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Chan C, Liao YJ, Chiou SP. Stress induced factor 2 is a dual regulator for defense and seed germination in Arabidopsis. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2024; 347:112200. [PMID: 39038707 DOI: 10.1016/j.plantsci.2024.112200] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2024] [Revised: 06/12/2024] [Accepted: 07/19/2024] [Indexed: 07/24/2024]
Abstract
Receptor-like kinases (RLKs) constitute a diverse superfamily of proteins pivotal for various plant physiological processes, including responses to pathogens, hormone perception, growth, and development. Their ability to recognize conserved epitopes for general elicitors and specific pathogens marked significant advancements in plant pathology research. Emerging evidence suggests that RLKs and associated components also act as modulators in hormone signaling and cellular trafficking, showcasing their multifunctional roles in growth and development. Notably, STRESS INDUCED FACTOR 2 (SIF2) stands out as a representative with distinct expression patterns in different Arabidopsis organs. Our prior work highlighted the specific induction of SIF2 expression in guard cells, emphasizing its positive contribution to stomatal immunity. Expanding on these findings, our present study delves into the diverse functions of SIF2 expression in root tissues. Utilizing comprehensive physiology, molecular biology, protein biochemistry, and genetic analyses, we reveal that SIF2 modulates abscisic acid (ABA) signaling in Arabidopsis roots. SIF2 is epistatic with key regulators in the ABA signaling pathway, thereby governing the expression of genes crucial for dormancy release and, consequently, Arabidopsis seed germination. This study sheds light on the intricate roles of SIF2 as a multi-functional RLK, underscoring its organ-specific contributions to plant immunity, hormonal regulation, and seed germination.
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Affiliation(s)
- Ching Chan
- Department of Life Science, National Taiwan Normal University, Taipei 11677, Taiwan.
| | - Yi-Jun Liao
- Department of Life Science, National Taiwan Normal University, Taipei 11677, Taiwan
| | - Shian-Peng Chiou
- Department of Life Science, National Taiwan Normal University, Taipei 11677, Taiwan
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2
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Shen J, Zhang L, Wang H, Guo J, Li Y, Tan Y, Shu Q, Qian Q, Yu H, Chen Y, Song S. The phosphatidylethanolamine-binding proteins OsMFT1 and OsMFT2 regulate seed dormancy in rice. THE PLANT CELL 2024; 36:3857-3874. [PMID: 39041489 PMCID: PMC11371141 DOI: 10.1093/plcell/koae211] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/21/2023] [Revised: 06/17/2024] [Accepted: 07/12/2024] [Indexed: 07/24/2024]
Abstract
Seed dormancy is crucial for optimal plant life-cycle timing. However, domestication has largely diminished seed dormancy in modern cereal cultivars, leading to challenges such as preharvest sprouting (PHS) and subsequent declines in yield and quality. Therefore, it is imperative to unravel the molecular mechanisms governing seed dormancy for the development of PHS-resistant varieties. In this study, we screened a mutant of BASIC HELIX-LOOP-HELIX TRANSCRIPTION FACTOR4 (OsbHLH004) with decreased seed dormancy and revealed that OsbHLH004 directly regulates the expression of 9-CIS-EPOXYCAROTENOID DIOXYGENASE3 (OsNCED3) and GIBBERELLIN 2-OXIDASE6 (OsGA2ox6) in rice (Oryza sativa). Additionally, we determined that two phosphatidylethanolamine-binding proteins, MOTHER OF FT AND TFL1 and 2 (OsMFT1 and OsMFT2; hereafter OsMFT1/2) interact with OsbHLH004 and Ideal Plant Architecture 1 (IPA1) to regulate their binding capacities on OsNCED3 and OsGA2ox6, thereby promoting seed dormancy. Intriguingly, FT-INTERACTING PROTEIN1 (OsFTIP1) interacts with OsMFT1/2 and affects their nucleocytoplasmic translocation into the nucleus, where OsMFT1/2-OsbHLH004 and OsMFT1/2-IPA1 antagonistically modulate the expression of OsNCED3 and OsGA2ox6. Our findings reveal that OsFTIP1-mediated inhibition of nuclear translocation of OsMFT1/2 and the dynamic transcriptional modulation of OsNCED3 and OsGA2ox6 by OsMFT1/2-OsbHLH004 and OsMFT1/2-IPA1 complexes in seed dormancy in rice.
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Affiliation(s)
- Jun Shen
- State Key Laboratory of Rice Biology and Breeding, Zhejiang Provincial Key Laboratory of Crop Genetic Resources, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
- Hainan Institute of Zhejiang University, Yongyou Industry Park, Yazhou Bay Sci-Tech City, Sanya, Hainan 572000, China
| | - Liang Zhang
- State Key Laboratory of Rice Biology and Breeding, Zhejiang Provincial Key Laboratory of Crop Genetic Resources, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
| | - Huanyu Wang
- State Key Laboratory of Rice Biology and Breeding, Zhejiang Provincial Key Laboratory of Crop Genetic Resources, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
| | - Jiazhuo Guo
- State Key Laboratory of Rice Biology and Breeding, Zhejiang Provincial Key Laboratory of Crop Genetic Resources, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
| | - Yuchen Li
- State Key Laboratory of Rice Biology and Breeding, Zhejiang Provincial Key Laboratory of Crop Genetic Resources, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
- State Key Laboratory of Rice Biology and Breeding, China National Rice Research Institute, Hangzhou 311400, China
| | - Yuanyuan Tan
- State Key Laboratory of Rice Biology and Breeding, Zhejiang Provincial Key Laboratory of Crop Genetic Resources, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
| | - Qingyao Shu
- State Key Laboratory of Rice Biology and Breeding, Zhejiang Provincial Key Laboratory of Crop Genetic Resources, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
- Hainan Institute of Zhejiang University, Yongyou Industry Park, Yazhou Bay Sci-Tech City, Sanya, Hainan 572000, China
| | - Qian Qian
- State Key Laboratory of Rice Biology and Breeding, China National Rice Research Institute, Hangzhou 311400, China
| | - Hao Yu
- Department of Biological Sciences and Temasek Life Sciences Laboratory, National University of Singapore, Singapore, 117543, Singapore
| | - Ying Chen
- State Key Laboratory of Rice Biology and Breeding, China National Rice Research Institute, Hangzhou 311400, China
| | - Shiyong Song
- State Key Laboratory of Rice Biology and Breeding, Zhejiang Provincial Key Laboratory of Crop Genetic Resources, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
- Hainan Institute of Zhejiang University, Yongyou Industry Park, Yazhou Bay Sci-Tech City, Sanya, Hainan 572000, China
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3
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Jie Y, Wang W, Wu Z, Ren Z, Li L, Zhou Y, Zhang M, Li Z, Yi F, Duan L. Deciphering physiological and transcriptional mechanisms of maize seed germination. PLANT MOLECULAR BIOLOGY 2024; 114:94. [PMID: 39210007 DOI: 10.1007/s11103-024-01486-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/21/2024] [Accepted: 07/14/2024] [Indexed: 09/04/2024]
Abstract
Maize is a valuable raw material for feed and food production. Healthy seed germination is important for improving the yield and quality of maize. Seed aging occurs relatively fast in crops and it is a process that delays germination as well as reduces its rate and even causes total loss of seed viability. However, the physiological and transcriptional mechanisms that regulate maize seeds, especially aging seed germination remain unclear. Coronatine (COR) which is a phytotoxin produced by Pseudomonas syringae and a new type of plant growth regulator can effectively regulate plant growth and development, and regulate seed germination. In this study, the physiological and transcriptomic mechanisms of COR-induced maize seed germination under different aging degrees were analyzed. The results showed that 0.001-0.01 μmol/L COR could promote the germination of aging maize seed and the growth of primary roots and shoots. COR treatment increased the content of gibberellins (GA3) and decreased the content of abscisic acid (ABA) in B73 seeds before germination. The result of RNA-seq analysis showed 497 differentially expressed genes in COR treatment compared with the control. Three genes associated with GA biosynthesis (ZmCPPS2, ZmD3, and ZmGA2ox2), and two genes associated with GA signaling transduction (ZmGID1 and ZmBHLH158) were up-regulated. Three genes negatively regulating GA signaling transduction (ZmGRAS48, ZmGRAS54, and Zm00001d033369) and two genes involved in ABA biosynthesis (ZmVP14 and ZmPCO14472) were down-regulated. The physiological test results also showed that the effects of GA and ABA on seed germination were similar to those of high and low-concentration COR, respectively, which indicated that the effect of COR on seed germination may be carried out through GA and ABA pathways. In addition, GO and KEGG analysis suggested that COR is also highly involved in antioxidant enzyme systems and secondary metabolite synthesis to regulate maize seed germination processes. These findings provide a valuable reference for further research on the mechanisms of maize seed germination.
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Affiliation(s)
- Yaqi Jie
- State Key Laboratory of Plant Physiology and Biochemistry, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, No.2 Yuanmingyuan West Road, Haidian, Beijing, 100193, China
| | - Wei Wang
- State Key Laboratory of Plant Physiology and Biochemistry, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, No.2 Yuanmingyuan West Road, Haidian, Beijing, 100193, China
| | - Zishan Wu
- State Key Laboratory of Plant Physiology and Biochemistry, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, No.2 Yuanmingyuan West Road, Haidian, Beijing, 100193, China
| | - Zhaobin Ren
- State Key Laboratory of Plant Physiology and Biochemistry, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, No.2 Yuanmingyuan West Road, Haidian, Beijing, 100193, China
| | - Lu Li
- State Key Laboratory of Plant Physiology and Biochemistry, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, No.2 Yuanmingyuan West Road, Haidian, Beijing, 100193, China
| | - Yuyi Zhou
- State Key Laboratory of Plant Physiology and Biochemistry, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, No.2 Yuanmingyuan West Road, Haidian, Beijing, 100193, China
| | - Mingcai Zhang
- State Key Laboratory of Plant Physiology and Biochemistry, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, No.2 Yuanmingyuan West Road, Haidian, Beijing, 100193, China
| | - Zhaohu Li
- State Key Laboratory of Plant Physiology and Biochemistry, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, No.2 Yuanmingyuan West Road, Haidian, Beijing, 100193, China
| | - Fei Yi
- State Key Laboratory of Plant Physiology and Biochemistry, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, No.2 Yuanmingyuan West Road, Haidian, Beijing, 100193, China.
| | - Liusheng Duan
- State Key Laboratory of Plant Physiology and Biochemistry, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, No.2 Yuanmingyuan West Road, Haidian, Beijing, 100193, China.
- College of Plant Science and Technology, Beijing University of Agriculture, Beijing, 102206, China.
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Mérai Z, Graeber K, Xu F, Donà M, Lalatović K, Wilhelmsson PKI, Fernandez-Pozo N, Rensing SA, Leubner-Metzger G, Mittelsten Scheid O, Dolan L. Long days induce adaptive secondary dormancy in the seeds of the Mediterranean plant Aethionema arabicum. Curr Biol 2024; 34:2893-2906.e3. [PMID: 38876102 DOI: 10.1016/j.cub.2024.05.043] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2024] [Revised: 03/18/2024] [Accepted: 05/22/2024] [Indexed: 06/16/2024]
Abstract
Secondary dormancy is an adaptive trait that increases reproductive success by aligning seed germination with permissive conditions for seedling establishment. Aethionema arabicum is an annual plant and member of the Brassicaceae that grows in environments characterized by hot and dry summers. Aethionema arabicum seeds may germinate in early spring when seedling establishment is permissible. We demonstrate that long-day light regimes induce secondary dormancy in the seeds of Aethionema arabicum (CYP accession), repressing germination in summer when seedling establishment is riskier. Characterization of mutants screened for defective secondary dormancy demonstrated that RGL2 mediates repression of genes involved in gibberellin (GA) signaling. Exposure to high temperature alleviates secondary dormancy, restoring germination potential. These data are consistent with the hypothesis that long-day-induced secondary dormancy and its alleviation by high temperatures may be part of an adaptive response limiting germination to conditions permissive for seedling establishment in spring and autumn.
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Affiliation(s)
- Zsuzsanna Mérai
- Gregor Mendel Institute of Molecular Plant Biology (GMI), Austrian Academy of Sciences, Vienna Biocenter (VBC), 1030 Vienna, Austria.
| | - Kai Graeber
- Department of Biological Sciences, Royal Holloway University of London, Egham, SRY TW20 0EX, UK
| | - Fei Xu
- Gregor Mendel Institute of Molecular Plant Biology (GMI), Austrian Academy of Sciences, Vienna Biocenter (VBC), 1030 Vienna, Austria
| | - Mattia Donà
- Gregor Mendel Institute of Molecular Plant Biology (GMI), Austrian Academy of Sciences, Vienna Biocenter (VBC), 1030 Vienna, Austria
| | - Katarina Lalatović
- Gregor Mendel Institute of Molecular Plant Biology (GMI), Austrian Academy of Sciences, Vienna Biocenter (VBC), 1030 Vienna, Austria
| | - Per K I Wilhelmsson
- Plant Cell Biology, Faculty of Biology, University of Marburg, 35043 Marburg, Germany
| | - Noe Fernandez-Pozo
- Plant Cell Biology, Faculty of Biology, University of Marburg, 35043 Marburg, Germany; Institute for Mediterranean and Subtropical Horticulture "La Mayora" (IHSM-CSIC-UMA), 29010 Málaga, Spain
| | - Stefan A Rensing
- Plant Cell Biology, Faculty of Biology, University of Marburg, 35043 Marburg, Germany; Centre for Biological Signalling Studies (BIOSS), University of Freiburg, 79104 Freiburg, Germany
| | - Gerhard Leubner-Metzger
- Department of Biological Sciences, Royal Holloway University of London, Egham, SRY TW20 0EX, UK; Laboratory of Growth Regulators, Faculty of Science, Palacký University and Institute of Experimental Botany, Czech Academy of Sciences, 78371 Olomouc, Czech Republic
| | - Ortrun Mittelsten Scheid
- Gregor Mendel Institute of Molecular Plant Biology (GMI), Austrian Academy of Sciences, Vienna Biocenter (VBC), 1030 Vienna, Austria
| | - Liam Dolan
- Gregor Mendel Institute of Molecular Plant Biology (GMI), Austrian Academy of Sciences, Vienna Biocenter (VBC), 1030 Vienna, Austria
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Fang Z, Zhang K, Li J, Ma J, Ye C. Construction of a Membrane Yeast Two-Hybrid Library and Screening of MsPYR1-Like Interacting Proteins in Malus sieversii. Mol Biotechnol 2024:10.1007/s12033-024-01199-2. [PMID: 38824489 DOI: 10.1007/s12033-024-01199-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2024] [Accepted: 05/10/2024] [Indexed: 06/03/2024]
Abstract
To investigate the biological effects of the ABA receptor pyrabactin resistance 1-like (PYR1-like) in Malus sieversii seeds, the proteins interacting with MsPYR1-like were screened by the membrane yeast two-hybrid library based on the split-ubiquitin system, and to construct the bait vector pBT3-SUC-PYR1 for Malus sieversii cDNA library, which had no self-activating effect on the yeast cells of the pPR3-N membrane yeast two-hybrid library. The library titer assay showed that it could meet the requirements for membrane yeast two-hybrid library screening. After sequencing, GenBank database blast, and yeast rotary validation, 28 candidate proteins interacting with MsPYR1-like were obtained, including ribosomal proteins, late embryogenesis abundant proteins, F-actin-capping proteins, phytochrome-interacting proteins, low-temperature-inducible 65 kDa protein-like, senescence-associated, PP2C and SnRK2 family members, and unknown proteins. Gene ontology analysis of the interaction proteins was related to plant hormone response and negative regulation of seed germination, overexpression of MsPYR1-like in Arabidopsis negatively regulates seed germination, and the study of the biological roles of MsPYR1-like interacting proteins lays the foundation for revealing the lifting of seed dormancy in Malus sieversii.
