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Denjalli I, Knieper M, Uthoff J, Vogelsang L, Kumar V, Seidel T, Dietz KJ. The centrality of redox regulation and sensing of reactive oxygen species in abiotic and biotic stress acclimatization. JOURNAL OF EXPERIMENTAL BOTANY 2024; 75:4494-4511. [PMID: 38329465 DOI: 10.1093/jxb/erae041] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/17/2023] [Accepted: 02/06/2024] [Indexed: 02/09/2024]
Abstract
During land plant evolution, the number of genes encoding for components of the thiol redox regulatory network and the generator systems of reactive oxygen species (ROS) expanded, tentatively indicating that they have a role in tailored environmental acclimatization. This hypothesis has been validated both experimentally and theoretically during the last few decades. Recent developments of dynamic redox-sensitive GFP (roGFP)-based in vivo sensors for H2O2 and the redox potential of the glutathione pool have paved the way for dissecting the kinetics changes that occur in these crucial parameters in response to environmental stressors. The versatile cellular redox sensory and response regulatory system monitors alterations in redox metabolism and controls the activity of redox target proteins, and thereby affects most, if not all, cellular processes ranging from transcription to translation and metabolism. This review uses examples to describe the role of the redox- and ROS-dependent regulatory network in realising the appropriate responses to diverse environmental stresses. The selected case studies concern different environmental challenges, namely excess excitation energy, the heavy metal cadmium and the metalloid arsenic, nitrogen or phosphate shortages as examples for nutrient deficiency, wounding, and nematode infestation. Each challenge affects the redox-regulatory and ROS network, but our present state of knowledge also points toward pressing questions that remain open in relation to the translation of redox regulation to environmental acclimatization.
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Affiliation(s)
- Ibadete Denjalli
- Biochemistry and Physiology of Plants, Faculty of Biology, Bielefeld University, 33615 Bielefeld, Germany
| | - Madita Knieper
- Biochemistry and Physiology of Plants, Faculty of Biology, Bielefeld University, 33615 Bielefeld, Germany
- Center of Biotechnology, CeBiTec, Bielefeld University, 33615 Bielefeld, Germany
| | - Jana Uthoff
- Biochemistry and Physiology of Plants, Faculty of Biology, Bielefeld University, 33615 Bielefeld, Germany
| | - Lara Vogelsang
- Biochemistry and Physiology of Plants, Faculty of Biology, Bielefeld University, 33615 Bielefeld, Germany
- Center of Biotechnology, CeBiTec, Bielefeld University, 33615 Bielefeld, Germany
| | - Vijay Kumar
- Biochemistry and Physiology of Plants, Faculty of Biology, Bielefeld University, 33615 Bielefeld, Germany
| | - Thorsten Seidel
- Biochemistry and Physiology of Plants, Faculty of Biology, Bielefeld University, 33615 Bielefeld, Germany
| | - Karl-Josef Dietz
- Biochemistry and Physiology of Plants, Faculty of Biology, Bielefeld University, 33615 Bielefeld, Germany
- Center of Biotechnology, CeBiTec, Bielefeld University, 33615 Bielefeld, Germany
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Wang T, Jin Y, Deng L, Li F, Wang Z, Zhu Y, Wu Y, Qu H, Zhang S, Liu Y, Mei H, Luo L, Yan M, Gu M, Xu G. The transcription factor MYB110 regulates plant height, lodging resistance, and grain yield in rice. THE PLANT CELL 2024; 36:298-323. [PMID: 37847093 PMCID: PMC10827323 DOI: 10.1093/plcell/koad268] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2023] [Revised: 08/04/2023] [Accepted: 09/25/2023] [Indexed: 10/18/2023]
Abstract
The high-yielding Green Revolution varieties of cereal crops are characterized by a semidwarf architecture and lodging resistance. Plant height is tightly regulated by the availability of phosphate (Pi), yet the underlying mechanism remains obscure. Here, we report that rice (Oryza sativa) R2R3-type Myeloblastosis (MYB) transcription factor MYB110 is a Pi-dependent negative regulator of plant height. MYB110 is a direct target of PHOSPHATE STARVATION RESPONSE 2 (OsPHR2) and regulates OsPHR2-mediated inhibition of rice height. Inactivation of MYB110 increased culm diameter and bending resistance, leading to enhanced lodging resistance despite increased plant height. Strikingly, the grain yield of myb110 mutants was elevated under both high- and low-Pi regimes. Two divergent haplotypes based on single nucleotide polymorphisms in the putative promoter of MYB110 corresponded with its transcript levels and plant height in response to Pi availability. Thus, fine-tuning MYB110 expression may be a potent strategy for further increasing the yield of Green Revolution cereal crop varieties.
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Affiliation(s)
- Tingting Wang
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing 210095, China
| | - Yi Jin
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing 210095, China
| | - Lixiao Deng
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing 210095, China
| | - Feng Li
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing 210095, China
| | - Zhiyuan Wang
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing 210095, China
| | - Yuanyuan Zhu
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing 210095, China
| | - Yufeng Wu
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing 210095, China
| | - Hongye Qu
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing 210095, China
| | - Shunan Zhang
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing 210095, China
| | - Ying Liu
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing 210095, China
| | - Hanwei Mei
- MOA Key Laboratory of Grain Crop Genetic Resources Evaluation and Utilization, Shanghai Agrobiological Gene Center, Shanghai 201106, China
| | - Lijun Luo
- MOA Key Laboratory of Grain Crop Genetic Resources Evaluation and Utilization, Shanghai Agrobiological Gene Center, Shanghai 201106, China
| | - Ming Yan
- MOA Key Laboratory of Grain Crop Genetic Resources Evaluation and Utilization, Shanghai Agrobiological Gene Center, Shanghai 201106, China
| | - Mian Gu
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing 210095, China
- MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Nanjing 210095, China
- Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing 210095, China
| | - Guohua Xu
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing 210095, China
- MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Nanjing 210095, China
- Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing 210095, China
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Srivastava S, Ranjan M, Bano N, Asif MH, Srivastava S. Comparative transcriptome analysis reveals the phosphate starvation alleviation mechanism of phosphate accumulating Pseudomonas putida in Arabidopsis thaliana. Sci Rep 2023; 13:4918. [PMID: 36966146 PMCID: PMC10039930 DOI: 10.1038/s41598-023-31154-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2022] [Accepted: 03/07/2023] [Indexed: 03/27/2023] Open
Abstract
Phosphate starvation is one of the major factors limiting plant productivity globally. Soil microflora with an inherent trait of phosphate accumulation directly influences soil phosphorus level by regulating its labile form in soil solution. However, the detailed mechanism involved during their interaction with plants under phosphate deficient conditions is still unexplored. Hence, to dissect these complex gene regulatory networks, transcriptome analysis of A. thaliana roots grown under phosphate starved conditions in presence of phosphate accumulating bacteria (Pseudomonas putida; RAR) was performed. Plants grown under phosphate starved conditions showed upregulation of phosphate starvation responsive genes associated with cell biogenesis, stress, photosynthesis, senescence, and cellular transport. Inoculation of RAR upregulated genes linked to defense, cell wall remodeling, and hormone metabolism in stressed plants. Gene ontology analysis indicated the induction of S-glycoside, glucosinolate, and glycosinolate metabolic processes in RAR inoculated plants under phosphate stressed conditions. Further, protein-protein interaction analysis revealed upregulation of root development, cation transport, anion transport, sulfur compound metabolic process, secondary metabolic process, cellular amino metabolic process, and response to salicylic acid in RAR inoculated plants under phosphate starved conditions. These results indicate the potential role of phosphate accumulating bacteria in alleviating phosphate starvation in plants by involving multiple pathways.
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Affiliation(s)
- Sonal Srivastava
- Division of Microbial Technology, CSIR-National Botanical Research Institute, Rana Pratap Marg, Lucknow, 226 001, India
- Academy of Scientific and Innovative Research, AcSIR, Ghaziabad, 201002, India
| | - Manish Ranjan
- Division of Microbial Technology, CSIR-National Botanical Research Institute, Rana Pratap Marg, Lucknow, 226 001, India
| | - Nasreen Bano
- Academy of Scientific and Innovative Research, AcSIR, Ghaziabad, 201002, India
- Computational Biology Laboratory, Genetics and Biotechnology Division, CSIR-National Botanical Research Institute, Rana Pratap Marg, Lucknow, 226 001, India
| | - Mehar Hasan Asif
- Academy of Scientific and Innovative Research, AcSIR, Ghaziabad, 201002, India.
- Computational Biology Laboratory, Genetics and Biotechnology Division, CSIR-National Botanical Research Institute, Rana Pratap Marg, Lucknow, 226 001, India.
| | - Suchi Srivastava
- Division of Microbial Technology, CSIR-National Botanical Research Institute, Rana Pratap Marg, Lucknow, 226 001, India.
- Academy of Scientific and Innovative Research, AcSIR, Ghaziabad, 201002, India.
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4
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Park SH, Jeong JS, Huang CH, Park BS, Chua NH. Inositol polyphosphates-regulated polyubiquitination of PHR1 by NLA E3 ligase during phosphate starvation response in Arabidopsis. THE NEW PHYTOLOGIST 2023; 237:1215-1228. [PMID: 36377104 DOI: 10.1111/nph.18621] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/13/2022] [Accepted: 10/24/2022] [Indexed: 06/16/2023]
Abstract
Phosphate (Pi) availability is a major factor limiting plant growth and development. The key transcription factor controlling Pi-starvation response (PSR) is PHOSPHATE STARVATION RESPONSE 1 (PHR1) whose transcript levels do not change with changes in Pi levels. However, how PHR1 stability is regulated at the post-translational level is relatively unexplored in Arabidopsis thaliana. Inositol polyphosphates (InsPn) are important signal molecules that promote the association of stand-alone SPX domain proteins with PHR1 to regulate PSR. Here, we show that NITROGEN LIMITATION ADAPTATION (NLA) E3 ligase can associate with PHR1 through its conserved SPX domain and polyubiquitinate PHR1 in vitro. The association with PHR1 and its ubiquitination is enhanced by InsP6 but not by InsP5. Analysis of InsPn-related mutants and an overexpression plant shows PHR1 levels are more stable in itpk4-1 and vih2-4/VIH1amiRNA but less stable in ITPK4 overexpression plants. Under Pi-deficient conditions, nla seedlings contain high PHR1 levels, display long root hair and accumulate anthocyanin in shoots phenocopying PHR1 overexpression plants. By contrast, NLA overexpression plants phenocopy phr1 whose phenotypes are opposite to those of nla. Our results suggest NLA functions as a negative regulator of Pi response by modulating PHR1 stability and the NLA/PHR1 association depends on InsPn levels.
