1
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Huq E, Lin C, Quail PH. Light signaling in plants-a selective history. Plant Physiol 2024; 195:213-231. [PMID: 38431282 PMCID: PMC11060691 DOI: 10.1093/plphys/kiae110] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/17/2023] [Revised: 12/15/2023] [Accepted: 02/16/2024] [Indexed: 03/05/2024]
Abstract
In addition to providing the radiant energy that drives photosynthesis, sunlight carries signals that enable plants to grow, develop and adapt optimally to the prevailing environment. Here we trace the path of research that has led to our current understanding of the cellular and molecular mechanisms underlying the plant's capacity to perceive and transduce these signals into appropriate growth and developmental responses. Because a fully comprehensive review was not possible, we have restricted our coverage to the phytochrome and cryptochrome classes of photosensory receptors, while recognizing that the phototropin and UV classes also contribute importantly to the full scope of light-signal monitoring by the plant.
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Affiliation(s)
- Enamul Huq
- Department of Molecular Biosciences and The Institute for Cellular and Molecular Biology, The University of Texas at Austin, Austin, TX 78712, USA
| | - Chentao Lin
- Basic Forestry and Plant Proteomics Research Center, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Peter H Quail
- Department of Plant and Microbial Biology, University of California, Berkeley, Berkeley, CA 94720, USA
- Plant Gene Expression Center, Agricultural Research Service, US Department of Agriculture, Albany, CA 94710, USA
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2
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Takagi H, Lee N, Hempton AK, Purushwani S, Notaguchi M, Yamauchi K, Shirai K, Kawakatsu Y, Uehara S, Albers WG, Downing BLR, Ito S, Suzuki T, Matsuura T, Mori IC, Mitsuda N, Kurihara D, Matsushita T, Song YH, Sato Y, Nomoto M, Tada Y, Hanada K, Cuperus JT, Queitsch C, Imaizumi T. Florigen-producing cells express FPF1-LIKE PROTEIN 1 that accelerates flowering and stem growth in long days with sunlight red/far-red ratio in Arabidopsis. bioRxiv 2024:2024.04.26.591289. [PMID: 38746097 PMCID: PMC11092471 DOI: 10.1101/2024.04.26.591289] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/16/2024]
Abstract
Seasonal changes in spring induce flowering by expressing the florigen, FLOWERING LOCUS T (FT), in Arabidopsis . FT is expressed in unique phloem companion cells with unknown characteristics. The question of which genes are co-expressed with FT and whether they have roles in flowering remains elusive. Through tissue-specific translatome analysis, we discovered that under long-day conditions with the natural sunlight red/far-red ratio, the FT -producing cells express a gene encoding FPF1-LIKE PROTEIN 1 (FLP1). The master FT regulator, CONSTANS (CO), controls FLP1 expression, suggesting FLP1 's involvement in the photoperiod pathway. FLP1 promotes early flowering independently of FT, is active in the shoot apical meristem, and induces the expression of SEPALLATA 3 ( SEP3 ), a key E-class homeotic gene. Unlike FT, FLP1 facilitates inflorescence stem elongation. Our cumulative evidence indicates that FLP1 may act as a mobile signal. Thus, FLP1 orchestrates floral initiation together with FT and promotes inflorescence stem elongation during reproductive transitions.
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3
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Zhuang H, Guo Z, Wang J, Chen T. Genome-wide identification and comprehensive analysis of the phytochrome-interacting factor (PIF) gene family in wheat. PLoS One 2024; 19:e0296269. [PMID: 38181015 PMCID: PMC10769075 DOI: 10.1371/journal.pone.0296269] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2023] [Accepted: 12/10/2023] [Indexed: 01/07/2024] Open
Abstract
Phytochrome-interacting factors (PIFs) are essential transcription factors for plant growth, development, and stress responses. Although PIF genes have been extensively studied in many plant species, they have not been thoroughly investigated in wheat. Here, we identified 18 PIF genes in cultivated hexaploid wheat (Triticum aestivum L). Phylogenetic analysis, exon-intron structures, and motif compositions revealed the presence of four distinct groups of TaPIFs. Genome-wide collinearity analysis of PIF genes revealed the evolutionary history of PIFs in wheat, Oryza sativa, and Brachypodium distachyon. Cis-regulatory element analysis suggested that TaPIF genes indicated participated in plant development and stress responses. Subcellular localization assays indicated that TaPIF2-1B and TaPIF4-5B were transcriptionally active. Both were found to be localized to the nucleus. Gene expression analyses demonstrated that TaPIFs were primarily expressed in the leaves and were induced by various biotic and abiotic stresses and phytohormone treatments. This study provides new insights into PIF-mediated stress responses and lays a strong foundation for future investigation of PIF genes in wheat.
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Affiliation(s)
- Hua Zhuang
- Shaanxi Provincial Land Engineering Construction Group Co., Ltd, Xi’an, China
- Institute of Land Engineering and Technology, Shaanxi Provincial Land Engineering Construction Group Co., Ltd, Xi’an, China
| | - Zhen Guo
- Shaanxi Provincial Land Engineering Construction Group Co., Ltd, Xi’an, China
- Institute of Land Engineering and Technology, Shaanxi Provincial Land Engineering Construction Group Co., Ltd, Xi’an, China
| | - Jian Wang
- Shaanxi Provincial Land Engineering Construction Group Co., Ltd, Xi’an, China
- Institute of Land Engineering and Technology, Shaanxi Provincial Land Engineering Construction Group Co., Ltd, Xi’an, China
- Key Laboratory of Degraded and Unused Land Consolidation Engineering, Ministry of Natural Resources, Xi’an, China
| | - Tianqing Chen
- Shaanxi Provincial Land Engineering Construction Group Co., Ltd, Xi’an, China
- Institute of Land Engineering and Technology, Shaanxi Provincial Land Engineering Construction Group Co., Ltd, Xi’an, China
- Key Laboratory of Degraded and Unused Land Consolidation Engineering, Ministry of Natural Resources, Xi’an, China
- Shaanxi Engineering Research Center of Land Consolidation, Xi’an, China
- Land Engineering Technology Innovation Center, Ministry of Natural Resources, Xi’an, China
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4
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Hur YS, Oh J, Kim N, Kim S, Son O, Kim J, Um JH, Ji Z, Kim MH, Ko JH, Ohme-Takagi M, Choi G, Cheon CI. Arabidopsis transcription factor TCP13 promotes shade avoidance syndrome-like responses by directly targeting a subset of shade-responsive gene promoters. J Exp Bot 2024; 75:241-257. [PMID: 37824096 DOI: 10.1093/jxb/erad402] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2023] [Accepted: 10/11/2023] [Indexed: 10/13/2023]
Abstract
TCP13 belongs to a subgroup of TCP transcription factors implicated in the shade avoidance syndrome (SAS), but its exact role remains unclear. Here, we show that TCP13 promotes the SAS-like response by enhancing hypocotyl elongation and suppressing flavonoid biosynthesis as a part of the incoherent feed-forward loop in light signaling. Shade is known to promote the SAS by activating PHYTOCHROME-INTERACTING FACTOR (PIF)-auxin signaling in plants, but we found no evidence in a transcriptome analysis that TCP13 activates PIF-auxin signaling. Instead, TCP13 mimics shade by activating the expression of a subset of shade-inducible and cell elongation-promoting SAUR genes including SAUR19, by direct targeting of their promoters. We also found that TCP13 and PIF4, a molecular proxy for shade, repress the expression of flavonoid biosynthetic genes by directly targeting both shared and distinct sets of biosynthetic gene promoters. Together, our results indicate that TCP13 promotes the SAS-like response by directly targeting a subset of shade-responsive genes without activating the PIF-auxin signaling pathway.
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Affiliation(s)
- Yoon-Sun Hur
- Department of Biological Science, Sookmyung Women's University, Seoul 04310, Korea
| | - Jeonghwa Oh
- Department of Biological Sciences, KAIST, Daejeon 34141, Korea
| | - Namuk Kim
- Department of Biological Sciences, KAIST, Daejeon 34141, Korea
| | - Sunghan Kim
- Department of Biological Science, Sookmyung Women's University, Seoul 04310, Korea
| | - Ora Son
- Department of Biological Science, Sookmyung Women's University, Seoul 04310, Korea
| | - Jiyoung Kim
- Department of Biological Science, Sookmyung Women's University, Seoul 04310, Korea
| | - Ji-Hyun Um
- Department of Biological Science, Sookmyung Women's University, Seoul 04310, Korea
| | - Zuowei Ji
- Department of Biological Science, Sookmyung Women's University, Seoul 04310, Korea
| | - Min-Ha Kim
- Department of Plant & Environmental New Resources, Kyung Hee University, Yongin 17104, Korea
| | - Jae-Heung Ko
- Department of Plant & Environmental New Resources, Kyung Hee University, Yongin 17104, Korea
| | - Masaru Ohme-Takagi
- Graduate School of Science and Engineering, Saitama University, Sakura, Saitama 338-8570, Japan
| | - Giltsu Choi
- Department of Biological Sciences, KAIST, Daejeon 34141, Korea
| | - Choong-Ill Cheon
- Department of Biological Science, Sookmyung Women's University, Seoul 04310, Korea
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5
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Costa PS, Ferraz RLS, Dantas-Neto J, Martins VD, Viégas PRA, Meira KS, Ndhlala AR, Azevedo CAV, Melo AS. Seed priming with light quality and Cyperus rotundus L. extract modulate the germination and initial growth of Moringa oleifera Lam. seedlings. BRAZ J BIOL 2024; 84:e255836. [DOI: 10.1590/1519-6984.255836] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2021] [Accepted: 03/16/2022] [Indexed: 11/21/2022] Open
Abstract
Abstract Improving plant germination is essential to guarantee better quality seedlings. Thus, this research aimed to evaluate whether the seed priming with light quality (LIQ) and the aqueous extract of Cyperus rotundus (AEC) tuber could modulate the germination and initial growth of Moringa oleifera L. seedlings. The experimental design was a completely randomized in the 4x4 factorial scheme, composed of four LIQ conditions (white, blue, red, and distant red light) and four AEC concentrations (0, 25, 50 and 100%). Seed priming with red light reduced the average emergence time, while blue, red, and extreme red lights associated with 50% of aqueous extract of C. rotundus increased shoot initial length and photosynthetic pigment accumulation. Seed priming with blue light resulted in seedlings with a shorter final shoot length. However, application of 100% of aqueous extract of C. rotundus reversed this. The white light in combination with concentrations of 50 and 100% of AEC promoted a higher relative shoot growth rate of seedlings. The research revealed that seed priming with light quality and aqueous extracts of C. rotundus tubers modulates the germination and initial growth of M. oleifera seedlings. More work needs to be done to determine the responsible compounds in AEC that is responsible for priming growth as phytohormones.
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Affiliation(s)
- P. S. Costa
- Universidade Federal de Campina Grande, Brasil
| | | | | | | | | | | | | | | | - A. S. Melo
- Universidade Estadual da Paraíba, Brasil
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6
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Lee S, Huq E. Characterization of PIF4 Phosphorylation by SPA1. Methods Mol Biol 2024; 2795:161-167. [PMID: 38594537 DOI: 10.1007/978-1-0716-3814-9_16] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/11/2024]
Abstract
The PHYTOCHROME INTERACTING FACTORs (PIFs) play pivotal roles in regulating thermo- and photo-morphogenesis in Arabidopsis. One of the main hubs in thermomorphogenesis is PIF4, which regulates plant development under high ambient temperature along with other PIFs. PIF4 enhances its own transcription and PIF4 protein is stabilized under high ambient temperature. However, the mechanisms of thermo-stabilization of PIF4 are less understood. Recently, it was shown that SUPPRESSOR OF PHYA-105 1 (SPA1) can function as a serine/threonine kinase to phosphorylate PIF4 in vitro, and the phosphorylated form of PIF4 is more stable under high ambient temperature conditions. In this chapter, we describe the in vitro kinase assay of PIF4 by SPA1. In principle, this protocol can be applied for other putative substrates and kinases.
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Affiliation(s)
- Sanghwa Lee
- Department of Molecular Biosciences and The Institute for Cellular and Molecular Biology, The University of Texas at Austin, Austin, TX, USA
- Plant Molecular and Cellular Biology Laboratory, Salk Institute for Biological Studies, La Jolla, CA, USA
| | - Enamul Huq
- Department of Molecular Biosciences and The Institute for Cellular and Molecular Biology, The University of Texas at Austin, Austin, TX, USA.
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7
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Emenecker RJ, Cammarata J, Yuan I, Howard C, Ebrahimi Naghani S, Robert HS, Nambara E, Strader LC. Abscisic acid biosynthesis is necessary for full auxin effects on hypocotyl elongation. Development 2023; 150:dev202106. [PMID: 37846593 PMCID: PMC10730017 DOI: 10.1242/dev.202106] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2023] [Accepted: 10/07/2023] [Indexed: 10/18/2023]
Abstract
In concert with other phytohormones, auxin regulates plant growth and development. However, how auxin and other phytohormones coordinately regulate distinct processes is not fully understood. In this work, we uncover an auxin-abscisic acid (ABA) interaction module in Arabidopsis that is specific to coordinating activities of these hormones in the hypocotyl. From our forward genetics screen, we determine that ABA biosynthesis is required for the full effects of auxin on hypocotyl elongation. Our data also suggest that ABA biosynthesis is not required for the inhibitory effects of auxin treatment on root elongation. Our transcriptome analysis identified distinct auxin-responsive genes in root and shoot tissues, which is consistent with differential regulation of growth in these tissues. Further, our data suggest that many gene targets repressed upon auxin treatment require an intact ABA pathway for full repression. Our results support a model in which auxin stimulates ABA biosynthesis to fully regulate hypocotyl elongation.
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Affiliation(s)
- Ryan J. Emenecker
- Department of Biology, Washington University, St. Louis, MO 63130, USA
- Center for Biomolecular Condensates, Washington University, St. Louis, MO 63130, USA
- Center for Engineering Mechanobiology, Washington University, St. Louis, MO 63130, USA
| | | | - Irene Yuan
- Department of Biology, Washington University, St. Louis, MO 63130, USA
| | - Caroline Howard
- Department of Biology, Duke University, Durham, NC 27708, USA
| | - Shekufeh Ebrahimi Naghani
- Mendel Centre for Genomics and Proteomics of Plant Systems, CEITEC MU - Central European Institute of Technology, Masaryk University, 625 00 Brno, Czech Republic
- National Centre for Biomolecular Research, Faculty of Science, Masaryk University, 625 00 Brno, Czechia
| | - Helene S. Robert
- Mendel Centre for Genomics and Proteomics of Plant Systems, CEITEC MU - Central European Institute of Technology, Masaryk University, 625 00 Brno, Czech Republic
| | - Eiji Nambara
- Department of Cell & Systems Biology, University of Toronto, Toronto, ON M5S 3B2, Canada
| | - Lucia C. Strader
- Center for Biomolecular Condensates, Washington University, St. Louis, MO 63130, USA
- Center for Engineering Mechanobiology, Washington University, St. Louis, MO 63130, USA
- Department of Biology, Duke University, Durham, NC 27708, USA
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8
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Li X, Xi D, Gao L, Zhu H, Yang X, Song X, Zhang C, Miao L, Zhang D, Zhang Z, Hou X, Zhu Y, Wei M. Integrated Transcriptome and Proteome Analysis Revealed the Regulatory Mechanism of Hypocotyl Elongation in Pakchoi. Int J Mol Sci 2023; 24:13808. [PMID: 37762111 PMCID: PMC10531338 DOI: 10.3390/ijms241813808] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2023] [Revised: 09/02/2023] [Accepted: 09/05/2023] [Indexed: 09/29/2023] Open
Abstract
Hypocotyl length is a critical determinant for the efficiency of mechanical harvesting in pakchoi production, but the knowledge on the molecular regulation of hypocotyl growth is very limited. Here, we report a spontaneous mutant of pakchoi, lhy7.1, and identified its characteristics. We found that it has an elongated hypocotyl phenotype compared to the wild type caused by the longitudinal growth of hypocotyl cells. Different light quality treatments, transcriptome, and proteomic analyses were performed to reveal the molecular mechanisms of hypocotyl elongation. The data showed that the hypocotyl length of lhy7.1 was significantly longer than that of WT under red, blue, and white lights but there was no significant difference under dark conditions. Furthermore, we used transcriptome and label-free proteome analyses to investigate differences in gene and protein expression levels between lhy7.1 and WT. At the transcript level, 4568 differentially expressed genes (DEGs) were identified, which were mainly enriched in "plant hormone signal transduction", "photosynthesis", "photosynthesis-antenna proteins", and "carbon fixation in photosynthetic organisms" pathways. At the protein level, 1007 differentially expressed proteins (DEPs) were identified and were mainly enriched in photosynthesis-related pathways. The comprehensive transcriptome and proteome analyses revealed a regulatory network of hypocotyl elongation involving plant hormone signal transduction and photosynthesis-related pathways. The findings of this study help elucidate the regulatory mechanisms of hypocotyl elongation in lhy7.1.