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Affiliation(s)
- Zhen Fang
- College of Forestry and Landscape Architecture, Xinjiang Agricultural University, Urumqi, 830052, Xinjiang, China
| | - Kai Zhang
- College of Forestry and Landscape Architecture, Xinjiang Agricultural University, Urumqi, 830052, Xinjiang, China
| | - Jing Li
- College of Forestry and Landscape Architecture, Xinjiang Agricultural University, Urumqi, 830052, Xinjiang, China
| | - Juan Ma
- College of Forestry and Landscape Architecture, Xinjiang Agricultural University, Urumqi, 830052, Xinjiang, China
| | - Chunxiu Ye
- College of Forestry and Landscape Architecture, Xinjiang Agricultural University, Urumqi, 830052, Xinjiang, China.
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Wen Z, Lu X, Wen J, Wang Z, Chai M. Physical Seed Dormancy in Legumes: Molecular Advances and Perspectives. PLANTS (BASEL, SWITZERLAND) 2024; 13:1473. [PMID: 38891282 PMCID: PMC11174410 DOI: 10.3390/plants13111473] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/04/2024] [Revised: 05/14/2024] [Accepted: 05/17/2024] [Indexed: 06/21/2024]
Abstract
Physical dormancy of seeds is a form of dormancy due to the presence of an impermeable seed coat layer, and it represents a feature for plants to adapt to environmental changes over an extended period of phylogenetic evolution. However, in agricultural practice, physical dormancy is problematic. because it prevents timely and uniform seed germination. Therefore, physical dormancy is an important agronomical trait to target in breeding and domestication, especially for many leguminous crops. Compared to the well-characterized physiological dormancy, research progress on physical dormancy at the molecular level has been limited until recent years, due to the lack of suitable research materials. This review focuses on the structure of seed coat, factors affecting physical dormancy, genes controlling physical dormancy, and plants suitable for studying physical dormancy at the molecular level. Our goal is to provide a plethora of information for further molecular research on physical dormancy.
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Affiliation(s)
- Zhaozhu Wen
- Key Laboratory of National Forestry and Grassland Administration on Grassland Resources and Ecology in the Yellow River Delta, College of Grassland Science, Qingdao Agricultural University, Qingdao 266109, China
- Qingdao Key Laboratory of Specialty Plant Germplasm Innovation and Utilization in Saline Soils of Coastal Beach, College of Grassland Science, Qingdao Agricultural University, Qingdao 266109, China
- College of Agronomy, Hunan Agricultural University, Changsha 410128, China
| | - Xuran Lu
- Key Laboratory of National Forestry and Grassland Administration on Grassland Resources and Ecology in the Yellow River Delta, College of Grassland Science, Qingdao Agricultural University, Qingdao 266109, China
- Qingdao Key Laboratory of Specialty Plant Germplasm Innovation and Utilization in Saline Soils of Coastal Beach, College of Grassland Science, Qingdao Agricultural University, Qingdao 266109, China
| | - Jiangqi Wen
- Institute for Agricultural Biosciences, Oklahoma State University, Ardmore, OK 73401, USA
| | - Zengyu Wang
- Key Laboratory of National Forestry and Grassland Administration on Grassland Resources and Ecology in the Yellow River Delta, College of Grassland Science, Qingdao Agricultural University, Qingdao 266109, China
- Qingdao Key Laboratory of Specialty Plant Germplasm Innovation and Utilization in Saline Soils of Coastal Beach, College of Grassland Science, Qingdao Agricultural University, Qingdao 266109, China
| | - Maofeng Chai
- Key Laboratory of National Forestry and Grassland Administration on Grassland Resources and Ecology in the Yellow River Delta, College of Grassland Science, Qingdao Agricultural University, Qingdao 266109, China
- Qingdao Key Laboratory of Specialty Plant Germplasm Innovation and Utilization in Saline Soils of Coastal Beach, College of Grassland Science, Qingdao Agricultural University, Qingdao 266109, China
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Sajeev N, Koornneef M, Bentsink L. A commitment for life: Decades of unraveling the molecular mechanisms behind seed dormancy and germination. THE PLANT CELL 2024; 36:1358-1376. [PMID: 38215009 PMCID: PMC11062444 DOI: 10.1093/plcell/koad328] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/24/2023] [Accepted: 12/19/2023] [Indexed: 01/14/2024]
Abstract
Seeds are unique time capsules that can switch between 2 complex and highly interlinked stages: seed dormancy and germination. Dormancy contributes to the survival of plants because it allows to delay germination to optimal conditions. The switch between dormancy and germination occurs in response to developmental and environmental cues. In this review we provide a comprehensive overview of studies that have helped to unravel the molecular mechanisms underlying dormancy and germination over the last decades. Genetic and physiological studies provided a strong foundation for this field of research and revealed the critical role of the plant hormones abscisic acid and gibberellins in the regulation of dormancy and germination, and later natural variation studies together with quantitative genetics identified previously unknown genetic components that control these processes. Omics technologies like transcriptome, proteome, and translatomics analysis allowed us to mechanistically dissect these processes and identify new components in the regulation of seed dormancy and germination.
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Affiliation(s)
- Nikita Sajeev
- Wageningen Seed Science Centre, Laboratory of Plant Physiology, Wageningen University, 6708PB Wageningen, the Netherlands
| | - Maarten Koornneef
- Laboratory of Genetics, Wageningen University, 6708PB Wageningen, the Netherlands
- Max Planck Institute for Plant Breeding Research, Former Department of Plant Breeding and Genetics, Koeln 50829, Germany
| | - Leónie Bentsink
- Wageningen Seed Science Centre, Laboratory of Plant Physiology, Wageningen University, 6708PB Wageningen, the Netherlands
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Wang Y, Huang Y, Chen Y, Yu Z, Liu P, Li G, Yang Q. Genome-Wide Identification of GAST Family Members and Their Potential Roles in Epicotyl Dormancy in Chinese Cork Oak ( Quercus variabilis). PLANTS (BASEL, SWITZERLAND) 2024; 13:1247. [PMID: 38732462 PMCID: PMC11085511 DOI: 10.3390/plants13091247] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/27/2024] [Revised: 04/26/2024] [Accepted: 04/28/2024] [Indexed: 05/13/2024]
Abstract
Chinese cork oak (Quercus variabilis Blume) is a widespread tree species with high economic and ecological values. Chinese cork oak exhibits epicotyl dormancy, causing emergence heterogeneity and affecting the quality of seedling cultivation. Gibberellic acid-stimulated transcript (GAST) is a plant-specific protein family that plays a crucial regulatory role in plant growth, development, and seed germination. However, their evolution in Chinese cork oak and roles in epicotyl dormancy are still unclear. Here, a genome-wide identification of the GAST gene family was conducted in Chinese cork oak. Ten QvGAST genes were identified, and nine of them were expressed in seed. The physicochemical properties and promoter cis-acting elements of the selected Chinese cork oak GAST family genes indicated that the cis-acting elements in the GAST promoter are involved in plant development, hormone response, and stress response. Germinated seeds were subjected to gibberellins (GAs), abscisic acid (ABA), and fluridone treatments to show their response during epicotyl dormancy release. Significant changes in the expression of certain QvGAST genes were observed under different hormone treatments. QvGAST1, QvGAST2, QvGAST3, and QvGAST6 exhibited upregulation in response to gibberellin. QvGAST2 was markedly upregulated during the release of epicotyl dormancy in response to GA. These findings suggested that QvGAST2 might play an important role in epicotyl dormancy release. This study provides a basis for further analysis of the mechanisms underlying the alleviation of epicotyl dormancy in Chinese cork oak by QvGASTs genes.
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Affiliation(s)
- Yaochen Wang
- Research Center of Deciduous Oaks, Beijing Forestry University, Beijing 100083, China; (Y.W.); (Y.H.); (Y.C.); (Z.Y.); (P.L.); (G.L.)
- Deciduous Oak Improvement and Regeneration Innovation Team of State Forestry and Grassland Administration, Beijing Forestry University, Beijing 100083, China
- Key Laboratory for Silviculture and Conservation, Ministry of Education, Beijing Forestry University, Beijing 100083, China
| | - Yifei Huang
- Research Center of Deciduous Oaks, Beijing Forestry University, Beijing 100083, China; (Y.W.); (Y.H.); (Y.C.); (Z.Y.); (P.L.); (G.L.)
- Deciduous Oak Improvement and Regeneration Innovation Team of State Forestry and Grassland Administration, Beijing Forestry University, Beijing 100083, China
- Key Laboratory for Silviculture and Conservation, Ministry of Education, Beijing Forestry University, Beijing 100083, China
| | - Yixin Chen
- Research Center of Deciduous Oaks, Beijing Forestry University, Beijing 100083, China; (Y.W.); (Y.H.); (Y.C.); (Z.Y.); (P.L.); (G.L.)
- Deciduous Oak Improvement and Regeneration Innovation Team of State Forestry and Grassland Administration, Beijing Forestry University, Beijing 100083, China
- Key Laboratory for Silviculture and Conservation, Ministry of Education, Beijing Forestry University, Beijing 100083, China
| | - Zhaowei Yu
- Research Center of Deciduous Oaks, Beijing Forestry University, Beijing 100083, China; (Y.W.); (Y.H.); (Y.C.); (Z.Y.); (P.L.); (G.L.)
- Deciduous Oak Improvement and Regeneration Innovation Team of State Forestry and Grassland Administration, Beijing Forestry University, Beijing 100083, China
- Key Laboratory for Silviculture and Conservation, Ministry of Education, Beijing Forestry University, Beijing 100083, China
| | - Puyuan Liu
- Research Center of Deciduous Oaks, Beijing Forestry University, Beijing 100083, China; (Y.W.); (Y.H.); (Y.C.); (Z.Y.); (P.L.); (G.L.)
- Deciduous Oak Improvement and Regeneration Innovation Team of State Forestry and Grassland Administration, Beijing Forestry University, Beijing 100083, China
- Key Laboratory for Silviculture and Conservation, Ministry of Education, Beijing Forestry University, Beijing 100083, China
| | - Guolei Li
- Research Center of Deciduous Oaks, Beijing Forestry University, Beijing 100083, China; (Y.W.); (Y.H.); (Y.C.); (Z.Y.); (P.L.); (G.L.)
- Deciduous Oak Improvement and Regeneration Innovation Team of State Forestry and Grassland Administration, Beijing Forestry University, Beijing 100083, China
- Key Laboratory for Silviculture and Conservation, Ministry of Education, Beijing Forestry University, Beijing 100083, China
| | - Qinsong Yang
- Research Center of Deciduous Oaks, Beijing Forestry University, Beijing 100083, China; (Y.W.); (Y.H.); (Y.C.); (Z.Y.); (P.L.); (G.L.)
- Deciduous Oak Improvement and Regeneration Innovation Team of State Forestry and Grassland Administration, Beijing Forestry University, Beijing 100083, China
- Key Laboratory for Silviculture and Conservation, Ministry of Education, Beijing Forestry University, Beijing 100083, China
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9
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Duan S, Guan S, Fei R, Sun T, Kang X, Xin R, Song W, Sun X. Unraveling the role of PlARF2 in regulating deed formancy in Paeonia lactiflora. PLANTA 2024; 259:133. [PMID: 38668881 DOI: 10.1007/s00425-024-04411-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/25/2023] [Accepted: 04/10/2024] [Indexed: 05/01/2024]
Abstract
MAIN CONCLUSION PlARF2 can positively regulate the seed dormancy in Paeonia lactiflora Pall. and bind the RY cis-element. Auxin, a significant phytohormone influencing seed dormancy, has been demonstrated to be regulated by auxin response factors (ARFs), key transcriptional modulators in the auxin signaling pathway. However, the role of this class of transcription factors (TFs) in perennials with complex seed dormancy mechanisms remains largely unexplored. Here, we cloned and characterized an ARF gene from Paeonia lactiflora, named PlARF2, which exhibited differential expression levels in the seeds during the process of seed dormancy release. The deduced amino acid sequence of PlARF2 had high homology with those of other plants and contained typical conserved Auxin_resp domain of the ARF family. Phylogenetic analysis revealed that PlARF2 was closely related to VvARF3 in Vitis vinifera. The subcellular localization and transcriptional activation assay showed that PlARF2 is a nuclear protein possessing transcriptional activation activity. The expression levels of dormancy-related genes in transgenic callus indicated that PlARF2 was positively correlated with the contents of PlABI3 and PlDOG1. The germination assay showed that PlARF2 promoted seed dormancy. Moreover, TF Centered Yeast one-hybrid assay (TF-Centered Y1H), electrophoretic mobility shift assay (EMSA) and dual-luciferase reporter assay analysis (Dual-Luciferase) provided evidence that PlARF2 can bind to the 'CATGCATG' motif. Collectively, our findings suggest that PlARF2, as TF, could be involved in the regulation of seed dormancy and may act as a repressor of germination.