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Affiliation(s)
- Su-Hyun Park
- Temasek Life Sciences Laboratory, National University of Singapore, 1 Research Link, Singapore City, 117604, Singapore
| | - Jin Seo Jeong
- Temasek Life Sciences Laboratory, National University of Singapore, 1 Research Link, Singapore City, 117604, Singapore
| | - Chung-Hao Huang
- Temasek Life Sciences Laboratory, National University of Singapore, 1 Research Link, Singapore City, 117604, Singapore
| | - Bong Soo Park
- Temasek Life Sciences Laboratory, National University of Singapore, 1 Research Link, Singapore City, 117604, Singapore
| | - Nam-Hai Chua
- Temasek Life Sciences Laboratory, National University of Singapore, 1 Research Link, Singapore City, 117604, Singapore
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Zhao Y, Li P, Wang H, Feng J, Li Y, Wang S, Li Y, Guo Y, Li L, Su Y, Sun Z. Genome-wide investigation and expression pattern of PHR family genes in cotton under low phosphorus stress. PeerJ 2022; 10:e14584. [PMID: 36540806 PMCID: PMC9760022 DOI: 10.7717/peerj.14584] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2022] [Accepted: 11/28/2022] [Indexed: 12/23/2022] Open
Abstract
Phosphorus starvation response (PHR) protein is an important transcription factor in phosphorus regulatory network, which plays a vital role in regulating the effective utilization of phosphorus. So far, the PHR genes have not been systematically investigated in cotton. In the present study, we have identified 22, 23, 41 and 42 PHR genes in G. arboreum, G. raimondii, G. hirsutum and G. barbadense, respectively. Phylogenetic analysis showed that cotton PHR genes were classified into five distinct subfamilies. The gene structure, protein motifs and gene expression were further investigated. The PHR genes of G. hirsutum from the same subfamily had similar gene structures, all containing Myb_DNA-binding and Myb_CC_LHEQLE conserved domain. The structures of paralogous genes were considerably conserved in exons number and introns length. The cis-element prediction in their promoters showed that genes were not only regulated by light induction, but also were related to auxin, MeJA, abscisic acid-responsive elements, of which might be regulated by miRNA. The expression analysis showed that the GhPHR genes were differentially expressed in different tissues under various stresses. Furthermore, GhPHR6, GhPHR11, GhPHR18 and GhPHR38 were significantly changed under low phosphorus stress. The results of this study provide a basis for further cloning and functional verification of genes related to regulatory network of low phosphorus tolerance in cotton.
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Yang J, Mathew IE, Rhein H, Barker R, Guo Q, Brunello L, Loreti E, Barkla BJ, Gilroy S, Perata P, Hirschi KD. The vacuolar H+/Ca transporter CAX1 participates in submergence and anoxia stress responses. PLANT PHYSIOLOGY 2022; 190:2617-2636. [PMID: 35972350 PMCID: PMC9706465 DOI: 10.1093/plphys/kiac375] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/30/2022] [Accepted: 07/17/2022] [Indexed: 05/04/2023]
Abstract
A plant's oxygen supply can vary from normal (normoxia) to total depletion (anoxia). Tolerance to anoxia is relevant to wetland species, rice (Oryza sativa) cultivation, and submergence tolerance of crops. Decoding and transmitting calcium (Ca) signals may be an important component to anoxia tolerance; however, the contribution of intracellular Ca transporters to this process is poorly understood. Four functional cation/proton exchangers (CAX1-4) in Arabidopsis (Arabidopsis thaliana) help regulate Ca homeostasis around the vacuole. Our results demonstrate that cax1 mutants are more tolerant to both anoxic conditions and submergence. Using phenotypic measurements, RNA-sequencing, and proteomic approaches, we identified cax1-mediated anoxia changes that phenocopy changes present in anoxia-tolerant crops: altered metabolic processes, diminished reactive oxygen species production post anoxia, and altered hormone signaling. Comparing wild-type and cax1 expressing genetically encoded Ca indicators demonstrated altered cytosolic Ca signals in cax1 during reoxygenation. Anoxia-induced Ca signals around the plant vacuole are involved in the control of numerous signaling events related to adaptation to low oxygen stress. This work suggests that cax1 anoxia response pathway could be engineered to circumvent the adverse effects of flooding that impair production agriculture.
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Affiliation(s)
- Jian Yang
- Pediatrics-Nutrition, Children’s Nutrition Research, Baylor College of Medicine, Houston, Texas 77030, USA
| | - Iny Elizebeth Mathew
- Pediatrics-Nutrition, Children’s Nutrition Research, Baylor College of Medicine, Houston, Texas 77030, USA
| | - Hormat Rhein
- Pediatrics-Nutrition, Children’s Nutrition Research, Baylor College of Medicine, Houston, Texas 77030, USA
| | - Richard Barker
- Department of Botany, Birge Hall, University of Wisconsin, Wisconsin, USA
| | - Qi Guo
- Southern Cross Plant Science, Southern Cross University, Lismore, New South Wales, Australia
| | - Luca Brunello
- Plant Lab, Institute of Life Sciences, Scuola Superiore Sant'Anna, San Giuliano Terme, Pisa, Italy
| | - Elena Loreti
- Institute of Agricultural Biology and Biotechnology, National Research Council, 56124 Pisa, Italy
| | - Bronwyn J Barkla
- Southern Cross Plant Science, Southern Cross University, Lismore, New South Wales, Australia
| | - Simon Gilroy
- Department of Botany, Birge Hall, University of Wisconsin, Wisconsin, USA
| | - Pierdomenico Perata
- Plant Lab, Institute of Life Sciences, Scuola Superiore Sant'Anna, San Giuliano Terme, Pisa, Italy
| | - Kendal D Hirschi
- Pediatrics-Nutrition, Children’s Nutrition Research, Baylor College of Medicine, Houston, Texas 77030, USA
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Jethva J, Schmidt RR, Sauter M, Selinski J. Try or Die: Dynamics of Plant Respiration and How to Survive Low Oxygen Conditions. PLANTS (BASEL, SWITZERLAND) 2022; 11:plants11020205. [PMID: 35050092 PMCID: PMC8780655 DOI: 10.3390/plants11020205] [Citation(s) in RCA: 20] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/16/2021] [Revised: 01/07/2022] [Accepted: 01/11/2022] [Indexed: 05/09/2023]
Abstract
Fluctuations in oxygen (O2) availability occur as a result of flooding, which is periodically encountered by terrestrial plants. Plant respiration and mitochondrial energy generation rely on O2 availability. Therefore, decreased O2 concentrations severely affect mitochondrial function. Low O2 concentrations (hypoxia) induce cellular stress due to decreased ATP production, depletion of energy reserves and accumulation of metabolic intermediates. In addition, the transition from low to high O2 in combination with light changes-as experienced during re-oxygenation-leads to the excess formation of reactive oxygen species (ROS). In this review, we will update our current knowledge about the mechanisms enabling plants to adapt to low-O2 environments, and how to survive re-oxygenation. New insights into the role of mitochondrial retrograde signaling, chromatin modification, as well as moonlighting proteins and mitochondrial alternative electron transport pathways (and their contribution to low O2 tolerance and survival of re-oxygenation), are presented.
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Affiliation(s)
- Jay Jethva
- Department of Plant Developmental Biology and Plant Physiology, Faculty of Mathematics and Natural Sciences, Botanical Institute, Christian-Albrechts University, D-24118 Kiel, Germany; (J.J.); (M.S.)
| | - Romy R. Schmidt
- Department of Plant Biotechnology, Faculty of Biology, University of Bielefeld, D-33615 Bielefeld, Germany;
| | - Margret Sauter
- Department of Plant Developmental Biology and Plant Physiology, Faculty of Mathematics and Natural Sciences, Botanical Institute, Christian-Albrechts University, D-24118 Kiel, Germany; (J.J.); (M.S.)
| | - Jennifer Selinski
- Department of Plant Cell Biology, Botanical Institute, Faculty of Mathematics and Natural Sciences, Christian-Albrechts University, D-24118 Kiel, Germany
- Correspondence: ; Tel.: +49-(0)431-880-4245
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Chattopadhyay K, Chakraborty K, Samal P, Sarkar RK. Identification of QTLs for stagnant flooding tolerance in rice employing genotyping by sequencing of a RIL population derived from Swarna × Rashpanjor. PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS : AN INTERNATIONAL JOURNAL OF FUNCTIONAL PLANT BIOLOGY 2021; 27:2893-2909. [PMID: 35035143 PMCID: PMC8720131 DOI: 10.1007/s12298-021-01107-x] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/14/2021] [Revised: 11/15/2021] [Accepted: 11/23/2021] [Indexed: 05/04/2023]
Abstract
UNLABELLED In lowland rice ecosystems stagnant flooding or partial submergence has a significant negative impact on important yield attributing traits resulting in substantial grain yield reduction. Genetics of this stress is not yet studied intensively. Rashpanjor (IC 575321), a landrace from India, was identified and used as the tolerant donor for stagnant flooding and was crossed with high yielding variety Swarna to develop the RIL population for the present investigation. Yield and yield attributing traits of 180 F2:8 lines in rainfed non-stressed and stressed (stagnant flooding with 45 ± 5 cm standing water) conditions were recorded in the wet season of 2018 and stress susceptibility and tolerance indices of yield component traits were deduced. Homo-polymorphic high-quality SNPs between two parents derived from genotyping by sequencing were employed and 17 putative QTLs for plant height, shoot elongation, panicle number, grain weight, panicle length in control and stagnant flooding conditions were identified. Tolerance and susceptibility indexes for these traits were detected in chromosomes 1, 3, 4, 5, 6, 10, 11, and 12 with PVE ranging from 6.53 to 57.89%. Two major QTLs clusters were found for stress susceptibility index of grain and panicle weight on chromosome 1 and plant height in non-stress condition and stress tolerance index of elongation ability on chromosome 3. Putative functional genes present either in associated non-synonymous SNPs or inside the QTL regions were also predicted. Some of them were directly associated with ethylene biosynthesis and encoding auxin responsive factors for better adaptation under stagnant flooding and also coded for different transcription factors viz. NAC domain-binding protein, WRKY gene family, and MYB class known for ROS scavenging and production of metabolites to enhance tolerance to stagnant flooding. SUPPLEMENTARY INFORMATION The online version contains supplementary material available at 10.1007/s12298-021-01107-x.
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Affiliation(s)
| | - Koushik Chakraborty
- Division of Crop Physiology and Biochemistry, ICAR-National Rice Research Institute, Cuttack, India
| | - Prabhudatta Samal
- Crop Improvement Division, ICAR-National Rice Research Institute, Cuttack, India
| | - Ramani Kumar Sarkar
- Division of Crop Physiology and Biochemistry, ICAR-National Rice Research Institute, Cuttack, India
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Kohlhase DR, McCabe CE, Singh AK, O’Rourke JA, Graham MA. Comparing Early Transcriptomic Responses of 18 Soybean ( Glycine max) Genotypes to Iron Stress. Int J Mol Sci 2021; 22:11643. [PMID: 34769077 PMCID: PMC8583884 DOI: 10.3390/ijms222111643] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2021] [Revised: 10/22/2021] [Accepted: 10/25/2021] [Indexed: 11/21/2022] Open
Abstract
Iron deficiency chlorosis (IDC) is an abiotic stress that negatively affects soybean (Glycine max [L.] Merr.) production. Much of our knowledge of IDC stress responses is derived from model plant species. Gene expression, quantitative trait loci (QTL) mapping, and genome-wide association studies (GWAS) performed in soybean suggest that stress response differences exist between model and crop species. Our current understanding of the molecular response to IDC in soybeans is largely derived from gene expression studies using near-isogenic lines differing in iron efficiency. To improve iron efficiency in soybeans and other crops, we need to expand gene expression studies to include the diversity present in germplasm collections. Therefore, we collected 216 purified RNA samples (18 genotypes, two tissue types [leaves and roots], two iron treatments [sufficient and deficient], three replicates) and used RNA sequencing to examine the expression differences of 18 diverse soybean genotypes in response to iron deficiency. We found a rapid response to iron deficiency across genotypes, most responding within 60 min of stress. There was little evidence of an overlap of specific differentially expressed genes, and comparisons of gene ontology terms and transcription factor families suggest the utilization of different pathways in the stress response. These initial findings suggest an untapped genetic potential within the soybean germplasm collection that could be used for the continued improvement of iron efficiency in soybean.