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Affiliation(s)
- Xiaofeng Li
- State Key Laboratory of Crop Biology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai’an 271018, China;
- Shanghai Key Laboratory of Protected Horticultural Technology, Horticultural Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China; (D.X.); (L.G.); (H.Z.); (X.Y.); (L.M.); (D.Z.); (Z.Z.)
| | - Dandan Xi
- Shanghai Key Laboratory of Protected Horticultural Technology, Horticultural Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China; (D.X.); (L.G.); (H.Z.); (X.Y.); (L.M.); (D.Z.); (Z.Z.)
| | - Lu Gao
- Shanghai Key Laboratory of Protected Horticultural Technology, Horticultural Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China; (D.X.); (L.G.); (H.Z.); (X.Y.); (L.M.); (D.Z.); (Z.Z.)
| | - Hongfang Zhu
- Shanghai Key Laboratory of Protected Horticultural Technology, Horticultural Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China; (D.X.); (L.G.); (H.Z.); (X.Y.); (L.M.); (D.Z.); (Z.Z.)
| | - Xiuke Yang
- Shanghai Key Laboratory of Protected Horticultural Technology, Horticultural Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China; (D.X.); (L.G.); (H.Z.); (X.Y.); (L.M.); (D.Z.); (Z.Z.)
- College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China; (C.Z.); (X.H.)
| | - Xiaoming Song
- College of Life Sciences, North China University of Science and Technology, Tangshan 063210, China;
| | - Changwei Zhang
- College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China; (C.Z.); (X.H.)
| | - Liming Miao
- Shanghai Key Laboratory of Protected Horticultural Technology, Horticultural Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China; (D.X.); (L.G.); (H.Z.); (X.Y.); (L.M.); (D.Z.); (Z.Z.)
| | - Dingyu Zhang
- Shanghai Key Laboratory of Protected Horticultural Technology, Horticultural Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China; (D.X.); (L.G.); (H.Z.); (X.Y.); (L.M.); (D.Z.); (Z.Z.)
| | - Zhaohui Zhang
- Shanghai Key Laboratory of Protected Horticultural Technology, Horticultural Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China; (D.X.); (L.G.); (H.Z.); (X.Y.); (L.M.); (D.Z.); (Z.Z.)
| | - Xilin Hou
- College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China; (C.Z.); (X.H.)
| | - Yuying Zhu
- Shanghai Key Laboratory of Protected Horticultural Technology, Horticultural Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China; (D.X.); (L.G.); (H.Z.); (X.Y.); (L.M.); (D.Z.); (Z.Z.)
| | - Min Wei
- State Key Laboratory of Crop Biology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai’an 271018, China;
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9
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Gururani MA. Photobiotechnology for abiotic stress resilient crops: Recent advances and prospects. Heliyon 2023; 9:e20158. [PMID: 37810087 PMCID: PMC10559926 DOI: 10.1016/j.heliyon.2023.e20158] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2023] [Revised: 09/05/2023] [Accepted: 09/13/2023] [Indexed: 10/10/2023] Open
Abstract
Massive crop failures worldwide are caused by abiotic stress. In plants, adverse environmental conditions cause extensive damage to the overall physiology and agronomic yield at various levels. Phytochromes are photosensory phosphoproteins that absorb red (R)/far red (FR) light and play critical roles in different physiological and biochemical responses to light. Considering the role of phytochrome in essential plant developmental processes, genetically manipulating its expression offers a promising approach to crop improvement. Through modulated phytochrome-mediated signalling pathways, plants can become more resistant to environmental stresses by increasing photosynthetic efficiency, antioxidant activity, and expression of genes associated with stress resistance. Plant growth and development in adverse environments can be improved by understanding the roles of phytochromes in stress tolerance characteristics. A comprehensive overview of recent findings regarding the role of phytochromes in modulating abiotic stress by discussing biochemical and molecular aspects of these mechanisms of photoreceptors is offered in this review.
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Affiliation(s)
- Mayank Anand Gururani
- Biology Department, College of Science, UAE University, Al Ain, United Arab Emirates
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10
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Qiu X, Sun G, Liu F, Hu W. Functions of Plant Phytochrome Signaling Pathways in Adaptation to Diverse Stresses. Int J Mol Sci 2023; 24:13201. [PMID: 37686008 PMCID: PMC10487518 DOI: 10.3390/ijms241713201] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2023] [Revised: 08/22/2023] [Accepted: 08/23/2023] [Indexed: 09/10/2023] Open
Abstract
Phytochromes are receptors for red light (R)/far-red light (FR), which are not only involved in regulating the growth and development of plants but also in mediated resistance to various stresses. Studies have revealed that phytochrome signaling pathways play a crucial role in enabling plants to cope with abiotic stresses such as high/low temperatures, drought, high-intensity light, and salinity. Phytochromes and their components in light signaling pathways can also respond to biotic stresses caused by insect pests and microbial pathogens, thereby inducing plant resistance against them. Given that, this paper reviews recent advances in understanding the mechanisms of action of phytochromes in plant resistance to adversity and discusses the importance of modulating the genes involved in phytochrome signaling pathways to coordinate plant growth, development, and stress responses.
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Affiliation(s)
- Xue Qiu
- Lushan Botanical Garden, Jiangxi Province and Chinese Academy of Sciences, Jiujiang 332000, China; (X.Q.); (G.S.)
- School of Life Sciences, Nanchang University, Nanchang 330031, China
| | - Guanghua Sun
- Lushan Botanical Garden, Jiangxi Province and Chinese Academy of Sciences, Jiujiang 332000, China; (X.Q.); (G.S.)
| | - Fen Liu
- Lushan Botanical Garden, Jiangxi Province and Chinese Academy of Sciences, Jiujiang 332000, China; (X.Q.); (G.S.)
| | - Weiming Hu
- Lushan Botanical Garden, Jiangxi Province and Chinese Academy of Sciences, Jiujiang 332000, China; (X.Q.); (G.S.)
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11
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Ma L, Han R, Yang Y, Liu X, Li H, Zhao X, Li J, Fu H, Huo Y, Sun L, Yan Y, Zhang H, Li Z, Tian F, Li J, Guo Y. Phytochromes enhance SOS2-mediated PIF1 and PIF3 phosphorylation and degradation to promote Arabidopsis salt tolerance. Plant Cell 2023; 35:2997-3020. [PMID: 37119239 PMCID: PMC10396371 DOI: 10.1093/plcell/koad117] [Citation(s) in RCA: 19] [Impact Index Per Article: 19.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/19/2022] [Revised: 03/08/2023] [Accepted: 04/10/2023] [Indexed: 06/19/2023]
Abstract
Soil salinity is one of the most detrimental abiotic stresses affecting plant survival, and light is a core environmental signal regulating plant growth and responses to abiotic stress. However, how light modulates the plant's response to salt stress remains largely obscure. Here, we show that Arabidopsis (Arabidopsis thaliana) seedlings are more tolerant to salt stress in the light than in the dark, and that the photoreceptors phytochrome A (phyA) and phyB are involved in this tolerance mechanism. We further show that phyA and phyB physically interact with the salt tolerance regulator SALT OVERLY SENSITIVE2 (SOS2) in the cytosol and nucleus, and enhance salt-activated SOS2 kinase activity in the light. Moreover, SOS2 directly interacts with and phosphorylates PHYTOCHROME-INTERACTING FACTORS PIF1 and PIF3 in the nucleus. Accordingly, PIFs act as negative regulators of plant salt tolerance, and SOS2 phosphorylation of PIF1 and PIF3 decreases their stability and relieves their repressive effect on plant salt tolerance in both light and dark conditions. Together, our study demonstrates that photoactivated phyA and phyB promote plant salt tolerance by increasing SOS2-mediated phosphorylation and degradation of PIF1 and PIF3, thus broadening our understanding of how plants adapt to salt stress according to their dynamic light environment.
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Affiliation(s)
- Liang Ma
- State Key Laboratory of Plant Environmental Resilience (SKLPER), College of Biological Sciences, China Agricultural University, Beijing 100193, China
| | - Run Han
- State Key Laboratory of Plant Environmental Resilience (SKLPER), College of Biological Sciences, China Agricultural University, Beijing 100193, China
| | - Yongqing Yang
- State Key Laboratory of Plant Environmental Resilience (SKLPER), College of Biological Sciences, China Agricultural University, Beijing 100193, China
| | - Xiangning Liu
- State Key Laboratory of Plant Environmental Resilience (SKLPER), College of Biological Sciences, China Agricultural University, Beijing 100193, China
| | - Hong Li
- State Key Laboratory of Plant Environmental Resilience (SKLPER), College of Biological Sciences, China Agricultural University, Beijing 100193, China
| | - Xiaoyun Zhao
- State Key Laboratory of Plant Environmental Resilience (SKLPER), College of Biological Sciences, China Agricultural University, Beijing 100193, China
| | - Jianfang Li
- State Key Laboratory of Plant Environmental Resilience (SKLPER), College of Biological Sciences, China Agricultural University, Beijing 100193, China
| | - Haiqi Fu
- State Key Laboratory of Plant Environmental Resilience (SKLPER), College of Biological Sciences, China Agricultural University, Beijing 100193, China
| | - Yandan Huo
- State Key Laboratory of Plant Environmental Resilience (SKLPER), College of Biological Sciences, China Agricultural University, Beijing 100193, China
| | - Liping Sun
- State Key Laboratory of Plant Environmental Resilience (SKLPER), College of Biological Sciences, China Agricultural University, Beijing 100193, China
| | - Yan Yan
- State Key Laboratory of Plant Environmental Resilience (SKLPER), College of Biological Sciences, China Agricultural University, Beijing 100193, China
| | - Hongyan Zhang
- State Key Laboratory of Plant Environmental Resilience (SKLPER), College of Biological Sciences, China Agricultural University, Beijing 100193, China
| | - Zhen Li
- State Key Laboratory of Plant Environmental Resilience (SKLPER), College of Biological Sciences, China Agricultural University, Beijing 100193, China
| | - Feng Tian
- National Maize Improvement Center, Key Laboratory of Biology and Genetic Improvement of Maize (MOA), Beijing Key Laboratory of Crop Genetic Improvement, China Agricultural University, Beijing 100193, China
| | - Jigang Li
- State Key Laboratory of Plant Environmental Resilience (SKLPER), College of Biological Sciences, China Agricultural University, Beijing 100193, China
| | - Yan Guo
- State Key Laboratory of Plant Environmental Resilience (SKLPER), College of Biological Sciences, China Agricultural University, Beijing 100193, China
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Zhu Y, Zhang Q, Li Y, Pan Z, Liu C, Lin D, Gao J, Tang Z, Li Z, Wang R, Sun J. Role of Soil and Foliar-Applied Carbon Dots in Plant Iron Biofortification and Cadmium Mitigation by Triggering Opposite Iron Signaling in Roots. Small 2023; 19:e2301137. [PMID: 37119405 DOI: 10.1002/smll.202301137] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/08/2023] [Revised: 04/17/2023] [Indexed: 06/19/2023]
Abstract
In China, iron (Fe) availability is low in most soils but cadmium (Cd) generally exceeds regulatory soil pollution limits. Thus, biofortification of Fe along with mitigation of Cd in edible plant parts is important for human nutrition and health. Carbon dots (CDs) are considered as potential nanomaterials for agricultural applications. Here, Salvia miltiorrhiza-derived CDs are an efficient modulator of Fe, manganese (Mn), zinc (Zn), and Cd accumulation in plants. CDs irrigation (1 mg mL-1 , performed every week starting at the jointing stage for 12 weeks) increased Fe content by 18% but mitigated Cd accumulation by 20% in wheat grains. This finding was associated with the Fe3+ -mobilizing properties of CDs from the soil and root cell wall, as well as endocytosis-dependent internalization in roots. The resulting excess Fe signaling mitigated Cd uptake via inhibiting TaNRAMP5 expression. Foliar spraying of CDs enhanced Fe (44%), Mn (30%), and Zn (19%) content with an unchanged Cd accumulation in wheat grains. This result is attributed to CDs-enhanced light signaling, which triggered shoot-to-root Fe deficiency response. This study not only reveals the molecular mechanism underlying CDs modulation of Fe signaling in plants but also provides useful strategies for concurrent Fe biofortification and Cd mitigation in plant-based foods.
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Affiliation(s)
- Yixia Zhu
- Department of Plant Biology, School of Life Sciences, Jiangsu Normal University, Xuzhou, Jiangsu Province, 221116, China
| | - Qian Zhang
- Agro-Environmental Pollution Remediation Research Center, Agro-Environmental Protection Institute, Ministry of Agriculture and Rural Affairs, Tianjin, 300191, China
| | - Yanjuan Li
- Department of Plant Biology, School of Life Sciences, Jiangsu Normal University, Xuzhou, Jiangsu Province, 221116, China
| | - Zhiyuan Pan
- Department of Plant Biology, School of Life Sciences, Jiangsu Normal University, Xuzhou, Jiangsu Province, 221116, China
| | - Chong Liu
- Department of Plant Biology, School of Life Sciences, Jiangsu Normal University, Xuzhou, Jiangsu Province, 221116, China
| | - Dasong Lin
- Agro-Environmental Pollution Remediation Research Center, Agro-Environmental Protection Institute, Ministry of Agriculture and Rural Affairs, Tianjin, 300191, China
| | - Jia Gao
- Department of Plant Biology, School of Life Sciences, Jiangsu Normal University, Xuzhou, Jiangsu Province, 221116, China
| | - Zhonghou Tang
- Department of Sweetpotato Physiology Cultivation, Xuzhou Institute of Agricultural Sciences in Jiangsu Xuhuai District, Xuzhou, Jiangsu Province, 221122, China
| | - Zongyun Li
- Department of Plant Biology, School of Life Sciences, Jiangsu Normal University, Xuzhou, Jiangsu Province, 221116, China
| | - Ruigang Wang
- Agro-Environmental Pollution Remediation Research Center, Agro-Environmental Protection Institute, Ministry of Agriculture and Rural Affairs, Tianjin, 300191, China
| | - Jian Sun
- Department of Plant Biology, School of Life Sciences, Jiangsu Normal University, Xuzhou, Jiangsu Province, 221116, China
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Sharma A, Samtani H, Sahu K, Sharma AK, Khurana JP, Khurana P. Functions of Phytochrome-Interacting Factors (PIFs) in the regulation of plant growth and development: A comprehensive review. Int J Biol Macromol 2023:125234. [PMID: 37290549 DOI: 10.1016/j.ijbiomac.2023.125234] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2023] [Revised: 06/02/2023] [Accepted: 06/04/2023] [Indexed: 06/10/2023]
Abstract
Transcription factors play important roles in governing plant responses upon changes in their ambient conditions. Any fluctuation in the supply of critical requirements for plants, such as optimum light, temperature, and water leads to the reprogramming of gene-signaling pathways. At the same time, plants also evaluate and shift their metabolism according to the various stages of development. Phytochrome-Interacting Factors are one of the most important classes of transcription factors that regulate both developmental and external stimuli-based growth of plants. This review focuses on the identification of PIFs in various organisms, regulation of PIFs by various proteins, functions of PIFs of Arabidopsis in diverse developmental pathways such as seed germination, photomorphogenesis, flowering, senescence, seed and fruit development, and external stimuli-induced plant responses such as shade avoidance response, thermomorphogenesis, and various abiotic stress responses. Recent advances related to the functional characterization of PIFs of crops such as rice, maize, and tomato have also been incorporated in this review, to ascertain the potential of PIFs as key regulators to enhance the agronomic traits of these crops. Thus, an attempt has been made to provide a holistic view of the function of PIFs in various processes in plants.