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Affiliation(s)
- Siyang Duan
- College of Forestry, Shenyang Agricultural University, Shenyang, 110866, China
- Key Laboratory of Forest Tree Genetics, Breeding and Cultivation of Liaoning Province, Shenyang, 110866, China
| | - Shixin Guan
- College of Forestry, Shenyang Agricultural University, Shenyang, 110866, China
- Key Laboratory of Forest Tree Genetics, Breeding and Cultivation of Liaoning Province, Shenyang, 110866, China
| | - Riwen Fei
- College of Forestry, Shenyang Agricultural University, Shenyang, 110866, China
- Key Laboratory of Forest Tree Genetics, Breeding and Cultivation of Liaoning Province, Shenyang, 110866, China
| | - Tianyi Sun
- College of Forestry, Shenyang Agricultural University, Shenyang, 110866, China
- Key Laboratory of Forest Tree Genetics, Breeding and Cultivation of Liaoning Province, Shenyang, 110866, China
| | - Xuening Kang
- College of Forestry, Shenyang Agricultural University, Shenyang, 110866, China
- Key Laboratory of Forest Tree Genetics, Breeding and Cultivation of Liaoning Province, Shenyang, 110866, China
| | - Rujie Xin
- College of Forestry, Shenyang Agricultural University, Shenyang, 110866, China
- Key Laboratory of Forest Tree Genetics, Breeding and Cultivation of Liaoning Province, Shenyang, 110866, China
| | - Wenhui Song
- College of Forestry, Shenyang Agricultural University, Shenyang, 110866, China
- Key Laboratory of Forest Tree Genetics, Breeding and Cultivation of Liaoning Province, Shenyang, 110866, China
| | - Xiaomei Sun
- College of Forestry, Shenyang Agricultural University, Shenyang, 110866, China.
- Key Laboratory of Forest Tree Genetics, Breeding and Cultivation of Liaoning Province, Shenyang, 110866, China.
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10
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Xie T, Hu W, Shen J, Xu J, Yang Z, Chen X, Zhu P, Chen M, Chen S, Zhang H, Cheng J. Allantoate Amidohydrolase OsAAH is Essential for Preharvest Sprouting Resistance in Rice. RICE (NEW YORK, N.Y.) 2024; 17:28. [PMID: 38622442 PMCID: PMC11018578 DOI: 10.1186/s12284-024-00706-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/20/2024] [Accepted: 03/30/2024] [Indexed: 04/17/2024]
Abstract
Preharvest sprouting (PHS) is an undesirable trait that decreases yield and quality in rice production. Understanding the genes and regulatory mechanisms underlying PHS is of great significance for breeding PHS-resistant rice. In this study, we identified a mutant, preharvest sprouting 39 (phs39), that exhibited an obvious PHS phenotype in the field. MutMap+ analysis and transgenic experiments demonstrated that OsAAH, which encodes allantoate amidohydrolase, is the causal gene of phs39 and is essential for PHS resistance. OsAAH was highly expressed in roots and leaves at the heading stage and gradually increased and then weakly declined in the seed developmental stage. OsAAH protein was localized to the endoplasmic reticulum, with a function of hydrolyzing allantoate in vitro. Disruption of OsAAH increased the levels of ureides (allantoate and allantoin) and activated the tricarboxylic acid (TCA) cycle, and thus increased energy levels in developing seeds. Additionally, the disruption of OsAAH significantly increased asparagine, arginine, and lysine levels, decreased tryptophan levels, and decreased levels of indole-3-acetic acid (IAA) and abscisic acid (ABA). Our findings revealed that the OsAAH of ureide catabolism is involved in the regulation of rice PHS via energy and hormone metabolisms, which will help to facilitate the breeding of rice PHS-resistant varieties.
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Affiliation(s)
- Ting Xie
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Collaborative Innovation Center for Modern Crop Production, Hainan Yazhou Bay Seed Lab, Jiangsu Province Engineering Research Center of Seed Industry Science and Technology, Nanjing Agricultural University, 210095, Nanjing, China
| | - Wenling Hu
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Collaborative Innovation Center for Modern Crop Production, Hainan Yazhou Bay Seed Lab, Jiangsu Province Engineering Research Center of Seed Industry Science and Technology, Nanjing Agricultural University, 210095, Nanjing, China
| | - Jiaxin Shen
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Collaborative Innovation Center for Modern Crop Production, Hainan Yazhou Bay Seed Lab, Jiangsu Province Engineering Research Center of Seed Industry Science and Technology, Nanjing Agricultural University, 210095, Nanjing, China
| | - Jiangyu Xu
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Collaborative Innovation Center for Modern Crop Production, Hainan Yazhou Bay Seed Lab, Jiangsu Province Engineering Research Center of Seed Industry Science and Technology, Nanjing Agricultural University, 210095, Nanjing, China
| | - Zeyuan Yang
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Collaborative Innovation Center for Modern Crop Production, Hainan Yazhou Bay Seed Lab, Jiangsu Province Engineering Research Center of Seed Industry Science and Technology, Nanjing Agricultural University, 210095, Nanjing, China
| | - Xinyi Chen
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Collaborative Innovation Center for Modern Crop Production, Hainan Yazhou Bay Seed Lab, Jiangsu Province Engineering Research Center of Seed Industry Science and Technology, Nanjing Agricultural University, 210095, Nanjing, China
| | - Peiwen Zhu
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Collaborative Innovation Center for Modern Crop Production, Hainan Yazhou Bay Seed Lab, Jiangsu Province Engineering Research Center of Seed Industry Science and Technology, Nanjing Agricultural University, 210095, Nanjing, China
| | - Mingming Chen
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Collaborative Innovation Center for Modern Crop Production, Hainan Yazhou Bay Seed Lab, Jiangsu Province Engineering Research Center of Seed Industry Science and Technology, Nanjing Agricultural University, 210095, Nanjing, China
- College of Life Sciences, Henan Agricultural University, 450002, Zhengzhou, China
| | - Sunlu Chen
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Collaborative Innovation Center for Modern Crop Production, Hainan Yazhou Bay Seed Lab, Jiangsu Province Engineering Research Center of Seed Industry Science and Technology, Nanjing Agricultural University, 210095, Nanjing, China
| | - Hongsheng Zhang
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Collaborative Innovation Center for Modern Crop Production, Hainan Yazhou Bay Seed Lab, Jiangsu Province Engineering Research Center of Seed Industry Science and Technology, Nanjing Agricultural University, 210095, Nanjing, China.
| | - Jinping Cheng
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Collaborative Innovation Center for Modern Crop Production, Hainan Yazhou Bay Seed Lab, Jiangsu Province Engineering Research Center of Seed Industry Science and Technology, Nanjing Agricultural University, 210095, Nanjing, China.
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11
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Yan F, Wei T, Yang C, Yang Y, Luo Z, Jiang Y. Combined Analysis of Untargeted Metabolomics and Transcriptomics Revealed Seed Germination and Seedling Establishment in Zelkova schneideriana. Genes (Basel) 2024; 15:488. [PMID: 38674422 PMCID: PMC11050531 DOI: 10.3390/genes15040488] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2024] [Revised: 03/31/2024] [Accepted: 04/08/2024] [Indexed: 04/28/2024] Open
Abstract
Zelkova schneideriana Hand.-Mazz is a valuable ornamental tree and timber source, whose seedling breeding and large-scale cultivation are restricted by low seed germination and seedling rates. The regulatory mechanisms underlying seed germination and seedling establishment in Z. schneideriana remain unknown. This study conducted metabolomic and transcriptomic analyses of seed germination and seedling establishment in Z. schneideriana. Regular expression of genes and metabolite levels has been observed in plant hormone signal transduction, starch and sucrose metabolism, linoleic acid metabolism, and phenylpropanoid biosynthesis. The reduction in abscisic acid during seed germination may lead to seed release from dormancy. After the seed is released from dormancy, the metabolic levels of auxin, cytokinins, brassinolide, and various sugars are elevated, and they are consumed in large quantities during the seedling establishment stage. Linoleic acid metabolism is gradually activated during seedling establishment. Transcriptome analysis showed that a large number of genes in different metabolic pathways are upregulated during plant establishment, and material metabolism may be accelerated during seedling establishment. Genes regulating carbohydrate metabolism are altered during seed germination and seedling establishment, which may have altered the efficiency of carbohydrate utilization. In addition, the syntheses of lignin monomers and cellulose have different characteristics at different stages. These results provide new insights into the complex mechanisms underlying seed germination and seedling establishment in Z. schneideriana and other woody plants.
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Affiliation(s)
- Fengxia Yan
- Key Laboratory of National Forestry and Grassland Administration on Biodiversity Conservation in Karst Mountainous Areas of Southwestern China, Guizhou Academy of Forestry, Guiyang 550005, China; (F.Y.); (Y.Y.); (Y.J.)
| | - Tangmei Wei
- Xingyi Forestry Bureau, Qianxinan Prefecture Guizhou, Guiyang 562400, China;
| | - Chao Yang
- Institute for Forest Resources and Environment, Guizhou University, Guiyang 550025, China;
| | - Yanbing Yang
- Key Laboratory of National Forestry and Grassland Administration on Biodiversity Conservation in Karst Mountainous Areas of Southwestern China, Guizhou Academy of Forestry, Guiyang 550005, China; (F.Y.); (Y.Y.); (Y.J.)
| | - Zaiqi Luo
- Key Laboratory of National Forestry and Grassland Administration on Biodiversity Conservation in Karst Mountainous Areas of Southwestern China, Guizhou Academy of Forestry, Guiyang 550005, China; (F.Y.); (Y.Y.); (Y.J.)
| | - Yunli Jiang
- Key Laboratory of National Forestry and Grassland Administration on Biodiversity Conservation in Karst Mountainous Areas of Southwestern China, Guizhou Academy of Forestry, Guiyang 550005, China; (F.Y.); (Y.Y.); (Y.J.)
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12
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Glison N, Gaiero P, Monteverde E, Speranza PR. Breeding for reduced seed dormancy to domesticate new grass species. Genet Mol Biol 2024; 47Suppl 1:e20230262. [PMID: 38666746 PMCID: PMC11046443 DOI: 10.1590/1678-4685-gmb-2023-0262] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2023] [Accepted: 03/01/2024] [Indexed: 04/29/2024] Open
Abstract
Introducing new grass species into cultivation has long been proposed as beneficial to increase the sustainability and diversity of productive systems. However, wild species with potential tend to show high seed dormancy, causing slow, poor, and unsynchronized seedling emergence. Meanwhile, domesticated species, such as cereals, show lower seed dormancy, facilitating their successful establishment. In this work, we conduct a review of phenotypic variation on seed dormancy and its genetic and molecular basis. This quantitative and highly heritable trait shows phenotype plasticity which is modulated by environmental factors. The level of dormancy depends on the expression of genes associated with the metabolism and sensitivity to the hormones abscisic acid (ABA) and gibberellins (GA), along with other dormancy-specific genes. The genetic regulation of these traits is highly conserved across species. The low seed dormancy observed in cereals and some temperate forages was mostly unconsciously selected during various domestication processes. Emphasis is placed on selecting materials with low seed dormancy for warm-season forage grasses to improve their establishment and adoption. Finally, we review advances in the domestication of dallisgrass, where seed dormancy was considered a focus trait throughout the process.
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Affiliation(s)
- Nicolás Glison
- Universidad de la República, Facultad de Agronomía, Departamento de Biología Vegetal, Montevideo, Uruguay
| | - Paola Gaiero
- Universidad de la República, Facultad de Agronomía, Departamento de Biología Vegetal, Montevideo, Uruguay
| | - Eliana Monteverde
- Universidad de la República, Facultad de Agronomía, Departamento de Biología Vegetal, Montevideo, Uruguay
- University of Illinois, Department of Crop Sciences, Urbana, IL, USA
| | - Pablo R. Speranza
- Universidad de la República, Facultad de Agronomía, Departamento de Biología Vegetal, Montevideo, Uruguay
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13
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Piarulli L, Pirolo C, Roseti V, Bellin D, Mascio I, La Notte P, Montemurro C, Miazzi MM. Breeding new seedless table grapevines for a more sustainable viticulture in Mediterranean climate. FRONTIERS IN PLANT SCIENCE 2024; 15:1379642. [PMID: 38645394 PMCID: PMC11027070 DOI: 10.3389/fpls.2024.1379642] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/31/2024] [Accepted: 03/14/2024] [Indexed: 04/23/2024]
Abstract
The growing demand for sustainable and environmentally friendly viticulture is leading to a multiplication of breeding programs aimed at obtaining vines that are resistant to powdery mildew (PM) and downy mildew (DM), the two most damaging vine diseases. In Puglia, the most important Italian region for the production of table grapes, an extensive crossing program was launched in 2015 with 113 crosses, including elite table varieties, seedless varieties, and resistant varieties. The main seedling production parameters were measured for each cross. In particular, berries harvested as well as the number of seeds and seedlings obtained were considered. Approximately 103,119 seedlings were obtained and subjected to marker-assisted selection for seedlessness using the marker VvAGL11 and for resistance to PM and DM with appropriate markers. Approximately one third (32,638) of the progenies were selected as putative seedless and seventeen thousand five hundred-nine (17,509) were transferred to the field for phenotypic evaluation, including 527 seedless individuals putatively resistant, of which 208 confirmed to be resistant to DM, 22 resistant to PM, and 20 individuals that combined resistance and seedlessness traits. The work discusses the effects of parental combinations and other variables in obtaining surviving progeny and pyramiding genes in table grapes and provides useful information for selecting genotypes and increasing the efficiency of breeding programs for seedless disease-resistant grapes.
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Affiliation(s)
- Luciana Piarulli
- SINAGRI S.r.l. – Spin-Off of the University of Bari Aldo Moro, Bari, Italy
- Rete Italian Variety Club (IVC), Locorotondo, Italy
| | - Costantino Pirolo
- SINAGRI S.r.l. – Spin-Off of the University of Bari Aldo Moro, Bari, Italy
- Rete Italian Variety Club (IVC), Locorotondo, Italy
| | | | - Diana Bellin
- Department of Biotechnology, University of Verona, Verona, Italy
| | - Isabella Mascio
- Department of Soil, Plant and Food Sciences, University of Bari Aldo Moro, Bari, Italy
| | | | - Cinzia Montemurro
- SINAGRI S.r.l. – Spin-Off of the University of Bari Aldo Moro, Bari, Italy
- Rete Italian Variety Club (IVC), Locorotondo, Italy
- Department of Soil, Plant and Food Sciences, University of Bari Aldo Moro, Bari, Italy
| | - Monica Marilena Miazzi
- Rete Italian Variety Club (IVC), Locorotondo, Italy
- Department of Soil, Plant and Food Sciences, University of Bari Aldo Moro, Bari, Italy
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14
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Wu W, Feng X, Wang N, Shao S, Liu M, Si F, Chen L, Jin C, Xu S, Guo Z, Zhong C, Shi S, He Z. Genomic analysis of Nypa fruticans elucidates its intertidal adaptations and early palm evolution. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2024; 66:824-843. [PMID: 38372488 DOI: 10.1111/jipb.13625] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/30/2023] [Accepted: 01/28/2024] [Indexed: 02/20/2024]
Abstract
Nypa fruticans (Wurmb), a mangrove palm species with origins dating back to the Late Cretaceous period, is a unique species for investigating long-term adaptation strategies to intertidal environments and the early evolution of palms. Here, we present a chromosome-level genome sequence and assembly for N. fruticans. We integrated the genomes of N. fruticans and other palm family members for a comparative genomic analysis, which confirmed that the common ancestor of all palms experienced a whole-genome duplication event around 89 million years ago, shaping the distinctive characteristics observed in this clade. We also inferred a low mutation rate for the N. fruticans genome, which underwent strong purifying selection and evolved slowly, thus contributing to its stability over a long evolutionary period. Moreover, ancient duplicates were preferentially retained, with critical genes having experienced positive selection, enhancing waterlogging tolerance in N. fruticans. Furthermore, we discovered that the pseudogenization of Early Methionine-labelled 1 (EM1) and EM6 in N. fruticans underly its crypto-vivipary characteristics, reflecting its intertidal adaptation. Our study provides valuable genomic insights into the evolutionary history, genome stability, and adaptive evolution of the mangrove palm. Our results also shed light on the long-term adaptation of this species and contribute to our understanding of the evolutionary dynamics in the palm family.