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Affiliation(s)
- Daniel R. Kohlhase
- Department of Agronomy, Iowa State University, Ames, IA 50011, USA; (D.R.K.); (A.K.S.)
| | - Chantal E. McCabe
- U.S. Department of Agriculture (USDA)—Agricultural Research Service (ARS), Corn Insects and Crop Genetics Research Unit, Ames, IA 50011, USA;
| | - Asheesh K. Singh
- Department of Agronomy, Iowa State University, Ames, IA 50011, USA; (D.R.K.); (A.K.S.)
| | - Jamie A. O’Rourke
- U.S. Department of Agriculture (USDA)—Agricultural Research Service (ARS), Corn Insects and Crop Genetics Research Unit, Ames, IA 50011, USA;
| | - Michelle A. Graham
- U.S. Department of Agriculture (USDA)—Agricultural Research Service (ARS), Corn Insects and Crop Genetics Research Unit, Ames, IA 50011, USA;
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10
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Sasidharan R, Schippers JHM, Schmidt RR. Redox and low-oxygen stress: signal integration and interplay. PLANT PHYSIOLOGY 2021; 186:66-78. [PMID: 33793937 PMCID: PMC8154046 DOI: 10.1093/plphys/kiaa081] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/07/2020] [Accepted: 11/26/2020] [Indexed: 05/21/2023]
Abstract
Plants are aerobic organisms relying on oxygen to serve their energy needs. The amount of oxygen available to sustain plant growth can vary significantly due to environmental constraints or developmental programs. In particular, flooding stress, which negatively impacts crop productivity, is characterized by a decline in oxygen availability. Oxygen fluctuations result in an altered redox balance and the formation of reactive oxygen/nitrogen species (ROS/RNS) during the onset of hypoxia and upon re-oxygenation. In this update, we provide an overview of the current understanding of the impact of redox and ROS/RNS on low-oxygen signaling and adaptation. We first focus on the formation of ROS and RNS during low-oxygen conditions. Following this, we examine the impact of hypoxia on cellular and organellar redox systems. Finally, we describe how redox and ROS/RNS participate in signaling events during hypoxia through potential post-translational modifications (PTMs) of hypoxia-relevant proteins. The aim of this update is to define our current understanding of the field and to provide avenues for future research directions.
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Affiliation(s)
- Rashmi Sasidharan
- Plant Ecophysiology, Institute of Environmental Biology, Utrecht University, Utrecht 3584 CH, The Netherlands
| | - Jos H M Schippers
- Department of Molecular Genetics, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Seeland 06466, Germany
| | - Romy R Schmidt
- Faculty of Biology, Plant Biotechnology Group, Bielefeld University, Bielefeld 33615, Germany
- Author for communication:
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The Phosphofructokinase Isoform AtPFK5 Is a Novel Target of Plastidic Thioredoxin-f-Dependent Redox Regulation. Antioxidants (Basel) 2021; 10:antiox10030401. [PMID: 33800095 PMCID: PMC7998735 DOI: 10.3390/antiox10030401] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2021] [Revised: 02/23/2021] [Accepted: 03/04/2021] [Indexed: 01/08/2023] Open
Abstract
The chloroplast primary metabolism is of central importance for plant growth and performance. Therefore, it is tightly regulated in order to adequately respond to multiple environmental conditions. A major fluctuation that plants experience each day is the change between day and night, i.e., the change between assimilation and dissimilation. Among other mechanisms, thioredoxin-mediated redox regulation is an important component of the regulation of plastid-localized metabolic enzymes. While assimilatory processes such as the Calvin–Benson cycle are activated under illumination, i.e., under reducing conditions, carbohydrate degradation is switched off during the day. Previous analyses have identified enzymes of the oxidative pentose phosphate pathway to be inactivated by reduction through thioredoxins. In this work, we present evidence that an enzyme of the plastidic glycolysis, the phosphofructokinase isoform AtPFK5, is also inactivated through reduction by thioredoxins, namely by thioredoxin-f. With the help of chemical oxidation, mutant analyses and further experiments, the highly conserved motif CXDXXC in AtPFK5 was identified as the target sequence for this regulatory mechanism. However, knocking out this isoform in plants had only very mild effects on plant growth and performance, indicating that the complex primary metabolism in plants can overcome a lack in AtPFK5 activity.
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Xie LJ, Zhou Y, Chen QF, Xiao S. New insights into the role of lipids in plant hypoxia responses. Prog Lipid Res 2020; 81:101072. [PMID: 33188800 DOI: 10.1016/j.plipres.2020.101072] [Citation(s) in RCA: 32] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2020] [Revised: 09/25/2020] [Accepted: 11/08/2020] [Indexed: 12/21/2022]
Abstract
In plants, hypoxia (low-oxygen stress) is induced by soil waterlogging or submergence and this major abiotic stress has detrimental effects on plant growth, development, distribution, and productivity. To survive low-oxygen stress, plants have evolved a set of morphological, physiological, and biochemical adaptations. These adaptations integrate metabolic acclimation and signaling networks allowing plants to endure or escape from low-oxygen environments by altering their metabolism and growth. Lipids are ubiquitously involved in regulating plant responses to hypoxia and post-hypoxic reoxygenation. In particular, the polyunsaturation of long-chain acyl-CoAs regulates hypoxia sensing in plants by modulating acyl-CoA-binding protein-Group VII ethylene response factor dynamics. Moreover, unsaturated very-long-chain ceramide species protect plants from hypoxia-induced cellular damage by regulating the kinase activity of CONSTITUTIVE TRIPLE RESPONSE1 in the ethylene signaling pathway. Finally, the oxylipin jasmonate specifically regulates plant responses to reoxygenation stress by transcriptionally modulating antioxidant biosynthesis. Here we provide an overview of the roles of lipid remodeling and signaling in plant responses to hypoxia/reoxygenation and their effects on the downstream events affecting plant survival. In addition, we highlight the key remaining challenges in this important field.
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Affiliation(s)
- Li-Juan Xie
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou 510275, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
| | - Ying Zhou
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou 510275, China
| | - Qin-Fang Chen
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou 510275, China.
| | - Shi Xiao
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou 510275, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China.
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13
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Kumar V, Vogelsang L, Schmidt RR, Sharma SS, Seidel T, Dietz KJ. Remodeling of Root Growth Under Combined Arsenic and Hypoxia Stress Is Linked to Nutrient Deprivation. FRONTIERS IN PLANT SCIENCE 2020; 11:569687. [PMID: 33193499 PMCID: PMC7644957 DOI: 10.3389/fpls.2020.569687] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/04/2020] [Accepted: 10/06/2020] [Indexed: 05/29/2023]
Abstract
Root architecture responds to environmental stress. Stress-induced metabolic and nutritional changes affect the endogenous root development program. Transcriptional and translational changes realize the switch between stem cell proliferation and cell differentiation, lateral root or root hair formation and root functionality for stress acclimation. The current work explores the effects of stress combination of arsenic toxicity (As) and hypoxia (Hpx) on root development in Arabidopsis thaliana. As revealed previously, combined As and Hpx treatment leads to severe nutritional disorder evident from deregulation of root transcriptome and plant mineral contents. Both As and Hpx were identified to pose stress-specific constraints on root development that lead to unique root growth phenotype under their combination. Besides inhibition of root apical meristem (RAM) activity under all stresses, As induced lateral root growth while root hair density and lengths were strongly increased by Hpx and HpxAs-treatments. A dual stimulation of phosphate (Pi)-starvation response was observed for HpxAs-treated plant roots; however, the response under HpxAs aligned more with Hpx than As. Transcriptional evidence along with biochemical data suggests involvement of PHOSPHATE STARVATION RESPONSE 1; PHR1-dependent systemic signaling. Pi metabolism-related transcripts in close association with cellular iron homeostasis modulate root development under HpxAs. Early redox potential changes in meristematic cells, differential ROS accumulation in root hair zone cell layers and strong deregulation of NADPH oxidases, NADPH-dependent oxidoreductases and peroxidases signify a role of redox and ROS signaling in root architecture remodeling under HpxAs. Differential aquaporin expression suggests transmembrane ROS transport to regulate root hair induction and growth. Reorganization of energy metabolism through NO-dependent alternate oxidase, lactate fermentation, and phosphofructokinase seems crucial under HpxAs. TOR and SnRK-signaling network components were potentially involved in control of sustainable utilization of available energy reserves for root hair growth under combined stress as well as recovery on reaeration. Findings are discussed in context of combined stress-induced signaling in regulation of root development in contrast to As and Hpx alone.
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Affiliation(s)
- Vijay Kumar
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, Bielefeld, Germany
- Department of Biosciences, Himachal Pradesh University, Shimla, India
| | - Lara Vogelsang
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, Bielefeld, Germany
| | - Romy R. Schmidt
- Department of Plant Biotechnology, Faculty of Biology, University of Bielefeld, Bielefeld, Germany
| | - Shanti S. Sharma
- Department of Botany, School of Life Sciences, Sikkim University, Gangtok, India
| | - Thorsten Seidel
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, Bielefeld, Germany
| | - Karl-Josef Dietz
- Department of Biochemistry and Physiology of Plants, Faculty of Biology, University of Bielefeld, Bielefeld, Germany
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14
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Xu L, Pan R, Zhang W. Membrane lipids are involved in plant response to oxygen deprivation. PLANT SIGNALING & BEHAVIOR 2020; 15:1771938. [PMID: 32463337 PMCID: PMC8570748 DOI: 10.1080/15592324.2020.1771938] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
Membrane lipids change drastically in plants when they suffered from hypoxia (oxygen deficiency) stress. Overall, hypoxia stress lowers the contents of total lipids, inhabits lipid biosynthesis, and stimulates lipid degradation, leading to the accumulation of free fatty acids. Lipid alterations include changes in the contents of lipid classes, the extent of saturation, and the length of acyl chains. But the detail and systematic studies about lipid changes, as well as the function mechanism in hypoxia stress are poorly understood. Here, the major unanswered questions and suggestions on the study of the function of lipid in hypoxia stress were provided.