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Affiliation(s)
- Aishwarye Sharma
- Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, New Delhi 110021, India
| | - Harsha Samtani
- Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, New Delhi 110021, India
| | - Karishma Sahu
- Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, New Delhi 110021, India
| | - Arun Kumar Sharma
- Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, New Delhi 110021, India
| | - Jitendra Paul Khurana
- Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, New Delhi 110021, India
| | - Paramjit Khurana
- Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, New Delhi 110021, India.
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Kim N, Jeong J, Kim J, Oh J, Choi G. Withdrawn as duplicate: Shade represses photosynthetic genes by disrupting the DNA binding of GOLDEN2-LIKE1. Plant Physiol 2023; 192:680. [PMID: 36756693 PMCID: PMC10152669 DOI: 10.1093/plphys/kiad055] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2022] [Revised: 12/09/2022] [Accepted: 12/12/2022] [Indexed: 05/03/2023]
Abstract
AbstractThis article has been withdrawn due to an error that caused the article to be duplicated. The definitive version of this article is published under DOI https://doi.org/10.1093/plphys/kiad029
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Affiliation(s)
- Namuk Kim
- Department of Biological Sciences, KAIST, Daejeon 34141, Korea
| | - Jinkil Jeong
- Department of Biological Sciences, KAIST, Daejeon 34141, Korea
| | - Jeongheon Kim
- Department of Biological Sciences, KAIST, Daejeon 34141, Korea
| | - Jeonghwa Oh
- Department of Biological Sciences, KAIST, Daejeon 34141, Korea
| | - Giltsu Choi
- Department of Biological Sciences, KAIST, Daejeon 34141, Korea
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15
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Wang L, Wu X, Xing Q, Zhao Y, Yu B, Ma Y, Wang F, Qi H. PIF8-WRKY42-mediated salicylic acid synthesis modulates red light induced powdery mildew resistance in oriental melon. Plant Cell Environ 2023; 46:1726-1742. [PMID: 36759948 DOI: 10.1111/pce.14560] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/06/2022] [Revised: 11/18/2022] [Accepted: 01/09/2023] [Indexed: 06/18/2023]
Abstract
Light signals and plant hormones are involved in regulating the growth, development and stress resistance of plants; however, it remains unclear whether light affects hormones and thus pathogen resistance in oriental melon. Here, we found that red light promoted salicylic acid (SA) accumulation and powdery mildew resistance by activating the transcription of CmICS, the key gene for SA biosynthesis, and silencing CmICS seriously weakened the induction effect of red light on powdery mildew resistance in oriental melon leaves. Further studies showed that red light induced the expression of CmWRKY42 under powdery mildew stress, and CmWRKY42 directly bound to the CmICS promoter to activate its expression and promote the accumulation of SA under red light. Furthermore, we found that PHYTOCHROME INTERACTING FACTOR 8 (PIF8), as a negative regulator of SA biosynthesis, inhibits CmWRKY42 transcriptional activation by binding to the CmWRKY42 promoter, and thus inhibits transcriptional activation of CmICS by CmWRKY42. Also, CmPIF8 binds to the CmICS promoter and directly inhibits its transcription. In conclusion, our study revealed a new molecular mechanism of the relationship between red light-SA-powdery mildew resistance and provided a theoretical basis for resistance breeding of oriental melon.
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Affiliation(s)
- Lixia Wang
- College of Horticulture, Shenyang Agricultural University, Shenyang, China
- Key Laboratory of Protected Horticulture of Education of Ministry and Liaoning Province/National & Local Joint Engineering Research Center of Northern Horticultural Facilities Design & Application Technology, Shenyang, China
| | - Xutong Wu
- College of Horticulture, Shenyang Agricultural University, Shenyang, China
- Key Laboratory of Protected Horticulture of Education of Ministry and Liaoning Province/National & Local Joint Engineering Research Center of Northern Horticultural Facilities Design & Application Technology, Shenyang, China
| | - Qiaojuan Xing
- College of Horticulture, Shenyang Agricultural University, Shenyang, China
| | - Yaping Zhao
- College of Horticulture, Shenyang Agricultural University, Shenyang, China
- Key Laboratory of Protected Horticulture of Education of Ministry and Liaoning Province/National & Local Joint Engineering Research Center of Northern Horticultural Facilities Design & Application Technology, Shenyang, China
| | - Bo Yu
- College of Horticulture, Shenyang Agricultural University, Shenyang, China
| | - Yue Ma
- College of Horticulture, Shenyang Agricultural University, Shenyang, China
| | - Feng Wang
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
| | - Hongyan Qi
- College of Horticulture, Shenyang Agricultural University, Shenyang, China
- Key Laboratory of Protected Horticulture of Education of Ministry and Liaoning Province/National & Local Joint Engineering Research Center of Northern Horticultural Facilities Design & Application Technology, Shenyang, China
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Kim N, Jeong J, Kim J, Oh J, Choi G. Shade represses photosynthetic genes by disrupting the DNA binding of GOLDEN2-LIKE1. Plant Physiol 2023; 191:2334-2352. [PMID: 36702576 PMCID: PMC10069884 DOI: 10.1093/plphys/kiad029] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2022] [Accepted: 12/12/2022] [Indexed: 06/18/2023]
Abstract
PHYTOCHROME-INTERACTING FACTORs (PIFs) repress photosynthetic genes partly by upregulating REPRESSOR OF PHOTOSYNTHETIC GENES 1 (RPGE1) and RPGE2. However, it is unknown how RPGEs inhibit gene expression at the molecular level. Here, we show that Arabidopsis (Arabidopsis thaliana) RPGE overexpression lines display extensive similarities to the golden2-like 1 (glk1)/glk2 double mutant at the phenotypic and transcriptomic levels, prompting us to hypothesize that there is a close molecular relationship between RPGEs and chloroplast development-regulating GLK transcription factors. Indeed, we found that RPGE1 disrupts the homodimerization of GLK1 by interacting with its dimerization domain and debilitates the DNA-binding activity of GLK1. The interaction was not restricted to the Arabidopsis RPGE1-GLK1 pair, but rather extended to RPGE-GLK homolog pairs across species, providing a molecular basis for the pale green leaves of Arabidopsis transgenic lines expressing a rice (Oryza sativa) RPGE homolog. Our discovery of RPGE-GLK regulatory pairs suggests that any condition leading to an increase in RPGE levels would decrease the expression levels of GLK target genes. Consistently, we found that shade, which upregulates the RPGE mRNA by stabilizing PIFs, represses the expression of photosynthetic genes partly by inhibiting the DNA-binding activity of GLK1. Taken together, these results indicate that RPGE-GLK regulatory pairs regulate photosynthetic gene expression downstream of PIFs.
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Affiliation(s)
- Namuk Kim
- Department of Biological Sciences, KAIST, Daejeon 34141, Korea
| | - Jinkil Jeong
- Department of Biological Sciences, KAIST, Daejeon 34141, Korea
| | - Jeongheon Kim
- Department of Biological Sciences, KAIST, Daejeon 34141, Korea
| | - Jeonghwa Oh
- Department of Biological Sciences, KAIST, Daejeon 34141, Korea
| | - Giltsu Choi
- Department of Biological Sciences, KAIST, Daejeon 34141, Korea
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Hu L, Zhang M, Shang J, Liu Z, Weng Y, Yue H, Li Y, Chen P. A 5.5-kb LTR-retrotransposon insertion inside phytochrome B gene (CsPHYB) results in long hypocotyl and early flowering in cucumber (Cucumis sativus L.). Theor Appl Genet 2023; 136:68. [PMID: 36952021 DOI: 10.1007/s00122-023-04271-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/13/2022] [Accepted: 01/02/2023] [Indexed: 06/18/2023]
Abstract
The novel spontaneous long hypocotyl and early flowering (lhef) mutation in cucumber is due to a 5551-bp LTR-retrotransposon insertion in CsPHYB gene encoding PHYTOCHROME B, which plays a major role in regulating photomorphogenic hypocotyl growth and flowering. Hypocotyl length and flowering time are important for establishing high-quality seedlings in modern cucumber production, but little is known for the underlying molecular mechanisms of these two traits. In this study, a spontaneous cucumber long hypocotyl and early flowering mutant was identified and characterized. Based on multiple lines of evidence, we show that cucumber phytochrome B (CsPHYB) is the candidate gene for this mutation, and a 5551-bp LTR-retrotransposon insertion in the first exon of CsPHYB was responsible for the mutant phenotypes. Uniqueness of the mutant allele at CsPHYB was verified in 114 natural cucumber lines. Ectopic expression of the CsPHYB in Arabidopsis phyB mutant rescued the long hypocotyl and early flowering phenotype of phyB-9 mutant. The wild-type CsPHYB protein was localized on the membrane and cytoplasm under white light condition, whereas in the nucleus under red light, it is consistent with its roles as a red-light photoreceptor in Arabidopsis. However, the mutant csphyb protein was localized on the membrane and cytoplasm under both white and red-light conditions. Expression dynamics of CsPHYB and several cell elongation-related genes were positively correlated with hypocotyl elongation; the transcription levels of key positive and negative regulators for flowering time were also consistent with the anthesis dates in the mutant and wild-type plants. Yeast two hybrid and bimolecular fluorescence complementation assays identified physical interactions between CsPHYB and phytochrome interacting factor 3/4 (CsPIF3/4). These findings will provide new insights into the roles of the CsPHYB in cucumber hypocotyl growth and flowering time.
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Affiliation(s)
- Liangliang Hu
- College of Horticulture, Northwest A&F University, Yangling, 712100, Shaanxi, China
| | - Miaomiao Zhang
- College of Horticulture, Northwest A&F University, Yangling, 712100, Shaanxi, China
| | - Jingjing Shang
- College of Life Science, Northwest A&F University, Yangling, 712100, Shaanxi, China
| | - Zichen Liu
- College of Horticulture, Northwest A&F University, Yangling, 712100, Shaanxi, China
| | - Yiqun Weng
- Horticulture Department, USDA-ARS Vegetable Crops Research Unit, University of Wisconsin, Madison, WI, 53706, USA
| | - Hongzhong Yue
- Vegetable Research Institute, Gansu Academy of Agricultural Sciences, Lanzhou, 730070, Gansu, China
| | - Yuhong Li
- College of Horticulture, Northwest A&F University, Yangling, 712100, Shaanxi, China.
| | - Peng Chen
- College of Life Science, Northwest A&F University, Yangling, 712100, Shaanxi, China.
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Li X, Li J, Su H, Sun P, Zhang Z, Li M, Xing H. Physiological and Transcriptional Responses of Apocynum venetum to Salt Stress at the Seed Germination Stage. Int J Mol Sci 2023; 24. [PMID: 36835035 DOI: 10.3390/ijms24043623] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2023] [Revised: 02/09/2023] [Accepted: 02/09/2023] [Indexed: 02/15/2023] Open
Abstract
Apocynum venetum is a semi-shrubby perennial herb that not only prevents saline-alkaline land degradation but also produces leaves for medicinal uses. Although physiological changes during the seed germination of A. venetum in response to salt stress have been studied, the adaptive mechanism to salt conditions is still limited. Here, the physiological and transcriptional changes during seed germination under different NaCl treatments (0-300 mmol/L) were examined. The results showed that the seed germination rate was promoted at low NaCl concentrations (0-50 mmol/L) and inhibited with increased concentrations (100-300 mmol/L); the activity of antioxidant enzymes exhibited a significant increase from 0 (CK) to 150 mmol/L NaCl and a significant decrease from 150 to 300 mmol/L; and the content of osmolytes exhibited a significant increase with increased concentrations, while the protein content peaked at 100 mmol/L NaCl and then significantly decreased. A total of 1967 differentially expressed genes (DEGs) were generated during seed germination at 300 mmol/L NaCl versus (vs.) CK, with 1487 characterized genes (1293 up-regulated, UR; 194 down-regulated, DR) classified into 11 categories, including salt stress (29), stress response (146), primary metabolism (287), cell morphogenesis (156), transcription factor (TFs, 62), bio-signaling (173), transport (144), photosynthesis and energy (125), secondary metabolism (58), polynucleotide metabolism (21), and translation (286). The relative expression levels (RELs) of selected genes directly involved in salt stress and seed germination were observed to be consistent with the changes in antioxidant enzyme activities and osmolyte contents. These findings will provide useful references to improve seed germination and reveal the adaptive mechanism of A. venetum to saline-alkaline soils.
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Choi DM, Kim SH, Han YJ, Kim JI. Regulation of Plant Photoresponses by Protein Kinase Activity of Phytochrome A. Int J Mol Sci 2023; 24:ijms24032110. [PMID: 36768431 PMCID: PMC9916439 DOI: 10.3390/ijms24032110] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2022] [Revised: 01/17/2023] [Accepted: 01/18/2023] [Indexed: 01/25/2023] Open
Abstract
Extensive research has been conducted for decades to elucidate the molecular and regulatory mechanisms for phytochrome-mediated light signaling in plants. As a result, tens of downstream signaling components that physically interact with phytochromes are identified, among which negative transcription factors for photomorphogenesis, PHYTOCHROME-INTERACTING FACTORs (PIFs), are well known to be regulated by phytochromes. In addition, phytochromes are also shown to inactivate an important E3 ligase complex consisting of CONSTITUTIVELY PHOTOMORPHOGENIC 1 (COP1) and SUPPRESSORs OF phyA-105 (SPAs). This inactivation induces the accumulation of positive transcription factors for plant photomorphogenesis, such as ELONGATED HYPOCOTYL 5 (HY5). Although many downstream components of phytochrome signaling have been studied thus far, it is not fully elucidated which intrinsic activity of phytochromes is necessary for the regulation of these components. It should be noted that phytochromes are autophosphorylating protein kinases. Recently, the protein kinase activity of phytochrome A (phyA) has shown to be important for its function in plant light signaling using Avena sativa phyA mutants with reduced or increased kinase activity. In this review, we highlight the function of phyA as a protein kinase to explain the regulation of plant photoresponses by phyA.
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Affiliation(s)
- Da-Min Choi
- Department of Integrative Food, Bioscience and Biotechnology, Chonnam National University, Gwangju 61186, Republic of Korea
| | - Seong-Hyeon Kim
- Department of Integrative Food, Bioscience and Biotechnology, Chonnam National University, Gwangju 61186, Republic of Korea
| | - Yun-Jeong Han
- Kumho Life Science Laboratory, Chonnam National University, Gwangju 61186, Republic of Korea
| | - Jeong-Il Kim
- Department of Integrative Food, Bioscience and Biotechnology, Chonnam National University, Gwangju 61186, Republic of Korea
- Kumho Life Science Laboratory, Chonnam National University, Gwangju 61186, Republic of Korea
- Correspondence:
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Zhou Z, Windhorst A, Schenke D, Cai D. RNAseq-Based Working Model for Transcriptional Regulation of Crosstalk between Simultaneous Abiotic UV-B and Biotic Stresses in Plants. Genes (Basel) 2023; 14. [PMID: 36833168 DOI: 10.3390/genes14020240] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2022] [Revised: 01/10/2023] [Accepted: 01/14/2023] [Indexed: 01/18/2023] Open
Abstract
Plants adjust their secondary metabolism by altering the expression of corresponding genes to cope with both abiotic and biotic stresses. In the case of UV-B radiation, plants produce protective flavonoids; however, this reaction is impeded during pattern-triggered immunity (PTI) induced by pathogens. Pathogen attack can be mimicked by the application of microbial associated molecular patterns (e.g., flg22) to study crosstalk between PTI and UV-B-induced signaling pathways. Switching from Arabidopsis cell cultures to in planta studies, we analyzed whole transcriptome changes to gain a deeper insight into crosstalk regulation. We performed a comparative transcriptomic analysis by RNAseq with four distinct mRNA libraries and identified 10778, 13620, and 11294 genes, which were differentially expressed after flg22, UV-B, and stress co-treatment, respectively. Focusing on genes being either co-regulated with the UV-B inducible marker gene chalcone synthase CHS or the flg22 inducible marker gene FRK1 identified a large set of transcription factors from diverse families, such as MYB, WRKY, or NAC. These data provide a global view of transcriptomic reprogramming during this crosstalk and constitute a valuable dataset for further deciphering the underlying regulatory mechanism(s), which appear to be much more complex than previously anticipated. The possible involvement of MBW complexes in this context is discussed.