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Affiliation(s)
- Weihong Wu
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, 510275, China
| | - Xiao Feng
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, 510275, China
- Greater Bay Area Institute of Precision Medicine, School of Life Sciences, Fudan University, Guangzhou, 511462, China
| | - Nan Wang
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, 510275, China
| | - Shao Shao
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, 510275, China
| | - Min Liu
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, 510275, China
| | - Fa Si
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, 510275, China
| | - Linhao Chen
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, 510275, China
| | - Chuanfeng Jin
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, 510275, China
| | - Shaohua Xu
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, 510275, China
| | - Zixiao Guo
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, 510275, China
| | - Cairong Zhong
- Hainan Academy of Forestry (Hainan Academy of Mangrove), Haikou, 571100, China
| | - Suhua Shi
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, 510275, China
| | - Ziwen He
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, 510275, China
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15
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Zhang YX, Zhang YD, Shi YP. Novel Small Molecule Matrix Screening for Simultaneous MALDI Mass Spectrometry Imaging of Multiple Lipids and Phytohormones. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2024; 72:6762-6771. [PMID: 38478706 DOI: 10.1021/acs.jafc.4c00309] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/28/2024]
Abstract
Most of the traditional matrices cannot simultaneously image multiple lipids and phytohormones, so screening and discovery of novel matrices stand as essential approaches for broadening the application scope of matrix-assisted laser desorption/ionization mass spectrometry imaging (MALDI-MSI). In this work, 12 organic small molecule compounds were comprehensively screened and investigated as potential MALDI matrices for simultaneous imaging analysis of various lipids and phytohormones. In the positive ionization mode, p-nitroaniline, m-nitroaniline, and 2-aminoterephthalic acid displayed good performance for the highly sensitive detection of lysophosphatidylcholines (LPCs), phosphatidylcholines (PCs), and triacylglycerols (TGs). Furthermore, p-nitroaniline possessed excellent characteristics of strong ultraviolet absorption and homogeneous cocrystallization, making it a desirable matrix for MALDI-MSI analysis of eight plant hormones. Compared with conventional matrices (2,5-dihydroxybenzoic acid (DHB), α-cyano-4-hydroxycinnamic acid (CHCA), and 9-aminoacridine (9-AA), the use of p-nitroaniline resulted in higher ionization efficiency, superior sensitivity, and clearer imaging images in dual polarity mode. Our research offers valuable guidance and new ideas for future endeavors in matrix screening.
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Affiliation(s)
- Yan-Xia Zhang
- CAS Key Laboratory of Chemistry of Northwestern Plant Resources and Key Laboratory for Natural Medicine of Gansu Province, Lanzhou Institute of Chemical Physics, Chinese Academy of Sciences, Lanzhou 730000, P. R. China
- University of Chinese Academy of Sciences, Beijing 100049, P. R. China
| | - Yi-Da Zhang
- CAS Key Laboratory of Chemistry of Northwestern Plant Resources and Key Laboratory for Natural Medicine of Gansu Province, Lanzhou Institute of Chemical Physics, Chinese Academy of Sciences, Lanzhou 730000, P. R. China
| | - Yan-Ping Shi
- CAS Key Laboratory of Chemistry of Northwestern Plant Resources and Key Laboratory for Natural Medicine of Gansu Province, Lanzhou Institute of Chemical Physics, Chinese Academy of Sciences, Lanzhou 730000, P. R. China
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16
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Park M, Shin SY, Moon H, Choi W, Shin C. Analysis of the global transcriptome and miRNAome associated with seed dormancy during seed maturation in rice (Oryza sativa L. cv. Nipponbare). BMC PLANT BIOLOGY 2024; 24:215. [PMID: 38532331 DOI: 10.1186/s12870-024-04928-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/06/2023] [Accepted: 03/19/2024] [Indexed: 03/28/2024]
Abstract
BACKGROUND Seed dormancy is a biological mechanism that prevents germination until favorable conditions for the subsequent generation of plants are encountered. Therefore, this mechanism must be effectively established during seed maturation. Studies investigating the transcriptome and miRNAome of rice embryos and endosperms at various maturation stages to evaluate seed dormancy are limited. This study aimed to compare the transcriptome and miRNAome of rice seeds during seed maturation. RESULTS Oryza sativa L. cv. Nipponbare seeds were sampled for embryos and endosperms at three maturation stages: 30, 45, and 60 days after heading (DAH). The pre-harvest sprouting (PHS) assay was conducted to assess the level of dormancy in the seeds at each maturation stage. At 60 DAH, the PHS rate was significantly increased compared to those at 30 and 45 DAH, indicating that the dormancy is broken during the later maturation stage (45 DAH to 60 DAH). However, the largest number of differentially expressed genes (DEGs) and differentially expressed miRNAs (DEmiRs) were identified between 30 and 60 DAH in the embryo and endosperm, implying that the gradual changes in genes and miRNAs from 30 to 60 DAH may play a significant role in breaking seed dormancy. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analyses confirmed that DEGs related to plant hormones were most abundant in the embryo during 45 DAH to 60 DAH and 30 DAH to 60 DAH transitions. Alternatively, most of the DEGs in the endosperm were related to energy and abiotic stress. MapMan analysis and quantitative real-time polymerase chain reaction identified four newly profiled auxin-related genes (OsSAUR6/12/23/25) and one ethylene-related gene (OsERF087), which may be involved in seed dormancy during maturation. Additionally, miRNA target prediction (psRNATarget) and degradome dataset (TarDB) indicated a potential association between osa-miR531b and ethylene biosynthesis gene (OsACO4), along with osa-miR390-5p and the abscisic acid (ABA) exporter-related gene (OsMATE19) as factors involved in seed dormancy. CONCLUSIONS Analysis of the transcriptome and miRNAome of rice embryos and endosperms during seed maturation provided new insights into seed dormancy, particularly its relationship with plant hormones such as ABA, auxin, and ethylene.
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Affiliation(s)
- Minsu Park
- Department of Agricultural Biotechnology, Seoul National University, Seoul, 08826, Republic of Korea
- Research Institute of Agriculture and Life Sciences, Seoul National University, Seoul, 08826, Republic of Korea
| | - Sang-Yoon Shin
- Plant Genomics and Breeding Institute, Seoul National University, Seoul, 08826, Republic of Korea
- Research Center for Plant Plasticity, Seoul National University, Seoul, 08826, Republic of Korea
| | - Hongman Moon
- Department of Agricultural Biotechnology, Seoul National University, Seoul, 08826, Republic of Korea
| | - Woochang Choi
- Department of Agricultural Biotechnology, Seoul National University, Seoul, 08826, Republic of Korea
| | - Chanseok Shin
- Department of Agricultural Biotechnology, Seoul National University, Seoul, 08826, Republic of Korea.
- Research Institute of Agriculture and Life Sciences, Seoul National University, Seoul, 08826, Republic of Korea.
- Plant Genomics and Breeding Institute, Seoul National University, Seoul, 08826, Republic of Korea.
- Research Center for Plant Plasticity, Seoul National University, Seoul, 08826, Republic of Korea.
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17
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Lee JHJ, Kasote DM. Nano-Priming for Inducing Salinity Tolerance, Disease Resistance, Yield Attributes, and Alleviating Heavy Metal Toxicity in Plants. PLANTS (BASEL, SWITZERLAND) 2024; 13:446. [PMID: 38337979 PMCID: PMC10857146 DOI: 10.3390/plants13030446] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2023] [Revised: 01/19/2024] [Accepted: 02/01/2024] [Indexed: 02/12/2024]
Abstract
In today's time, agricultural productivity is severely affected by climate change and increasing pollution. Hence, several biotechnological approaches, including genetic and non-genetic strategies, have been developed and adapted to increase agricultural productivity. One of them is nano-priming, i.e., seed priming with nanomaterials. Thus far, nano-priming methods have been successfully used to mount desired physiological responses and productivity attributes in crops. In this review, the literature about the utility of nano-priming methods for increasing seed vigor, germination, photosynthetic output, biomass, early growth, and crop yield has been summarized. Moreover, the available knowledge about the use of nano-priming methods in modulating plant antioxidant defenses and hormonal networks, inducing salinity tolerance and disease resistance, as well as alleviating heavy metal toxicity in plants, is reviewed. The significance of nano-priming methods in the context of phytotoxicity and environmental safety has also been discussed. For future perspectives, knowledge gaps in the present literature are highlighted, and the need for optimization and validation of nano-priming methods and their plant physiological outcomes, from lab to field, is emphasized.
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Affiliation(s)
- Jisun H. J. Lee
- Department of Plant Science and Technology, Chung-Ang University, Anseong 17546, Republic of Korea
| | - Deepak M. Kasote
- Agricultural Research Station, Qatar University, Doha P.O. Box 2713, Qatar
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18
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Xiang Y, Zhao C, Li Q, Niu Y, Pan Y, Li G, Cheng Y, Zhang A. Pectin methylesterase 31 is transcriptionally repressed by ABI5 to negatively regulate ABA-mediated inhibition of seed germination. FRONTIERS IN PLANT SCIENCE 2024; 15:1336689. [PMID: 38371403 PMCID: PMC10869471 DOI: 10.3389/fpls.2024.1336689] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/11/2023] [Accepted: 01/18/2024] [Indexed: 02/20/2024]
Abstract
Pectin methylesterase (PME), a family of enzymes that catalyze the demethylation of pectin, influences seed germination. Phytohormone abscisic acid (ABA) inhibits seed germination. However, little is known about the function of PMEs in response to ABA-mediated seed germination. In this study, we found the role of PME31 in response to ABA-mediated inhibition of seed germination. The expression of PME31 is prominent in the embryo and is repressed by ABA treatment. Phenotype analysis showed that disruption of PME31 increases ABA-mediated inhibition of seed germination, whereas overexpression of PME31 attenuates this effect. Further study found that ABI5, an ABA signaling bZIP transcription factor, is identified as an upstream regulator of PME31. Genetic analysis showed that PME31 functions downstream of ABI5 in ABA-mediated seed germination. Detailed studies showed that ABI5 directly binds to the PME31 promoter and inhibits its expression. In the plants, PME31 expression is reduced by ABI5 in ABA-mediated seed germination. Taken together, PME31 is transcriptionally inhibited by ABI5 and negatively regulates ABA-mediated seed germination inhibition. These findings shed new light on the mechanisms of PMEs in response to ABA-mediated seed germination.
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Affiliation(s)
- Yang Xiang
- College of Life Sciences, State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing, China
| | - Chongyang Zhao
- College of Life Sciences, State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing, China
| | - Qian Li
- College of Life Sciences, State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing, China
| | - Yingxue Niu
- College of Life Sciences, State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing, China
| | - Yitian Pan
- College of Life Sciences, State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing, China
| | - Guangdong Li
- College of Life Sciences, State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing, China
| | - Yuan Cheng
- College of Life Sciences, State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing, China
| | - Aying Zhang
- College of Life Sciences, State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing, China
- Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Sanya, China
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19
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Vollmeister E, Phokas A, Meyberg R, Böhm CV, Peter M, Kohnert E, Yuan J, Grosche C, Göttig M, Ullrich KK, Perroud PF, Hiltbrunner A, Kreutz C, Coates JC, Rensing SA. A DELAY OF GERMINATION 1 (DOG1)-like protein regulates spore germination in the moss Physcomitrium patens. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2024; 117:909-923. [PMID: 37953711 DOI: 10.1111/tpj.16537] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/12/2022] [Revised: 10/22/2023] [Accepted: 10/26/2023] [Indexed: 11/14/2023]
Abstract
DELAY OF GERMINATION 1 is a key regulator of dormancy in flowering plants before seed germination. Bryophytes develop haploid spores with an analogous function to seeds. Here, we investigate whether DOG1 function during germination is conserved between bryophytes and flowering plants and analyse the underlying mechanism of DOG1 action in the moss Physcomitrium patens. Phylogenetic and in silico expression analyses were performed to identify and characterise DOG1 domain-containing genes in P. patens. Germination assays were performed to characterise a Ppdog1-like1 mutant, and replacement with AtDOG1 was carried out. Yeast two-hybrid assays were used to test the interaction of the PpDOG1-like protein with DELLA proteins from P. patens and A. thaliana. P. patens possesses nine DOG1 domain-containing genes. The DOG1-like protein PpDOG1-L1 (Pp3c3_9650) interacts with PpDELLAa and PpDELLAb and the A. thaliana DELLA protein AtRGA in yeast. Protein truncations revealed the DOG1 domain as necessary and sufficient for interaction with PpDELLA proteins. Spores of Ppdog1-l1 mutant germinate faster than wild type, but replacement with AtDOG1 reverses this effect. Our data demonstrate a role for the PpDOG1-LIKE1 protein in moss spore germination, possibly alongside PpDELLAs. This suggests a conserved DOG1 domain function in germination, albeit with differential adaptation of regulatory networks in seed and spore germination.