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Affiliation(s)
- Le Xu
- Hubei Collaborative Innovation Centre for Grain Industry/Engineering Research Centre of Ecology and Agricultural Use of Wetland, Ministry of Education, Yangtze University, Jingzhou, China
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, School of Life Sciences, South China Normal University, Guangzhou, China
| | - Rui Pan
- Hubei Collaborative Innovation Centre for Grain Industry/Engineering Research Centre of Ecology and Agricultural Use of Wetland, Ministry of Education, Yangtze University, Jingzhou, China
| | - Wenying Zhang
- Hubei Collaborative Innovation Centre for Grain Industry/Engineering Research Centre of Ecology and Agricultural Use of Wetland, Ministry of Education, Yangtze University, Jingzhou, China
- CONTACT Wenying Zhang Hubei Collaborative Innovation Centre for Grain Industry/Engineering Research Centre of Ecology and Agricultural Use of Wetland, Ministry of Education, Yangtze University, Jingzhou434025, China
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15
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Zhou Y, Tan WJ, Xie LJ, Qi H, Yang YC, Huang LP, Lai YX, Tan YF, Zhou DM, Yu LJ, Chen QF, Chye ML, Xiao S. Polyunsaturated linolenoyl-CoA modulates ERF-VII-mediated hypoxia signaling in Arabidopsis. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2020; 62:330-348. [PMID: 31595698 DOI: 10.1111/jipb.12875] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/30/2019] [Accepted: 10/03/2019] [Indexed: 05/20/2023]
Abstract
In plants, submergence from flooding causes hypoxia, which impairs energy production and affects plant growth, productivity, and survival. In Arabidopsis, hypoxia induces nuclear localization of the group VII ethylene-responsive transcription factor RELATED TO AP2.12 (RAP2.12), following its dissociation from the plasma membrane-anchored ACYL-COA BINDING PROTEIN1 (ACBP1) and ACBP2. Here, we show that polyunsaturated linolenoyl-CoA (18:3-CoA) regulates RAP2.12 release from the plasma membrane. Submergence caused a significant increase in 18:3-CoA, but a significant decrease in 18:0-, 18:1-, and 18:2-CoA. Application of 18:3-CoA promoted nuclear accumulation of the green fluorescent protein (GFP) fusions RAP2.12-GFP, HYPOXIA-RESPONSIVE ERF1-GFP, and RAP2.3-GFP, and enhanced transcript levels of hypoxia-responsive genes. Plants with decreased ACBP1 and ACBP2 (acbp1 ACBP2-RNAi, produced by ACBP2 RNA interference in the acbp1 mutant) had reduced tolerance to hypoxia and impaired 18:3-CoA-induced expression of hypoxia-related genes. In knockout mutants and overexpression lines of LONG-CHAIN ACYL-COA SYNTHASE2 (LACS2) and FATTY ACID DESATURASE 3 (FAD3), the acyl-CoA pool size and 18:3-CoA levels were closely related to ERF-VII-mediated signaling and hypoxia tolerance. These findings demonstrate that polyunsaturation of long-chain acyl-CoAs functions as important mechanism in the regulation of plant hypoxia signaling, by modulating ACBP-ERF-VII dynamics.
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Affiliation(s)
- Ying Zhou
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, China
| | - Wei-Juan Tan
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, China
| | - Li-Juan Xie
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, China
| | - Hua Qi
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, China
| | - Yi-Cong Yang
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, China
| | - Li-Ping Huang
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, China
| | - Yong-Xia Lai
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, China
| | - Yi-Fang Tan
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, China
| | - De-Mian Zhou
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, China
| | - Lu-Jun Yu
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, China
| | - Qin-Fang Chen
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, China
| | - Mee-Len Chye
- School of Biological Sciences, The University of Hong Kong, Pokfulam, Hong Kong, 999077, China
| | - Shi Xiao
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, China
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16
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Tietz S, Leuenberger M, Höhner R, Olson AH, Fleming GR, Kirchhoff H. A proteoliposome-based system reveals how lipids control photosynthetic light harvesting. J Biol Chem 2020; 295:1857-1866. [PMID: 31929108 DOI: 10.1074/jbc.ra119.011707] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2019] [Revised: 01/09/2020] [Indexed: 11/06/2022] Open
Abstract
Integral membrane proteins are exposed to a complex and dynamic lipid environment modulated by nonbilayer lipids that can influence protein functions by lipid-protein interactions. The nonbilayer lipid monogalactosyldiacylglycerol (MGDG) is the most abundant lipid in plant photosynthetic thylakoid membranes, but its impact on the functionality of energy-converting membrane protein complexes is unknown. Here, we optimized a detergent-based reconstitution protocol to develop a proteoliposome technique that incorporates the major light-harvesting complex II (LHCII) into compositionally well-defined large unilamellar lipid bilayer vesicles to study the impact of MGDG on light harvesting by LHCII. Using steady-state fluorescence spectroscopy, CD spectroscopy, and time-correlated single-photon counting, we found that both chlorophyll fluorescence quantum yields and fluorescence lifetimes clearly indicate that the presence of MGDG in lipid bilayers switches LHCII from a light-harvesting to a more energy-quenching mode that dissipates harvested light into heat. It is hypothesized that in the in vitro system developed here, MGDG controls light harvesting of LHCII by modulating the hydrostatic lateral membrane pressure profile in the lipid bilayer sensed by LHCII-bound peripheral pigments.
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Affiliation(s)
- Stefanie Tietz
- Institute of Biological Chemistry, Washington State University, Pullman, Washington, 99164-6340
| | - Michelle Leuenberger
- Department of Chemistry, University of California, Berkeley, California 94720; Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720
| | - Ricarda Höhner
- Institute of Biological Chemistry, Washington State University, Pullman, Washington, 99164-6340
| | - Alice H Olson
- Institute of Biological Chemistry, Washington State University, Pullman, Washington, 99164-6340
| | - Graham R Fleming
- Department of Chemistry, University of California, Berkeley, California 94720; Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720
| | - Helmut Kirchhoff
- Institute of Biological Chemistry, Washington State University, Pullman, Washington, 99164-6340.
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17
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Bäumler J, Riber W, Klecker M, Müller L, Dissmeyer N, Weig AR, Mustroph A. AtERF#111/ABR1 is a transcriptional activator involved in the wounding response. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2019; 100:969-990. [PMID: 31385625 DOI: 10.1111/tpj.14490] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/10/2019] [Revised: 07/24/2019] [Accepted: 07/29/2019] [Indexed: 06/10/2023]
Abstract
AtERF#111/ABR1 belongs to the group X of the ERF/AP2 transcription factor family (GXERFs) and is shoot specifically induced under submergence and hypoxia. It was described to be an ABA-response repressor, but our data reveal a completely different function. Surprisingly, AtERF#111 expression is strongly responsive to wounding stress. Expression profiling of ERF#111-overexpressing (OE) plants, which show morphological phenotypes like increased root hair length and number, strengthens the hypothesis of AtERF#111 being involved in the wounding response, thereby acting as a transcriptional activator of gene expression. Consistent with a potential function outside of oxygen signalling, we could not assign AtERF#111 as a target of the PRT6 N-degron pathway, even though it starts with a highly conserved N-terminal Met-Cys (MC) motif. However, the protein is unstable as it is degraded in an ubiquitin-dependent manner. Finally, direct target genes of AtERF#111 were identified by microarray analyses and subsequently confirmed by protoplast transactivation assays. The special roles of diverse members of the plant-specific GXERFs in coordinating stress signalling and wound repair mechanisms have been recently hypothesized, and our data suggest that AtERF#111 is indeed involved in these processes.
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Affiliation(s)
- Judith Bäumler
- Plant Physiology, University Bayreuth, Universitaetsstr. 30, 95440, Bayreuth, Germany
| | - Willi Riber
- Plant Physiology, University Bayreuth, Universitaetsstr. 30, 95440, Bayreuth, Germany
| | - Maria Klecker
- Plant Physiology, University Bayreuth, Universitaetsstr. 30, 95440, Bayreuth, Germany
- Independent Junior Research Group on Protein Recognition and Degradation, Leibniz Institute of Plant Biochemistry, Weinberg 3, 06120, Halle (Saale), Germany
- Science Campus Halle - Plant-Based Bioeconomy, Betty-Heimann-Str. 3, 06120, Halle (Saale), Germany
| | - Leon Müller
- Plant Physiology, University Bayreuth, Universitaetsstr. 30, 95440, Bayreuth, Germany
| | - Nico Dissmeyer
- Independent Junior Research Group on Protein Recognition and Degradation, Leibniz Institute of Plant Biochemistry, Weinberg 3, 06120, Halle (Saale), Germany
- Science Campus Halle - Plant-Based Bioeconomy, Betty-Heimann-Str. 3, 06120, Halle (Saale), Germany
| | - Alfons R Weig
- Genomics & Bioinformatics, University Bayreuth, Universitaetsstr. 30, 95440, Bayreuth, Germany
| | - Angelika Mustroph
- Plant Physiology, University Bayreuth, Universitaetsstr. 30, 95440, Bayreuth, Germany
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18
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Reynoso MA, Kajala K, Bajic M, West DA, Pauluzzi G, Yao AI, Hatch K, Zumstein K, Woodhouse M, Rodriguez-Medina J, Sinha N, Brady SM, Deal RB, Bailey-Serres J. Evolutionary flexibility in flooding response circuitry in angiosperms. Science 2019; 365:1291-1295. [PMID: 31604238 PMCID: PMC7710369 DOI: 10.1126/science.aax8862] [Citation(s) in RCA: 77] [Impact Index Per Article: 15.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2019] [Accepted: 08/26/2019] [Indexed: 11/02/2022]
Abstract
Flooding due to extreme weather threatens crops and ecosystems. To understand variation in gene regulatory networks activated by submergence, we conducted a high-resolution analysis of chromatin accessibility and gene expression at three scales of transcript control in four angiosperms, ranging from a dryland-adapted wild species to a wetland crop. The data define a cohort of conserved submergence-activated genes with signatures of overlapping cis regulation by four transcription factor families. Syntenic genes are more highly expressed than nonsyntenic genes, yet both can have the cis motifs and chromatin accessibility associated with submergence up-regulation. Whereas the flexible circuitry spans the eudicot-monocot divide, the frequency of specific cis motifs, extent of chromatin accessibility, and degree of submergence activation are more prevalent in the wetland crop and may have adaptive importance.
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Affiliation(s)
- Mauricio A Reynoso
- Center for Plant Cell Biology, Botany and Plant Sciences Department, University of California, Riverside, CA, USA
| | - Kaisa Kajala
- Department of Plant Biology, Division of Biological Sciences, University of California, Davis, CA, USA
- Genome Center, University of California, Davis, CA , USA
- Institute of Environmental Biology, Utrecht University, 3584 CH Utrecht, Netherlands
| | - Marko Bajic
- Department of Biology, Emory University, Atlanta, GA, USA
- Graduate Program in Genetics and Molecular Biology, Emory University, Atlanta, GA, USA
| | - Donnelly A West
- Department of Plant Biology, Division of Biological Sciences, University of California, Davis, CA, USA
| | - Germain Pauluzzi
- Center for Plant Cell Biology, Botany and Plant Sciences Department, University of California, Riverside, CA, USA
| | - Andrew I Yao
- Department of Plant Biology, Division of Biological Sciences, University of California, Davis, CA, USA
- Genome Center, University of California, Davis, CA , USA
| | - Kathryn Hatch
- Department of Biology, Emory University, Atlanta, GA, USA
| | - Kristina Zumstein
- Department of Plant Biology, Division of Biological Sciences, University of California, Davis, CA, USA
| | - Margaret Woodhouse
- Department of Plant Biology, Division of Biological Sciences, University of California, Davis, CA, USA
| | - Joel Rodriguez-Medina
- Department of Plant Biology, Division of Biological Sciences, University of California, Davis, CA, USA
- Genome Center, University of California, Davis, CA , USA
| | - Neelima Sinha
- Department of Plant Biology, Division of Biological Sciences, University of California, Davis, CA, USA.
| | - Siobhan M Brady
- Department of Plant Biology, Division of Biological Sciences, University of California, Davis, CA, USA.
