Science, University of California, Irvine, 2213 Engineering Hall, Irvine, CA, 92697-2625, USA
| | - Aaron P McGrath
- Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California at San Diego, La Jolla, California, USA
| | - Miguel Piñeros
- Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, NY, USA
| | - Paul Szewczyk
- Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California at San Diego, La Jolla, California, USA.,Cancer Metabolism and Signaling Networks Program, Sanford-Burnham Prebys Medical Discovery Institute, La Jolla, California, 92037, United States
| | - Denisse M Garza
- Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California at San Diego, La Jolla, California, USA
| | - Leon V Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, Canada
| | - Geoffrey Chang
- Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California at San Diego, La Jolla, California, USA. .,Department of Pharmacology, School of Medicine, University of California at San Diego, La Jolla, California, USA.
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32
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Yan J, Chia JC, Sheng H, Jung HI, Zavodna TO, Zhang L, Huang R, Jiao C, Craft EJ, Fei Z, Kochian LV, Vatamaniuk OK. Arabidopsis Pollen Fertility Requires the Transcription Factors CITF1 and SPL7 That Regulate Copper Delivery to Anthers and Jasmonic Acid Synthesis. Plant Cell 2017; 29:3012-3029. [PMID: 29114014 PMCID: PMC5757271 DOI: 10.1105/tpc.17.00363] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/10/2017] [Revised: 10/09/2017] [Accepted: 11/03/2017] [Indexed: 05/21/2023]
Abstract
A deficiency of the micronutrient copper (Cu) leads to infertility and grain/seed yield reduction in plants. How Cu affects fertility, which reproductive structures require Cu, and which transcriptional networks coordinate Cu delivery to reproductive organs is poorly understood. Using RNA-seq analysis, we showed that the expression of a gene encoding a novel transcription factor, CITF1 (Cu-DEFICIENCY INDUCED TRANSCRIPTION FACTOR1), was strongly upregulated in Arabidopsis thaliana flowers subjected to Cu deficiency. We demonstrated that CITF1 regulates Cu uptake into roots and delivery to flowers and is required for normal plant growth under Cu deficiency. CITF1 acts together with a master regulator of copper homeostasis, SPL7 (SQUAMOSA PROMOTER BINDING PROTEIN LIKE7), and the function of both is required for Cu delivery to anthers and pollen fertility. We also found that Cu deficiency upregulates the expression of jasmonic acid (JA) biosynthetic genes in flowers and increases endogenous JA accumulation in leaves. These effects are controlled in part by CITF1 and SPL7. Finally, we show that JA regulates CITF1 expression and that the JA biosynthetic mutant lacking the CITF1- and SPL7-regulated genes, LOX3 and LOX4, is sensitive to Cu deficiency. Together, our data show that CITF1 and SPL7 regulate Cu uptake and delivery to anthers, thereby influencing fertility, and highlight the relationship between Cu homeostasis, CITF1, SPL7, and the JA metabolic pathway.
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Affiliation(s)
- Jiapei Yan
- Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, New York 14853
| | - Ju-Chen Chia
- Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, New York 14853
| | - Huajin Sheng
- Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, New York 14853
| | - Ha-Il Jung
- Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, New York 14853
| | - Tetiana-Olena Zavodna
- Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, New York 14853
| | - Lu Zhang
- Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, New York 14853
| | - Rong Huang
- Cornell High Energy Synchrotron Source, Cornell University, Ithaca, New York 14853
| | - Chen Jiao
- Boyce Thompson Institute for Plant Research, Ithaca, New York 14853
| | - Eric J Craft
- Robert W. Holley Center for Agriculture and Health, U.S. Department of Agriculture-Agricultural Research Service, Ithaca, New York 14853-2901
| | - Zhangjun Fei
- Boyce Thompson Institute for Plant Research, Ithaca, New York 14853
| | - Leon V Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon S7N 5A8, Canada
| | - Olena K Vatamaniuk
- Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, New York 14853
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Arbelaez JD, Maron LG, Jobe TO, Piñeros MA, Famoso AN, Rebelo AR, Singh N, Ma Q, Fei Z, Kochian LV, McCouch SR. ALUMINUM RESISTANCE TRANSCRIPTION FACTOR 1 ( ART1) contributes to natural variation in aluminum resistance in diverse genetic backgrounds of rice ( O. sativa). Plant Direct 2017; 1:e00014. [PMID: 31245663 PMCID: PMC6508803 DOI: 10.1002/pld3.14] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/20/2017] [Revised: 08/22/2017] [Accepted: 09/01/2017] [Indexed: 05/13/2023]
Abstract
Transcription factors (TFs) regulate the expression of other genes to indirectly mediate stress resistance mechanisms. Therefore, when studying TF-mediated stress resistance, it is important to understand how TFs interact with genes in the genetic background. Here, we fine-mapped the aluminum (Al) resistance QTL Alt12.1 to a 44-kb region containing six genes. Among them is ART1, which encodes a C2H2-type zinc finger TF required for Al resistance in rice. The mapping parents, Al-resistant cv Azucena (tropical japonica) and Al-sensitive cv IR64 (indica), have extensive sequence polymorphism within the ART1 coding region, but similar ART1 expression levels. Using reciprocal near-isogenic lines (NILs) we examined how allele-swapping the Alt12.1 locus would affect plant responses to Al. Analysis of global transcriptional responses to Al stress in roots of the NILs alongside their recurrent parents demonstrated that the presence of the Alt12.1 from Al-resistant Azucena led to greater changes in gene expression in response to Al when compared to the Alt12.1 from IR64 in both genetic backgrounds. The presence of the ART1 allele from the opposite parent affected the expression of several genes not previously implicated in rice Al tolerance. We highlight examples where putatively functional variation in cis-regulatory regions of ART1-regulated genes interacts with ART1 to determine gene expression in response to Al. This ART1-promoter interaction may be associated with transgressive variation for Al resistance in the Azucena × IR64 population. These results illustrate how ART1 interacts with the genetic background to contribute to quantitative phenotypic variation in rice Al resistance.