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Affiliation(s)
- Evelyn Vollmeister
- Plant Cell Biology, Department of Biology, University of Marburg, Marburg, Germany
| | - Alexandros Phokas
- School of Biosciences, University of Birmingham, Edgbaston, Birmingham, B15 2TT, UK
| | - Rabea Meyberg
- Plant Cell Biology, Department of Biology, University of Marburg, Marburg, Germany
| | - Clemens V Böhm
- Plant Cell Biology, Department of Biology, University of Marburg, Marburg, Germany
| | - Marlies Peter
- Plant Cell Biology, Department of Biology, University of Marburg, Marburg, Germany
| | - Eva Kohnert
- Institute of Medical Biometry and Statistics, Medical Center, Faculty of Medicine, University of Freiburg, Freiburg, 79104, Germany
| | - Jinhong Yuan
- Faculty of Biology, University of Freiburg, Freiburg, Germany
| | - Christopher Grosche
- Plant Cell Biology, Department of Biology, University of Marburg, Marburg, Germany
| | - Marco Göttig
- Plant Cell Biology, Department of Biology, University of Marburg, Marburg, Germany
| | - Kristian K Ullrich
- Plant Cell Biology, Department of Biology, University of Marburg, Marburg, Germany
| | | | - Andreas Hiltbrunner
- Faculty of Biology, University of Freiburg, Freiburg, Germany
- Signalling Research Centres BIOSS and CIBSS, University of Freiburg, Germany
| | - Clemens Kreutz
- Institute of Medical Biometry and Statistics, Medical Center, Faculty of Medicine, University of Freiburg, Freiburg, 79104, Germany
| | - Juliet C Coates
- School of Biosciences, University of Birmingham, Edgbaston, Birmingham, B15 2TT, UK
| | - Stefan A Rensing
- Plant Cell Biology, Department of Biology, University of Marburg, Marburg, Germany
- BIOSS Centre for Biological Signalling Studies, University of Freiburg, Freiburg, Germany
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20
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Zhao H, Ma L, Shen J, Zhou H, Zheng Y. S-nitrosylation of the transcription factor MYB30 facilitates nitric oxide-promoted seed germination in Arabidopsis. THE PLANT CELL 2024; 36:367-382. [PMID: 37930821 PMCID: PMC10827312 DOI: 10.1093/plcell/koad276] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/28/2023] [Revised: 08/28/2023] [Accepted: 10/04/2023] [Indexed: 11/08/2023]
Abstract
The gaseous signaling molecule nitric oxide (NO) plays an important role in breaking seed dormancy. NO induces a decrease in abscisic acid (ABA) content by transcriptionally activating its catabolic enzyme, the ABA 8'-hydroxylase CYP707A2. However, the underlying mechanism of this process remains unclear. Here, we report that the transcription factor MYB30 plays a critical role in NO-induced seed germination in Arabidopsis (Arabidopsis thaliana). MYB30 loss-of-function attenuates NO-mediated seed dormancy breaking. MYB30 triggers a NO-induced decrease in ABA content during germination by directly promoting CYP707A2 expression. NO induces S-nitrosylation at Cys-49 of MYB30 and enhances its transcriptional activity. Conversely, the ABA receptors PYRABACTIN RESISTANCE1 (PYR1)/PYR1-LIKE (PYL)/REGULATORY COMPONENTS OF ABA RECEPTORS (RCAR) interact with MYB30 and repress its transcriptional activity. ABA promotes the interaction between PYL4 and MYB30, whereas S-nitrosylation releases the PYL4-mediated inhibition of MYB30 by interfering with the PYL4-MYB30 interaction. Genetic analysis showed that MYB30 functions downstream of PYLs during seed dormancy and germination in response to NO. Furthermore, MYB30 mutation significantly represses the reduced dormancy phenotype and the enhanced CYP707A2 expression of the pyr1 pyl1 pyl2 pyl4 quadruple mutant. Our findings reveal that S-nitrosylation of MYB30 precisely regulates the balance of seed dormancy and germination, providing insights into the underlying mechanism of NO-promoted seed germination.
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Affiliation(s)
- Hongyun Zhao
- State Key Laboratory of Crop Stress Adaptation and Improvement, Key
Laboratory of Plant Stress Biology, School of Life Sciences, Henan
University, Kaifeng 475001, China
| | - Liang Ma
- State Key Laboratory of Plant Environmental Resilience, College of
Biological Sciences, China Agricultural University, Beijing
100193, China
| | - Jialu Shen
- State Key Laboratory of Crop Stress Adaptation and Improvement, Key
Laboratory of Plant Stress Biology, School of Life Sciences, Henan
University, Kaifeng 475001, China
| | - Huapeng Zhou
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of
Education, College of Life Sciences, Sichuan University,
Chengdu 610064, China
| | - Yuan Zheng
- State Key Laboratory of Crop Stress Adaptation and Improvement, Key
Laboratory of Plant Stress Biology, School of Life Sciences, Henan
University, Kaifeng 475001, China
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21
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Smolikova G, Krylova E, Petřík I, Vilis P, Vikhorev A, Strygina K, Strnad M, Frolov A, Khlestkina E, Medvedev S. Involvement of Abscisic Acid in Transition of Pea ( Pisum sativum L.) Seeds from Germination to Post-Germination Stages. PLANTS (BASEL, SWITZERLAND) 2024; 13:206. [PMID: 38256760 PMCID: PMC10819913 DOI: 10.3390/plants13020206] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/08/2023] [Revised: 12/30/2023] [Accepted: 01/07/2024] [Indexed: 01/24/2024]
Abstract
The transition from seed to seedling represents a critical developmental step in the life cycle of higher plants, dramatically affecting plant ontogenesis and stress tolerance. The release from dormancy to acquiring germination ability is defined by a balance of phytohormones, with the substantial contribution of abscisic acid (ABA), which inhibits germination. We studied the embryonic axis of Pisum sativum L. before and after radicle protrusion. Our previous work compared RNA sequencing-based transcriptomics in the embryonic axis isolated before and after radicle protrusion. The current study aims to analyze ABA-dependent gene regulation during the transition of the embryonic axis from the germination to post-germination stages. First, we determined the levels of abscisates (ABA, phaseic acid, dihydrophaseic acid, and neo-phaseic acid) using ultra-high-performance liquid chromatography-tandem mass spectrometry. Second, we made a detailed annotation of ABA-associated genes using RNA sequencing-based transcriptome profiling. Finally, we analyzed the DNA methylation patterns in the promoters of the PsABI3, PsABI4, and PsABI5 genes. We showed that changes in the abscisate profile are characterized by the accumulation of ABA catabolites, and the ABA-related gene profile is accompanied by the upregulation of genes controlling seedling development and the downregulation of genes controlling water deprivation. The expression of ABI3, ABI4, and ABI5, which encode crucial transcription factors during late maturation, was downregulated by more than 20-fold, and their promoters exhibited high levels of methylation already at the late germination stage. Thus, although ABA remains important, other regulators seems to be involved in the transition from seed to seedling.
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Affiliation(s)
- Galina Smolikova
- Department of Plant Physiology and Biochemistry, St. Petersburg State University, 199034 St. Petersburg, Russia; (E.K.); (S.M.)
| | - Ekaterina Krylova
- Department of Plant Physiology and Biochemistry, St. Petersburg State University, 199034 St. Petersburg, Russia; (E.K.); (S.M.)
- Federal Research Center N.I. Vavilov All-Russian Institute of Plant Genetic Resources, 190000 St. Petersburg, Russia;
| | - Ivan Petřík
- Laboratory of Growth Regulators, The Czech Academy of Sciences, Institute of Experimental Botany & Palacky University, Faculty of Science, Slechtitelu 27, CZ-78371 Olomouc, Czech Republic; (I.P.); (M.S.)
| | - Polina Vilis
- Department of Plant Physiology and Biochemistry, St. Petersburg State University, 199034 St. Petersburg, Russia; (E.K.); (S.M.)
| | - Aleksander Vikhorev
- School of Advanced Engineering Studies, Novosibirsk State University, 630090 Novosibirsk, Russia
| | | | - Miroslav Strnad
- Laboratory of Growth Regulators, The Czech Academy of Sciences, Institute of Experimental Botany & Palacky University, Faculty of Science, Slechtitelu 27, CZ-78371 Olomouc, Czech Republic; (I.P.); (M.S.)
| | - Andrej Frolov
- Laboratory of Analytical Biochemistry and Biotechnology, K.A. Timiryazev Institute of Plant Physiology, Russian Academy of Sciences, 127276 Moscow, Russia;
| | - Elena Khlestkina
- Federal Research Center N.I. Vavilov All-Russian Institute of Plant Genetic Resources, 190000 St. Petersburg, Russia;
| | - Sergei Medvedev
- Department of Plant Physiology and Biochemistry, St. Petersburg State University, 199034 St. Petersburg, Russia; (E.K.); (S.M.)
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22
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Yang J, Wang J. Genome-Wide Association Study of Preharvest Sprouting in Wheat. Methods Mol Biol 2024; 2830:121-129. [PMID: 38977573 DOI: 10.1007/978-1-0716-3965-8_11] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/10/2024]
Abstract
Genome-wide association study (GWAS) is widely used to characterize genes or quantitative trait loci (QTLs) associated with preharvest sprouting and seed dormancy. GWAS can identify both previously discovered and novel QTLs across diverse genetic panels. The high-throughput SNP arrays or next-generation sequencing technologies have facilitated the identification of numerous genetic markers, thereby significantly enhancing the resolution of GWAS. Although various methods have been developed, the fundamental principles underlying these techniques remain constant. Here, we provide a basic technological flow to perform seed dormancy assay, followed by GWAS using population structure control, and compared it with previous identified QTLs and genes.
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Affiliation(s)
- Jian Yang
- Institute of Wheat, Henan Academy of Agricultural Sciences, Zhengzhou, China
| | - Jirui Wang
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu, China
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23
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Zhao F, Ma Q, Li Y, Jiang M, Zhou Z, Meng S, Peng Y, Zhang J, Ye N, Liu B. OsNAC2 regulates seed dormancy and germination in rice by inhibiting ABA catabolism. Biochem Biophys Res Commun 2023; 682:335-342. [PMID: 37837754 DOI: 10.1016/j.bbrc.2023.10.024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2023] [Accepted: 10/06/2023] [Indexed: 10/16/2023]
Abstract
Seed dormancy and germination determine the beginning of the life cycle of plants, and the phytohormone ABA plays a crucial role in regulation of seed dormancy and germination. However, the upstream regulatory mechanism of ABA metabolism during dormancy releasing is still remain elusive. In this paper, we present a novel mechanism of OsNAC2 in controlling ABA metabolism and regulation of seed dormancy. OsNAC2 highly expressed during seed development and germination, and overexpression of OsNAC2 strengthened seed dormancy and suppressed germination. Moreover, exogenous phytohormone treatment showed that OsNAC2 acted upstream of GA signaling and downstream of ABA signaling. Additionally, overexpression of OsNAC2 inhibited ABA degradation and increased ABA content during early germination. Further molecular analysis revealed that OsNAC2 directly bound to the ABA metabolism genes promoter and inhibits their transcription in rice protoplasts. These finding could help us explain the genetic regulation mechanism of ABA metabolism during dormancy release and germination in rice.
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Affiliation(s)
- Fankai Zhao
- College of Agronomy, Hunan Agricultural University, Changsha, 410128, China; Key Laboratory of Crop Physiological and Molecular Biology, Ministry of Education, Hunan Agricultural University, Changsha, 410128, China
| | - Qun Ma
- College of Agronomy, Hunan Agricultural University, Changsha, 410128, China; Agro-Tech Extension Center of Guangdong Province, Guangzhou, Guangdong, 510520, China
| | - Yingjiang Li
- College of Agronomy, Hunan Agricultural University, Changsha, 410128, China; Key Laboratory of Crop Physiological and Molecular Biology, Ministry of Education, Hunan Agricultural University, Changsha, 410128, China
| | - Meihe Jiang
- College of Agronomy, Hunan Agricultural University, Changsha, 410128, China; Key Laboratory of Crop Physiological and Molecular Biology, Ministry of Education, Hunan Agricultural University, Changsha, 410128, China
| | - Zhongjing Zhou
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agroproducts, Zhejiang Academy of Agricultural Sciences, Hangzhou, Zhejiang, 310021, China
| | - Shuan Meng
- College of Agronomy, Hunan Agricultural University, Changsha, 410128, China; Key Laboratory of Crop Physiological and Molecular Biology, Ministry of Education, Hunan Agricultural University, Changsha, 410128, China
| | - Yan Peng
- College of Agronomy, Hunan Agricultural University, Changsha, 410128, China; Key Laboratory of Crop Physiological and Molecular Biology, Ministry of Education, Hunan Agricultural University, Changsha, 410128, China
| | - Jianhua Zhang
- Key Laboratory of Crop Physiological and Molecular Biology, Ministry of Education, Hunan Agricultural University, Changsha, 410128, China; Department of Biology, Hong Kong Baptist University, Hong Kong, China; School of Life Sciences and State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Hong Kong, China.
| | - Nenghui Ye
- College of Agronomy, Hunan Agricultural University, Changsha, 410128, China; Key Laboratory of Crop Physiological and Molecular Biology, Ministry of Education, Hunan Agricultural University, Changsha, 410128, China; Agro-Tech Extension Center of Guangdong Province, Guangzhou, Guangdong, 510520, China.
| | - Bohan Liu
- College of Agronomy, Hunan Agricultural University, Changsha, 410128, China; Key Laboratory of Crop Physiological and Molecular Biology, Ministry of Education, Hunan Agricultural University, Changsha, 410128, China.
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24
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Zhang L, Liu L, Fang Z, Shen W, Dai Y, Jia R, Liang J, Liu B. Fitness changes in wild soybean caused by gene flow from genetically modified soybean. BMC PLANT BIOLOGY 2023; 23:424. [PMID: 37710180 PMCID: PMC10500775 DOI: 10.1186/s12870-023-04398-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/08/2022] [Accepted: 08/03/2023] [Indexed: 09/16/2023]
Abstract
BACKGROUND Crop-wild hybridization has generated great concerns since gene flow can be an avenue for transgene escape. However, a rather limited number of studies on risk assessment regarding the dispersion of transgenes from GM soybean to populations of its wild relatives have been previously conducted. RESULTS The results of the 3-year experiment demonstrated that hybrids between GM soybeans and wild soybean had lower seed germination and higher seed productivity than GM soybean. Both of these features of hybrid (especially F2 and F3) were similar to those of wild soybean. Furthermore, the foreign protein was stably expressed in hybrid EPSPS positive plants; however, no difference was observed in agronomic measurements between hybrids that are glyphosate sensitive or resistant, homozygous or heterozygous for the transgene, indicating that the presence of the EPSPS transgene does not affect the vigor of hybrid. In contrast, hybridization between GM soybean and wild soybean may have more impact on hybrid growth and fecundity, this increase in biomass and yield confers a potential competition benefit to hybrids. CONCLUSIONS Gene flow from GM soybean to wild soybean has the potential to promote the adaptability of hybrids and may increase the possibility of dispersal of transgenes in wild soybean relatives.
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Affiliation(s)
- Li Zhang
- Key Laboratory on Biosafety of Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment, Nanjing, 210042, China
- State Environmental Protection Scientific Observation and Research Station for Ecology and Environment of Wuyi Mountains, Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment, Nanjing, China
| | - Laipan Liu
- Key Laboratory on Biosafety of Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment, Nanjing, 210042, China
- State Environmental Protection Scientific Observation and Research Station for Ecology and Environment of Wuyi Mountains, Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment, Nanjing, China
| | - Zhixiang Fang
- Key Laboratory on Biosafety of Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment, Nanjing, 210042, China
- State Environmental Protection Scientific Observation and Research Station for Ecology and Environment of Wuyi Mountains, Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment, Nanjing, China
| | - Wenjing Shen
- Key Laboratory on Biosafety of Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment, Nanjing, 210042, China
- State Environmental Protection Scientific Observation and Research Station for Ecology and Environment of Wuyi Mountains, Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment, Nanjing, China
| | - Ying Dai
- Key Laboratory on Biosafety of Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment, Nanjing, 210042, China
- State Environmental Protection Scientific Observation and Research Station for Ecology and Environment of Wuyi Mountains, Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment, Nanjing, China
| | - Ruizong Jia
- Hainan Key Laboratory for Biosafety Monitoring and Molecular Breeding in off-Season Reproduction Regions, Sanya, China
| | - Jingang Liang
- Development Center of Science and Technology, Ministry of Agriculture and Rural Affairs, Beijing, 100176, China.
| | - Biao Liu
- Key Laboratory on Biosafety of Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment, Nanjing, 210042, China.