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Sun G, Yang L, Zhan W, Chen S, Song M, Wang L, Jiang L, Guo L, Wang K, Ye X, Gou M, Zheng X, Yang J, Yan Z. HFR1, a bHLH Transcriptional Regulator from Arabidopsis thaliana, Improves Grain Yield, Shade and Osmotic Stress Tolerances in Common Wheat. Int J Mol Sci 2022; 23:ijms231912057. [PMID: 36233359 PMCID: PMC9569703 DOI: 10.3390/ijms231912057] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2022] [Revised: 09/30/2022] [Accepted: 10/04/2022] [Indexed: 11/16/2022] Open
Abstract
Common wheat, Triticum aestivum, is the most widely grown staple crop worldwide. To catch up with the increasing global population and cope with the changing climate, it is valuable to breed wheat cultivars that are tolerant to abiotic or shade stresses for density farming. Arabidopsis LONG HYPOCOTYL IN FAR-RED 1 (AtHFR1), a photomorphogenesis-promoting factor, is involved in multiple light-related signaling pathways and inhibits seedling etiolation and shade avoidance. We report that overexpression of AtHFR1 in wheat inhibits etiolation phenotypes under various light and shade conditions, leading to shortened plant height and increased spike number relative to non-transgenic plants in the field. Ectopic expression of AtHFR1 in wheat increases the transcript levels of TaCAB and TaCHS as observed previously in Arabidopsis, indicating that the AtHFR1 transgene can activate the light signal transduction pathway in wheat. AtHFR1 transgenic seedlings significantly exhibit tolerance to osmotic stress during seed germination compared to non-transgenic wheat. The AtHFR1 transgene represses transcription of TaFT1, TaCO1, and TaCO2, delaying development of the shoot apex and heading in wheat. Furthermore, the AtHFR1 transgene in wheat inhibits transcript levels of PHYTOCHROME-INTERACTING FACTOR 3-LIKEs (TaPIL13, TaPIL15-1B, and TaPIL15-1D), downregulating the target gene STAYGREEN (TaSGR), and thus delaying dark-induced leaf senescence. In the field, grain yields of three AtHFR1 transgenic lines were 18.2–48.1% higher than those of non-transgenic wheat. In summary, genetic modification of light signaling pathways using a photomorphogenesis-promoting factor has positive effects on grain yield due to changes in plant architecture and resource allocation and enhances tolerances to osmotic stress and shade avoidance response.
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Affiliation(s)
- Guanghua Sun
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu 611130, China
- State Key Laboratory of Wheat and Maize Crop Science, Center for Crop Genome Engineering, Longzi Lake Campus, College of Agronomy, Henan Agricultural University, Zhengzhou 450046, China
| | - Luhao Yang
- State Key Laboratory of Wheat and Maize Crop Science, Center for Crop Genome Engineering, Longzi Lake Campus, College of Agronomy, Henan Agricultural University, Zhengzhou 450046, China
| | - Weimin Zhan
- State Key Laboratory of Wheat and Maize Crop Science, Center for Crop Genome Engineering, Longzi Lake Campus, College of Agronomy, Henan Agricultural University, Zhengzhou 450046, China
| | - Shizhan Chen
- State Key Laboratory of Wheat and Maize Crop Science, Center for Crop Genome Engineering, Longzi Lake Campus, College of Agronomy, Henan Agricultural University, Zhengzhou 450046, China
| | - Meifang Song
- Institute of Radiation Technology, Beijing Academy of Science and Technology, Beijing 100875, China
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Lijian Wang
- State Key Laboratory of Wheat and Maize Crop Science, Center for Crop Genome Engineering, Longzi Lake Campus, College of Agronomy, Henan Agricultural University, Zhengzhou 450046, China
| | - Liangliang Jiang
- State Key Laboratory of Wheat and Maize Crop Science, Center for Crop Genome Engineering, Longzi Lake Campus, College of Agronomy, Henan Agricultural University, Zhengzhou 450046, China
| | - Lin Guo
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Ke Wang
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Xingguo Ye
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Mingyue Gou
- State Key Laboratory of Wheat and Maize Crop Science, Center for Crop Genome Engineering, Longzi Lake Campus, College of Agronomy, Henan Agricultural University, Zhengzhou 450046, China
| | - Xu Zheng
- State Key Laboratory of Wheat and Maize Crop Science, Center for Crop Genome Engineering, Longzi Lake Campus, College of Agronomy, Henan Agricultural University, Zhengzhou 450046, China
| | - Jianping Yang
- State Key Laboratory of Wheat and Maize Crop Science, Center for Crop Genome Engineering, Longzi Lake Campus, College of Agronomy, Henan Agricultural University, Zhengzhou 450046, China
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
- Correspondence: (J.Y.); (Z.Y.)
| | - Zehong Yan
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu 611130, China
- Correspondence: (J.Y.); (Z.Y.)
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Zhou LJ, Wang Y, Wang Y, Song A, Jiang J, Chen S, Ding B, Guan Z, Chen F. Transcription factor CmbHLH16 regulates petal anthocyanin homeostasis under different lights in Chrysanthemum. Plant Physiol 2022; 190:1134-1152. [PMID: 35876821 PMCID: PMC9516746 DOI: 10.1093/plphys/kiac342] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/19/2022] [Accepted: 06/30/2022] [Indexed: 05/14/2023]
Abstract
Light is essential to plant survival and elicits a wide range of plant developmental and physiological responses under different light conditions. A low red-to-far red (R/FR) light ratio induces shade-avoidance responses, including decreased anthocyanin accumulation, whereas a high R/FR light ratio promotes anthocyanin biosynthesis. However, the detailed molecular mechanism underpinning how different R/FR light ratios regulate anthocyanin homeostasis remains elusive, especially in non-model species. Here, we demonstrate that a low R/FR light ratio induced the expression of CmMYB4, which suppressed the anthocyanin activator complex CmMYB6-CmbHLH2, leading to the reduction of anthocyanin accumulation in Chrysanthemum (Chrysanthemum morifolium) petals. Specifically, CmMYB4 recruited the corepressor CmTPL (TOPLESS) to directly bind the CmbHLH2 promoter and suppressed its transcription by impairing histone H3 acetylation. Moreover, the low R/FR light ratio inhibited the PHYTOCHROME INTERACTING FACTOR family transcription factor CmbHLH16, which can competitively bind to CmMYB4 and destabilize the CmMYB4-CmTPL protein complex. Under the high R/FR light ratio, CmbHLH16 was upregulated, which impeded the formation of the CmMYB4-CmTPL complex and released the suppression of CmbHLH2, thus promoting anthocyanin accumulation in Chrysanthemum petals. Our findings reveal a mechanism by which different R/FR light ratios fine-tune anthocyanin homeostasis in flower petals.
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Affiliation(s)
| | | | - Yiguang Wang
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Key Laboratory of Landscaping, Ministry of Agriculture and Rural Affairs, Key Laboratory of Biology of Ornamental Plants in East China, National Forestry and Grassland Administration, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China
| | - Aiping Song
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Key Laboratory of Landscaping, Ministry of Agriculture and Rural Affairs, Key Laboratory of Biology of Ornamental Plants in East China, National Forestry and Grassland Administration, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China
| | - Jiafu Jiang
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Key Laboratory of Landscaping, Ministry of Agriculture and Rural Affairs, Key Laboratory of Biology of Ornamental Plants in East China, National Forestry and Grassland Administration, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China
| | - Sumei Chen
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Key Laboratory of Landscaping, Ministry of Agriculture and Rural Affairs, Key Laboratory of Biology of Ornamental Plants in East China, National Forestry and Grassland Administration, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China
| | - Baoqing Ding
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Key Laboratory of Landscaping, Ministry of Agriculture and Rural Affairs, Key Laboratory of Biology of Ornamental Plants in East China, National Forestry and Grassland Administration, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China
| | - Zhiyong Guan
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Key Laboratory of Landscaping, Ministry of Agriculture and Rural Affairs, Key Laboratory of Biology of Ornamental Plants in East China, National Forestry and Grassland Administration, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China
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23
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Li Z, Luo X, Wang L, Shu K. ABSCISIC ACID INSENSITIVE 5 mediates light-ABA/gibberellin crosstalk networks during seed germination. J Exp Bot 2022; 73:4674-4682. [PMID: 35522989 DOI: 10.1093/jxb/erac200] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/13/2022] [Accepted: 05/05/2022] [Indexed: 06/14/2023]
Abstract
Appropriate timing of seed germination is crucial for plant survival and has important implications for agricultural production. Timely germination relies on harmonious interactions between endogenous developmental signals, especially abscisic acid (ABA) and gibberellins (GAs), and environmental cues such as light. Recently, a series of investigations of a three-way crosstalk between phytochromes, ABA, and GAs in the regulation of seed germination demonstrated that the transcription factor ABSCISIC ACID INSENSITIVE 5 (ABI5) is a central mediator in the light-ABA/GA cascades. Here, we review current knowledge of ABI5 as a key player in light-, ABA-, and GA-signaling pathways that precisely control seed germination. We highlight recent advances in ABI5-related studies, focusing on the regulation of seed germination, which is strictly controlled at both the transcriptional and the protein levels by numerous light-regulated factors. We further discuss the components of ABA and GA signaling pathways that could regulate ABI5 during seed germination, including transcription factors, E3 ligases, protein kinases, and phosphatases. The precise molecular mechanisms by which ABI5 mediates ABA-GA antagonistic crosstalk during seed germination are also discussed. Finally, some potential research hotspots underlying ABI5-mediated seed germination regulatory networks are proposed.
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Affiliation(s)
- Zenglin Li
- School of Ecology and Environment, Northwestern Polytechnical University, Xi'an, 710012, China
- Institute of Biology II, Faculty of Biology, University of Freiburg, Freiburg, Germany
| | - Xiaofeng Luo
- School of Ecology and Environment, Northwestern Polytechnical University, Xi'an, 710012, China
| | - Lei Wang
- School of Ecology and Environment, Northwestern Polytechnical University, Xi'an, 710012, China
| | - Kai Shu
- School of Ecology and Environment, Northwestern Polytechnical University, Xi'an, 710012, China
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24
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Costigliolo Rojas C, Bianchimano L, Oh J, Romero Montepaone S, Tarkowská D, Minguet EG, Schön J, García Hourquet M, Flugel T, Blázquez MA, Choi G, Strnad M, Mora-García S, Alabadi D, Zurbriggen MD, Casal JJ. Organ-specific COP1 control of BES1 stability adjusts plant growth patterns under shade or warmth. Dev Cell 2022; 57:2009-2025.e6. [PMID: 35901789 DOI: 10.1016/j.devcel.2022.07.003] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2021] [Revised: 02/16/2022] [Accepted: 07/05/2022] [Indexed: 11/18/2022]
Abstract
Under adverse conditions such as shade or elevated temperatures, cotyledon expansion is reduced and hypocotyl growth is promoted to optimize plant architecture. The mechanisms underlying the repression of cotyledon cell expansion remain unknown. Here, we report that the nuclear abundance of the BES1 transcription factor decreased in the cotyledons and increased in the hypocotyl in Arabidopsis thaliana under shade or warmth. Brassinosteroid levels did not follow the same trend. PIF4 and COP1 increased their nuclear abundance in both organs under shade or warmth. PIF4 directly bound the BES1 promoter to enhance its activity but indirectly reduced BES1 expression. COP1 physically interacted with the BES1 protein, promoting its proteasome degradation in the cotyledons. COP1 had the opposite effect in the hypocotyl, demonstrating organ-specific regulatory networks. Our work indicates that shade or warmth reduces BES1 activity by transcriptional and post-translational regulation to inhibit cotyledon cell expansion.
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Affiliation(s)
- Cecilia Costigliolo Rojas
- Fundaciόn Instituto Leloir, Instituto de Investigaciones Bioquímicas de Buenos Aires, Consejo Nacional de Investigaciones Científicas y Técnicas, 1405 Buenos Aires, Argentina
| | - Luciana Bianchimano
- Fundaciόn Instituto Leloir, Instituto de Investigaciones Bioquímicas de Buenos Aires, Consejo Nacional de Investigaciones Científicas y Técnicas, 1405 Buenos Aires, Argentina
| | - Jeonghwa Oh
- Department of Biological Sciences, Korea Advanced Institute of Science and Technology, Daejeon 34141, South Korea
| | - Sofía Romero Montepaone
- Institute of Synthetic Biology and Cluster of Excellence in Plant Sciences, University of Düsseldorf, 40225 Düsseldorf, Germany
| | - Dana Tarkowská
- Laboratory of Growth Regulators, Palacký University and Institute of Experimental Botany, Czech Academy of Sciences, Olomouc, Czech Republic
| | - Eugenio G Minguet
- Instituto de Biologίa Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas, Universidad Politécnica de Valencia, 46022 Valencia, Spain
| | - Jonas Schön
- Institute of Synthetic Biology and Cluster of Excellence in Plant Sciences, University of Düsseldorf, 40225 Düsseldorf, Germany
| | - Mariano García Hourquet
- Fundaciόn Instituto Leloir, Instituto de Investigaciones Bioquímicas de Buenos Aires, Consejo Nacional de Investigaciones Científicas y Técnicas, 1405 Buenos Aires, Argentina
| | - Timo Flugel
- Fundaciόn Instituto Leloir, Instituto de Investigaciones Bioquímicas de Buenos Aires, Consejo Nacional de Investigaciones Científicas y Técnicas, 1405 Buenos Aires, Argentina
| | - Miguel A Blázquez
- Instituto de Biologίa Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas, Universidad Politécnica de Valencia, 46022 Valencia, Spain
| | - Giltsu Choi
- Department of Biological Sciences, Korea Advanced Institute of Science and Technology, Daejeon 34141, South Korea
| | - Miroslav Strnad
- Laboratory of Growth Regulators, Palacký University and Institute of Experimental Botany, Czech Academy of Sciences, Olomouc, Czech Republic
| | - Santiago Mora-García
- Fundaciόn Instituto Leloir, Instituto de Investigaciones Bioquímicas de Buenos Aires, Consejo Nacional de Investigaciones Científicas y Técnicas, 1405 Buenos Aires, Argentina
| | - David Alabadi
- Instituto de Biologίa Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas, Universidad Politécnica de Valencia, 46022 Valencia, Spain
| | - Matias D Zurbriggen
- Institute of Synthetic Biology and Cluster of Excellence in Plant Sciences, University of Düsseldorf, 40225 Düsseldorf, Germany
| | - Jorge J Casal
- Fundaciόn Instituto Leloir, Instituto de Investigaciones Bioquímicas de Buenos Aires, Consejo Nacional de Investigaciones Científicas y Técnicas, 1405 Buenos Aires, Argentina; Instituto de Investigaciones Fisiológicas y Ecológicas Vinculadas a la Agricultura, Facultad de Agronomía, Universidad de Buenos Aires, Consejo Nacional de Investigaciones Científicas y Técnicas, 1417 Buenos Aires, Argentina.