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Affiliation(s)
- Juan D. Arbelaez
- Plant Breeding and Genetics SectionSchool of Integrative Plant ScienceCornell UniversityIthacaNYUSA
- Present address:
Plant BreedingInternational Rice Research InstituteLos BañosPhilippines
| | - Lyza G. Maron
- Plant Breeding and Genetics SectionSchool of Integrative Plant ScienceCornell UniversityIthacaNYUSA
| | - Timothy O. Jobe
- Plant Breeding and Genetics SectionSchool of Integrative Plant ScienceCornell UniversityIthacaNYUSA
- Boyce Thompson InstituteCornell UniversityIthacaNYUSA
- Present address:
Botanical InstituteUniversity of CologneCologneGermany
| | - Miguel A. Piñeros
- Robert W. Holley Center for Agriculture and HealthUSDA‐ARSCornell UniversityIthacaNYUSA
| | - Adam N. Famoso
- Plant Breeding and Genetics SectionSchool of Integrative Plant ScienceCornell UniversityIthacaNYUSA
- Present address:
LSU AgCenterH. Rouse Caffey Rice Research StationRayneLAUSA
| | - Ana Rita Rebelo
- Plant Breeding and Genetics SectionSchool of Integrative Plant ScienceCornell UniversityIthacaNYUSA
- Present address:
Boyce Thompson InstituteCornell UniversityIthacaNYUSA
| | - Namrata Singh
- Plant Breeding and Genetics SectionSchool of Integrative Plant ScienceCornell UniversityIthacaNYUSA
| | - Qiyue Ma
- Boyce Thompson InstituteCornell UniversityIthacaNYUSA
| | - Zhangjun Fei
- Boyce Thompson InstituteCornell UniversityIthacaNYUSA
| | - Leon V. Kochian
- Robert W. Holley Center for Agriculture and HealthUSDA‐ARSCornell UniversityIthacaNYUSA
- Present address:
Global Institute for Food SecurityUniversity of SaskatchewanSaskatoonSKCanada
| | - Susan R. McCouch
- Plant Breeding and Genetics SectionSchool of Integrative Plant ScienceCornell UniversityIthacaNYUSA
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Jiang F, Wang T, Wang Y, Kochian LV, Chen F, Liu J. Identification and characterization of suppressor mutants of stop1. BMC Plant Biol 2017; 17:128. [PMID: 28738784 PMCID: PMC5525285 DOI: 10.1186/s12870-017-1079-2] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/02/2017] [Accepted: 07/20/2017] [Indexed: 05/06/2023]
Abstract
BACKGROUND Proton stress and aluminum (Al) toxicity are major constraints limiting crop growth and yields on acid soils (pH < 5). In Arabidopsis, STOP1 is a master transcription factor that controls the expression of a set of well-characterized Al tolerance genes and unknown processes involved in low pH resistance. As a result, loss-of-function stop1 mutants are extremely sensitive to low pH and Al stresses. RESULTS Here, we report on screens of an ethyl-methane sulphonate (EMS)-mutagenized stop1 population and isolation of nine strong stop1 suppressor mutants, i.e., the tolerant to proton stress (tps) mutants, with significantly enhanced root growth at low pH (4.3). Genetic analyses indicated these dominant and partial gain-of-function mutants are caused by mutations in single nuclear genes outside the STOP1 locus. Physiological characterization of the responses of these tps mutants to excess levels of Al and other metal ions further classified them into five groups. Three tps mutants also displayed enhanced resistance to Al stress, indicating that these tps mutations partially rescue the hypersensitive phenotypes of stop1 to both low pH stress and Al stress. The other six tps mutants showed enhanced resistance only to low pH stress but not to Al stress. We carried out further physiologic and mapping-by-sequencing analyses for two tps mutants with enhanced resistance to both low pH and Al stresses and identified the genomic regions and candidate loci in chromosomes 1 and 2 that harbor these two TPS genes. CONCLUSION We have identified and characterized nine strong stop1 suppressor mutants. Candidate loci for two tps mutations that partially rescue the hypersensitive phenotypes of stop1 to low pH and Al stresses were identified by mapping-by-sequencing approaches. Further studies could provide insights into the structure and function of TPSs and the regulatory networks underlying the STOP1-mediated processes that lead to resistance to low pH and Al stresses in Arabidopsis.
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Affiliation(s)
- Fei Jiang
- Robert W. Holley Center, US Department of Agriculture-Agricultural Research Service, Ithaca, NY 14853 USA
- Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, Sichuan China
- College of Life Science, Sichuan University, Chengdu, Sichuan China
| | - Tao Wang
- Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, Sichuan China
| | - Yuqi Wang
- Robert W. Holley Center, US Department of Agriculture-Agricultural Research Service, Ithaca, NY 14853 USA
| | - Leon V. Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, S7N 4J8 Canada
| | - Fang Chen
- College of Life Science, Sichuan University, Chengdu, Sichuan China
| | - Jiping Liu
- Robert W. Holley Center, US Department of Agriculture-Agricultural Research Service, Ithaca, NY 14853 USA
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35
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Dong J, Piñeros MA, Li X, Yang H, Liu Y, Murphy AS, Kochian LV, Liu D. An Arabidopsis ABC Transporter Mediates Phosphate Deficiency-Induced Remodeling of Root Architecture by Modulating Iron Homeostasis in Roots. Mol Plant 2017; 10:244-259. [PMID: 27847325 DOI: 10.1016/j.molp.2016.11.001] [Citation(s) in RCA: 87] [Impact Index Per Article: 12.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/21/2016] [Revised: 10/24/2016] [Accepted: 11/05/2016] [Indexed: 05/21/2023]
Abstract
The remodeling of root architecture is a major developmental response of plants to phosphate (Pi) deficiency and is thought to enhance a plant's ability to forage for the available Pi in topsoil. The underlying mechanism controlling this response, however, is poorly understood. In this study, we identified an Arabidopsis mutant, hps10 (hypersensitive to Pi starvation 10), which is morphologically normal under Pi sufficient condition but shows increased inhibition of primary root growth and enhanced production of lateral roots under Pi deficiency. hps10 is a previously identified allele (als3-3) of the ALUMINUM SENSITIVE3 (ALS3) gene, which is involved in plant tolerance to aluminum toxicity. Our results show that ALS3 and its interacting protein AtSTAR1 form an ABC transporter complex in the tonoplast. This protein complex mediates a highly electrogenic transport in Xenopus oocytes. Under Pi deficiency, als3 accumulates higher levels of Fe3+ in its roots than the wild type does. In Arabidopsis, LPR1 (LOW PHOSPHATE ROOT1) and LPR2 encode ferroxidases, which when mutated, reduce Fe3+ accumulation in roots and cause root growth to be insensitive to Pi deficiency. Here, we provide compelling evidence showing that ALS3 cooperates with LPR1/2 to regulate Pi deficiency-induced remodeling of root architecture by modulating Fe homeostasis in roots.