- State Environmental Protection Scientific Observation and Research Station for Ecology and Environment of Wuyi Mountains, Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment, Nanjing, China.
- Development Center of Science and Technology, Ministry of Agriculture and Rural Affairs, Beijing, 100176, China.
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25
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Huang Y, Song J, Hao Q, Mou C, Wu H, Zhang F, Zhu Z, Wang P, Ma T, Fu K, Chen Y, Nguyen T, Liu S, Jiang L, Wan J. WEAK SEED DORMANCY 1, an aminotransferase protein, regulates seed dormancy in rice through the GA and ABA pathways. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2023; 202:107923. [PMID: 37549571 DOI: 10.1016/j.plaphy.2023.107923] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/07/2023] [Revised: 07/03/2023] [Accepted: 07/29/2023] [Indexed: 08/09/2023]
Abstract
Seed dormancy is a critical trait that enhances plant survival by preventing seed germination at the wrong time or under unsuitable conditions. Lack of seed dormancy in rice can lead to pre-harvest sprouting on mother plants leading to reduced yield and seed quality. Although some genes have been identified, knowledge of regulation of seed dormancy is limited. Here, we characterized a weak seed dormancy mutant named weak seed dormancy 1 (wsd1) that showed a higher seed germination percentage than the wild-type following the harvest ripeness. We cloned the WSD1 encoding an aminotransferase protein using a MutMap approach. WSD1 was stably expressed after imbibition and its protein was localized in the endoplasm reticulum. A widely targeted metabolomics assay and amino acid analysis showed that WSD1 had a role in regulating homeostasis of amino acids. PAC treatment and RNA-seq analysis showed that WSD1 regulates seed dormancy by involvement in the GA biosynthesis pathway. GA1 content and expression of GA biosynthesis-related genes were increased in the wsd1 mutant compared with the wild-type. The wsd1 mutant had reduced sensitivity to ABA. Our overall results indicated that WSD1 regulates seed dormancy by balancing the ABA and GA pathways.
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Affiliation(s)
- Yunshuai Huang
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Nanjing National Field Scientific Observation and Research Station for Rice Germplasm, Nanjing Agricultural University, Nanjing, 210095, China
| | - Jiawei Song
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Nanjing National Field Scientific Observation and Research Station for Rice Germplasm, Nanjing Agricultural University, Nanjing, 210095, China
| | - Qixian Hao
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Nanjing National Field Scientific Observation and Research Station for Rice Germplasm, Nanjing Agricultural University, Nanjing, 210095, China
| | - Changling Mou
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Nanjing National Field Scientific Observation and Research Station for Rice Germplasm, Nanjing Agricultural University, Nanjing, 210095, China
| | - Hongming Wu
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Nanjing National Field Scientific Observation and Research Station for Rice Germplasm, Nanjing Agricultural University, Nanjing, 210095, China
| | - Fulin Zhang
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Nanjing National Field Scientific Observation and Research Station for Rice Germplasm, Nanjing Agricultural University, Nanjing, 210095, China
| | - Ziyan Zhu
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Nanjing National Field Scientific Observation and Research Station for Rice Germplasm, Nanjing Agricultural University, Nanjing, 210095, China
| | - Ping Wang
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Nanjing National Field Scientific Observation and Research Station for Rice Germplasm, Nanjing Agricultural University, Nanjing, 210095, China
| | - Tengfei Ma
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Nanjing National Field Scientific Observation and Research Station for Rice Germplasm, Nanjing Agricultural University, Nanjing, 210095, China
| | - Kai Fu
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Nanjing National Field Scientific Observation and Research Station for Rice Germplasm, Nanjing Agricultural University, Nanjing, 210095, China
| | - Yaping Chen
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Nanjing National Field Scientific Observation and Research Station for Rice Germplasm, Nanjing Agricultural University, Nanjing, 210095, China
| | - Thanhliem Nguyen
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Nanjing National Field Scientific Observation and Research Station for Rice Germplasm, Nanjing Agricultural University, Nanjing, 210095, China; Faculty of Natural Sciences, Quynhon University, Quynhon, 590000, Binhdinh, Viet Nam
| | - Shijia Liu
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Nanjing National Field Scientific Observation and Research Station for Rice Germplasm, Nanjing Agricultural University, Nanjing, 210095, China
| | - Ling Jiang
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Nanjing National Field Scientific Observation and Research Station for Rice Germplasm, Nanjing Agricultural University, Nanjing, 210095, China.
| | - Jianmin Wan
- National Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Nanjing National Field Scientific Observation and Research Station for Rice Germplasm, Nanjing Agricultural University, Nanjing, 210095, China; National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
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26
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Tuo D, Wu J, Zou J, Dong G, Zeng W, Li J, Du D. Analysis of Hormone Regulation on Seed Germination of Coix Based on Muli-Omics Analysis. PLANTS (BASEL, SWITZERLAND) 2023; 12:2700. [PMID: 37514314 PMCID: PMC10385750 DOI: 10.3390/plants12142700] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/17/2023] [Revised: 07/01/2023] [Accepted: 07/09/2023] [Indexed: 07/30/2023]
Abstract
Seed germination is an important stage of growth and reproduction and plays an important role in the life cycle of spermatophyte. It is co-determined by both genetic and environmental factors, and plant hormone regulation may be a highly conservative mechanism. Coix lachryrma-jobi (coix) is a grain with balanced nutrition for medicine and food and has substantial production value. It is an important part of agricultural production, and the efficiency of seed germination after sowing is a key link. In this study, coix species "small white shell Xingren" was used as the experimental material, and changes in gene expression levels and metabolite enrichment in seeds were identified by transcriptome and metabonomic analysis before and after seed germination. A total of 599 metabolites, including those from amino acid metabolism, sugar metabolism, and fatty acid metabolism, were significantly increased in germinating coix. Simultaneously, 10,929 differentially expressed genes (DEGs) were identified, and functional clusters of genes were also significantly clustered in hormone-signaling and glucose and fatty acid metabolism. In addition, this study found that a considerable number of hormone-signaling genes were significantly up-regulated during seed germination, activating multiple metabolic processes. The results of our conjoint analysis of multi omics showed that glucose and fatty acid metabolism played an important role in seed germination under hormone regulation.
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Affiliation(s)
- Donghao Tuo
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan 430023, China
| | - Jiawen Wu
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan 430023, China
| | - Juan Zou
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan 430023, China
| | - Guoqing Dong
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan 430023, China
| | - Wanyong Zeng
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan 430023, China
| | - Jinhua Li
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan 430023, China
| | - Dengxiang Du
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan 430023, China
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Veerabagu M, van der Schoot C, Turečková V, Tarkowská D, Strnad M, Rinne PLH. Light on perenniality: Para-dormancy is based on ABA-GA antagonism and endo-dormancy on the shutdown of GA biosynthesis. PLANT, CELL & ENVIRONMENT 2023; 46:1785-1804. [PMID: 36760106 DOI: 10.1111/pce.14562] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/30/2022] [Revised: 01/23/2023] [Accepted: 02/07/2023] [Indexed: 05/04/2023]
Abstract
Perennial para- and endo-dormancy are seasonally separate phenomena. Whereas para-dormancy is the suppression of axillary buds (AXBs) by a growing shoot, endo-dormancy is the short-day elicited arrest of terminal and AXBs. In hybrid aspen (Populus tremula x P. tremuloides) compromising the apex releases para-dormancy, whereas endo-dormancy requires chilling. ABA and GA are implicated in both phenomena. To untangle their roles, we blocked ABA biosynthesis with fluridone (FD), which significantly reduced ABA levels, downregulated GA-deactivation genes, upregulated the major GA3ox-biosynthetic genes, and initiated branching. Comprehensive GA-metabolite analyses suggested that FD treatment shifted GA production to the non-13-hydroxylation pathway, enhancing GA4 function. Applied ABA counteracted FD effects on GA metabolism and downregulated several GA3/4 -inducible α- and γ-clade 1,3-β-glucanases that hydrolyze callose at plasmodesmata (PD), thereby enhancing PD-callose accumulation. Remarkably, ABA-deficient plants repressed GA4 biosynthesis and established endo-dormancy like controls but showed increased stress sensitivity. Repression of GA4 biosynthesis involved short-day induced DNA methylation events within the GA3ox2 promoter. In conclusion, the results cast new light on the roles of ABA and GA in dormancy cycling. In para-dormancy, PD-callose turnover is antagonized by ABA, whereas in short-day conditions, lack of GA4 biosynthesis promotes callose deposition that is structurally persistent throughout endo-dormancy.
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Affiliation(s)
| | | | - Veronika Turečková
- Laboratory of Growth Regulators, Faculty of Sciences, Palacký University & Institute of Experimental Botany of the Czech Academy of Sciences, Olomouc, Czech Republic
| | - Danuše Tarkowská
- Laboratory of Growth Regulators, Faculty of Sciences, Palacký University & Institute of Experimental Botany of the Czech Academy of Sciences, Olomouc, Czech Republic
| | - Miroslav Strnad
- Laboratory of Growth Regulators, Faculty of Sciences, Palacký University & Institute of Experimental Botany of the Czech Academy of Sciences, Olomouc, Czech Republic
| | - Päivi L H Rinne
- Department of Plant Sciences, Norwegian University of Life Sciences, Ås, Norway
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28
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Liao J, Deng B, Yang Q, Li Y, Zhang Y, Cong J, Wang X, Kohnen MV, Liu ZJ, Lu MZ, Lin D, Gu L, Liu B. Insights into cryptochrome modulation of ABA signaling to mediate dormancy regulation in Marchantia polymorpha. THE NEW PHYTOLOGIST 2023; 238:1479-1497. [PMID: 36797656 DOI: 10.1111/nph.18815] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/18/2022] [Accepted: 02/07/2023] [Indexed: 06/18/2023]
Abstract
The acquisition of dormancy capabilities has enabled plants to survive in adverse terrestrial environmental conditions. Dormancy accumulation and release is coupled with light signaling, which is well studied in Arabidopsis, but it is unclear in the distant nonvascular relative. We study the characteristics and function on dormancy regulation of a blue light receptor cryptochrome in Marchantia polymorpha (MpCRY). Here, we identified MpCRY via bioinformatics and mutant complement analysis. The biochemical characteristics were assessed by multiple protein-binding assays. The function of MpCRY in gemma dormancy was clarified by overexpression and mutation of MpCRY, and its mechanism was analyzed via RNA sequencing and quantitative PCR analyses associated with hormone treatment. We found that the unique MpCRY protein in M. polymorpha undergoes both blue light-promoted interaction with itself (self-interaction) and blue light-dependent phosphorylation. MpCRY has the specific characteristics of blue light-induced nuclear localization and degradation. We further demonstrated that MpCRY transcriptionally represses abscisic acid (ABA) signaling-related gene expression to suppress gemma dormancy, which is dependent on blue light signaling. Our findings indicate that MpCRY possesses specific biochemical and molecular characteristics, and modulates ABA signaling under blue light conditions to regulate gemma dormancy in M. polymorpha.
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Affiliation(s)
- Jiakai Liao
- Basic Forestry and Proteomics Research Center, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
- Jiangsu Key Laboratory for Bioresources of Saline Soils, Jiangsu Synthetic Innovation Center for Coastal Bio-agriculture, School of Wetlands, Yancheng Teachers University, Yancheng, 224007, China
- Basic Forestry and Proteomics Research Center, College of Forestry, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Ban Deng
- Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Qixin Yang
- Jiangsu Key Laboratory for Bioresources of Saline Soils, Jiangsu Synthetic Innovation Center for Coastal Bio-agriculture, School of Wetlands, Yancheng Teachers University, Yancheng, 224007, China
- Basic Forestry and Proteomics Research Center, College of Forestry, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
- Fujian Colleges and Universities Engineering Research Institute of Conservation and Utilization of Natural Bioresources, College of Forestry, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Yu Li
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Yuxiang Zhang
- Basic Forestry and Proteomics Research Center, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Jiajing Cong
- Basic Forestry and Proteomics Research Center, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Xiaqin Wang
- Basic Forestry and Proteomics Research Center, College of Forestry, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
- Fujian Colleges and Universities Engineering Research Institute of Conservation and Utilization of Natural Bioresources, College of Forestry, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
- State Key Laboratory of Subtropical Silviculture, School of Forestry and Biotechnology, Zhejiang A&F University, Hangzhou, Zhejiang, 311300, China
| | - Markus V Kohnen
- Basic Forestry and Proteomics Research Center, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
- Basic Forestry and Proteomics Research Center, College of Forestry, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Zhong-Jian Liu
- Fujian Colleges and Universities Engineering Research Institute of Conservation and Utilization of Natural Bioresources, College of Forestry, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Meng-Zhu Lu
- State Key Laboratory of Subtropical Silviculture, School of Forestry and Biotechnology, Zhejiang A&F University, Hangzhou, Zhejiang, 311300, China
| | - Deshu Lin
- Basic Forestry and Proteomics Research Center, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Lianfeng Gu
- Basic Forestry and Proteomics Research Center, College of Forestry, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Bobin Liu
- Jiangsu Key Laboratory for Bioresources of Saline Soils, Jiangsu Synthetic Innovation Center for Coastal Bio-agriculture, School of Wetlands, Yancheng Teachers University, Yancheng, 224007, China
- Basic Forestry and Proteomics Research Center, College of Forestry, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
- Fujian Colleges and Universities Engineering Research Institute of Conservation and Utilization of Natural Bioresources, College of Forestry, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
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Deng G, Sun H, Hu Y, Yang Y, Li P, Chen Y, Zhu Y, Zhou Y, Huang J, Neill SJ, Hu X. A transcription factor WRKY36 interacts with AFP2 to break primary seed dormancy by progressively silencing DOG1 in Arabidopsis. THE NEW PHYTOLOGIST 2023; 238:688-704. [PMID: 36653950 DOI: 10.1111/nph.18750] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/21/2022] [Accepted: 01/08/2023] [Indexed: 06/17/2023]
Abstract
The phytohormones abscisic acid (ABA) and gibberellic acid (GA) antagonistically control the shift between seed dormancy and its alleviation. DELAY OF GERMINATION1 (DOG1) is a critical regulator that determines the intensity of primary seed dormancy, but its underlying regulatory mechanism is unclear. In this study, we combined physiological, biochemical, and genetic approaches to reveal that a bHLH transcriptional factor WRKY36 progressively silenced DOG1 expression to break seed dormancy through ABI5-BINDING PROTEIN 2 (AFP2) as the negative regulator of ABA signal. AFP2 interacted with WRKY36, which recognizes the W-BOX in the DOG1 promoter to suppress its expression; Overexpressing WRKY36 broke primary seed dormancy, whereas wrky36 mutants showed strong primary seed dormancy. In addition, AFP2 recruited the transcriptional corepressor TOPLESS-RELATED PROTEIN2 (TPR2) to reduce histone acetylation at the DOG1 locus, ultimately mediating WRKY36-dependent inhibition of DOG1 expression to break primary seed dormancy. Our result proposes that the WRKY36-AFP2-TPR2 module progressively silences DOG1 expression epigenetically, thereby fine-tuning primary seed dormancy.