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25
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Cordeiro AM, Andrade L, Monteiro CC, Leitão G, Wigge PA, Saibo NJM. PHYTOCHROME-INTERACTING FACTORS: a promising tool to improve crop productivity. J Exp Bot 2022; 73:3881-3897. [PMID: 35429385 DOI: 10.1093/jxb/erac142] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/14/2021] [Accepted: 04/14/2022] [Indexed: 06/14/2023]
Abstract
Light is a key determinant for plant growth, development, and ultimately yield. Phytochromes, red/far-red photoreceptors, play an important role in plant architecture, stress tolerance, and productivity. In the model plant Arabidopsis, it has been shown that PHYTOCHROME-INTERACTING FACTORS (PIFs; bHLH transcription factors) act as central hubs in the integration of external stimuli to regulate plant development. Recent studies have unveiled the importance of PIFs in crops. They are involved in the modulation of plant architecture and productivity through the regulation of cell division and elongation in response to different environmental cues. These studies show that different PIFs have overlapping but also distinct functions in the regulation of plant growth. Therefore, understanding the molecular mechanisms by which PIFs regulate plant development is crucial to improve crop productivity under both optimal and adverse environmental conditions. In this review, we discuss current knowledge of PIFs acting as integrators of light and other signals in different crops, with particular focus on the role of PIFs in responding to different environmental conditions and how this can be used to improve crop productivity.
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Affiliation(s)
- André M Cordeiro
- Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa, Av. da República, 2780-157 Oeiras, Portugal
| | - Luis Andrade
- Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa, Av. da República, 2780-157 Oeiras, Portugal
- Leibniz-Institut für Gemüse- und Zierpflanzenbau, Theodor-Echtermeyer-Weg 1, 14979 Großbeeren, Germany
| | - Catarina C Monteiro
- Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa, Av. da República, 2780-157 Oeiras, Portugal
| | - Guilherme Leitão
- Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa, Av. da República, 2780-157 Oeiras, Portugal
| | - Philip A Wigge
- Leibniz-Institut für Gemüse- und Zierpflanzenbau, Theodor-Echtermeyer-Weg 1, 14979 Großbeeren, Germany
- Institute of Biochemistry and Biology, University of Potsdam, 14476 Potsdam, Germany
| | - Nelson J M Saibo
- Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa, Av. da República, 2780-157 Oeiras, Portugal
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26
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Sun PW, Gao ZH, Lv FF, Yu CC, Jin Y, Xu YH, Wei JH. Genome-wide analysis of basic helix-loop-helix (bHLH) transcription factors in Aquilaria sinensis. Sci Rep 2022; 12:7194. [PMID: 35505005 PMCID: PMC9065063 DOI: 10.1038/s41598-022-10785-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2021] [Accepted: 04/11/2022] [Indexed: 11/09/2022] Open
Abstract
The basic helix-loop-helix (bHLH) transcription factors are involved in several biological processes both in plant development and stress responses. Agarwood, a major active and economical product, is only induced and accumulated when the roots, stems, or branches are wounded in Aquilaria sinensis. Although genome-wide comprehensive analyses of the bHLH family have been identified in many plants, no systematic study of the genes in this family has been conducted in A. sinensis. In this study, 105 bHLH genes were identified in A. sinensis through genome-wide analysis and named according to their chromosomal locations. Based on a phylogenetic tree, AsbHLH family proteins were classified into 18 subfamilies. Most of them were distributed on eight chromosomes, with the exception of two genes. Based on the tissue-specific expression characteristics and expression patterns in response to methyl jasmonate (MeJA) treatment, seven AsbHLH genes were likely involved in wound-induced agarwood formation. The results provide comprehensive information on AsbHLHs that can be used to elucidate the molecular functions and physiological roles of these proteins in A. sinensis.
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Affiliation(s)
- Pei-Wen Sun
- Key Laboratory of Bioactive Substances and Resources Utilization of Chinese Herbal Medicine, Ministry of Education and National Engineering Laboratory for Breeding of Endangered Medicinal Materials, Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100193, China
| | - Zhi-Hui Gao
- Key Laboratory of Bioactive Substances and Resources Utilization of Chinese Herbal Medicine, Ministry of Education and National Engineering Laboratory for Breeding of Endangered Medicinal Materials, Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100193, China
| | - Fei-Fei Lv
- Hainan Provincial Key Laboratory of Resources Conservation and Development of Southern Medicine and Key Laboratory of State Administration of Traditional Chinese Medicine for Agarwood Sustainable Utilization, Hainan Branch of the Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Haikou, 570311, China
| | - Cui-Cui Yu
- Key Laboratory of Bioactive Substances and Resources Utilization of Chinese Herbal Medicine, Ministry of Education and National Engineering Laboratory for Breeding of Endangered Medicinal Materials, Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100193, China
| | - Yue Jin
- Key Laboratory of Bioactive Substances and Resources Utilization of Chinese Herbal Medicine, Ministry of Education and National Engineering Laboratory for Breeding of Endangered Medicinal Materials, Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100193, China
| | - Yan-Hong Xu
- Key Laboratory of Bioactive Substances and Resources Utilization of Chinese Herbal Medicine, Ministry of Education and National Engineering Laboratory for Breeding of Endangered Medicinal Materials, Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100193, China.
| | - Jian-He Wei
- Key Laboratory of Bioactive Substances and Resources Utilization of Chinese Herbal Medicine, Ministry of Education and National Engineering Laboratory for Breeding of Endangered Medicinal Materials, Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100193, China. .,Hainan Provincial Key Laboratory of Resources Conservation and Development of Southern Medicine and Key Laboratory of State Administration of Traditional Chinese Medicine for Agarwood Sustainable Utilization, Hainan Branch of the Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Haikou, 570311, China.
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27
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Jiang M, Wen G, Zhao C. Phylogeny and evolution of plant Phytochrome Interacting Factors (PIFs) gene family and functional analyses of PIFs in Brachypodium distachyon. Plant Cell Rep 2022; 41:1209-1227. [PMID: 35218399 DOI: 10.1007/s00299-022-02850-5] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/21/2021] [Accepted: 02/14/2022] [Indexed: 06/14/2023]
Abstract
Plant PIFs have been characterized, WGDs contributed to the expansion of class II PIFs; BdPIFs localized in the nucleus; BdPIF4/5C most likely response to high temperature and light stress. Phytochrome interacting factors (PIFs) belong to a small subset of basic helix-loop-helix (bHLH) transcription factors (TFs). As cellular signaling hubs, PIFs integrate multiple external and internal signals to orchestrate the regulation of the transcriptional network, thereby actuating the pleiotropic aspects of downstream morphogenesis. Nevertheless, the origin, phylogeny and function of plant PIFs are not well understood. To elucidate their evolution history and biological function, the comprehensive genomic analysis of the PIF genes was conducted using 40 land plant genomes plus additionally four alga lineages and also performed their gene organizations, sequence features and expression patterns in different subfamilies. In this study, phylogenetic analysis displayed that 246 PIF gene members retrieved from all embryophytes could be divided into three main clades, which were further felled into five distinct classes (Class I-V). The duplications of Class II PIFs were associated specially with whole genome duplication (WGD) events during the plant evolution process. Sequence analysis showed that PIF proteins had a conserved APB motif, and its crucial amino acid residues were relatively high proportion in the average abundance. As expected, subcellular localization analysis revealed that all BdPIF proteins were localized to the nucleus. Especially, BdPIF4/5C showed the highest expression level at high temperature, and the most significant hypocotyl elongation phenotype of overexpression of BdPIFs in Arabidopsis, which was consistent with the function and phenotype of AtPIF4. In brief, our findings provide a novel perspective on the origin and evolutionary history of plant PIFs, and lays a foundation for further investigation on its functions in plant growth and development.
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Affiliation(s)
- Min Jiang
- Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Eco-Chongming (IEC), School of Life Sciences, Fudan University, Shanghai, 200438, China.
- Shanghai Key Laboratory of Plant Functional Genomics and Resources, Shanghai Chenshan Plant Science Research Center, Chinese Academy of Sciences (CAS), Shanghai Chenshan Botanical Garden, Shanghai, 201602, China.
| | - Guosong Wen
- Research and Development Center for Heath Product, College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
| | - Changling Zhao
- Research and Development Center for Heath Product, College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
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28
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Ma Z, Wei C, Cheng Y, Shang Z, Guo X, Guan J. RNA-Seq Analysis Identifies Transcription Factors Involved in Anthocyanin Biosynthesis of 'Red Zaosu' Pear Peel and Functional Study of PpPIF8. Int J Mol Sci 2022; 23:ijms23094798. [PMID: 35563188 PMCID: PMC9099880 DOI: 10.3390/ijms23094798] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2022] [Revised: 04/23/2022] [Accepted: 04/24/2022] [Indexed: 02/04/2023] Open
Abstract
Red-skinned pears are favored by people for their attractive appearance and abundance of anthocyanins. However, the molecular basis of anthocyanin biosynthesis in red pears remains elusive. Here, a comprehensive transcriptome analysis was conducted to explore the potential regulatory mechanism of anthocyanin biosynthesis in 'Red Zaosu' pear (Pyrus pyrifolia × Pyrus communis). Gene co-expression analysis and transcription factor mining identified 263 transcription factors, which accounted for 6.59% of the total number of transcription factors in the pear genome in two gene modules that are highly correlated with anthocyanin biosynthesis. Clustering, gene network modeling with STRING-DB, and local motif enrichment analysis (CentriMo) analysis suggested that PpPIF8 may play a role in anthocyanin biosynthesis. Furthermore, eight PIFs were identified in the pear genome, of which only PpPIF8 was rapidly induced by light. Functional studies showed that PpPIF8 localizes in the nucleus and is preferentially expressed in the tissue of higher levels of anthocyanin. The overexpression of PpPIF8 in pear peel and pear calli promotes anthocyanin biosynthesis and upregulates the expression of anthocyanin biosynthesis genes. Yeast-one hybrid and transgenic analyses indicated that PpPIF8 binds to the PpCHS promoter to induce PpCHS expression. The positive effect of PpPIF8 on anthocyanin biosynthesis is different from previously identified negative regulators of PyPIF5 and MdPIF7 in pear and apple. Taken together, our data not only provide a comprehensive view of transcription events during the coloration of pear peel, but also resolved the regulatory role of PpPIF8 in the anthocyanin biosynthesis pathway.
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Affiliation(s)
- Zhenyu Ma
- College of Life Science, Hebei Normal University, Shijiazhuang 050024, China; (Z.M.); (Z.S.)
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang 050051, China; (C.W.); (Y.C.); (X.G.)
- Plant Genetic Engineering Center of Hebei Province, Shijiazhuang 050051, China
| | - Chuangqi Wei
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang 050051, China; (C.W.); (Y.C.); (X.G.)
- Plant Genetic Engineering Center of Hebei Province, Shijiazhuang 050051, China
| | - Yudou Cheng
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang 050051, China; (C.W.); (Y.C.); (X.G.)
- Plant Genetic Engineering Center of Hebei Province, Shijiazhuang 050051, China
| | - Zhonglin Shang
- College of Life Science, Hebei Normal University, Shijiazhuang 050024, China; (Z.M.); (Z.S.)
| | - Xiulin Guo
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang 050051, China; (C.W.); (Y.C.); (X.G.)
- Plant Genetic Engineering Center of Hebei Province, Shijiazhuang 050051, China
| | - Junfeng Guan
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang 050051, China; (C.W.); (Y.C.); (X.G.)
- Plant Genetic Engineering Center of Hebei Province, Shijiazhuang 050051, China
- Correspondence:
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29
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Ma Q, Song L, Niu Z, Li J, Wang Y, Sun H, Ren Z, Zhao H, Guo S, Ding Z. Red Light Regulates the Metabolite Biosynthesis in the Leaves of "Huangjinya" Through Amino Acid and Phenylpropanoid Metabolisms. Front Plant Sci 2022; 12:810888. [PMID: 35095983 PMCID: PMC8797701 DOI: 10.3389/fpls.2021.810888] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/08/2021] [Accepted: 12/15/2021] [Indexed: 06/14/2023]
Abstract
"Huangjinya" is a light-sensitive albino variety and is widely cultivated in China. It has been proved that red light could promote the vegetable growth of plants. However, the mechanism of "Huangjinya" in response to a red light is unclear. This study used high-throughput sequencing technology to analyze the transcriptome of tender shoots of "Huangjinya" under the white and red light supplement conditions. At the same time, liquid chromatography tandem mass spectrometry (LC-MS) was used to analyze metabolite changes under different light conditions. Transcriptome analysis revealed that a total of 174 differentially expressed genes (DEGs) were identified after the red light supplement. Kyoto encyclopedia of genes and genomes (KEGG) classification indicated that amino acid metabolism enriched the most DEGs. In addition, two phenylpropanoid metabolism-related genes and five glutathione S-transferase genes (CsGSTs) were found to be expressed differently. Metabolome analysis revealed that 193 differential metabolites were obtained. Being the same as transcriptome analysis, most differential metabolites were enriched in amino acids, sweet and umami tasting amino acids were increased, and bitter-tasting amino acids were decreased after the red light supplement. In summary, red light supplementary treatment may be propitious to the quality of "Huangjinya" due to its regulatory effect on amino acid metabolism. Also, CsGSTs involved phenylpropanoid metabolism contributed to tea quality changes in "Huangjinya."
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Affiliation(s)
- Qingping Ma
- College of Agronomy, Liaocheng University, Liaocheng, China
| | - Laichao Song
- College of Agronomy, Liaocheng University, Liaocheng, China
| | - Zhanhai Niu
- College of Agronomy, Liaocheng University, Liaocheng, China
| | - Jingshan Li
- College of Agronomy, Liaocheng University, Liaocheng, China
| | - Yu Wang
- College of Horticulture, Qingdao Agricultural University, Qingdao, China
| | - Haiwei Sun
- Taian Academy of Agricultural Sciences, Taian, China
| | - Zhihong Ren
- Taian Academy of Agricultural Sciences, Taian, China
| | - Hongxia Zhao
- College of Agronomy, Liaocheng University, Liaocheng, China
| | - Shangjing Guo
- College of Agronomy, Liaocheng University, Liaocheng, China
| | - Zhaotang Ding
- Tea Research Institute, Shandong Academy of Agricultural Sciences, Rizhao, China
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30
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Xu H, Chen P, Tao Y. Understanding the Shade Tolerance Responses Through Hints From Phytochrome A-Mediated Negative Feedback Regulation in Shade Avoiding Plants. Front Plant Sci 2021; 12:813092. [PMID: 35003197 PMCID: PMC8727698 DOI: 10.3389/fpls.2021.813092] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/11/2021] [Accepted: 12/03/2021] [Indexed: 06/14/2023]
Abstract
Based on how plants respond to shade, we typically classify them into two groups: shade avoiding and shade tolerance plants. Under vegetative shade, the shade avoiding species induce a series of shade avoidance responses (SARs) to outgrow their competitors, while the shade tolerance species induce shade tolerance responses (STRs) to increase their survival rates under dense canopy. The molecular mechanism underlying the SARs has been extensively studied using the shade avoiding model plant Arabidopsis thaliana, while little is known about STRs. In Aarabidopsis, there is a PHYA-mediated negative feedback regulation that suppresses exaggerated SARs. Recent studies revealed that in shade tolerance Cardamine hirsuta plants, a hyperactive PHYA was responsible for suppressing shade-induced elongation growth. We propose that similar signaling components may be used by shade avoiding and shade tolerance plants, and different phenotypic outputs may result from differential regulation or altered dynamic properties of these signaling components. In this review, we summarized the role of PHYA and its downstream components in shade responses, which may provide insights into understanding how both types of plants respond to shade.