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Affiliation(s)
- Jinsong Dong
- Ministry of Education Key Laboratory of Bioinformatics, Center for Plant Biology, School of Life Sciences, Tsinghua University, Beijing 100084, China
| | - Miguel A Piñeros
- USDA-ARS, Robert Holley Center for Agriculture and Health, Cornell University, Ithaca, NY 14580, USA
| | - Xiaoxuan Li
- Ministry of Education Key Laboratory of Bioinformatics, Center for Plant Biology, School of Life Sciences, Tsinghua University, Beijing 100084, China
| | - Haibing Yang
- Department of Horticulture, Purdue University, West Lafayette, IN 47907-2010, USA
| | - Yu Liu
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Science, Zhejiang University, Hangzhou 310058, China
| | - Angus S Murphy
- Department of Plant Science and Landscape Architecture, University of Maryland, College Park, MD 20742, USA
| | - Leon V Kochian
- Global Institute for Food Security, University of Saskatchewan, Saskatoon S7N 4J8, Canada
| | - Dong Liu
- Ministry of Education Key Laboratory of Bioinformatics, Center for Plant Biology, School of Life Sciences, Tsinghua University, Beijing 100084, China.
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Affiliation(s)
- Lyza G Maron
- School of Integrative Plant Science, Plant Breeding and Genetics section, Cornell University, Ithaca, NY 14853, USA
| | - Miguel A Piñeros
- Robert W. Holley Center for Agriculture and Health, USDA-ARS, Cornell University, Ithaca, NY 14853, USA
| | - Leon V Kochian
- Robert W. Holley Center for Agriculture and Health, USDA-ARS, Cornell University, Ithaca, NY 14853, USA Current address: Global Institute for Food Security, University of Saskatchewan, Saskatoon, S7N 5A8, Canada
| | - Susan R McCouch
- School of Integrative Plant Science, Plant Breeding and Genetics section, Cornell University, Ithaca, NY 14853, USA
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Brauer EK, Ahsan N, Dale R, Kato N, Coluccio AE, Piñeros MA, Kochian LV, Thelen JJ, Popescu SC. The Raf-like Kinase ILK1 and the High Affinity K+ Transporter HAK5 Are Required for Innate Immunity and Abiotic Stress Response. Plant Physiol 2016; 171:1470-84. [PMID: 27208244 PMCID: PMC4902592 DOI: 10.1104/pp.16.00035] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/09/2016] [Accepted: 04/29/2016] [Indexed: 05/04/2023]
Abstract
Plant perception of pathogen-associated molecular patterns (PAMPs) and other environmental stresses trigger transient ion fluxes at the plasma membrane. Apart from the role of Ca(2+) uptake in signaling, the regulation and significance of PAMP-induced ion fluxes in immunity remain unknown. We characterized the functions of INTEGRIN-LINKED KINASE1 (ILK1) that encodes a Raf-like MAP2K kinase with functions insufficiently understood in plants. Analysis of ILK1 mutants impaired in the expression or kinase activity revealed that ILK1 contributes to plant defense to bacterial pathogens, osmotic stress sensitivity, and cellular responses and total ion accumulation in the plant upon treatment with a bacterial-derived PAMP, flg22. The calmodulin-like protein CML9, a negative modulator of flg22-triggered immunity, interacted with, and suppressed ILK1 kinase activity. ILK1 interacted with and promoted the accumulation of HAK5, a putative (H(+))/K(+) symporter that mediates a high-affinity uptake during K(+) deficiency. ILK1 or HAK5 expression was required for several flg22 responses including gene induction, growth arrest, and plasma membrane depolarization. Furthermore, flg22 treatment induced a rapid K(+) efflux at both the plant and cellular levels in wild type, while mutants with impaired ILK1 or HAK5 expression exhibited a comparatively increased K(+) loss. Taken together, our results position ILK1 as a link between plant defense pathways and K(+) homeostasis.
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Affiliation(s)
- Elizabeth K Brauer
- The Boyce Thompson Institute for Plant Research, Ithaca, New York 14853 (E.K.B., S.C.P.); Department of Plant Pathology and Plant-Microbe Biology, Cornell University, Ithaca, New York 14853 (E.K.B., S.C.P.); Department of Biochemistry, University of Missouri, Christopher S. Bond Life Sciences Center, Columbia, Missouri 65211 (N.A., J.T.T.); Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana 70803 (R.D., N.K.); and Robert W. Holley Center for Agriculture and Health, Agricultural Research Service, US Department of Agriculture, Cornell University, Ithaca, New York 14853 (A.E.C., M.A.P., L.V.K.)
| | - Nagib Ahsan
- The Boyce Thompson Institute for Plant Research, Ithaca, New York 14853 (E.K.B., S.C.P.); Department of Plant Pathology and Plant-Microbe Biology, Cornell University, Ithaca, New York 14853 (E.K.B., S.C.P.); Department of Biochemistry, University of Missouri, Christopher S. Bond Life Sciences Center, Columbia, Missouri 65211 (N.A., J.T.T.); Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana 70803 (R.D., N.K.); and Robert W. Holley Center for Agriculture and Health, Agricultural Research Service, US Department of Agriculture, Cornell University, Ithaca, New York 14853 (A.E.C., M.A.P., L.V.K.)
| | - Renee Dale
- The Boyce Thompson Institute for Plant Research, Ithaca, New York 14853 (E.K.B., S.C.P.); Department of Plant Pathology and Plant-Microbe Biology, Cornell University, Ithaca, New York 14853 (E.K.B., S.C.P.); Department of Biochemistry, University of Missouri, Christopher S. Bond Life Sciences Center, Columbia, Missouri 65211 (N.A., J.T.T.); Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana 70803 (R.D., N.K.); and Robert W. Holley Center for Agriculture and Health, Agricultural Research Service, US Department of Agriculture, Cornell University, Ithaca, New York 14853 (A.E.C., M.A.P., L.V.K.)
| | - Naohiro Kato
- The Boyce Thompson Institute for Plant Research, Ithaca, New York 14853 (E.K.B., S.C.P.); Department of Plant Pathology and Plant-Microbe Biology, Cornell University, Ithaca, New York 14853 (E.K.B., S.C.P.); Department of Biochemistry, University of Missouri, Christopher S. Bond Life Sciences Center, Columbia, Missouri 65211 (N.A., J.T.T.); Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana 70803 (R.D., N.K.); and Robert W. Holley Center for Agriculture and Health, Agricultural Research Service, US Department of Agriculture, Cornell University, Ithaca, New York 14853 (A.E.C., M.A.P., L.V.K.)
| | - Alison E Coluccio
- The Boyce Thompson Institute for Plant Research, Ithaca, New York 14853 (E.K.B., S.C.P.); Department of Plant Pathology and Plant-Microbe Biology, Cornell University, Ithaca, New York 14853 (E.K.B., S.C.P.); Department of Biochemistry, University of Missouri, Christopher S. Bond Life Sciences Center, Columbia, Missouri 65211 (N.A., J.T.T.); Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana 70803 (R.D., N.K.); and Robert W. Holley Center for Agriculture and Health, Agricultural Research Service, US Department of Agriculture, Cornell University, Ithaca, New York 14853 (A.E.C., M.A.P., L.V.K.)