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Affiliation(s)
- Guoli Deng
- Shanghai Key Laboratory of Bio-Energy Crops, School of Life Sciences, Shanghai University, 200444, Shanghai, China
| | - Haiqing Sun
- Shanghai Key Laboratory of Bio-Energy Crops, School of Life Sciences, Shanghai University, 200444, Shanghai, China
| | - Yulan Hu
- Shanghai Key Laboratory of Bio-Energy Crops, School of Life Sciences, Shanghai University, 200444, Shanghai, China
| | - Yaru Yang
- Shanghai Key Laboratory of Bio-Energy Crops, School of Life Sciences, Shanghai University, 200444, Shanghai, China
| | - Ping Li
- Shanghai Key Laboratory of Bio-Energy Crops, School of Life Sciences, Shanghai University, 200444, Shanghai, China
| | - Yilin Chen
- Shanghai Key Laboratory of Bio-Energy Crops, School of Life Sciences, Shanghai University, 200444, Shanghai, China
| | - Ying Zhu
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310004, Zhejiang, China
| | - Yun Zhou
- Key Laboratory of Plant Stress Biology, School of Life Sciences, Henan University, Kaifeng, 475001, China
| | - Jinling Huang
- Key Laboratory of Plant Stress Biology, School of Life Sciences, Henan University, Kaifeng, 475001, China
- Department of Biology, East Carolina University, Greenville, NC, 27858, USA
| | - Steven J Neill
- Faculty of Health and Applied Sciences, University of the West of England, Bristol, BS16 1QY, UK
| | - Xiangyang Hu
- Shanghai Key Laboratory of Bio-Energy Crops, School of Life Sciences, Shanghai University, 200444, Shanghai, China
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30
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Chen D, Zou W, Zhang M, Liu J, Chen L, Peng T, Ye G. Genome-Wide Association Study for Seed Dormancy Using Re-Sequenced Germplasm under Multiple Conditions in Rice. Int J Mol Sci 2023; 24:ijms24076117. [PMID: 37047087 PMCID: PMC10094323 DOI: 10.3390/ijms24076117] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2022] [Revised: 03/08/2023] [Accepted: 03/17/2023] [Indexed: 04/14/2023] Open
Abstract
Seed dormancy is a key factor used to determine seed germination in rice production. So far, only a few genes controlling seed dormancy have been reported, and the genetic mechanism of rice seed dormancy is still elusive. In this study, a population of 195 diverse re-sequenced accessions from 40 countries was evaluated for the seed germination rate (GR) without dormancy breaking (WDB) as a control and under dry heating (DH) and gibberellic acid (GA) treatments, as dormancy breaking agents to identify QTLs for seed dormancy. Phenotypic assessment revealed that these accessions had abundant variations in seed dormancy. GWAS using 1,120,223 high-quality single nucleotide polymorphisms (SNPs) and a mixed linear model (MLM) incorporating both principal components (PCs) and kinship (K) identified 30 QTLs on 10 chromosomes, accounting for 7.3-20.4% of the phenotypic variance in GR. Ten of the QTLs were located in the regions of previously reported QTLs, while the rest were novel ones. Thirteen high-confidence candidate genes were predicted for the four QTLs detected in two or three conditions (qGR4-4, qGR4-5, qGR8 and qGR11-4) and one QTL with a large effect (qGR3). These genes were highly expressed during seed development and were significantly regulated by various hormone treatments. This study provides new insights into the genetic and molecular basis of rice seed dormancy/germination. The accessions with moderate and strong dormancy and markers for the QTLs and candidate genes are useful for attaining a proper level of seed dormancy.
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Affiliation(s)
- Dandan Chen
- Key Laboratory of Rice Biology in Henan Province, Collaborative Innovation Center of Henan Grain Crops, College of Agronomy, Henan Agricultural University, Zhengzhou 450002, China
- CAAS-IRRI Joint Laboratory for Genomics-Assisted Germplasm Enhancement, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518120, China
| | - Wenli Zou
- CAAS-IRRI Joint Laboratory for Genomics-Assisted Germplasm Enhancement, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518120, China
| | - Mingpei Zhang
- CAAS-IRRI Joint Laboratory for Genomics-Assisted Germplasm Enhancement, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518120, China
- State Key Laboratory of Crop Stress Adaptation and Improvement, School of Life Sciences, Henan University, Kaifeng 475004, China
- Shenzhen Research Institute of Henan University, Shenzhen 518000, China
| | - Jindong Liu
- CAAS-IRRI Joint Laboratory for Genomics-Assisted Germplasm Enhancement, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518120, China
| | - Liang Chen
- CAAS-IRRI Joint Laboratory for Genomics-Assisted Germplasm Enhancement, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518120, China
| | - Ting Peng
- Key Laboratory of Rice Biology in Henan Province, Collaborative Innovation Center of Henan Grain Crops, College of Agronomy, Henan Agricultural University, Zhengzhou 450002, China
| | - Guoyou Ye
- CAAS-IRRI Joint Laboratory for Genomics-Assisted Germplasm Enhancement, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518120, China
- Rice Breeding Innovations Platform, International Rice Research Institute (IRRI), Metro Manila 1301, Philippines
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Guo N, Tang S, Wang J, Hu S, Tang S, Wei X, Shao G, Jiao G, Sheng Z, Hu P. Transcriptome and Proteome Analysis Revealed That Hormone and Reactive Oxygen Species Synergetically Regulate Dormancy of Introgression Line in Rice ( Oryza sativa L.). Int J Mol Sci 2023; 24:ijms24076088. [PMID: 37047061 PMCID: PMC10094489 DOI: 10.3390/ijms24076088] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2023] [Revised: 03/10/2023] [Accepted: 03/20/2023] [Indexed: 04/14/2023] Open
Abstract
Dormancy is a complex agronomy phenotype controlled by multiple signaling and a key trait repressing pre-harvest sprouting (PHS). However, the signaling network of dormancy remains unclear. In this study, we used Zhonghua11 (ZH11) with a weak dormancy, and Introgression line (IL) with a strong dormancy to study the mechanism of hormones and reactive oxygen species (ROS) crosstalk regulating rice dormancy. The germination experiment showed that the germination rate of ZH11 was 76.86%, while that of IL was only 1.25%. Transcriptome analysis showed that there were 1658 differentially expressed genes (DEGs) between IL and ZH11, of which 577 were up-regulated and 1081 were down-regulated. Additionally, DEGs were mainly enriched in oxidoreductase activity, cell periphery, and plant hormone signal transduction pathways. Tandem mass tags (TMT) quantitative proteomics analysis showed 275 differentially expressed proteins (DEPs) between IL and ZH11, of which 176 proteins were up-regulated, 99 were down-regulated, and the DEPs were mainly enriched in the metabolic process and oxidation-reduction process. The comprehensive transcriptome and proteome analysis showed that their correlation was very low, and only 56 genes were co-expressed. Hormone content detection showed that IL had significantly lower abscisic acid (ABA) contents than the ZH11 while having significantly higher jasmonic acid (JA) contents than the ZH11. ROS content measurement showed that the hydrogen peroxide (H2O2) content of IL was significantly lower than the ZH11, while the production rate of superoxide anion (O2.-) was significantly higher than the ZH11. These results indicate that hormones and ROS crosstalk to regulate rice dormancy. In particular, this study has deepened our mechanism of ROS and JA crosstalk regulating rice dormancy and is conducive to our precise inhibition of PHS.
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Affiliation(s)
- Naihui Guo
- Rice Research Institute, Shenyang Agricultural University, Shenyang 110866, China
- State Key Laboratory of Rice Biology, Key Laboratory of Rice Biology and Breeding, Ministry of Agriculture, China National Rice improvement Centre, China National Rice Research Institute, Hangzhou 310006, China
| | - Shengjia Tang
- State Key Laboratory of Rice Biology, Key Laboratory of Rice Biology and Breeding, Ministry of Agriculture, China National Rice improvement Centre, China National Rice Research Institute, Hangzhou 310006, China
| | - Jiayu Wang
- Rice Research Institute, Shenyang Agricultural University, Shenyang 110866, China
| | - Shikai Hu
- State Key Laboratory of Rice Biology, Key Laboratory of Rice Biology and Breeding, Ministry of Agriculture, China National Rice improvement Centre, China National Rice Research Institute, Hangzhou 310006, China
| | - Shaoqing Tang
- State Key Laboratory of Rice Biology, Key Laboratory of Rice Biology and Breeding, Ministry of Agriculture, China National Rice improvement Centre, China National Rice Research Institute, Hangzhou 310006, China
| | - Xiangjin Wei
- State Key Laboratory of Rice Biology, Key Laboratory of Rice Biology and Breeding, Ministry of Agriculture, China National Rice improvement Centre, China National Rice Research Institute, Hangzhou 310006, China
| | - Gaoneng Shao
- State Key Laboratory of Rice Biology, Key Laboratory of Rice Biology and Breeding, Ministry of Agriculture, China National Rice improvement Centre, China National Rice Research Institute, Hangzhou 310006, China
| | - Guiai Jiao
- State Key Laboratory of Rice Biology, Key Laboratory of Rice Biology and Breeding, Ministry of Agriculture, China National Rice improvement Centre, China National Rice Research Institute, Hangzhou 310006, China
| | - Zhonghua Sheng
- State Key Laboratory of Rice Biology, Key Laboratory of Rice Biology and Breeding, Ministry of Agriculture, China National Rice improvement Centre, China National Rice Research Institute, Hangzhou 310006, China
| | - Peisong Hu
- Rice Research Institute, Shenyang Agricultural University, Shenyang 110866, China
- State Key Laboratory of Rice Biology, Key Laboratory of Rice Biology and Breeding, Ministry of Agriculture, China National Rice improvement Centre, China National Rice Research Institute, Hangzhou 310006, China
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32
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Măgălie A, Schwartz DA, Lennon JT, Weitz JS. Optimal dormancy strategies in fluctuating environments given delays in phenotypic switching. J Theor Biol 2023; 561:111413. [PMID: 36639023 DOI: 10.1016/j.jtbi.2023.111413] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2022] [Revised: 01/01/2023] [Accepted: 01/05/2023] [Indexed: 01/12/2023]
Abstract
Organisms have evolved different mechanisms in response to periods of environmental stress, including dormancy - a reversible state of reduced metabolic activity. Transitions to and from dormancy can be random or induced by changes in environmental conditions. Prior theoretical work has shown that stochastic transitioning between active and dormant states at the individual level can maximize fitness at the population level. However, such theories of 'bet-hedging' strategies typically neglect certain physiological features of transitions to dormancy, including time lags to gain protective benefits. Here, we construct and analyze a dynamic model that couples stochastic changes in environmental state with the population dynamics of organisms that can initiate dormancy after an explicit time delay. Stochastic environments are simulated using a multi-state Markov chain through which the mean and variance of environmental residence time can be adjusted. In the absence of time lags (or in the limit of very short lags), we find that bet-hedging strategy transition probabilities scale inversely with the mean environmental residence times, consistent with prior theory. We also find that increasing delays in dormancy decreases optimal transitioning probabilities, an effect that can be influenced by the correlations of environmental noise. When environmental residence times - either good or bad - are uncorrelated, the maximum population level fitness is obtained given low levels of transitioning between active and dormant states. However when environmental residence times are correlated, optimal dormancy initiation and termination probabilities increase insofar as the mean environmental persistent time is longer than the delay to reach dormancy. We also find that bet hedging is no longer advantageous when delays to enter dormancy exceed the mean environmental residence times. Altogether, these results show how physiological limits to dormancy and environmental dynamics shape the evolutionary benefits and even viability of bet hedging strategies at population scales.
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Affiliation(s)
- Andreea Măgălie
- School of Biological Sciences, Georgia Institute of Technology, Atlanta, GA, USA; Interdisciplinary Graduate Program in Quantitative Biosciences, Georgia Institute of Technology, Atlanta, GA, USA.
| | | | - Jay T Lennon
- Department of Biology, Indiana University, Bloomington, IN, USA
| | - Joshua S Weitz
- School of Biological Sciences, Georgia Institute of Technology, Atlanta, GA, USA; School of Physics, Georgia Institute of Technology, Atlanta, GA, USA; Institut de Biologie, École Normale Supérieure, Paris, France.
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33
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Du Z, Wang J, An H, Zhang H, Chen G. Responses of soil seed banks to drought on a global scale. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 864:161142. [PMID: 36572295 DOI: 10.1016/j.scitotenv.2022.161142] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/01/2022] [Revised: 12/14/2022] [Accepted: 12/19/2022] [Indexed: 06/17/2023]
Abstract
The global increase in drought frequency and intensity in large areas has potentially important effects on soil seed banks (SSBs). However, a systematic evaluation of the impact of drought on SSBs at a global scale has not yet been well understood. We evaluated the effects of drought on SSBs and identified the association key drivers in the current meta-analysis. The overall effects of drought on soil seed density and richness were weak negative and positive, respectively. Drought significantly increased soil seed density by 11.94 % in forest ecosystem, whereas soil seed richness were significantly increased in vascular plants (7.39 %). Linear mixed-effect results showed that soil seed density and richness significantly reduced as increasing drought intensity. In addition, geography (altitude) has significance in controlling the lnRR of soil seed density by altering climate (mean annual precipitation, drought) and soil properties (pH, soil organic carbon, and clay content) in the structural equation model, whereas soil seed richness was controlled by geography (altitude, and latitude) via climate (mean annual precipitation). In summary, the results suggested the size of SSBs response to drought and its relationship with drought intensity in terrestrial ecosystems, it may shed light on ecosystem restoration, succession, and management using SSBs when estimating the future drought.