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Affiliation(s)
| | | | - Yi Tao
- Key Laboratory of Xiamen Plant Genetics and State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen, China
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Liang J, Zhang S, Yu W, Wu X, Wang W, Peng F, Xiao Y. PpSnRK1α overexpression alters the response to light and affects photosynthesis and carbon metabolism in tomato. Physiol Plant 2021; 173:1808-1823. [PMID: 34387863 DOI: 10.1111/ppl.13523] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/14/2021] [Revised: 07/21/2021] [Accepted: 08/07/2021] [Indexed: 06/13/2023]
Abstract
Sucrose nonfermentation 1 (SNF1) related kinase 1 (SnRK1) is a central energy sensor kinase in plants and a key switch regulating carbon and nitrogen metabolism. Fruit quality depends on leaf photosynthetic efficiency and carbohydrate accumulation, but the role of peach (Prunus persica) SnRK1 α subunit (PpSnRK1α) in regulating leaf carbon metabolism and the light signal response remains unclear. We studied the carbon metabolism of tomato leaves overexpressing PpSnRK1α and the responses of PpSnRK1α-overexpressing tomato leaves to light signals. Transcriptome, metabolome, and real-time quantitative polymerase chain reaction analyses revealed that uridine 5'-diphosphoglucose, glutamate, and glucose-6-phosphate accumulated in tomato leaves overexpressing PpSnRK1α. The expression of genes (e.g., GDH2, SuSy) encoding enzymes related to carbon metabolism (e.g., glutamate dehydrogenase (GDH2; EC: 1.4.1.3), sucrose synthase (SS; EC: 2.4.1.13)) and chlorophyllase (CLH) encoding chlorophyllase (EC: 3.1.1.14), which regulates photosynthetic pigments and photosynthesis, was significantly increased in PpSnRK1α-overexpressing plants. PpSnRK1α overexpression inhibited the growth of hypocotyls and primary roots in response to light. The chlorophyll content of the leaves was increased, the activity of SS and ADPG pyrophosphatase (AGPase; EC: 2.7.7.27) was increased, and photosynthesis was promoted in PpSnRK1α-overexpressing plants relative to wild-type plants. Under light stress, the net photosynthetic rate of plants was significantly higher in plants overexpressing PpSnRK1α than in wild-type plants. This indicates that PpSnRK1α promotes the accumulation of carbohydrates by regulating genes related to carbon metabolism, regulating genes related to chlorophyll synthesis, and then responding to light signals to increase the net photosynthetic rate of leaves.
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Affiliation(s)
- Jiahui Liang
- State Key Laboratory of Crop Biology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai-An, China
| | - Shuhui Zhang
- State Key Laboratory of Crop Biology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai-An, China
| | - Wenying Yu
- State Key Laboratory of Crop Biology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai-An, China
| | - Xuelian Wu
- State Key Laboratory of Crop Biology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai-An, China
| | - Wenru Wang
- State Key Laboratory of Crop Biology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai-An, China
| | - Futian Peng
- State Key Laboratory of Crop Biology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai-An, China
| | - Yuansong Xiao
- State Key Laboratory of Crop Biology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai-An, China
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Ding J, Zhang B, Li Y, André D, Nilsson O. Phytochrome B and PHYTOCHROME INTERACTING FACTOR8 modulate seasonal growth in trees. New Phytol 2021; 232:2339-2352. [PMID: 33735450 DOI: 10.1111/nph.17350] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/13/2021] [Revised: 03/04/2021] [Accepted: 03/10/2021] [Indexed: 05/27/2023]
Abstract
The seasonally synchronized annual growth cycle that is regulated mainly by photoperiod and temperature cues is a crucial adaptive strategy for perennial plants in boreal and temperate ecosystems. Phytochrome B (phyB), as a light and thermal sensor, has been extensively studied in Arabidopsis. However, the specific mechanisms for how the phytochrome photoreceptors control the phenology in tree species remain poorly understood. We characterized the functions of PHYB genes and their downstream PHYTOCHROME INTERACTING FACTOR (PIF) targets in the regulation of shade avoidance and seasonal growth in hybrid aspen trees. We show that while phyB1 and phyB2, as phyB in other plants, act as suppressors of shoot elongation during vegetative growth, they act as promoters of tree seasonal growth. Furthermore, while the Populus homologs of both PIF4 and PIF8 are involved in the shade avoidance syndrome (SAS), only PIF8 plays a major role as a suppressor of seasonal growth. Our data suggest that the PHYB-PIF8 regulon controls seasonal growth through the regulation of FT and CENL1 expression while a genome-wide transcriptome analysis suggests how, in Populus trees, phyB coordinately regulates SAS responses and seasonal growth cessation.
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Affiliation(s)
- Jihua Ding
- College of Horticulture and Forestry, Huazhong Agricultural University, Wuhan, 430070, China
| | - Bo Zhang
- Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå, 901 83, Sweden
| | - Yue Li
- College of Horticulture and Forestry, Huazhong Agricultural University, Wuhan, 430070, China
| | - Domenique André
- Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå, 901 83, Sweden
| | - Ove Nilsson
- Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå, 901 83, Sweden
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Lin F, Cao J, Yuan J, Liang Y, Li J. Integration of Light and Brassinosteroid Signaling during Seedling Establishment. Int J Mol Sci 2021; 22:12971. [PMID: 34884771 PMCID: PMC8657978 DOI: 10.3390/ijms222312971] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2021] [Revised: 11/27/2021] [Accepted: 11/27/2021] [Indexed: 01/02/2023] Open
Abstract
Light and brassinosteroid (BR) are external stimuli and internal cue respectively, that both play critical roles in a wide range of developmental and physiological process. Seedlings grown in the light exhibit photomorphogenesis, while BR promotes seedling etiolation. Light and BR oppositely control the development switch from shotomorphogenesis in the dark to photomorphogenesis in the light. Recent progress report that substantial components have been identified as hubs to integrate light and BR signals. Photomorphogenic repressors including COP1, PIFs, and AGB1 have been reported to elevate BR response, while photomorphogenesis-promoting factors such as HY5, BZS1, and NF-YCs have been proven to repress BR signal. In addition, BR components also modulate light signal. Here, we review the current research on signaling network associated with light and brassinosteroids, with a focus on the integration of light and BR signals enabling plants to thrive in the changeable environment.
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Affiliation(s)
- Fang Lin
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou 730000, China; (J.C.); (J.Y.); (Y.L.); (J.L.)
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Chang J, Xie C, Wang P, Gu Z, Han Y, Yang R. Red light enhances folate accumulation in wheat seedlings. J Zhejiang Univ Sci B 2021; 22:906-916. [PMID: 34783221 DOI: 10.1631/jzus.b2100266] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
Red, white, blue, green, and yellow lights were applied to investigate their effects on folate accumulation in wheat seedlings. The different lights, especially red light, significantly increased the total folate content. Total folate showed maximum accumulation under 30 μmol/(m2·s) of red light, with an increase of 24% compared with the control (darkness). 5-Methyl-tetrahydrofolate (5-CH3-THF) was the dominant folate component, and was significantly increased by red light irradiation. In addition, under red light, the folate content of leaves was higher and more sensitive to light than that of endosperm or roots. Red light up-regulated the expression of guanosine triphosphate (GTP) cyclohydrolase 1 (GCH1) and aminodeoxychorismate synthase(ADCS), enhanced the activity of GCH1 and ADCS, and increased the content of precursors of folate synthesis, including pterin and p-aminobenzoic acid (pABA). Hence, the increased folate accumulation promoted by light could be attributed to the increased content of folate synthesis precursors, the activity of key enzymes, and related gene expression.
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Affiliation(s)
- Jianwei Chang
- College of Food Science and Technology, Nanjing Agricultural University, Nanjing 210095, China
| | - Chong Xie
- College of Food Science and Technology, Nanjing Agricultural University, Nanjing 210095, China
| | - Pei Wang
- College of Food Science and Technology, Nanjing Agricultural University, Nanjing 210095, China
| | - Zhenxin Gu
- College of Food Science and Technology, Nanjing Agricultural University, Nanjing 210095, China
| | - Yongbin Han
- College of Food Science and Technology, Nanjing Agricultural University, Nanjing 210095, China
| | - Runqiang Yang
- College of Food Science and Technology, Nanjing Agricultural University, Nanjing 210095, China.
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Yu B, Pan Y, Liu Y, Chen Q, Guo X, Tang Z. A comprehensive analysis of transcriptome and phenolic compound profiles suggests the role of flavonoids in cotyledon greening in Catharanthus roseus seedling. Plant Physiol Biochem 2021; 167:185-197. [PMID: 34365289 DOI: 10.1016/j.plaphy.2021.07.028] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/23/2020] [Revised: 07/03/2021] [Accepted: 07/25/2021] [Indexed: 06/13/2023]
Abstract
During seedling photo-morphogenesis, cotyledon greening is a vital developmental process and a moment of responding to light stress. An increasing number of reports suggest the function of natural antioxidant protection of phenolic compounds in plant growth and development processes. Due to the antioxidant functions, flavonoids allow plants to respond to abiotic or biotic stresses. As one of the plants rich in secondary metabolites, Catharanthus roseus has drawn great academic interest due to its richness of diverse secondary metabolites with medicinal values. To assess the distribution and function of phenolic compounds during cotyledon greening, combined phenolic profiling and transcriptome were applied in C. roseus seedling through ultra-high performance liquid chromatography quadrupole time-of-flight mass spectrometer (UPLC-Q-TOF/MS) and high throughput RNA sequencing, respectively. Results herein showed that light-exposed greening cotyledon accumulated large amounts of C6C3C6-type flavonoids, suggesting the function in repressing reactive oxygen species (ROS) generation to improve light adaptation and seedling survival. Moreover, synergistic up-regulation of relevant genes involved in flavonoids pathway, including PAL, C4H, CHS, FLS, and F3'H, was monitored in response to light. Several crucial candidate transcription factors including bHLH, MYB, and B-box families were likely to function, and thereinto, CrHY5 (CRO_T122304) and CRO_T137938 revealed a prompt response to light, supposing to induce flavonoids accumulation by targeting CHS and FLS. Therefore, this study provided new insight into the potential regulation and underlying roles of flavonoids to improve light acclimation during cotyledon greening.
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Affiliation(s)
- Bofan Yu
- College of Chemistry, Chemical Engineering and Resource Utilization, Northeast Forestry University, Harbin, 150040, China; Key Laboratory of Forest Plant Ecology, Ministry of Education, Northeast Forestry University, Harbin 150040, China
| | - Yajie Pan
- Key Laboratory of Forest Plant Ecology, Ministry of Education, Northeast Forestry University, Harbin 150040, China; Department of Biology, Institute of Plant and Food Science, Southern University of Science and Technology, Shenzhen, 518055, China
| | - Yang Liu
- College of Chemistry, Chemical Engineering and Resource Utilization, Northeast Forestry University, Harbin, 150040, China; Key Laboratory of Forest Plant Ecology, Ministry of Education, Northeast Forestry University, Harbin 150040, China
| | - Qi Chen
- Key Laboratory of Forest Plant Ecology, Ministry of Education, Northeast Forestry University, Harbin 150040, China
| | - Xiaorui Guo
- College of Chemistry, Chemical Engineering and Resource Utilization, Northeast Forestry University, Harbin, 150040, China; Key Laboratory of Forest Plant Ecology, Ministry of Education, Northeast Forestry University, Harbin 150040, China.
| | - Zhonghua Tang
- College of Chemistry, Chemical Engineering and Resource Utilization, Northeast Forestry University, Harbin, 150040, China; Key Laboratory of Forest Plant Ecology, Ministry of Education, Northeast Forestry University, Harbin 150040, China.
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Hu L, Liu P, Jin Z, Sun J, Weng Y, Chen P, Du S, Wei A, Li Y. A mutation in CsHY2 encoding a phytochromobilin (PΦB) synthase leads to an elongated hypocotyl 1(elh1) phenotype in cucumber (Cucumis sativus L.). Theor Appl Genet 2021; 134:2639-2652. [PMID: 34091695 DOI: 10.1007/s00122-021-03849-4] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/21/2021] [Accepted: 04/29/2021] [Indexed: 06/12/2023]
Abstract
The elongated hypocotyl1 (elh1) mutant in cucumber is due to a mutation in CsHY2, which is a homolog of the Arabidopsis HY2 encoding the phytochromobilin (PΦB) synthase for phytochrome biosynthesis Hypocotyl length is a critical determinant in establishing high quality seedlings for successful cucumber production, but knowledge on the molecular regulation of hypocotyl growth in cucumber is very limited. Here, we reported identification and characterization of a cucumber elongated hypocotyl 1 (elh1) mutant. We found that the longer hypocotyl in elh1 was due to longitudinal growth of hypocotyl cells. With fine mapping, the elh1 locus was delimited to a 20.9-kb region containing three annotated genes; only one polymorphism was identified in this region between two parental lines, which was a non-synonymous SNP (G28153633A) in the third exon of CsHY2 (CsGy1G030000) that encodes a phytochromobilin (PΦB) synthase. Uniqueness of the mutant allele at CsHY2 was verified in natural cucumber populations. Ectopic expression of CsHY2 in Arabidopsis hy2-1 long-hypocotyl mutant led to reduced hypocotyl length. The PΦB protein was targeted to the chloroplast. The expression levels of CsHY2 and five phytochrome genes CsPHYA1, CsPHYA2, CsPHYB, CsPHYC and CsPHYE were all significantly down-regulated while several cell elongation related genes were up-regulated in elh1 mutant compared to wild-type cucumber, which are correlated with dynamic hypocotyl elongation in the mutant. RNA-seq analysis in the WT and mutant revealed differentially expressed genes involved in porphyrin and chlorophyll metabolisms, cell elongation and plant hormone signal transduction pathways. This is the first report to characterize and clone the CsHY2 gene in cucumber. This work reveals the important of CsHY2 in regulating hypocotyl length and extends our understanding of the roles of CsHY2 in cucumber.
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Affiliation(s)
- Liangliang Hu
- College of Horticulture, Northwest A&F University, Yangling, 712100, Shaanxi, China
| | - Peng Liu
- College of Horticulture, Northwest A&F University, Yangling, 712100, Shaanxi, China
| | - Zhuoshuai Jin
- College of Horticulture, Northwest A&F University, Yangling, 712100, Shaanxi, China
| | - Jing Sun
- College of Horticulture, Northwest A&F University, Yangling, 712100, Shaanxi, China
| | - Yiqun Weng
- Horticulture Department, USDA-ARS Vegetable Crops Research Unit, University of Wisconsin, Madison, WI, 53706, USA
| | - Peng Chen
- College of Life Science, Northwest A & F University, Yangling, 712100, Shaanxi,, China
| | - Shengli Du
- Tianjin Vegetable Research Center, Tianjin, 300192, China
- National Key Laboratory of Vegetable Germplasm Innovation, Tianjin, 300192, China
| | - Aimin Wei
- Tianjin Vegetable Research Center, Tianjin, 300192, China.
- National Key Laboratory of Vegetable Germplasm Innovation, Tianjin, 300192, China.
| | - Yuhong Li
- College of Horticulture, Northwest A&F University, Yangling, 712100, Shaanxi, China.
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Streng C, Hartmann J, Leister K, Krauß N, Lamparter T, Frankenberg-Dinkel N, Weth F, Bastmeyer M, Yu Z, Fischer R. Fungal phytochrome chromophore biosynthesis at mitochondria. EMBO J 2021; 40:e108083. [PMID: 34254350 PMCID: PMC8447599 DOI: 10.15252/embj.2021108083] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2021] [Revised: 06/18/2021] [Accepted: 06/21/2021] [Indexed: 12/16/2022] Open
Abstract
Mitochondria are essential organelles because of their function in energy conservation. Here, we show an involvement of mitochondria in phytochrome‐dependent light sensing in fungi. Phytochrome photoreceptors are found in plants, bacteria, and fungi and contain a linear, heme‐derived tetrapyrrole as chromophore. Linearization of heme requires heme oxygenases (HOs) which reside inside chloroplasts in planta. Despite the poor degree of conservation of HOs, we identified two candidates in the fungus Alternaria alternata. Deletion of either one phenocopied phytochrome deletion. The two enzymes had a cooperative effect and physically interacted with phytochrome, suggesting metabolon formation. The metabolon was attached to the surface of mitochondria with a C‐terminal anchor (CTA) sequence in HoxA. The CTA was necessary and sufficient for mitochondrial targeting. The affinity of phytochrome apoprotein to HoxA was 57,000‐fold higher than the affinity of the holoprotein, suggesting a “kiss‐and‐go” mechanism for chromophore loading and a function of mitochondria as assembly platforms for functional phytochrome. Hence, two alternative approaches for chromophore biosynthesis and insertion into phytochrome evolved in plants and fungi.