- Genome Center, University of California, Davis, CA , USA
| | - Roger B Deal
- Department of Biology, Emory University, Atlanta, GA, USA.
| | - Julia Bailey-Serres
- Center for Plant Cell Biology, Botany and Plant Sciences Department, University of California, Riverside, CA, USA.
- Institute of Environmental Biology, Utrecht University, 3584 CH Utrecht, Netherlands
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19
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Jiang M, Sun L, Isupov MN, Littlechild JA, Wu X, Wang Q, Wang Q, Yang W, Wu Y. Structural basis for the Target DNA recognition and binding by the MYB domain of phosphate starvation response 1. FEBS J 2019; 286:2809-2821. [PMID: 30974511 DOI: 10.1111/febs.14846] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2019] [Revised: 03/18/2019] [Accepted: 04/09/2019] [Indexed: 11/26/2022]
Abstract
The phosphate starvation response 1 (PHR1) protein has a central role in mediating the response to phosphate starvation in plants. PHR1 is composed of a number of domains including a MYB domain involved with DNA binding and a coiled-coil domain proposed to be involved with dimer formation. PHR1 binds to the promoter of phosphate starvation-induced genes to control the levels of phosphate required for nutrition. Previous studies have shown that both the MYB domain and the coiled-coil domain of PHR1 are required for binding the target DNA. Here, we describe the crystal structure of the PHR1 MYB domain and two structures of its complex with the PHR1-binding DNA sequence (P1BS). Structural and isothermal titration calorimetry has been carried out showing that the MYB domain of PHR1 alone is sufficient for target DNA recognition and binding. Two copies of the PHR1 MYB domain bind to the same major groove of the P1BS DNA with few direct interactions between the individual MYB domains. In addition, the PHR1 MYB-P1BS DNA complex structures reveal amino acid residues involved in DNA recognition and binding. Mutagenesis of these residues results in lost or impaired ability of PHR1 MYB to bind to its target DNA. The results presented reveal the structural basis for DNA recognition by the PHR1 MYB domain and demonstrate that two PHR1 MYB domains attach to their P1BS DNA targeting sequence. DATABASE: Coordinates and structure factors have been deposited in the Protein Data Bank under accession codes 6J4K (PHR1 MYB), 6J4R (PHR1 MYB-R-P1BS), 6J5B (MYB-CC-R2-P1BS).
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Affiliation(s)
- Meiqin Jiang
- State Key Laboratory of Structural Chemistry, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Lifang Sun
- Provincial University Key Laboratory of Cellular Stress Response and Metabolic Regulation, College of Life Science, Fujian Normal University, Fuzhou, China
| | - Michail N Isupov
- Henry Wellcome Building for Biocatalysis, Biosciences, University of Exeter, UK
| | | | - Xiuling Wu
- State Key Laboratory of Structural Chemistry, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Qianchao Wang
- State Key Laboratory of Structural Chemistry, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Qin Wang
- State Key Laboratory of Structural Chemistry, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Wendi Yang
- Provincial University Key Laboratory of Cellular Stress Response and Metabolic Regulation, College of Life Science, Fujian Normal University, Fuzhou, China
| | - Yunkun Wu
- Provincial University Key Laboratory of Cellular Stress Response and Metabolic Regulation, College of Life Science, Fujian Normal University, Fuzhou, China
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20
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Basnet R, Zhang J, Hussain N, Shu Q. Characterization and Mutational Analysis of a Monogalactosyldiacylglycerol Synthase Gene OsMGD2 in Rice. FRONTIERS IN PLANT SCIENCE 2019; 10:992. [PMID: 31428115 PMCID: PMC6688468 DOI: 10.3389/fpls.2019.00992] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/24/2019] [Accepted: 07/15/2019] [Indexed: 05/18/2023]
Abstract
Monogalactosyldiacylglycerol (MGDG) and digalactosyldiacylglycerol (DGDG) are the two predominant galactolipids present in the photosynthetic membrane in many photosynthetic organisms, including algae and higher plants. These galactolipids are the main constituents of thylakoid membrane and are essential for chloroplast biogenesis and photoautotrophic growth. In silico analysis revealed that rice (Oryza sativa L.) genome has three genes encoding MGDG synthase (OsMGD1, 2, and 3). Although subcellular localization analysis demonstrated that OsMGD2 is localized to chloroplast, its expression was observed mainly in anther and endosperm, suggesting that MGDG might have an important role in the development of flower and grain in rice. Knock-out mutants of OsMGD2 were generated employing the CRISPR/Cas9 system and their morphology, yield and grain quality related traits were studied. The leaf of osmgd2 mutants showed reduced MGDG (∼11.6%) and DGDG (∼9.5%) content with chlorophyll a content decreased by ∼23%, consequently affecting the photosynthesis. The mutants also exhibited poor agronomic performance with plant height and panicle length decreased by ∼12.2 and ∼7.3%, respectively. Similarly, the number of filled grains per panicle was reduced by 43.8%, while the 1000 grain weight was increased by ∼6.3% in the mutants. The milled rice of mutants also had altered pasting properties and decreased linoleic acid content (∼26.6%). Put together, the present study demonstrated that OsMGD2 is the predominantly expressed gene encoding MGDG synthase in anther and grain and plays important roles in plant growth and development, as well as in grain quality.
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Affiliation(s)
- Rasbin Basnet
- National Key Laboratory of Rice Biology, Institute of Crop Sciences, Zhejiang University, Hangzhou, China
- Hubei Collaborative Innovation Center for the Grain Industry, Yangtze University, Jingzhou, China
| | - Jiarun Zhang
- National Key Laboratory of Rice Biology, Institute of Crop Sciences, Zhejiang University, Hangzhou, China
- Hubei Collaborative Innovation Center for the Grain Industry, Yangtze University, Jingzhou, China
| | - Nazim Hussain
- Zhejiang Key Laboratory of Crop Germplasm Resources, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, China
| | - Qingyao Shu
- National Key Laboratory of Rice Biology, Institute of Crop Sciences, Zhejiang University, Hangzhou, China
- Hubei Collaborative Innovation Center for the Grain Industry, Yangtze University, Jingzhou, China
- Zhejiang Key Laboratory of Crop Germplasm Resources, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, China
- *Correspondence: Qingyao Shu,
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21
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Rubio-Cabetas MJ, Pons C, Bielsa B, Amador ML, Marti C, Granell A. Preformed and induced mechanisms underlies the differential responses of Prunus rootstock to hypoxia. JOURNAL OF PLANT PHYSIOLOGY 2018; 228:134-149. [PMID: 29913428 DOI: 10.1016/j.jplph.2018.06.004] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/20/2018] [Revised: 06/01/2018] [Accepted: 06/06/2018] [Indexed: 06/08/2023]
Abstract
Analysis of the transcriptomic changes produced in response to hypoxia in root tissues from two rootstock Prunus genotypes differing in their sensitivity to waterlogging: resistant Myrobalan 'P.2175' (P. cerasifera Erhr.), and sensitive 'Felinem' hybrid [P. amygdalus Batsch × P. persica (L.) Batsch] revealed alterations in both metabolism and regulatory processes. Early hypoxia response in both genotypes is characterized by a molecular program aimed to adapt the cell metabolism to the new conditions. Upon hypoxia conditions, tolerant Myrobalan represses first secondary metabolism gene expression as a strategy to prevent the waste of resources/energy, and by the up-regulation of protein degradation genes probably leading to structural adaptations to long-term response to hypoxia. In response to the same conditions, sensitive 'Felinem' up-regulates a core of signal transduction and transcription factor genes. A combination of PLS-DA and qRT-PCR approaches revealed a set of transcription factors and signalling molecules as differentially regulated in the sensitive and tolerant genotypes including the peach orthologs for oxygen sensors. Apart from providing insights into the molecular processes underlying the differential response to waterlogging of two Prunus rootstocks, our approach reveals a set of candidate genes to be used expression biomarkers for biotech or breeding approaches to waterlogging tolerance.
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Affiliation(s)
- María J Rubio-Cabetas
- Hortofruticulture Department, Agrifood Research and Technology Centre of Aragon (CITA), Av. Montañana 930, 50059, Zaragoza, Spain
| | - Clara Pons
- Department of Fruit Quality and Biotechnology, Instituto de Biología Molecular y Celular de Plantas (UPV-CSIC), Ingeniero Fausto Elio, s/n 46022 Valencia, Spain
| | - Beatriz Bielsa
- Hortofruticulture Department, Agrifood Research and Technology Centre of Aragon (CITA), Av. Montañana 930, 50059, Zaragoza, Spain
| | - María L Amador
- Hortofruticulture Department, Agrifood Research and Technology Centre of Aragon (CITA), Av. Montañana 930, 50059, Zaragoza, Spain
| | - Cristina Marti
- Department of Fruit Quality and Biotechnology, Instituto de Biología Molecular y Celular de Plantas (UPV-CSIC), Ingeniero Fausto Elio, s/n 46022 Valencia, Spain
| | - Antonio Granell
- Department of Fruit Quality and Biotechnology, Instituto de Biología Molecular y Celular de Plantas (UPV-CSIC), Ingeniero Fausto Elio, s/n 46022 Valencia, Spain.
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Baek D, Chun HJ, Yun DJ, Kim MC. Cross-talk between Phosphate Starvation and Other Environmental Stress Signaling Pathways in Plants. Mol Cells 2017; 40:697-705. [PMID: 29047263 PMCID: PMC5682247 DOI: 10.14348/molcells.2017.0192] [Citation(s) in RCA: 31] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2017] [Revised: 09/21/2017] [Accepted: 09/30/2017] [Indexed: 01/22/2023] Open
Abstract
The maintenance of inorganic phosphate (Pi) homeostasis is essential for plant growth and yield. Plants have evolved strategies to cope with Pi starvation at the transcriptional, post-transcriptional, and post-translational levels, which maximizes its availability. Many transcription factors, miRNAs, and transporters participate in the Pi starvation signaling pathway where their activities are modulated by sugar and phytohormone signaling. Environmental stresses significantly affect the uptake and utilization of nutrients by plants, but their effects on the Pi starvation response remain unclear. Recently, we reported that Pi starvation signaling is affected by abiotic stresses such as salt, abscisic acid, and drought. In this review, we identified transcription factors, such as MYB, WRKY, and zinc finger transcription factors with functions in Pi starvation and other environmental stress signaling. In silico analysis of the promoter regions of Pi starvation-responsive genes, including phosphate transporters, microRNAs, and phosphate starvation-induced genes, suggest that their expression may be regulated by other environmental stresses, such as hormones, drought, cold, heat, and pathogens as well as by Pi starvation. Thus, we suggest the possibility of cross-talk between Pi starvation signaling and other environmental stress signaling pathways.