| | - Miguel A Piñeros
- The Boyce Thompson Institute for Plant Research, Ithaca, New York 14853 (E.K.B., S.C.P.); Department of Plant Pathology and Plant-Microbe Biology, Cornell University, Ithaca, New York 14853 (E.K.B., S.C.P.); Department of Biochemistry, University of Missouri, Christopher S. Bond Life Sciences Center, Columbia, Missouri 65211 (N.A., J.T.T.); Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana 70803 (R.D., N.K.); and Robert W. Holley Center for Agriculture and Health, Agricultural Research Service, US Department of Agriculture, Cornell University, Ithaca, New York 14853 (A.E.C., M.A.P., L.V.K.)
| | - Leon V Kochian
- The Boyce Thompson Institute for Plant Research, Ithaca, New York 14853 (E.K.B., S.C.P.); Department of Plant Pathology and Plant-Microbe Biology, Cornell University, Ithaca, New York 14853 (E.K.B., S.C.P.); Department of Biochemistry, University of Missouri, Christopher S. Bond Life Sciences Center, Columbia, Missouri 65211 (N.A., J.T.T.); Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana 70803 (R.D., N.K.); and Robert W. Holley Center for Agriculture and Health, Agricultural Research Service, US Department of Agriculture, Cornell University, Ithaca, New York 14853 (A.E.C., M.A.P., L.V.K.)
| | - Jay J Thelen
- The Boyce Thompson Institute for Plant Research, Ithaca, New York 14853 (E.K.B., S.C.P.); Department of Plant Pathology and Plant-Microbe Biology, Cornell University, Ithaca, New York 14853 (E.K.B., S.C.P.); Department of Biochemistry, University of Missouri, Christopher S. Bond Life Sciences Center, Columbia, Missouri 65211 (N.A., J.T.T.); Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana 70803 (R.D., N.K.); and Robert W. Holley Center for Agriculture and Health, Agricultural Research Service, US Department of Agriculture, Cornell University, Ithaca, New York 14853 (A.E.C., M.A.P., L.V.K.)
| | - Sorina C Popescu
- The Boyce Thompson Institute for Plant Research, Ithaca, New York 14853 (E.K.B., S.C.P.); Department of Plant Pathology and Plant-Microbe Biology, Cornell University, Ithaca, New York 14853 (E.K.B., S.C.P.); Department of Biochemistry, University of Missouri, Christopher S. Bond Life Sciences Center, Columbia, Missouri 65211 (N.A., J.T.T.); Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana 70803 (R.D., N.K.); and Robert W. Holley Center for Agriculture and Health, Agricultural Research Service, US Department of Agriculture, Cornell University, Ithaca, New York 14853 (A.E.C., M.A.P., L.V.K.)
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Zhang Z, Zheng Y, Ham BK, Chen J, Yoshida A, Kochian LV, Fei Z, Lucas WJ. Vascular-mediated signalling involved in early phosphate stress response in plants. Nat Plants 2016; 2:16033. [PMID: 27249565 DOI: 10.1038/nplants.2016.33] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/28/2015] [Accepted: 02/13/2016] [Indexed: 05/09/2023]
Abstract
Depletion of finite global rock phosphate (Pi) reserves will impose major limitations on future agricultural productivity and food security. Hence, modern breeding programmes seek to develop Pi-efficient crops with sustainable yields under reduced Pi fertilizer inputs. In this regard, although the long-term responses of plants to Pi stress are well documented, the early signalling events have yet to be elucidated. Here, we show plant tissue-specific responses to early Pi stress at the transcription level and a predominant role of the plant vascular system in this process. Specifically, imposition of Pi stress induces rapid and major changes in the mRNA population in the phloem translocation stream, and grafting studies have revealed that many hundreds of phloem-mobile mRNAs are delivered to specific sink tissues. We propose that the shoot vascular system acts as the site of root-derived Pi stress perception, and the phloem serves to deliver a cascade of signals to various sinks, presumably to coordinate whole-plant Pi homeostasis.
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Affiliation(s)
- Zhaoliang Zhang
- Department of Plant Biology, College of Biological Sciences, University of California, Davis, California, USA
| | - Yi Zheng
- Boyce Thompson Institute for Plant Research, Cornell University, Ithaca, New York, USA
| | - Byung-Kook Ham
- Department of Plant Biology, College of Biological Sciences, University of California, Davis, California, USA
| | - Jieyu Chen
- Department of Plant Biology, College of Biological Sciences, University of California, Davis, California, USA
| | - Akiko Yoshida
- Department of Plant Biology, College of Biological Sciences, University of California, Davis, California, USA
- Department of Agricultural and Environmental Biology, Graduate School of Agricultural and Life Sciences, University of Tokyo, Bunkyo-ku, Tokyo, Japan
| | - Leon V Kochian
- USDA-ARS Robert W. Holley Center for Agriculture and Health, Cornell University, Ithaca, New York, USA
| | - Zhangjun Fei
- Boyce Thompson Institute for Plant Research, Cornell University, Ithaca, New York, USA
| | - William J Lucas
- Department of Plant Biology, College of Biological Sciences, University of California, Davis, California, USA
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39
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Piñeros MA, Larson BG, Shaff JE, Schneider DJ, Falcão AX, Yuan L, Clark RT, Craft EJ, Davis TW, Pradier PL, Shaw NM, Assaranurak I, McCouch SR, Sturrock C, Bennett M, Kochian LV. Evolving technologies for growing, imaging and analyzing 3D root system architecture of crop plants. J Integr Plant Biol 2016; 58:230-41. [PMID: 26683583 DOI: 10.1111/jipb.12456] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/19/2015] [Accepted: 12/16/2015] [Indexed: 05/20/2023]
Abstract
A plant's ability to maintain or improve its yield under limiting conditions, such as nutrient deficiency or drought, can be strongly influenced by root system architecture (RSA), the three-dimensional distribution of the different root types in the soil. The ability to image, track and quantify these root system attributes in a dynamic fashion is a useful tool in assessing desirable genetic and physiological root traits. Recent advances in imaging technology and phenotyping software have resulted in substantive progress in describing and quantifying RSA. We have designed a hydroponic growth system which retains the three-dimensional RSA of the plant root system, while allowing for aeration, solution replenishment and the imposition of nutrient treatments, as well as high-quality imaging of the root system. The simplicity and flexibility of the system allows for modifications tailored to the RSA of different crop species and improved throughput. This paper details the recent improvements and innovations in our root growth and imaging system which allows for greater image sensitivity (detection of fine roots and other root details), higher efficiency, and a broad array of growing conditions for plants that more closely mimic those found under field conditions.