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Affiliation(s)
- Christian Streng
- Department of Microbiology, Karlsruhe Institute of Technology (KIT) - South Campus, Institute for Applied Biosciences, Karlsruhe, Germany
| | - Jana Hartmann
- Department of Microbiology, University of Kaiserslautern, Kaiserslautern, Germany
| | - Kai Leister
- Department of Microbiology, Karlsruhe Institute of Technology (KIT) - South Campus, Institute for Applied Biosciences, Karlsruhe, Germany
| | - Norbert Krauß
- Karlsruhe Institute of Technology (KIT) - South Campus, Botanical Institute, Karlsruhe, Germany
| | - Tilman Lamparter
- Karlsruhe Institute of Technology (KIT) - South Campus, Botanical Institute, Karlsruhe, Germany
| | | | - Franco Weth
- Karlsruhe Institute of Technology (KIT) - South Campus, Zoological Institute, Karlsruhe, Germany
| | - Martin Bastmeyer
- Karlsruhe Institute of Technology (KIT) - South Campus, Zoological Institute, Karlsruhe, Germany
| | - Zhenzhong Yu
- The Key Laboratory of Plant Immunity, Jiangsu Provincial Key Lab of Organic Solid Waste Utilization, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, National Engineering Research Center for Organic-based Fertilizers, Nanjing Agricultural University, Nanjing, China
| | - Reinhard Fischer
- Department of Microbiology, Karlsruhe Institute of Technology (KIT) - South Campus, Institute for Applied Biosciences, Karlsruhe, Germany
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Li YZ, Zhao ZQ, Song DD, Yuan YX, Sun HJ, Zhao JF, Chen YL, Zhang CG. SnRK2.6 interacts with phytochrome B and plays a negative role in red light-induced stomatal opening. Plant Signal Behav 2021; 16:1913307. [PMID: 33853508 PMCID: PMC8143258 DOI: 10.1080/15592324.2021.1913307] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/14/2023]
Abstract
Light is an important environmental factor for plant growth and development. Phytochrome B (phyB), a classical red/far-red light receptor, plays vital role in controlling plant photomorphogenesis and light-induced stomatal opening. Phytohormone abscisic acid (ABA) accumulates rapidly and triggers a series of physiological and molecular events during the responses to multiple abiotic stresses. Recent studies showed that phyB mutant synthesizes more ABA and exhibits improved tolerance to salt and cold stress, suggesting that a crosstalk exists between light and ABA signaling pathway. However, whether ABA signaling components mediate responses to light remains unclear. Here, we showed that SnRK2.6 (Sucrose Nonfermenting 1-Related Protein Kinase 2.6), a key regulator in ABA signaling, interacts with phyB and participates in light-induced stomatal opening. First, we checked the interaction between phyB and SnRK2s, and found that SnRK2.2/2.3/2.6 kinases physically interacted with phyB in yeast and in vitro. We also performed co-IP assay to support that SnRK2.6 interacts with phyB in plant. To investigate the role of SnRK2.6 in red light-induced stomatal opening, we obtained the snrk2.6 mutant and overexpression lines, and found that snrk2.6 mutant exhibited a significantly larger stomatal aperture under red light treatment, while the two independent overexpression lines showed significantly smaller stomatal aperture, indicative of a negative role for SnRK2.6 in red light-induced stomatal opening. The interaction of SnRK2.6 with red light receptor and the negative role of SnRK2.6 in red light-induced stomatal opening provide new evidence for the crosstalk between ABA and red light in guard cell signaling.
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Affiliation(s)
- Yu-Zhen Li
- College of Life Science, Hebei Normal University, Shijiazhuang, China
| | - Zhi-Qiao Zhao
- College of Life Science, Hebei Normal University, Shijiazhuang, China
| | - Dong-Dong Song
- College of Life Science, Hebei Normal University, Shijiazhuang, China
| | - Ya-Xin Yuan
- College of Life Science, Hebei Normal University, Shijiazhuang, China
| | - Hai-Jing Sun
- College of Life Science, Hebei Normal University, Shijiazhuang, China
| | - Jun-Feng Zhao
- College of Life Science, Hebei Normal University, Shijiazhuang, China
| | - Yu-Ling Chen
- College of Life Science, Hebei Normal University, Shijiazhuang, China
- CONTACT Yu-Ling Chen
| | - Chun-Guang Zhang
- College of Life Science, Hebei Normal University, Shijiazhuang, China
- Chun-Guang Zhang College of Life Science, Hebei Normal University, Shijiazhuang, 050024, China.This article has been republished with minor changes. These changes do not impact the academic content of the article
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Wang Y, Fang Z, Yang L, Chan Z. Transcriptional variation analysis of Arabidopsis ecotypes in response to drought and salt stresses dissects commonly regulated networks. Physiol Plant 2021; 172:77-90. [PMID: 33280127 DOI: 10.1111/ppl.13295] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/01/2020] [Revised: 11/26/2020] [Accepted: 11/29/2020] [Indexed: 06/12/2023]
Abstract
Salinity and drought conditions commonly result in osmotic and oxidative stresses, while salinity additionally causes ionic stress. In this study, we identified specific genes regulated by osmotic and ionic stresses in five Arabidopsis ecotypes. Shahdara (SHA) and C24 ecotypes were more tolerant to salt and drought stresses at the seedling growth stage, as evidenced by lower water loss rate, lower electrolyte leakage, and higher survival rate when compared to the other three ecotypes under drought and salinity conditions. Transcriptomic analysis revealed that 3700 and 2242 genes were differentially regulated by salt and osmotic stresses, respectively. Totally 78.1% of upregulated and 62.0% of downregulated genes by osmotic stress were also commonly regulated by salt stress. Gene ontology term enrichment analysis showed that auxin indole-3-acetic acid (IAA), abscisic acid, cytokinin, and gibberellic acid pathways were regulated by the osmotic stress, while IAA, jasmonic acid, and ethylene pathways were changed by the ionic stress. The nutrient and water uptake pathways were regulated by both the osmotic and ionic stresses, whereas ion transportation and kinase pathways were modulated by the ionic stress. Additionally, we characterized bHLH61 as a negative regulator in response to salt and drought stresses. This study provided new clues of plant responses to salt and drought stresses.
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Affiliation(s)
- Yanping Wang
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China
| | - Zhengfu Fang
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China
| | - Li Yang
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China
| | - Zhulong Chan
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China
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Huber M, Nieuwendijk NM, Pantazopoulou CK, Pierik R. Light signalling shapes plant-plant interactions in dense canopies. Plant Cell Environ 2021; 44:1014-1029. [PMID: 33047350 PMCID: PMC8049026 DOI: 10.1111/pce.13912] [Citation(s) in RCA: 38] [Impact Index Per Article: 12.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/30/2020] [Revised: 10/06/2020] [Accepted: 10/07/2020] [Indexed: 05/09/2023]
Abstract
Plants growing at high densities interact via a multitude of pathways. Here, we provide an overview of mechanisms and functional consequences of plant architectural responses initiated by light cues that occur in dense vegetation. We will review the current state of knowledge about shade avoidance, as well as its possible applications. On an individual level, plants perceive neighbour-associated changes in light quality and quantity mainly with phytochromes for red and far-red light and cryptochromes and phototropins for blue light. Downstream of these photoreceptors, elaborate signalling and integration takes place with the PHYTOCHROME INTERACTING FACTORS, several hormones and other regulators. This signalling leads to the shade avoidance responses, consisting of hyponasty, stem and petiole elongation, apical dominance and life cycle adjustments. Architectural changes of the individual plant have consequences for the plant community, affecting canopy structure, species composition and population fitness. In this context, we highlight the ecological, evolutionary and agricultural importance of shade avoidance.
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Affiliation(s)
- Martina Huber
- Plant Ecophysiology, Dept. BiologyUtrecht UniversityUtrechtThe Netherlands
| | | | | | - Ronald Pierik
- Plant Ecophysiology, Dept. BiologyUtrecht UniversityUtrechtThe Netherlands
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Bizouerne E, Buitink J, Vu BL, Vu JL, Esteban E, Pasha A, Provart N, Verdier J, Leprince O. Gene co-expression analysis of tomato seed maturation reveals tissue-specific regulatory networks and hubs associated with the acquisition of desiccation tolerance and seed vigour. BMC Plant Biol 2021; 21:124. [PMID: 33648457 PMCID: PMC7923611 DOI: 10.1186/s12870-021-02889-8] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/22/2020] [Accepted: 02/11/2021] [Indexed: 05/13/2023]
Abstract
BACKGROUND During maturation seeds acquire several physiological traits to enable them to survive drying and disseminate the species. Few studies have addressed the regulatory networks controlling acquisition of these traits at the tissue level particularly in endospermic seeds such as tomato, which matures in a fully hydrated environment and does not undergo maturation drying. Using temporal RNA-seq analyses of the different seed tissues during maturation, gene network and trait-based correlations were used to explore the transcriptome signatures associated with desiccation tolerance, longevity, germination under water stress and dormancy. RESULTS During maturation, 15,173 differentially expressed genes were detected, forming a gene network representing 21 expression modules, with 3 being specific to seed coat and embryo and 5 to the endosperm. A gene-trait significance measure identified a common gene module between endosperm and embryo associated with desiccation tolerance and conserved with non-endospermic seeds. In addition to genes involved in protection such LEA and HSP and ABA response, the module included antioxidant and repair genes. Dormancy was released concomitantly with the increase in longevity throughout fruit ripening until 14 days after the red fruit stage. This was paralleled by an increase in SlDOG1-2 and PROCERA transcripts. The progressive increase in seed vigour was captured by three gene modules, one in common between embryo and endosperm and two tissue-specific. The common module was enriched with genes associated with mRNA processing in chloroplast and mitochondria (including penta- and tetratricopeptide repeat-containing proteins) and post-transcriptional regulation, as well several flowering genes. The embryo-specific module contained homologues of ABI4 and CHOTTO1 as hub genes associated with seed vigour, whereas the endosperm-specific module revealed a diverse set of processes that were related to genome stability, defence against pathogens and ABA/GA response genes. CONCLUSION The spatio-temporal co-expression atlas of tomato seed maturation will serve as a valuable resource for the in-depth understanding of the dynamics of gene expression associated with the acquisition of seed vigour at the tissue level.
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Affiliation(s)
- Elise Bizouerne
- Institut Agro, Univ Angers, INRAE, IRHS, SFR 4207 QuaSaV, 49000, Angers, France
| | - Julia Buitink
- Institut Agro, Univ Angers, INRAE, IRHS, SFR 4207 QuaSaV, 49000, Angers, France
| | - Benoît Ly Vu
- Institut Agro, Univ Angers, INRAE, IRHS, SFR 4207 QuaSaV, 49000, Angers, France
| | - Joseph Ly Vu
- Institut Agro, Univ Angers, INRAE, IRHS, SFR 4207 QuaSaV, 49000, Angers, France
| | - Eddi Esteban
- Department of Cell and Systems Biology / Centre for the Analysis of Genome Evolution and Function, University of Toronto, Toronto, ON, M5S 3B2, Canada
| | - Asher Pasha
- Department of Cell and Systems Biology / Centre for the Analysis of Genome Evolution and Function, University of Toronto, Toronto, ON, M5S 3B2, Canada
| | - Nicholas Provart
- Department of Cell and Systems Biology / Centre for the Analysis of Genome Evolution and Function, University of Toronto, Toronto, ON, M5S 3B2, Canada
| | - Jérôme Verdier
- Institut Agro, Univ Angers, INRAE, IRHS, SFR 4207 QuaSaV, 49000, Angers, France
| | - Olivier Leprince
- Institut Agro, Univ Angers, INRAE, IRHS, SFR 4207 QuaSaV, 49000, Angers, France.
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Ponnu J, Hoecker U. Illuminating the COP1/SPA Ubiquitin Ligase: Fresh Insights Into Its Structure and Functions During Plant Photomorphogenesis. Front Plant Sci 2021; 12:662793. [PMID: 33841486 PMCID: PMC8024647 DOI: 10.3389/fpls.2021.662793] [Citation(s) in RCA: 37] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/01/2021] [Accepted: 03/04/2021] [Indexed: 05/07/2023]
Abstract
CONSTITUTIVE PHOTOMORPHOGENIC 1 functions as an E3 ubiquitin ligase in plants and animals. Discovered originally in Arabidopsis thaliana, COP1 acts in a complex with SPA proteins as a central repressor of light-mediated responses in plants. By ubiquitinating and promoting the degradation of several substrates, COP1/SPA regulates many aspects of plant growth, development and metabolism. In contrast to plants, human COP1 acts as a crucial regulator of tumorigenesis. In this review, we discuss the recent important findings in COP1/SPA research including a brief comparison between COP1 activity in plants and humans.
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Favero DS, Lambolez A, Sugimoto K. Molecular pathways regulating elongation of aerial plant organs: a focus on light, the circadian clock, and temperature. Plant J 2021; 105:392-420. [PMID: 32986276 DOI: 10.1111/tpj.14996] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/16/2020] [Revised: 09/11/2020] [Accepted: 09/15/2020] [Indexed: 06/11/2023]
Abstract
Organs such as hypocotyls and petioles rapidly elongate in response to shade and temperature cues, contributing to adaptive responses that improve plant fitness. Growth plasticity in these organs is achieved through a complex network of molecular signals. Besides conveying information from the environment, this signaling network also transduces internal signals, such as those associated with the circadian clock. A number of studies performed in Arabidopsis hypocotyls, and to a lesser degree in petioles, have been informative for understanding the signaling networks that regulate elongation of aerial plant organs. In particular, substantial progress has been made towards understanding the molecular mechanisms that regulate responses to light, the circadian clock, and temperature. Signals derived from these three stimuli converge on the BAP module, a set of three different types of transcription factors that interdependently promote gene transcription and growth. Additional key positive regulators of growth that are also affected by environmental cues include the CONSTITUTIVE PHOTOMORPHOGENIC 1 (COP1) and SUPPRESSOR OF PHYA-105 (SPA) E3 ubiquitin ligase proteins. In this review we summarize the key signaling pathways that regulate the growth of hypocotyls and petioles, focusing specifically on molecular mechanisms important for transducing signals derived from light, the circadian clock, and temperature. While it is clear that similarities abound between the signaling networks at play in these two organs, there are also important differences between the mechanisms regulating growth in hypocotyls and petioles.
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Affiliation(s)
- David S Favero
- RIKEN Center for Sustainable Resource Science, Yokohama, Kanagawa, 230-0045, Japan
| | - Alice Lambolez
- RIKEN Center for Sustainable Resource Science, Yokohama, Kanagawa, 230-0045, Japan
- Department of Biological Sciences, The University of Tokyo, Tokyo, 119-0033, Japan
| | - Keiko Sugimoto
- RIKEN Center for Sustainable Resource Science, Yokohama, Kanagawa, 230-0045, Japan
- Department of Biological Sciences, The University of Tokyo, Tokyo, 119-0033, Japan
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Yang Y, Guang Y, Wang F, Chen Y, Yang W, Xiao X, Luo S, Zhou Y. Characterization of Phytochrome-Interacting Factor Genes in Pepper and Functional Analysis of CaPIF8 in Cold and Salt Stress. Front Plant Sci 2021; 12:746517. [PMID: 34759940 PMCID: PMC8572859 DOI: 10.3389/fpls.2021.746517] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/24/2021] [Accepted: 10/04/2021] [Indexed: 05/17/2023]
Abstract
As a subfamily of basic helix-loop-helix (bHLH) transcription factors, phytochrome-interacting factors (PIFs) participate in regulating light-dependent growth and development of plants. However, limited information is available about PIFs in pepper. In the present study, we identified six pepper PIF genes using bioinformatics-based methods. Phylogenetic analysis revealed that the PIFs from pepper and some other plants could be divided into three distinct groups. Motif analysis revealed the presence of many conserved motifs, which is consistent with the classification of PIF proteins. Gene structure analysis suggested that the CaPIF genes have five to seven introns, exhibiting a relatively more stable intron number than other plants such as rice, maize, and tomato. Expression analysis showed that CaPIF8 was up-regulated by cold and salt treatments. CaPIF8-silenced pepper plants obtained by virus-induced gene silencing (VIGS) exhibited higher sensitivity to cold and salt stress, with an obvious increase in relative electrolyte leakage (REL) and variations in the expression of stress-related genes. Further stress tolerance assays revealed that CaPIF8 plays different regulatory roles in cold and salt stress response by promoting the expression of the CBF1 gene and ABA biosynthesis genes, respectively. Our results reveal the key roles of CaPIF8 in cold and salt tolerance of pepper, and lay a solid foundation for clarifying the biological roles of PIFs in pepper and other plants.