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Affiliation(s)
- Dongwon Baek
- Division of Applied Life Science (BK21 PLUS), Plant Molecular Biology and Biotechnology Research Center, Gyeongsang National University, Jinju 52828,
Korea
| | - Hyun Jin Chun
- Institute of Agriculture & Life Science, Gyeongsang National University, Jinju 52828,
Korea
| | - Dae-Jin Yun
- Department of Biomedical Science and Engineering, Konkuk University, Seoul 05029,
Korea
| | - Min Chul Kim
- Division of Applied Life Science (BK21 PLUS), Plant Molecular Biology and Biotechnology Research Center, Gyeongsang National University, Jinju 52828,
Korea
- Institute of Agriculture & Life Science, Gyeongsang National University, Jinju 52828,
Korea
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23
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Aleksza D, Horváth GV, Sándor G, Szabados L. Proline Accumulation Is Regulated by Transcription Factors Associated with Phosphate Starvation. PLANT PHYSIOLOGY 2017; 175:555-567. [PMID: 28765275 PMCID: PMC5580772 DOI: 10.1104/pp.17.00791] [Citation(s) in RCA: 43] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/13/2017] [Accepted: 07/11/2017] [Indexed: 05/20/2023]
Abstract
Pro accumulation in plants is a well-documented physiological response to osmotic stress caused by drought or salinity. In Arabidopsis (Arabidopsis thaliana), the stress and ABA-induced Δ1-PYRROLINE-5-CARBOXYLATE SYNTHETASE1 (P5CS1) gene was previously shown to control Pro biosynthesis in such adverse conditions. To identify regulatory factors that control the transcription of P5CS1, Y1H screens were performed with a genomic fragment of P5CS1, containing 1.2-kB promoter and 0.8-kb transcribed regions. The myeloblastosis (MYB)-type transcription factors PHOSPHATE STARVATION RESPONSE1 (PHR1) and PHR1-LIKE1 (PHL1) were identified to bind to P5CS1 regulatory sequences in the first intron, which carries a conserved PHR1-binding site (P1BS) motif. Binding of PHR1 and PHL1 factors to P1BS was confirmed by Y1H, electrophoretic mobility assay and chromatin immunoprecipitation. Phosphate starvation led to gradual increase in Pro content in wild-type Arabidopsis plants as well as transcriptional activation of P5CS1 and PRO DEHYDROGENASE2 genes. Induction of P5CS1 transcription and Pro accumulation during phosphate deficiency was considerably reduced by phr1 and phl1 mutations and was impaired in the ABA-deficient aba2-3 and ABA-insensitive abi4-1 mutants. Growth and viability of phr1phl1 double mutant was significantly reduced in phosphate-depleted medium, while growth was only marginally affected in the aba2-3 mutants, suggesting that ABA is implicated in growth retardation in such nutritional stress. Our results reveal a previously unknown link between Pro metabolism and phosphate nutrition and show that Pro biosynthesis is target of cross talk between ABA signaling and regulation of phosphate homeostasis through PHR1- and PHL1-mediated transcriptional activation of the P5CS1 gene.
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Affiliation(s)
- Dávid Aleksza
- Institute of Plant Biology, Biological Research Centre, 6726-Szeged, Hungary
| | - Gábor V Horváth
- Institute of Plant Biology, Biological Research Centre, 6726-Szeged, Hungary
| | - Györgyi Sándor
- Institute of Plant Biology, Biological Research Centre, 6726-Szeged, Hungary
| | - László Szabados
- Institute of Plant Biology, Biological Research Centre, 6726-Szeged, Hungary
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24
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Abadie C, Blanchet S, Carroll A, Tcherkez G. Metabolomics analysis of postphotosynthetic effects of gaseous O 2 on primary metabolism in illuminated leaves. FUNCTIONAL PLANT BIOLOGY : FPB 2017; 44:929-940. [PMID: 32480621 DOI: 10.1071/fp16355] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/13/2016] [Accepted: 03/21/2017] [Indexed: 06/11/2023]
Abstract
The response of underground plant tissues to O2 limitation is currently an important topic in crop plants since adverse environmental conditions (e.g. waterlogging) may cause root hypoxia and thus compromise plant growth. However, little is known on the effect of low O2 conditions in leaves, probably because O2 limitation is improbable in these tissues under natural conditions, unless under complete submersion. Nevertheless, an O2-depleted atmosphere is commonly used in gas exchange experiments to suppress photorespiration and estimate gross photosynthesis. However, the nonphotosynthetic effects of gaseous O2 depletion, particularly on respiratory metabolism, are not well documented. Here, we used metabolomics obtained under contrasting O2 and CO2 conditions to examine the specific effect of a changing O2 mole fraction from ambient (21%) to 0%, 2% or 100%. In addition to the typical decrease in photorespiratory intermediates (glycolate, glycine and serine) and a build-up in photosynthates (sucrose), low O2 (0% or 2%) was found to trigger an accumulation of alanine and change succinate metabolism. In 100% O2, the synthesis of threonine and methionine from aspartate appeared to be stimulated. These responses were observed in two species, sunflower (Helianthus annuus L.) and Arabidopsis thaliana (L.) Heynh. Our results show that O2 causes a change in the oxygenation : carboxylation ratio and also alters postphotosynthetic metabolism: (i) a hypoxic response at low O2 mole fractions and (ii) a stimulation of S metabolism at high O2 mole fractions. The latter effect is an important piece of information to better understand how photorespiration may control S assimilation.
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Affiliation(s)
- Cyril Abadie
- Research School of Biology, College of Medicine, Biology and Environment, Australian National University, Canberra, ACT 2601, Australia
| | - Sophie Blanchet
- Research School of Biology, College of Medicine, Biology and Environment, Australian National University, Canberra, ACT 2601, Australia
| | - Adam Carroll
- Research School of Biology, College of Medicine, Biology and Environment, Australian National University, Canberra, ACT 2601, Australia
| | - Guillaume Tcherkez
- Research School of Biology, College of Medicine, Biology and Environment, Australian National University, Canberra, ACT 2601, Australia
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25
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Liu Y, Xie Y, Wang H, Ma X, Yao W, Wang H. Light and Ethylene Coordinately Regulate the Phosphate Starvation Response through Transcriptional Regulation of PHOSPHATE STARVATION RESPONSE1. THE PLANT CELL 2017; 29:2269-2284. [PMID: 28842534 PMCID: PMC5635990 DOI: 10.1105/tpc.17.00268] [Citation(s) in RCA: 48] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/04/2017] [Revised: 08/08/2017] [Accepted: 08/24/2017] [Indexed: 05/18/2023]
Abstract
Plants have evolved an array of adaptive responses to low Pi availability, a process modulated by various external stimuli and endogenous growth regulatory signals. Little is known about how these signaling processes interact to produce an integrated response. Arabidopsis thaliana PHOSPHATE STARVATION RESPONSE1 (PHR1) encodes a conserved MYB-type transcription factor that is essential for programming Pi starvation-induced gene expression and downstream Pi starvation responses (PSRs). Here, we show that loss-of-function mutations in FHY3 and FAR1, encoding two positive regulators of phytochrome signaling, and in EIN3, encoding a master regulator of ethylene responses, cause attenuated PHR1 expression, whereas mutation in HY5, encoding another positive regulator of light signaling, causes increased PHR1 expression. FHY3, FAR1, HY5, and EIN3 directly bind to the PHR1 promoter through distinct cis-elements. FHY3, FAR1, and EIN3 activate, while HY5 represses, PHR1 expression. FHY3 directly interacts with EIN3, and HY5 suppresses the transcriptional activation activity of FHY3 and EIN3 on PHR1 Finally, both light and ethylene promote FHY3 protein accumulation, and ethylene blocks the light-promoted stabilization of HY5. Our results suggest that light and ethylene coordinately regulate PHR1 expression and PSRs through signaling convergence at the PHR1 promoter.
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Affiliation(s)
- Yang Liu
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Yurong Xie
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Hai Wang
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Xiaojing Ma
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Wenjun Yao
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Haiyang Wang
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangzhou 510642, China
- College of Life Sciences, South China Agricultural University, Guangzhou 510642, China
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26
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Candidate genes for adaptation to an aquatic habitat recovered from Ranunculus bungei and Ranunculus sceleratus. BIOCHEM SYST ECOL 2017. [DOI: 10.1016/j.bse.2017.01.003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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27
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Ben Daniel BH, Cattan E, Wachtel C, Avrahami D, Glick Y, Malichy A, Gerber D, Miller G. Identification of novel transcriptional regulators of Zat12 using comprehensive yeast one-hybrid screens. PHYSIOLOGIA PLANTARUM 2016; 157:422-441. [PMID: 26923089 DOI: 10.1111/ppl.12439] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/14/2015] [Revised: 01/22/2016] [Accepted: 01/28/2016] [Indexed: 06/05/2023]
Abstract
To appropriately acclimate to environmental stresses, plants have to rapidly activate a specific transcriptional program. Yet, the identity and function of many of the transcriptional regulators that mediate early responses to abiotic stress stimuli is still unknown. In this work we employed the promoter of the multi-stress-responsive zinc-finger protein Zat12 in yeast one-hybrid (Y1H) screens to identify early abiotic stress-responsive transcriptional regulators. Analysis of Zat12 promoter fragments fused to luciferase underlined an approximately 200 bp fragment responsive to NaCl and to reactive oxygen species (ROS). Using these segments and others as baits against Y1H control or stress Arabidopsis prey libraries, we identified 15 potential Zat12 transcriptional regulators. Among the prominent proteins identified were known transcription factors including bZIP29 and ANAC91 as well as unknown function proteins such as a homolog of the human USB1, a U6 small nuclear RNA (snRNA) processing protein, and dormancy/auxin-associated family protein 2 (DRM2). Altered expression of Zat12 during high light stress in the knockout mutants further indicated the involvement of these proteins in the regulation of Zat12. Using a state of the art microfluidic approach we showed that AtUSB1 and DRM2 can specifically bind dsDNA and were able to identify the preferred DNA-binding motif of all four proteins. Overall, the proteins identified in this work provide an important start point for charting the earliest signaling network of Zat12 and of other genes required for acclimation to abiotic stresses.