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Affiliation(s)
- Miguel A Piñeros
- USDA-ARS, Robert Holley Center for Agriculture and Health, 538 Tower Road, Ithaca, NY 14580, USA
| | - Brandon G Larson
- USDA-ARS, Robert Holley Center for Agriculture and Health, 538 Tower Road, Ithaca, NY 14580, USA
| | - Jon E Shaff
- USDA-ARS, Robert Holley Center for Agriculture and Health, 538 Tower Road, Ithaca, NY 14580, USA
| | - David J Schneider
- USDA-ARS, Robert Holley Center for Agriculture and Health, 538 Tower Road, Ithaca, NY 14580, USA
| | - Alexandre Xavier Falcão
- Department of Information Systems, Institute of Computing, University of Campinas, Av. Albert Einstein, 1251, CEP 13083-852, Campinas, SP, Brazil
| | - Lixing Yuan
- Department of Plant Nutrition, China Agricultural University, Beijing 100193, China
| | - Randy T Clark
- USDA-ARS, Robert Holley Center for Agriculture and Health, 538 Tower Road, Ithaca, NY 14580, USA
| | - Eric J Craft
- USDA-ARS, Robert Holley Center for Agriculture and Health, 538 Tower Road, Ithaca, NY 14580, USA
| | - Tyler W Davis
- USDA-ARS, Robert Holley Center for Agriculture and Health, 538 Tower Road, Ithaca, NY 14580, USA
| | - Pierre-Luc Pradier
- USDA-ARS, Robert Holley Center for Agriculture and Health, 538 Tower Road, Ithaca, NY 14580, USA
| | - Nathanael M Shaw
- USDA-ARS, Robert Holley Center for Agriculture and Health, 538 Tower Road, Ithaca, NY 14580, USA
| | - Ithipong Assaranurak
- Department of Plant Breeding and Genetics, Cornell University, Ithaca, NY 14853, USA
| | - Susan R McCouch
- Department of Plant Breeding and Genetics, Cornell University, Ithaca, NY 14853, USA
| | - Craig Sturrock
- Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Sutton Bonington, LE12 5RD, UK
| | - Malcolm Bennett
- Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Sutton Bonington, LE12 5RD, UK
- College of Science, King Saud University, Riyadh 11451, Kingdom of Saudi Arabia
| | - Leon V Kochian
- USDA-ARS, Robert Holley Center for Agriculture and Health, 538 Tower Road, Ithaca, NY 14580, USA
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40
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Affiliation(s)
- Leon V Kochian
- Robert W. Holley Center for Agriculture and Health, USDA-ARS, Cornell University, Ithaca, NY, 14853, USA
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41
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Coskun D, Britto DT, Kochian LV, Kronzucker HJ. How high do ion fluxes go? A re-evaluation of the two-mechanism model of K(+) transport in plant roots. Plant Sci 2016; 243:96-104. [PMID: 26795154 DOI: 10.1016/j.plantsci.2015.12.003] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/09/2015] [Revised: 12/04/2015] [Accepted: 12/08/2015] [Indexed: 05/21/2023]
Abstract
Potassium (K(+)) acquisition in roots is generally described by a two-mechanism model, consisting of a saturable, high-affinity transport system (HATS) operating via H(+)/K(+) symport at low (<1mM) external [K(+)] ([K(+)]ext), and a linear, low-affinity system (LATS) operating via ion channels at high (>1mM) [K(+)]ext. Radiotracer measurements in the LATS range indicate that the linear rise in influx continues well beyond nutritionally relevant concentrations (>10mM), suggesting K(+) transport may be pushed to extraordinary, and seemingly limitless, capacity. Here, we assess this rise, asking whether LATS measurements faithfully report transmembrane fluxes. Using (42)K(+)-isotope and electrophysiological methods in barley, we show that this flux is part of a K(+)-transport cycle through the apoplast, and masks a genuine plasma-membrane influx that displays Michaelis-Menten kinetics. Rapid apoplastic cycling of K(+) is corroborated by an absence of transmembrane (42)K(+) efflux above 1mM, and by the efflux kinetics of PTS, an apoplastic tracer. A linear apoplastic influx, masking a saturating transmembrane influx, was also found in Arabidopsis mutants lacking the K(+) transporters AtHAK5 and AtAKT1. Our work significantly revises the model of K(+) transport by demonstrating a surprisingly modest upper limit for plasma-membrane influx, and offers insight into sodium transport under salt stress.
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Affiliation(s)
- Devrim Coskun
- Department of Biological Sciences & Canadian Centre for World Hunger Research (CCWHR), University of Toronto, Toronto, Ontario M1C 1A4, Canada.
| | - Dev T Britto
- Department of Biological Sciences & Canadian Centre for World Hunger Research (CCWHR), University of Toronto, Toronto, Ontario M1C 1A4, Canada.
| | - Leon V Kochian
- Robert W. Holley Center for Agriculture and Health, USDA-ARS, Cornell University, Ithaca, New York 14853, USA.
| | - Herbert J Kronzucker
- Department of Biological Sciences & Canadian Centre for World Hunger Research (CCWHR), University of Toronto, Toronto, Ontario M1C 1A4, Canada.
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Zhou D, Yang Y, Zhang J, Jiang F, Craft E, Thannhauser TW, Kochian LV, Liu J. Quantitative iTRAQ Proteomics Revealed Possible Roles for Antioxidant Proteins in Sorghum Aluminum Tolerance. Front Plant Sci 2016; 7:2043. [PMID: 28119720 PMCID: PMC5220100 DOI: 10.3389/fpls.2016.02043] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/02/2016] [Accepted: 12/21/2016] [Indexed: 05/19/2023]
Abstract
Aluminum (Al) toxicity inhibits root growth and limits crop yields on acid soils worldwide. However, quantitative information is scarce on protein expression profiles under Al stress in crops. In this study, we report on the identification of potential Al responsive proteins from root tips of Al sensitive BR007 and Al tolerant SC566 sorghum lines using a strategy employing iTRAQ and 2D-liquid chromatography (LC) coupled to MS/MS (2D-LC-MS/MS). A total of 771 and 329 unique proteins with abundance changes of >1.5 or <0.67-fold were identified in BR007 and SC566, respectively. Protein interaction and pathway analyses indicated that proteins involved in the antioxidant system were more abundant in the tolerant line than in the sensitive one after Al treatment, while opposite trends were observed for proteins involved in lignin biosynthesis. Higher levels of ROS accumulation in root tips of the sensitive line due to decreased activity of antioxidant enzymes could lead to higher lignin production and hyper-accumulation of toxic Al in cell walls. These results indicated that activities of peroxidases and the balance between production and consumption of ROS could be important for Al tolerance and lignin biosynthesis in sorghum.