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Affiliation(s)
- Youxin Yang
- Jiangxi Key Laboratory for Postharvest Technology and Nondestructive Testing of Fruits and Vegetables, Collaborative Innovation Center of Post-Harvest Key Technology and Quality Safety of Fruits and Vegetables, College of Agronomy, Jiangxi Agricultural University, Nanchang, China
| | - Yelan Guang
- Jiangxi Key Laboratory for Postharvest Technology and Nondestructive Testing of Fruits and Vegetables, Collaborative Innovation Center of Post-Harvest Key Technology and Quality Safety of Fruits and Vegetables, College of Agronomy, Jiangxi Agricultural University, Nanchang, China
| | - Feng Wang
- College of Horticulture, Shenyang Agricultural University, Shenyang, China
| | - Yue Chen
- Jiangxi Key Laboratory for Postharvest Technology and Nondestructive Testing of Fruits and Vegetables, Collaborative Innovation Center of Post-Harvest Key Technology and Quality Safety of Fruits and Vegetables, College of Agronomy, Jiangxi Agricultural University, Nanchang, China
| | - Wenting Yang
- Key Laboratory of Crop Physiology, Ecology and Genetic Breeding, Ministry of Education, Jiangxi Agricultural University, Nanchang, China
| | - Xufeng Xiao
- Jiangxi Key Laboratory for Postharvest Technology and Nondestructive Testing of Fruits and Vegetables, Collaborative Innovation Center of Post-Harvest Key Technology and Quality Safety of Fruits and Vegetables, College of Agronomy, Jiangxi Agricultural University, Nanchang, China
| | - Sha Luo
- Jiangxi Key Laboratory for Postharvest Technology and Nondestructive Testing of Fruits and Vegetables, Collaborative Innovation Center of Post-Harvest Key Technology and Quality Safety of Fruits and Vegetables, College of Agronomy, Jiangxi Agricultural University, Nanchang, China
| | - Yong Zhou
- Key Laboratory of Crop Physiology, Ecology and Genetic Breeding, Ministry of Education, Jiangxi Agricultural University, Nanchang, China
- College of Bioscience and Bioengineering, Jiangxi Agricultural University, Nanchang, China
- *Correspondence: Yong Zhou,
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Hoang QTN, Tripathi S, Cho JY, Choi DM, Shin AY, Kwon SY, Han YJ, Kim JI. Suppression of Phytochrome-Interacting Factors Enhances Photoresponses of Seedlings and Delays Flowering With Increased Plant Height in Brachypodium distachyon. Front Plant Sci 2021; 12:756795. [PMID: 34650585 PMCID: PMC8505764 DOI: 10.3389/fpls.2021.756795] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/11/2021] [Accepted: 09/07/2021] [Indexed: 05/05/2023]
Abstract
Phytochromes are red and far-red photoreceptors that regulate plant growth and development under ambient light conditions. During phytochrome-mediated photomorphogenesis, phytochrome-interacting factors (PIFs) are the most important signaling partners that regulate the expression of light-responsive genes. However, the function of PIFs in monocots has not been studied well. In this study, using RNA interference (RNAi), we investigated the functions of BdPIL1 and BdPIL3, two PIF-like genes identified in Brachypodium distachyon, which are closely related to Arabidopsis PIF1 and PIF3. The expression of their genes is light-inducible, and both BdPIL1 and BdPIL3 proteins interact with phytochromes in an active form-specific manner. Transgenic Brachypodium seedlings with the RNAi constructs of BdPIL1 and BdPIL3 showed decreased coleoptile lengths and increased leaf growth when exposed to both red and far-red light. In addition, the transgenic plants were taller with elongated internodes than wild-type Bd21-3 plant, exhibiting late flowering. Moreover, RNA-seq analysis revealed downregulation of many genes in the transgenic plants, especially those related to the regulation of cell number, floral induction, and chlorophyll biosynthesis, which were consistent with the phenotypes of increased plant height, delayed flowering, and pale green leaves. Furthermore, we demonstrated the DNA-binding ability of BdPIL1 and BdPIL3 to the putative target promoters and that the DNA-binding was inhibited in the presence of phytochromes. Therefore, this study determines a molecular mechanism underlying phytochrome-mediated PIF regulation in Brachypodium, i.e., sequestration, and also elucidates the functions of BdPIL1 and BdPIL3 in the growth and development of the monocot plant.
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Affiliation(s)
- Quyen T. N. Hoang
- Department of Integrative Food, Bioscience and Biotechnology, Chonnam National University, Gwangju, South Korea
| | - Sharanya Tripathi
- Department of Integrative Food, Bioscience and Biotechnology, Chonnam National University, Gwangju, South Korea
| | - Jae-Yong Cho
- Department of Integrative Food, Bioscience and Biotechnology, Chonnam National University, Gwangju, South Korea
| | - Da-Min Choi
- Department of Integrative Food, Bioscience and Biotechnology, Chonnam National University, Gwangju, South Korea
| | - Ah-Young Shin
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, South Korea
| | - Suk-Yoon Kwon
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, South Korea
| | - Yun-Jeong Han
- Kumho Life Science Laboratory, Chonnam National University, Gwangju, South Korea
| | - Jeong-Il Kim
- Department of Integrative Food, Bioscience and Biotechnology, Chonnam National University, Gwangju, South Korea
- Kumho Life Science Laboratory, Chonnam National University, Gwangju, South Korea
- *Correspondence: Jeong-Il Kim,
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Sun W, Han H, Deng L, Sun C, Xu Y, Lin L, Ren P, Zhao J, Zhai Q, Li C. Mediator Subunit MED25 Physically Interacts with PHYTOCHROME INTERACTING FACTOR4 to Regulate Shade-Induced Hypocotyl Elongation in Tomato. Plant Physiol 2020; 184:1549-1562. [PMID: 32938743 PMCID: PMC7608172 DOI: 10.1104/pp.20.00587] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/11/2020] [Accepted: 09/09/2020] [Indexed: 05/11/2023]
Abstract
Shade triggers important adaptive responses such as the shade-avoidance syndrome, which enable plants to respond to the depletion of photosynthetically active light. The basic helix-loop-helix transcription factors PHYTOCHROME INTERACTING FACTORS (PIFs) play a key role in the shade-avoidance syndrome network by regulating the biosynthesis of multiple phytohormones and the expression of cell expansion-related genes. Although much has been learned about the regulation of PIFs in response to shade at the protein level, relatively little is known about the PIF-dependent transcriptional regulation of shade-responsive genes. Mediator is an evolutionarily conserved transcriptional coactivator complex that bridges gene-specific transcription factors with the RNA polymerase II (Pol II) machinery to regulate gene transcription. Here, we report that tomato (Solanum lycopersicum) PIF4 plays an important role in shade-induced hypocotyl elongation by regulating the expression of genes that encode auxin biosynthesis and auxin signaling proteins. During this process, Mediator subunit25 (MED25) physically interacts with PIF4 at the promoter regions of PIF4 target genes and also recruits Pol II to induce gene transcription. Thus, MED25 directly bridges the communication between PIF4 and Pol II general transcriptional machinery to regulate shade-induced hypocotyl elongation. Overall, our results reveal a novel role of MED25 in PIF4-mediated transcriptional regulation under shade.
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Affiliation(s)
- Wenjing Sun
- State Key Laboratory of Crop Biology, College of Agronomy, Shandong Agricultural University, Taian, Shandong 271018, China
| | - Hongyu Han
- State Key Laboratory of Crop Biology, College of Agronomy, Shandong Agricultural University, Taian, Shandong 271018, China
| | - Lei Deng
- State Key Laboratory of Plant Genomics, National Centre for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing 100101, China
- Chinese Academy of Sciences Center for Excellence in Biotic Interactions, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Chuanlong Sun
- State Key Laboratory of Plant Genomics, National Centre for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing 100101, China
- Chinese Academy of Sciences Center for Excellence in Biotic Interactions, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yiran Xu
- State Key Laboratory of Crop Biology, College of Agronomy, Shandong Agricultural University, Taian, Shandong 271018, China
| | - Lihao Lin
- State Key Laboratory of Plant Genomics, National Centre for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing 100101, China
| | - Panrong Ren
- State Key Laboratory of Plant Genomics, National Centre for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing 100101, China
| | - Jiuhai Zhao
- State Key Laboratory of Crop Biology, College of Agronomy, Shandong Agricultural University, Taian, Shandong 271018, China
| | - Qingzhe Zhai
- State Key Laboratory of Plant Genomics, National Centre for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing 100101, China
- Chinese Academy of Sciences Center for Excellence in Biotic Interactions, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Chuanyou Li
- State Key Laboratory of Plant Genomics, National Centre for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing 100101, China
- Chinese Academy of Sciences Center for Excellence in Biotic Interactions, University of Chinese Academy of Sciences, Beijing 100049, China
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Favero DS. Mechanisms regulating PIF transcription factor activity at the protein level. Physiol Plant 2020; 169:325-335. [PMID: 32060918 DOI: 10.1111/ppl.13075] [Citation(s) in RCA: 28] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/07/2019] [Revised: 02/10/2020] [Accepted: 02/13/2020] [Indexed: 05/18/2023]
Abstract
Plant growth and development are precisely regulated by transcription factors (TFs) such as the PHYTOCHROME INTERACTING FACTORs (PIFs). PIFs regulate growth in response to various internal and external stimuli, and, accordingly, are regulated by a variety of different factors and mechanisms. Canonically, PIF activity is inhibited by light through the sequential phosphorylation, ubiquitination and degradation of these TFs in a manner dependent on their interaction with active phytochrome photoreceptors. However, work in more recent years has revealed that phytochromes also antagonize PIF activity by inhibiting their ability to bind DNA and, at least in the case of PIF7, by causing it to be retained in the cytoplasm. Recent work has also revealed specific kinases, phosphatases and E3 ubiquitin ligases which alter PIFs at the post-translational level. In a few cases, these studies have gone as far as identifying potential kinases responsible for phosphorylating PIFs in response to light. Moreover, additional factors have been identified that positively or negatively affect PIF binding to DNA or bind directly to PIF-DNA complexes and affect the transcriptional activation of target genes by these TFs. This review summarizes the variety of different mechanisms involved in PIF regulation and discusses some of the major unanswered questions in this area of research.
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Affiliation(s)
- David S Favero
- Center for Sustainable Resource Science, RIKEN, Yokohama, 230-0045, Japan
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Carrera-Castaño G, Calleja-Cabrera J, Pernas M, Gómez L, Oñate-Sánchez L. An Updated Overview on the Regulation of Seed Germination. Plants (Basel) 2020; 9:plants9060703. [PMID: 32492790 PMCID: PMC7356954 DOI: 10.3390/plants9060703] [Citation(s) in RCA: 54] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/17/2020] [Revised: 05/22/2020] [Accepted: 05/26/2020] [Indexed: 02/07/2023]
Abstract
The ability of a seed to germinate and establish a plant at the right time of year is of vital importance from an ecological and economical point of view. Due to the fragility of these early growth stages, their swiftness and robustness will impact later developmental stages and crop yield. These traits are modulated by a continuous interaction between the genetic makeup of the plant and the environment from seed production to germination stages. In this review, we have summarized the established knowledge on the control of seed germination from a molecular and a genetic perspective. This serves as a “backbone” to integrate the latest developments in the field. These include the link of germination to events occurring in the mother plant influenced by the environment, the impact of changes in the chromatin landscape, the discovery of new players and new insights related to well-known master regulators. Finally, results from recent studies on hormone transport, signaling, and biophysical and mechanical tissue properties are underscoring the relevance of tissue-specific regulation and the interplay of signals in this crucial developmental process.
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Favero DS, Kawamura A, Shibata M, Takebayashi A, Jung J, Suzuki T, Jaeger KE, Ishida T, Iwase A, Wigge PA, Neff MM, Sugimoto K. AT-Hook Transcription Factors Restrict Petiole Growth by Antagonizing PIFs. Curr Biol 2020; 30:1454-1466.e6. [DOI: 10.1016/j.cub.2020.02.017] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2019] [Revised: 10/26/2019] [Accepted: 02/06/2020] [Indexed: 12/20/2022]
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50
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Cheng MC, Enderle B, Kathare PK, Islam R, Hiltbrunner A, Huq E. PCH1 and PCHL Directly Interact with PIF1, Promote Its Degradation, and Inhibit Its Transcriptional Function during Photomorphogenesis. Mol Plant 2020; 13:499-514. [PMID: 32061894 PMCID: PMC7167218 DOI: 10.1016/j.molp.2020.02.003] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/22/2019] [Revised: 12/18/2019] [Accepted: 02/07/2020] [Indexed: 05/17/2023]
Abstract
PHOTOPERIODIC CONTROL OF HYPOCOTYL 1 (PCH1) and PCH1-LIKE (PCHL) were shown to directly bind to phytochrome B (phyB) and suppress phyB thermal reversion, resulting in plants with dramatically enhanced light sensitivity. Here, we show that PCH1 and PCHL also positively regulate various light responses, including seed germination, hypocotyl gravitropism, and chlorophyll biosynthesis, by physically interacting with PHYTOCHROME INTERACTING FACTOR 1 (PIF1) and CONSTITUTIVE PHOTOMORPHOGENIC 1 (COP1). PCH1 and PCHL interact with PIF1 both in the dark and light, and regulate PIF1 abundance. Moreover, PCH1 and PCHL facilitate the physical interaction between phyB and PIF1 in vivo to promote the light-induced degradation of PIF1. PCH1 and PCHL also inhibit the DNA-binding ability of PIF1 to negatively regulate the expressions of PIF1 target genes. In addition, PCH1 and PCHL interact with COP1 and undergo degradation through the 26S proteasome pathway in the dark. Consistently, pch1 suppresses cop1 phenotype in darkness. Collectively, our study reveals a novel mechanism by which PCH1 and PCHL regulate diverse light responses not only by stabilizing phyB Pfr form but also by directly interacting with PIF1 and COP1, providing a molecular understanding of the control of hypocotyl growth by these proteins.
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Affiliation(s)
- Mei-Chun Cheng
- Molecular Biosciences, University of Texas at Austin, NHB 2.616, Stop A5000, 100 East 24th Street, Austin, TX 78712-1095, USA
| | - Beatrix Enderle
- Institute of Biology II, Faculty of Biology, University of Freiburg, Freiburg, Germany
| | - Praveen Kumar Kathare
- Molecular Biosciences, University of Texas at Austin, NHB 2.616, Stop A5000, 100 East 24th Street, Austin, TX 78712-1095, USA
| | - Rafya Islam
- Molecular Biosciences, University of Texas at Austin, NHB 2.616, Stop A5000, 100 East 24th Street, Austin, TX 78712-1095, USA
| | - Andreas Hiltbrunner
- Institute of Biology II, Faculty of Biology, University of Freiburg, Freiburg, Germany; Signalling Research Centres BIOSS and CIBSS, University of Freiburg, Freiburg, Germany
| | - Enamul Huq
- Molecular Biosciences, University of Texas at Austin, NHB 2.616, Stop A5000, 100 East 24th Street, Austin, TX 78712-1095, USA.
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