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Affiliation(s)
- Bat-Hen Ben Daniel
- The Mina & Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat-Gan, 5290002, Israel
| | - Esther Cattan
- The Mina & Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat-Gan, 5290002, Israel
| | - Chaim Wachtel
- The Mina & Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat-Gan, 5290002, Israel
| | - Dorit Avrahami
- The Mina & Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat-Gan, 5290002, Israel
- The Nanotechnology Institute, The Mina and Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat Gan, 5290002, Israel
| | - Yair Glick
- The Mina & Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat-Gan, 5290002, Israel
- The Nanotechnology Institute, The Mina and Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat Gan, 5290002, Israel
| | - Asaf Malichy
- The Mina & Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat-Gan, 5290002, Israel
- The Nanotechnology Institute, The Mina and Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat Gan, 5290002, Israel
| | - Doron Gerber
- The Mina & Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat-Gan, 5290002, Israel
- The Nanotechnology Institute, The Mina and Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat Gan, 5290002, Israel
| | - Gad Miller
- The Mina & Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat-Gan, 5290002, Israel
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28
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Gasch P, Fundinger M, Müller JT, Lee T, Bailey-Serres J, Mustroph A. Redundant ERF-VII Transcription Factors Bind to an Evolutionarily Conserved cis-Motif to Regulate Hypoxia-Responsive Gene Expression in Arabidopsis. THE PLANT CELL 2016; 28:160-80. [PMID: 26668304 PMCID: PMC4746684 DOI: 10.1105/tpc.15.00866] [Citation(s) in RCA: 178] [Impact Index Per Article: 22.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/09/2015] [Accepted: 12/01/2015] [Indexed: 05/08/2023]
Abstract
The response of Arabidopsis thaliana to low-oxygen stress (hypoxia), such as during shoot submergence or root waterlogging, includes increasing the levels of ∼50 hypoxia-responsive gene transcripts, many of which encode enzymes associated with anaerobic metabolism. Upregulation of over half of these mRNAs involves stabilization of five group VII ethylene response factor (ERF-VII) transcription factors, which are routinely degraded via the N-end rule pathway of proteolysis in an oxygen- and nitric oxide-dependent manner. Despite their importance, neither the quantitative contribution of individual ERF-VIIs nor the cis-regulatory elements they govern are well understood. Here, using single- and double-null mutants, the constitutively synthesized ERF-VIIs RELATED TO APETALA2.2 (RAP2.2) and RAP2.12 are shown to act redundantly as principle activators of hypoxia-responsive genes; constitutively expressed RAP2.3 contributes to this redundancy, whereas the hypoxia-induced HYPOXIA RESPONSIVE ERF1 (HRE1) and HRE2 play minor roles. An evolutionarily conserved 12-bp cis-regulatory motif that binds to and is sufficient for activation by RAP2.2 and RAP2.12 is identified through a comparative phylogenetic motif search, promoter dissection, yeast one-hybrid assays, and chromatin immunopurification. This motif, designated the hypoxia-responsive promoter element, is enriched in promoters of hypoxia-responsive genes in multiple species.
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Affiliation(s)
- Philipp Gasch
- Plant Physiology, University Bayreuth, 95440 Bayreuth, Germany
| | | | - Jana T Müller
- Plant Physiology, University Bayreuth, 95440 Bayreuth, Germany
| | - Travis Lee
- Center for Plant Cell Biology and Botany and Plant Sciences Department, University of California, Riverside, California 92521
| | - Julia Bailey-Serres
- Center for Plant Cell Biology and Botany and Plant Sciences Department, University of California, Riverside, California 92521
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29
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Abstract
Photosynthetic organelles in plants and algae are characterized by the high abundance of glycolipids, including the galactolipids mono- and digalactosyldiacylglycerol (MGDG, DGDG) and the sulfolipid sulfoquinovosyldiacylglycerol (SQDG). Glycolipids are crucial to maintain an optimal efficiency of photosynthesis. During phosphate limitation, the amounts of DGDG and SQDG increase in the plastids of plants, and DGDG is exported to extraplastidial membranes to replace phospholipids. Algae often use betaine lipids as surrogate for phospholipids. Glucuronosyldiacylglycerol (GlcADG) is a further glycolipid that accumulates under phosphate deprived conditions. In contrast to plants, a number of eukaryotic algae contain very long chain polyunsaturated fatty acids of 20 or more carbon atoms in their glycolipids. The pathways and genes for galactolipid and sulfolipid synthesis are largely conserved between plants, Chlorophyta, Rhodophyta and algae with complex plastids derived from secondary or tertiary endosymbiosis. However, the relative contribution of the endoplasmic reticulum- and plastid-derived lipid pathways for glycolipid synthesis varies between plants and algae. The genes for glycolipid synthesis encode precursor proteins imported into the photosynthetic organelles. While most eukaryotic algae contain the plant-like galactolipid (MGD1, DGD1) and sulfolipid (SQD1, SQD2) synthases, the red alga Cyanidioschyzon harbors a cyanobacterium-type DGDG synthase (DgdA), and the amoeba Paulinella, derived from a more recent endosymbiosis event, contains cyanobacterium-type enzymes for MGDG and DGDG synthesis (MgdA, MgdE, DgdA).
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Affiliation(s)
- Barbara Kalisch
- Institute of Molecular Physiology and Biotechnology of Plants (IMBIO), University of Bonn, Karlrobert-Kreiten-Straße 13, 53115, Bonn, Germany
| | - Peter Dörmann
- Institute of Molecular Physiology and Biotechnology of Plants (IMBIO), University of Bonn, Karlrobert-Kreiten-Straße 13, 53115, Bonn, Germany.
| | - Georg Hölzl
- Institute of Molecular Physiology and Biotechnology of Plants (IMBIO), University of Bonn, Karlrobert-Kreiten-Straße 13, 53115, Bonn, Germany
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30
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Guo M, Ruan W, Li C, Huang F, Zeng M, Liu Y, Yu Y, Ding X, Wu Y, Wu Z, Mao C, Yi K, Wu P, Mo X. Integrative Comparison of the Role of the PHOSPHATE RESPONSE1 Subfamily in Phosphate Signaling and Homeostasis in Rice. PLANT PHYSIOLOGY 2015; 168:1762-76. [PMID: 26082401 PMCID: PMC4528768 DOI: 10.1104/pp.15.00736] [Citation(s) in RCA: 108] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/21/2015] [Accepted: 06/13/2015] [Indexed: 05/18/2023]
Abstract
Phosphorus (P), an essential macronutrient for all living cells, is indispensable for agricultural production. Although Arabidopsis (Arabidopsis thaliana) PHOSPHATE RESPONSE1 (PHR1) and its orthologs in other species have been shown to function in transcriptional regulation of phosphate (Pi) signaling and Pi homeostasis, an integrative comparison of PHR1-related proteins in rice (Oryza sativa) has not previously been reported. Here, we identified functional redundancy among three PHR1 orthologs in rice (OsPHR1, OsPHR2, and OsPHR3) using phylogenetic and mutation analysis. OsPHR3 in conjunction with OsPHR1 and OsPHR2 function in transcriptional activation of most Pi starvation-induced genes. Loss-of-function mutations in any one of these transcription factors (TFs) impaired root hair growth (primarily root hair elongation). However, these three TFs showed differences in DNA binding affinities and messenger RNA expression patterns in different tissues and growth stages, and transcriptomic analysis revealed differential effects on Pi starvation-induced gene expression of single mutants of the three TFs, indicating some degree of functional diversification. Overexpression of genes encoding any of these TFs resulted in partial constitutive activation of Pi starvation response and led to Pi accumulation in the shoot. Furthermore, unlike OsPHR2-overexpressing lines, which exhibited growth retardation under normal or Pi-deficient conditions, OsPHR3-overexpressing plants exhibited significant tolerance to low-Pi stress but normal growth rates under normal Pi conditions, suggesting that OsPHR3 would be useful for molecular breeding to improve Pi uptake/use efficiency under Pi-deficient conditions. We propose that OsPHR1, OsPHR2, and OsPHR3 form a network and play diverse roles in regulating Pi signaling and homeostasis in rice.
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Affiliation(s)
- Meina Guo
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (M.G., W.R., C.L., F.H., M.Z., Y.L., Y.Y., X.D., Y.W., Z.W., C.M., K.Y., P.W., X.M.); andInstitute of Agricultural Resources and Regional Planning, China Academy of Agricultural Sciences, Beijing 100081, China (W.R., K.Y.)
| | - Wenyuan Ruan
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (M.G., W.R., C.L., F.H., M.Z., Y.L., Y.Y., X.D., Y.W., Z.W., C.M., K.Y., P.W., X.M.); andInstitute of Agricultural Resources and Regional Planning, China Academy of Agricultural Sciences, Beijing 100081, China (W.R., K.Y.)
| | - Changying Li
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (M.G., W.R., C.L., F.H., M.Z., Y.L., Y.Y., X.D., Y.W., Z.W., C.M., K.Y., P.W., X.M.); andInstitute of Agricultural Resources and Regional Planning, China Academy of Agricultural Sciences, Beijing 100081, China (W.R., K.Y.)
| | - Fangliang Huang
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (M.G., W.R., C.L., F.H., M.Z., Y.L., Y.Y., X.D., Y.W., Z.W., C.M., K.Y., P.W., X.M.); andInstitute of Agricultural Resources and Regional Planning, China Academy of Agricultural Sciences, Beijing 100081, China (W.R., K.Y.)
| | - Ming Zeng
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (M.G., W.R., C.L., F.H., M.Z., Y.L., Y.Y., X.D., Y.W., Z.W., C.M., K.Y., P.W., X.M.); andInstitute of Agricultural Resources and Regional Planning, China Academy of Agricultural Sciences, Beijing 100081, China (W.R., K.Y.)
| | - Yingyao Liu
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (M.G., W.R., C.L., F.H., M.Z., Y.L., Y.Y., X.D., Y.W., Z.W., C.M., K.Y., P.W., X.M.); andInstitute of Agricultural Resources and Regional Planning, China Academy of Agricultural Sciences, Beijing 100081, China (W.R., K.Y.)
| | - Yanan Yu
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (M.G., W.R., C.L., F.H., M.Z., Y.L., Y.Y., X.D., Y.W., Z.W., C.M., K.Y., P.W., X.M.); andInstitute of Agricultural Resources and Regional Planning, China Academy of Agricultural Sciences, Beijing 100081, China (W.R., K.Y.)
| | - Xiaomeng Ding
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (M.G., W.R., C.L., F.H., M.Z., Y.L., Y.Y., X.D., Y.W., Z.W., C.M., K.Y., P.W., X.M.); andInstitute of Agricultural Resources and Regional Planning, China Academy of Agricultural Sciences, Beijing 100081, China (W.R., K.Y.)
| | - Yunrong Wu
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (M.G., W.R., C.L., F.H., M.Z., Y.L., Y.Y., X.D., Y.W., Z.W., C.M., K.Y., P.W., X.M.); andInstitute of Agricultural Resources and Regional Planning, China Academy of Agricultural Sciences, Beijing 100081, China (W.R., K.Y.)
| | - Zhongchang Wu
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (M.G., W.R., C.L., F.H., M.Z., Y.L., Y.Y., X.D., Y.W., Z.W., C.M., K.Y., P.W., X.M.); andInstitute of Agricultural Resources and Regional Planning, China Academy of Agricultural Sciences, Beijing 100081, China (W.R., K.Y.)
| | - Chuanzao Mao
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (M.G., W.R., C.L., F.H., M.Z., Y.L., Y.Y., X.D., Y.W., Z.W., C.M., K.Y., P.W., X.M.); andInstitute of Agricultural Resources and Regional Planning, China Academy of Agricultural Sciences, Beijing 100081, China (W.R., K.Y.)
| | - Keke Yi
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (M.G., W.R., C.L., F.H., M.Z., Y.L., Y.Y., X.D., Y.W., Z.W., C.M., K.Y., P.W., X.M.); andInstitute of Agricultural Resources and Regional Planning, China Academy of Agricultural Sciences, Beijing 100081, China (W.R., K.Y.)
| | - Ping Wu
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (M.G., W.R., C.L., F.H., M.Z., Y.L., Y.Y., X.D., Y.W., Z.W., C.M., K.Y., P.W., X.M.); andInstitute of Agricultural Resources and Regional Planning, China Academy of Agricultural Sciences, Beijing 100081, China (W.R., K.Y.)
| | - Xiaorong Mo
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (M.G., W.R., C.L., F.H., M.Z., Y.L., Y.Y., X.D., Y.W., Z.W., C.M., K.Y., P.W., X.M.); andInstitute of Agricultural Resources and Regional Planning, China Academy of Agricultural Sciences, Beijing 100081, China (W.R., K.Y.)