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Affiliation(s)
- Dangwei Zhou
- Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture - Agricultural Research Service, Cornell UniversityIthaca, NY, USA
- Center of Plateau Ecology, Northwest Institute of Plateau Biology, Chinese Academy of SciencesXining, China
| | - Yong Yang
- Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture - Agricultural Research Service, Cornell UniversityIthaca, NY, USA
| | - Jinbiao Zhang
- Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture - Agricultural Research Service, Cornell UniversityIthaca, NY, USA
- College of Life Sciences, Fujian Agriculture and Forestry UniversityFuzhou, China
| | - Fei Jiang
- Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture - Agricultural Research Service, Cornell UniversityIthaca, NY, USA
- Agricultural Biotechnology Center, Chengdu Institute of Biology, Chinese Academy of SciencesChengdu, China
| | - Eric Craft
- Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture - Agricultural Research Service, Cornell UniversityIthaca, NY, USA
| | - Theodore W. Thannhauser
- Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture - Agricultural Research Service, Cornell UniversityIthaca, NY, USA
| | - Leon V. Kochian
- Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture - Agricultural Research Service, Cornell UniversityIthaca, NY, USA
| | - Jiping Liu
- Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture - Agricultural Research Service, Cornell UniversityIthaca, NY, USA
- *Correspondence: Jiping Liu
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Tako E, Hoekenga OA, Kochian LV, Glahn RP. Retraction Note: High bioavailablilty iron maize (Zea mays L.) developed through molecular breeding provides more absorbable iron in vitro (Caco-2 model) and in vivo (Gallus gallus). Nutr J 2015; 14:126. [PMID: 26714868 PMCID: PMC4696243 DOI: 10.1186/s12937-015-0109-x] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2015] [Accepted: 11/20/2015] [Indexed: 11/10/2022] Open
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Hart JJ, Tako E, Kochian LV, Glahn RP. Identification of Black Bean (Phaseolus vulgaris L.) Polyphenols That Inhibit and Promote Iron Uptake by Caco-2 Cells. J Agric Food Chem 2015; 63:5950-6. [PMID: 26044037 DOI: 10.1021/acs.jafc.5b00531] [Citation(s) in RCA: 68] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
In nutritional studies, polyphenolic compounds are considered to be inhibitors of Fe bioavailability. Because they are presumed to act in a similar manner, total polyphenols are commonly measured via the Folin-Ciocalteu colorimetric assay. This study measured the content of polyphenolic compounds in white and black beans and examined the effect of individual polyphenols on iron uptake by Caco-2 cells. Analysis of seed coat extracts by LC-MS revealed the presence of a range of polyphenols in black bean, but no detectable polyphenols in white bean. Extracts from black bean seed coats strongly inhibited iron uptake. Examination of the eight most abundant black bean seed coat, non-anthocyanin polyphenols via Caco-2 cell assays showed that four (catechin, 3,4-dihydroxybenzoic acid, kaempferol, and kaempferol 3-glucoside) clearly promoted iron uptake and four (myricetin, myricetin 3-glucoside, quercetin, and quercetin 3-glucoside) inhibited iron uptake. The four inhibitors were present in 3-fold higher total concentration than the promoters (143 ± 7.2 vs 43.6 ± 4.4 μM), consistent with the net inhibitory effect observed for black bean seed coats. The ability of some polyphenols to promote iron uptake and the identification of specific polyphenols that inhibit Fe uptake suggest a potential for breeding bean lines with improved iron nutritional qualities.
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Affiliation(s)
- Jonathan J Hart
- Robert W. Holley Center for Agriculture and Health, Agricultural Research Service, U.S. Department of Agriculture, Cornell University, Ithaca, New York 14853, United States
| | - Elad Tako
- Robert W. Holley Center for Agriculture and Health, Agricultural Research Service, U.S. Department of Agriculture, Cornell University, Ithaca, New York 14853, United States
| | - Leon V Kochian
- Robert W. Holley Center for Agriculture and Health, Agricultural Research Service, U.S. Department of Agriculture, Cornell University, Ithaca, New York 14853, United States
| | - Raymond P Glahn
- Robert W. Holley Center for Agriculture and Health, Agricultural Research Service, U.S. Department of Agriculture, Cornell University, Ithaca, New York 14853, United States
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Abstract
Aluminum (Al) toxicity in acid soils is a significant limitation to crop production worldwide, as approximately 50% of the world's potentially arable soil is acidic. Because acid soils are such an important constraint to agriculture, understanding the mechanisms and genes conferring resistance to Al toxicity has been a focus of intense research interest in the decade since the last article on crop acid soil tolerance was published in this journal. An impressive amount of progress has been made during that time that has greatly increased our understanding of the diversity of Al resistance genes and mechanisms, how resistance gene expression is regulated and triggered by Al and Al-induced signals, and how the proteins encoded by these genes function and are regulated. This review examines the state of our understanding of the physiological, genetic, and molecular bases for crop Al tolerance, looking at the novel Al resistance genes and mechanisms that have been identified over the past ten years. Additionally, it examines how the integration of molecular and genetic analyses of crop Al resistance is starting to be exploited for the improvement of crop plants grown on acid soils via both molecular-assisted breeding and biotechnology approaches.
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Affiliation(s)
- Leon V Kochian
- Robert W. Holley Center for Agriculture and Health, USDA-ARS, Cornell University, Ithaca, New York 14853; , ,
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Hufnagel B, de Sousa SM, Assis L, Guimaraes CT, Leiser W, Azevedo GC, Negri B, Larson BG, Shaff JE, Pastina MM, Barros BA, Weltzien E, Rattunde HFW, Viana JH, Clark RT, Falcão A, Gazaffi R, Garcia AAF, Schaffert RE, Kochian LV, Magalhaes JV. Duplicate and conquer: multiple homologs of PHOSPHORUS-STARVATION TOLERANCE1 enhance phosphorus acquisition and sorghum performance on low-phosphorus soils. Plant Physiol 2014; 166:659-77. [PMID: 25189534 PMCID: PMC4213096 DOI: 10.1104/pp.114.243949] [Citation(s) in RCA: 78] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/28/2014] [Accepted: 09/01/2014] [Indexed: 05/02/2023]
Abstract
Low soil phosphorus (P) availability is a major constraint for crop production in tropical regions. The rice (Oryza sativa) protein kinase, PHOSPHORUS-STARVATION TOLERANCE1 (OsPSTOL1), was previously shown to enhance P acquisition and grain yield in rice under P deficiency. We investigated the role of homologs of OsPSTOL1 in sorghum (Sorghum bicolor) performance under low P. Association mapping was undertaken in two sorghum association panels phenotyped for P uptake, root system morphology and architecture in hydroponics and grain yield and biomass accumulation under low-P conditions, in Brazil and/or in Mali. Root length and root surface area were positively correlated with grain yield under low P in the soil, emphasizing the importance of P acquisition efficiency in sorghum adaptation to low-P availability. SbPSTOL1 alleles reducing root diameter were associated with enhanced P uptake under low P in hydroponics, whereas Sb03g006765 and Sb03g0031680 alleles increasing root surface area also increased grain yield in a low-P soil. SbPSTOL1 genes colocalized with quantitative trait loci for traits underlying root morphology and dry weight accumulation under low P via linkage mapping. Consistent allelic effects for enhanced sorghum performance under low P between association panels, including enhanced grain yield under low P in the soil in Brazil, point toward a relatively stable role for Sb03g006765 across genetic backgrounds and environmental conditions. This study indicates that multiple SbPSTOL1 genes have a more general role in the root system, not only enhancing root morphology traits but also changing root system architecture, which leads to grain yield gain under low-P availability in the soil.
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Affiliation(s)
- Barbara Hufnagel
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Sylvia M de Sousa
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Lidianne Assis
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Claudia T Guimaraes
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Willmar Leiser
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Gabriel C Azevedo
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Barbara Negri
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Brandon G Larson
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Jon E Shaff
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Maria Marta Pastina
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Beatriz A Barros
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Eva Weltzien
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Henry Frederick W Rattunde
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Joao H Viana
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Randy T Clark
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Alexandre Falcão
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Rodrigo Gazaffi
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Antonio Augusto F Garcia
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Robert E Schaffert
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Leon V Kochian
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
| | - Jurandir V Magalhaes
- Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil (B.H., C.T.G., G.C.A., J.V.M.);Embrapa Maize and Sorghum, Sete Lagoas, Minas Gerais, 35701-970, Brazil (B.H., S.M.d.S., L.A., C.T.G., G.C.A., B.N., M.M.P., B.A.B., J.H.V., R.E.S., J.V.M.);International Crops Research Institute for the Semi-Arid Tropics, BP 320 Bamako, Mali (W.L., E.W., H.F.W.R.);Institute of Plant Breeding, Seed Science, and Population Genetics, University of Hohenheim, 70593 Stuttgart, Germany (W.L.);Departamento de Bioengenharia, Universidade Federal de São João del-Rei, Praça Sao Joao del-Rei, Minas Gerais, 36301-160, Brazil (B.N.);Robert W. Holley Center for Agriculture and Health, United States Department of Agriculture-Agricultural Research Service, Cornell University, Ithaca, New York 14850 (B.G.L., J.E.S., R.T.C., L.V.K.);University of Campinas, Campinas, Sao Paulo, 13083-852, Brazil (A.F.); andDepartamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Sao Paulo, 13400-970, Brazil (R.G., A.A.F.G.)
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47
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Souza GA, Hart JJ, Carvalho JG, Rutzke MA, Albrecht JC, Guilherme LRG, Kochian LV, Li L. Genotypic variation of zinc and selenium concentration in grains of Brazilian wheat lines. Plant Sci 2014; 224:27-35. [PMID: 24908503 DOI: 10.1016/j.plantsci.2014.03.022] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/11/2013] [Revised: 03/29/2014] [Accepted: 03/31/2014] [Indexed: 06/03/2023]
Abstract
Exploration of genetic resources for micronutrient concentrations facilitates the breeding of nutrient-dense crops, which is increasingly seen as an additional, sustainable strategy to combat global micronutrient deficiency. In this work, we evaluated genotypic variation in grain nutrient concentrations of 20 Brazil wheat (Triticum aestivum L.) accessions in response to zinc (Zn) and Zn plus selenium (Se) treatment. Zn and Se concentrations in grains exhibited 2- and 1.5-fold difference, respectively, between these wheat accessions. A variation of up to 3-fold enhancement of grain Zn concentration was observed when additionally Zn was supplied, indicating a wide range capacity of the wheat lines in accumulating Zn in grains. Moreover, grain Zn concentration was further enhanced in some lines following supply of Zn plus Se, showing stimulative effect by Se and the feasibility of simultaneous biofortification of Zn and Se in grains of some wheat lines. In addition, Se supply with Zn improved the accumulation of another important micronutrient, iron (Fe), in grains of half of these wheat lines, suggesting a beneficial role of simultaneous biofortification of Zn with Se. The significant diversity in these wheat accessions offers genetic potential for developing cultivars with better ability to accumulate important micronutrients in grains.
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Affiliation(s)
- Guilherme A Souza
- Robert W. Holley Center for Agriculture and Health, USDA-ARS, Cornell University, Ithaca, NY 14853, USA; Department of Plant Breeding and Genetics, Cornell University, Ithaca, NY 14853, USA; Soil Science Department at Federal University of Lavras, P.O. Box 3037, 37200-000 Lavras, MG, Brazil.
| | - Jonathan J Hart
- Robert W. Holley Center for Agriculture and Health, USDA-ARS, Cornell University, Ithaca, NY 14853, USA.
| | - Janice G Carvalho
- Soil Science Department at Federal University of Lavras, P.O. Box 3037, 37200-000 Lavras, MG, Brazil.
| | - Michael A Rutzke
- Robert W. Holley Center for Agriculture and Health, USDA-ARS, Cornell University, Ithaca, NY 14853, USA.
| | - Júlio César Albrecht
- Embrapa Cerrados (CPAC), BR 020 km 18, P.O. Box 08223, CEP 73310-970 Planaltina, DF, Brazil.
| | - Luiz Roberto G Guilherme
- Soil Science Department at Federal University of Lavras, P.O. Box 3037, 37200-000 Lavras, MG, Brazil.
| | - Leon V Kochian
- Robert W. Holley Center for Agriculture and Health, USDA-ARS, Cornell University, Ithaca, NY 14853, USA.
| | - Li Li
- Robert W. Holley Center for Agriculture and Health, USDA-ARS, Cornell University, Ithaca, NY 14853, USA; Department of Plant Breeding and Genetics, Cornell University, Ithaca, NY 14853, USA.
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48
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Zhai Z, Gayomba SR, Jung HI, Vimalakumari NK, Piñeros M, Craft E, Rutzke MA, Danku J, Lahner B, Punshon T, Guerinot ML, Salt DE, Kochian LV, Vatamaniuk OK. OPT3 Is a Phloem-Specific Iron Transporter That Is Essential for Systemic Iron Signaling and Redistribution of Iron and Cadmium in Arabidopsis. Plant Cell 2014; 26:2249-2264. [PMID: 24867923 PMCID: PMC4079381 DOI: 10.1105/tpc.114.123737] [Citation(s) in RCA: 154] [Impact Index Per Article: 15.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/29/2014] [Revised: 03/31/2014] [Accepted: 04/22/2014] [Indexed: 05/18/2023]
Abstract
Iron is essential for both plant growth and human health and nutrition. Knowledge of the signaling mechanisms that communicate iron demand from shoots to roots to regulate iron uptake as well as the transport systems mediating iron partitioning into edible plant tissues is critical for the development of crop biofortification strategies. Here, we report that OPT3, previously classified as an oligopeptide transporter, is a plasma membrane transporter capable of transporting transition ions in vitro. Studies in Arabidopsis thaliana show that OPT3 loads iron into the phloem, facilitates iron recirculation from the xylem to the phloem, and regulates both shoot-to-root iron signaling and iron redistribution from mature to developing tissues. We also uncovered an aspect of crosstalk between iron homeostasis and cadmium partitioning that is mediated by OPT3. Together, these discoveries provide promising avenues for targeted strategies directed at increasing iron while decreasing cadmium density in the edible portions of crops and improving agricultural productivity in iron deficient soils.