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31
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Jost R, Pharmawati M, Lapis-Gaza HR, Rossig C, Berkowitz O, Lambers H, Finnegan PM. Differentiating phosphate-dependent and phosphate-independent systemic phosphate-starvation response networks in Arabidopsis thaliana through the application of phosphite. JOURNAL OF EXPERIMENTAL BOTANY 2015; 66:2501-14. [PMID: 25697796 PMCID: PMC4986860 DOI: 10.1093/jxb/erv025] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
Phosphite is a less oxidized form of phosphorus than phosphate. Phosphite is considered to be taken up by the plant through phosphate transporters. It can mimic phosphate to some extent, but it is not metabolized into organophosphates. Phosphite could therefore interfere with phosphorus signalling networks. Typical physiological and transcriptional responses to low phosphate availability were investigated and the short-term kinetics of their reversion by phosphite, compared with phosphate, were determined in both roots and shoots of Arabidopsis thaliana. Phosphite treatment resulted in a strong growth arrest. It mimicked phosphate in causing a reduction in leaf anthocyanins and in the expression of a subset of the phosphate-starvation-responsive genes. However, the kinetics of the response were slower than for phosphate, which may be due to discrimination against phosphite by phosphate transporters PHT1;8 and PHT1;9 causing delayed shoot accumulation of phosphite. Transcripts encoding PHT1;7, lipid-remodelling enzymes such as SQD2, and phosphocholine-producing NMT3 were highly responsive to phosphite, suggesting their regulation by a direct phosphate-sensing network. Genes encoding components associated with the 'PHO regulon' in plants, such as At4, IPS1, and PHO1;H1, generally responded more slowly to phosphite than to phosphate, except for SPX1 in roots and MIR399d in shoots. Two uncharacterized phosphate-responsive E3 ligase genes, PUB35 and C3HC4, were also highly phosphite responsive. These results show that phosphite is a valuable tool to identify network components directly responsive to phosphate.
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Affiliation(s)
- Ricarda Jost
- School of Plant Biology, The University of Western Australia, Crawley (Perth), Western Australia, Australia
| | - Made Pharmawati
- School of Plant Biology, The University of Western Australia, Crawley (Perth), Western Australia, Australia Biology Department, Faculty of Mathematics and Natural Sciences, Bukit Jimbaran Campus, Udayana University, Bali, Indonesia
| | - Hazel R Lapis-Gaza
- School of Plant Biology, The University of Western Australia, Crawley (Perth), Western Australia, Australia
| | - Claudia Rossig
- School of Plant Biology, The University of Western Australia, Crawley (Perth), Western Australia, Australia
| | - Oliver Berkowitz
- School of Plant Biology, The University of Western Australia, Crawley (Perth), Western Australia, Australia School of Veterinary and Life Sciences, Murdoch University, Murdoch, Western Australia, Australia
| | - Hans Lambers
- School of Plant Biology, The University of Western Australia, Crawley (Perth), Western Australia, Australia Institute of Agriculture, The University of Western Australia, Crawley (Perth), Western Australia, Australia
| | - Patrick M Finnegan
- School of Plant Biology, The University of Western Australia, Crawley (Perth), Western Australia, Australia Institute of Agriculture, The University of Western Australia, Crawley (Perth), Western Australia, Australia
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Voesenek LACJ, Bailey-Serres J. Flood adaptive traits and processes: an overview. THE NEW PHYTOLOGIST 2015; 206:57-73. [PMID: 25580769 DOI: 10.1111/nph.13209] [Citation(s) in RCA: 337] [Impact Index Per Article: 37.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/25/2014] [Accepted: 10/30/2014] [Indexed: 05/18/2023]
Abstract
Unanticipated flooding challenges plant growth and fitness in natural and agricultural ecosystems. Here we describe mechanisms of developmental plasticity and metabolic modulation that underpin adaptive traits and acclimation responses to waterlogging of root systems and submergence of aerial tissues. This includes insights into processes that enhance ventilation of submerged organs. At the intersection between metabolism and growth, submergence survival strategies have evolved involving an ethylene-driven and gibberellin-enhanced module that regulates growth of submerged organs. Opposing regulation of this pathway is facilitated by a subgroup of ethylene-response transcription factors (ERFs), which include members that require low O₂ or low nitric oxide (NO) conditions for their stabilization. These transcription factors control genes encoding enzymes required for anaerobic metabolism as well as proteins that fine-tune their function in transcription and turnover. Other mechanisms that control metabolism and growth at seed, seedling and mature stages under flooding conditions are reviewed, as well as findings demonstrating that true endurance of submergence includes an ability to restore growth following the deluge. Finally, we highlight molecular insights obtained from natural variation of domesticated and wild species that occupy different hydrological niches, emphasizing the value of understanding natural flooding survival strategies in efforts to stabilize crop yields in flood-prone environments.
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Affiliation(s)
- Laurentius A C J Voesenek
- Institute of Environmental Biology, Utrecht University, Padualaan 8, 3584 CH, Utrecht, the Netherlands
| | - Julia Bailey-Serres
- Institute of Environmental Biology, Utrecht University, Padualaan 8, 3584 CH, Utrecht, the Netherlands
- Center for Plant Cell Biology, Department of Botany and Plant Sciences, University of California, Riverside, CA, 92521, USA
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Xie LJ, Chen QF, Chen MX, Yu LJ, Huang L, Chen L, Wang FZ, Xia FN, Zhu TR, Wu JX, Yin J, Liao B, Shi J, Zhang JH, Aharoni A, Yao N, Shu W, Xiao S. Unsaturation of very-long-chain ceramides protects plant from hypoxia-induced damages by modulating ethylene signaling in Arabidopsis. PLoS Genet 2015; 11:e1005143. [PMID: 25822663 PMCID: PMC4379176 DOI: 10.1371/journal.pgen.1005143] [Citation(s) in RCA: 71] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2014] [Accepted: 03/12/2015] [Indexed: 01/16/2023] Open
Abstract
Lipid remodeling is crucial for hypoxic tolerance in animals, whilst little is known about the hypoxia-induced lipid dynamics in plants. Here we performed a mass spectrometry-based analysis to survey the lipid profiles of Arabidopsis rosettes under various hypoxic conditions. We observed that hypoxia caused a significant increase in total amounts of phosphatidylserine, phosphatidic acid and oxidized lipids, but a decrease in phosphatidylcholine (PC) and phosphatidylethanolamine (PE). Particularly, significant gains in the polyunsaturated species of PC, PE and phosphatidylinositol, and losses in their saturated and mono-unsaturated species were evident during hypoxia. Moreover, hypoxia led to a remarkable elevation of ceramides and hydroxyceramides. Disruption of ceramide synthases LOH1, LOH2 and LOH3 enhanced plant sensitivity to dark submergence, but displayed more resistance to submergence under light than wild type. Consistently, levels of unsaturated very-long-chain (VLC) ceramide species (22:1, 24:1 and 26:1) predominantly declined in the loh1, loh2 and loh3 mutants under dark submergence. In contrast, significant reduction of VLC ceramides in the loh1-1 loh3-1 knockdown double mutant and lacking of VLC unsaturated ceramides in the ads2 mutants impaired plant tolerance to both dark and light submergences. Evidence that C24:1-ceramide interacted with recombinant CTR1 protein and inhibited its kinase activity in vitro, enhanced ER-to-nucleus translocation of EIN2-GFP and stabilization of EIN3-GFP in vivo, suggests a role of ceramides in modulating CTR1-mediated ethylene signaling. The dark submergence-sensitive phenotypes of loh mutants were rescued by a ctr1-1 mutation. Thus, our findings demonstrate that unsaturation of VLC ceramides is a protective strategy for hypoxic tolerance in Arabidopsis.
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Affiliation(s)
- Li-Juan Xie
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Qin-Fang Chen
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Mo-Xian Chen
- State Key Laboratory of Agrobiotechnology, School of Life Sciences, The Chinese University of Hong Kong, Hong Kong, China
| | - Lu-Jun Yu
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Li Huang
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Liang Chen
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Feng-Zhu Wang
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Fan-Nv Xia
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Tian-Ren Zhu
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Jian-Xin Wu
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Jian Yin
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Bin Liao
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Jianxin Shi
- School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, China
| | - Jian-Hua Zhang
- State Key Laboratory of Agrobiotechnology, School of Life Sciences, The Chinese University of Hong Kong, Hong Kong, China
| | - Asaph Aharoni
- Department of Plant Sciences, Weizmann Institute of Science, Rehovot, Israel
| | - Nan Yao
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Wensheng Shu
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Shi Xiao
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, China
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Abstract
Oxygen is an indispensable substrate for many biochemical reactions in plants, including energy metabolism (respiration). Despite its importance, plants lack an active transport mechanism to distribute oxygen to all cells. Therefore, steep oxygen gradients occur within most plant tissues, which can be exacerbated by environmental perturbations that further reduce oxygen availability. Plants possess various responses to cope with spatial and temporal variations in oxygen availability, many of which involve metabolic adaptations to deal with energy crises induced by low oxygen. Responses are induced gradually when oxygen concentrations decrease and are rapidly reversed upon reoxygenation. A direct effect of the oxygen level can be observed in the stability, and thus activity, of various transcription factors that control the expression of hypoxia-induced genes. Additional signaling pathways are activated by the impact of oxygen deficiency on mitochondrial and chloroplast functioning. Here, we describe the molecular components of the oxygen-sensing pathway.
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Affiliation(s)
- Joost T van Dongen
- Institute of Biology I, Aachen Biology and Biotechnology, RWTH Aachen University, 52074 Aachen, Germany;
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35
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Bailey-Serres J, Colmer TD. Plant tolerance of flooding stress--recent advances. PLANT, CELL & ENVIRONMENT 2014; 37:2211-2215. [PMID: 25074340 DOI: 10.1111/pce.12420] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/28/2014] [Accepted: 07/28/2014] [Indexed: 06/03/2023]
Affiliation(s)
- Julia Bailey-Serres
- Center for Plant Cell Biology, Department of Botany and Plant Sciences, University of California, Riverside, CA, 92521, USA
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