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Affiliation(s)
- Zhiyang Zhai
- Department of Crop and Soil Sciences, Cornell University, Ithaca, New York 14853
| | - Sheena R Gayomba
- Department of Crop and Soil Sciences, Cornell University, Ithaca, New York 14853
| | - Ha-Il Jung
- Department of Crop and Soil Sciences, Cornell University, Ithaca, New York 14853
| | | | - Miguel Piñeros
- Robert W. Holley Center for Agriculture and Health, U.S. Department of Agriculture-Agricultural Research Service, Ithaca, New York 14853
| | - Eric Craft
- Robert W. Holley Center for Agriculture and Health, U.S. Department of Agriculture-Agricultural Research Service, Ithaca, New York 14853
| | - Michael A Rutzke
- Department of Crop and Soil Sciences, Cornell University, Ithaca, New York 14853 Robert W. Holley Center for Agriculture and Health, U.S. Department of Agriculture-Agricultural Research Service, Ithaca, New York 14853
| | - John Danku
- Institute of Biological and Environmental Sciences, University of Aberdeen, AS24 3UU Scotland, United Kingdom
| | - Brett Lahner
- Center for Plant Environmental Stress Physiology, Purdue University, West Lafayette, Indiana 47907
| | - Tracy Punshon
- Department of Biological Sciences, Dartmouth College, Hanover, New Hampshire 03755
| | - Mary Lou Guerinot
- Department of Biological Sciences, Dartmouth College, Hanover, New Hampshire 03755
| | - David E Salt
- Institute of Biological and Environmental Sciences, University of Aberdeen, AS24 3UU Scotland, United Kingdom
| | - Leon V Kochian
- Robert W. Holley Center for Agriculture and Health, U.S. Department of Agriculture-Agricultural Research Service, Ithaca, New York 14853
| | - Olena K Vatamaniuk
- Department of Crop and Soil Sciences, Cornell University, Ithaca, New York 14853
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49
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Wang X, Wang Y, Piñeros MA, Wang Z, Wang W, Li C, Wu Z, Kochian LV, Wu P. Phosphate transporters OsPHT1;9 and OsPHT1;10 are involved in phosphate uptake in rice. Plant Cell Environ 2014; 37:1159-70. [PMID: 24344809 DOI: 10.1111/pce.12224] [Citation(s) in RCA: 55] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/25/2023]
Abstract
We characterized the function of two rice phosphate (Pi) transporters: OsPHT1;9 (OsPT9) and OsPHT1;10 (OsPT10). OsPT9 and OsPT10 were expressed in the root epidermis, root hairs and lateral roots, with their expression being specifically induced by Pi starvation. In leaves, expression of the two genes was observed in both mesophyll and vasculature. High-affinity Km values for Pi transport of OsPT9 and OsPT10 were determined by yeast experiments and two-electrode voltage clamp analysis of anion transport in Xenopus oocytes expressing OsPT9 and OsPT10. Pi uptake and Pi concentrations in transgenic plants harbouring overexpressed OsPT9 and OsPT10 were determined by Pi concentration analysis and (33) P-labelled Pi uptake rate analysis. Significantly higher Pi uptake rates in transgenic plants compared with wild-type plants were observed under both high-Pi and low-Pi solution culture conditions. Conversely, although no alterations in Pi concentration were found in OsPT9 or OsPT10 knockdown plants, a significant reduction in Pi concentration in both shoots and roots was observed in double-knockdown plants grown under both high- and low-Pi conditions. Taken together, our results suggest that OsPT9 and OsPT10 redundantly function in Pi uptake.
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Affiliation(s)
- Xiaofei Wang
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Science, Zhejiang University, Hangzhou, 310058, China; The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Agriculture and Food Science, Zhejiang A & F University, Lin'an, 311300, China
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50
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Milner MJ, Mitani-Ueno N, Yamaji N, Yokosho K, Craft E, Fei Z, Ebbs S, Clemencia Zambrano M, Ma JF, Kochian LV. Root and shoot transcriptome analysis of two ecotypes of Noccaea caerulescens uncovers the role of NcNramp1 in Cd hyperaccumulation. Plant J 2014; 78:398-410. [PMID: 24547775 DOI: 10.1111/tpj.12480] [Citation(s) in RCA: 57] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/02/2013] [Revised: 01/27/2014] [Accepted: 02/10/2014] [Indexed: 05/09/2023]
Abstract
The Zn/Cd hyperaccumulator, Noccaea caerulescens, has been studied extensively for its ability to accumulate high levels of Zn and Cd in its leaves. Previous studies have indicated that the Zn and Cd hyperaccumulation trait exhibited by this species involves different transport and tolerance mechanisms. It has also been well documented that certain ecotypes of N. caerulescens are much better Cd hyperaccumulators than others. However, there does not seem to be much ecotypic variation for Zn hyperaccumulation in N. caerulescens. In this study we employed a comparative transcriptomics approach to look at root and shoot gene expression in Ganges and Prayon plants in response to Cd stress to identify transporter genes that were more highly expressed in either the roots or shoots of the superior Cd accumulator, Ganges. Comparison of the transcriptomes from the two ecotypes of Noccaea caerulescens identified a number of genes that encoded metal transporters that were more highly expressed in the Ganges ecotype in response to Cd stress. Characterization of one of these transporters, NcNramp1, showed that it is involved in the influx of Cd across the endodermal plasma membrane and thus may play a key role in Cd flux into the stele and root-to-shoot Cd transport. NcNramp1 may be one of the main transporters involved in Cd hyperaccumulation in N. caerulescens and copy number variation appears to be the main reason for high NcNramp1 gene expression underlying the increased Cd accumulation in the Ganges ecotype.
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Affiliation(s)
- Matthew J Milner
- Robert W. Holley Center for Agriculture and Health, USDA-ARS, Cornell University, Ithaca, NY, 14853, USA; Department of Plant Biology, Cornell University, Ithaca, NY, 14853, USA
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