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Affiliation(s)
- Zhongyu Du
- Research Institute of Subtropical Forestry, Chinese Academy of Forestry, Hangzhou 311400, China
| | - Jia Wang
- Research Institute of Subtropical Forestry, Chinese Academy of Forestry, Hangzhou 311400, China
| | - Hui An
- School of Ecology and Environment, Ningxia University, Breeding Base for State Key Lab. of Land Degradation and Ecological Restoration in Northwestern China, Key Lab. of Restoration and Reconstruction of Degraded Ecosystems in Northwestern China of Ministry of Education, Yinchuan 750021, China
| | - Handan Zhang
- Research Institute of Subtropical Forestry, Chinese Academy of Forestry, Hangzhou 311400, China
| | - Guangcai Chen
- Research Institute of Subtropical Forestry, Chinese Academy of Forestry, Hangzhou 311400, China.
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34
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Khan M, Ali S, Al Azzawi TNI, Yun BW. Nitric Oxide Acts as a Key Signaling Molecule in Plant Development under Stressful Conditions. Int J Mol Sci 2023; 24:4782. [PMID: 36902213 PMCID: PMC10002851 DOI: 10.3390/ijms24054782] [Citation(s) in RCA: 20] [Impact Index Per Article: 20.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2023] [Revised: 02/24/2023] [Accepted: 02/28/2023] [Indexed: 03/06/2023] Open
Abstract
Nitric oxide (NO), a colorless gaseous molecule, is a lipophilic free radical that easily diffuses through the plasma membrane. These characteristics make NO an ideal autocrine (i.e., within a single cell) and paracrine (i.e., between adjacent cells) signalling molecule. As a chemical messenger, NO plays a crucial role in plant growth, development, and responses to biotic and abiotic stresses. Furthermore, NO interacts with reactive oxygen species, antioxidants, melatonin, and hydrogen sulfide. It regulates gene expression, modulates phytohormones, and contributes to plant growth and defense mechanisms. In plants, NO is mainly produced via redox pathways. However, nitric oxide synthase, a key enzyme in NO production, has been poorly understood recently in both model and crop plants. In this review, we discuss the pivotal role of NO in signalling and chemical interactions as well as its involvement in the mitigation of biotic and abiotic stress conditions. In the current review, we have discussed various aspects of NO including its biosynthesis, interaction with reactive oxygen species (ROS), melatonin (MEL), hydrogen sulfide, enzymes, phytohormones, and its role in normal and stressful conditions.
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Affiliation(s)
- Murtaza Khan
- Department of Horticulture and Life Science, Yeungnam University, Gyeongsan 38541, Republic of Korea
| | - Sajid Ali
- Department of Horticulture and Life Science, Yeungnam University, Gyeongsan 38541, Republic of Korea
| | | | - Byung-Wook Yun
- Department of Applied Biosciences, Kyungpook National University, Daegu 41566, Republic of Korea
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Liu M, Wang C, Xu Q, Pan Y, Jiang B, Zhang L, Zhang Y, Tian Z, Lu J, Ma C, Chang C, Zhang H. Genome-wide identification of the CPK gene family in wheat (Triticum aestivum L.) and characterization of TaCPK40 associated with seed dormancy and germination. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2023; 196:608-623. [PMID: 36780723 DOI: 10.1016/j.plaphy.2023.02.014] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/03/2022] [Revised: 02/01/2023] [Accepted: 02/07/2023] [Indexed: 06/18/2023]
Abstract
Calcium-dependent protein kinases (CPKs), important sensors of calcium signals, play an essential role in plant growth, development, and stress responses. Although the CPK gene family has been characterized in many plants, the functions of the CPK gene family in wheat, including their relationship to seed dormancy and germination, remain unclear. In this study, we identified 84 TaCPK genes in wheat (TaCPK1-84). According to their phylogenetic relationship, they were divided into four groups (I-IV). TaCPK genes in the same group were found to have similar gene structures and motifs. Chromosomal localization indicated that TaCPK genes were unevenly distributed across 21 wheat chromosomes. TaCPK gene expansion occurred through segmental duplication events and underwent strong negative selection. A large number of cis-regulatory elements related to light response, phytohormone response, and abiotic stress response were identified in the upstream promoter sequences of TaCPK genes. TaCPK gene expression was found to be tissue- and growth-stage-diverse. Analysis of the expression patterns of several wheat varieties with contrasting seed dormancy and germination phenotypes resulted in the identification of 11 candidate genes (TaCPK38/-40/-43/-47/-50/-60/-67/-70/-75/-78/-80) which are likely associated with seed dormancy and germination. The ectopic expression of TaCPK40 in Arabidopsis promoted seed germination and reduced abscisic acid (ABA) sensitivity during germination, indicating that TaCPK40 negatively regulates seed dormancy and positively regulates seed germination. These findings advance our understanding of the multifaceted functions of CPK genes in seed dormancy and germination, and provide potential candidate genes for controlling wheat seed dormancy and germination.
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Affiliation(s)
- Mingli Liu
- College of Agronomy, Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Afairs, Anhui Agricultural University, Hefei, 230036, Anhui, China
| | - Chenchen Wang
- College of Agronomy, Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Afairs, Anhui Agricultural University, Hefei, 230036, Anhui, China
| | - Qing Xu
- College of Agronomy, Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Afairs, Anhui Agricultural University, Hefei, 230036, Anhui, China
| | - Yonghao Pan
- College of Agronomy, Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Afairs, Anhui Agricultural University, Hefei, 230036, Anhui, China
| | - Bingli Jiang
- College of Agronomy, Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Afairs, Anhui Agricultural University, Hefei, 230036, Anhui, China
| | - Litian Zhang
- College of Agronomy, Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Afairs, Anhui Agricultural University, Hefei, 230036, Anhui, China
| | - Yue Zhang
- College of Agronomy, Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Afairs, Anhui Agricultural University, Hefei, 230036, Anhui, China
| | - Zhuangbo Tian
- College of Agronomy, Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Afairs, Anhui Agricultural University, Hefei, 230036, Anhui, China
| | - Jie Lu
- College of Agronomy, Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Afairs, Anhui Agricultural University, Hefei, 230036, Anhui, China
| | - Chuanxi Ma
- College of Agronomy, Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Afairs, Anhui Agricultural University, Hefei, 230036, Anhui, China
| | - Cheng Chang
- College of Agronomy, Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Afairs, Anhui Agricultural University, Hefei, 230036, Anhui, China.
| | - Haiping Zhang
- College of Agronomy, Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Afairs, Anhui Agricultural University, Hefei, 230036, Anhui, China.
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Xie J, Li Y, Jiang G, Sun H, Liu X, Han L. Seed color represents salt resistance of alfalfa seeds ( Medicago sativa L.): Based on the analysis of germination characteristics, seedling growth and seed traits. FRONTIERS IN PLANT SCIENCE 2023; 14:1104948. [PMID: 36875586 PMCID: PMC9978207 DOI: 10.3389/fpls.2023.1104948] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/22/2022] [Accepted: 02/03/2023] [Indexed: 06/18/2023]
Abstract
INTRODUCTION Alfalfa (Medicago sativa L.) has significant feed value and ecological improvement function of marginal land. The difference in the maturity period of seeds in the same lots may be a mechanism of environmental adaptation. Seed color is a morphological trait associated with seed maturity. A clear understanding of the relationship between the seed color and seed stress resistance is helpful for seed selection for marginal land. METHODS This study evaluated the seed germination parameters (germinability and final germination percentage) and subsequent seedling growth (sprout height, root length, fresh and dry weight) of alfalfa under different salt stress, measured the electrical conductivity, water uptake, seed coat thickness, and endogenous hormone content in alfalfa seeds with different colors (green, yellow and brown). RESULTS The results showed that seed color significantly influenced the seed germination and seedling growth. The germination parameters and seedling performance of brown seeds were significantly lower than that of green and yellow seeds under different salt stress. The germination parameters and seedling growth of brown seed declined most obviously with the aggravation of salt stress. The results suggested that brown seeds were less resistant to salt stress. Seed color had a significant effect on electrical conductivity, and it indicated that the yellow seeds had higher vigor. The seed coat thickness of various colors did not differ significantly. The seed water uptake rate and hormone content (IAA, GA3, ABA) in brown seeds were higher than that in green and yellow seeds, while the (IAA+GA3)/ ABA in yellow seeds were higher than green and brown seeds. The alterations in seed germination and seedling performance among seed colors are likely due to the combination effect of the content and balance between IAA+GA3 and ABA. DISCUSSION These results could improve the understanding of stress adaptation mechanisms of alfalfa and provide a theoretical basis for screening alfalfa seeds with high stress resistance.
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Affiliation(s)
- Jin Xie
- Key Laboratory of Agricultural Water Resources, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang, Hebei, China
- Hebei Key Laboratory of Soil Ecology, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang, Hebei, China
| | - Yao Li
- Key Laboratory of Agricultural Water Resources, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang, Hebei, China
- Hebei Key Laboratory of Soil Ecology, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang, Hebei, China
- College of Advanced Agricultural Sciences, University of Chinese Academy of Sciences, Beijing, China
| | - Gaoqian Jiang
- Key Laboratory of Agricultural Water Resources, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang, Hebei, China
- Hebei Key Laboratory of Soil Ecology, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang, Hebei, China
- College of Advanced Agricultural Sciences, University of Chinese Academy of Sciences, Beijing, China
| | - Hongyong Sun
- Key Laboratory of Agricultural Water Resources, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang, Hebei, China
- College of Advanced Agricultural Sciences, University of Chinese Academy of Sciences, Beijing, China
| | - Xiaojing Liu
- Key Laboratory of Agricultural Water Resources, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang, Hebei, China
- College of Advanced Agricultural Sciences, University of Chinese Academy of Sciences, Beijing, China
| | - Lipu Han
- Key Laboratory of Agricultural Water Resources, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang, Hebei, China
- College of Advanced Agricultural Sciences, University of Chinese Academy of Sciences, Beijing, China
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Wang QY, Yang L, Ge N, Jia JS, Huang RM, Chen C, Meng ZG, Li LG, Chen JW. Exogenous abscisic acid prolongs the dormancy of recalcitrant seed of Panax notoginseng. FRONTIERS IN PLANT SCIENCE 2023; 14:1054736. [PMID: 36866363 PMCID: PMC9971733 DOI: 10.3389/fpls.2023.1054736] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/27/2022] [Accepted: 01/20/2023] [Indexed: 06/12/2023]
Abstract
The seeds of Panax notoginseng (Burk.) F. H. Chen are typically characterized by their recalcitrance and after-ripening process and exhibit a high water content at harvest as well as a high susceptibility to dehydration. Storage difficulty and the low germination of recalcitrant seeds of P. notoginseng are known to cause an obstacle to agricultural production. In this study, the ratio of embryo to endosperm (Em/En) in abscisic acid (ABA) treatments (1 mg·l-1 and 10 mg·l-1, LA and HA) was 53.64% and 52.34%, respectively, which were lower than those in control check (CK) (61.98%) at 30 days of the after-ripening process (DAR). A total of 83.67% of seeds germinated in the CK, 49% of seeds germinated in the LA treatment, and 37.33% of seeds germinated in the HA treatment at 60 DAR. The ABA, gibberellin (GA), and auxin (IAA) levels were increased in the HA treatment at 0 DAR, while the jasmonic acid (JA) levels were decreased. ABA, IAA, and JA were increased, but GA was decreased with HA treatment at 30 DAR. A total of 4,742, 16,531, and 890 differentially expressed genes (DEGs) were identified between the HA-treated and CK groups, respectively, along with obvious enrichment in the ABA-regulated plant hormone pathway and the mitogen-activated protein kinase (MAPK) signaling pathway. The expression of pyracbactin resistance-like (PYL) and SNF1-related protein kinase subfamily 2 (SnRK2s) increased in the ABA-treated groups, whereas the expression of type 2C protein phosphatase (PP2C) decreased, both of which are related to the ABA signaling pathway. As a result of the changes in expression of these genes, increased ABA signaling and suppressed GA signaling could inhibit the growth of the embryo and the expansion of developmental space. Furthermore, our results demonstrated that MAPK signaling cascades might be involved in the amplification of hormone signaling. Meanwhile, our study uncovered that the exogenous hormone ABA could inhibit embryonic development, promote dormancy, and delay germination in recalcitrant seeds. These findings reveal the critical role of ABA in regulating the dormancy of recalcitrant seeds, and thereby provide a new insight into recalcitrant seeds in agricultural production and storage.
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Affiliation(s)
- Qing-Yan Wang
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, China
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural University, Kunming, China
- National and Local Joint Engineering Research Center on Germplasm Innovation and Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Kunming, China
| | - Ling Yang
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, China
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural University, Kunming, China
- National and Local Joint Engineering Research Center on Germplasm Innovation and Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Kunming, China
| | - Na Ge
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, China
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural University, Kunming, China
- National and Local Joint Engineering Research Center on Germplasm Innovation and Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Kunming, China
| | - Jin-Shan Jia
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, China
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural University, Kunming, China
- National and Local Joint Engineering Research Center on Germplasm Innovation and Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Kunming, China
| | - Rong-Mei Huang
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, China
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural University, Kunming, China
- National and Local Joint Engineering Research Center on Germplasm Innovation and Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Kunming, China
| | - Cui Chen
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, China
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural University, Kunming, China
- National and Local Joint Engineering Research Center on Germplasm Innovation and Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Kunming, China
| | - Zhen-Gui Meng
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, China
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural University, Kunming, China
- National and Local Joint Engineering Research Center on Germplasm Innovation and Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Kunming, China
| | - Long-Gen Li
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, China
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural University, Kunming, China
- National and Local Joint Engineering Research Center on Germplasm Innovation and Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Kunming, China
| | - Jun-Wen Chen
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, China
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural University, Kunming, China
- National and Local Joint Engineering Research Center on Germplasm Innovation and Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Kunming, China
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Shohat H, Cheriker H, Cohen A, Weiss D. Tomato ABA-IMPORTING TRANSPORTER 1.1 inhibits seed germination under high salinity conditions. PLANT PHYSIOLOGY 2023; 191:1404-1415. [PMID: 36449559 PMCID: PMC9922386 DOI: 10.1093/plphys/kiac545] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/20/2022] [Revised: 11/04/2022] [Accepted: 11/29/2022] [Indexed: 05/27/2023]
Abstract
The plant hormone abscisic acid (ABA) plays a central role in the regulation of seed maturation and dormancy. ABA also restrains germination under abiotic-stress conditions. Here, we show in tomato (Solanum lycopersicum) that the ABA importer ABA-IMPORTING TRANSPORTER 1.1 (AIT1.1/NPF4.6) has a role in radicle emergence under salinity conditions. AIT1.1 expression was upregulated following seed imbibition, and CRISPR/Cas9-derived ait1.1 mutants exhibited faster radicle emergence, increased germination and partial resistance to ABA. AIT1.1 was highly expressed in the endosperm, but not in the embryo, and ait1.1 isolated embryos did not show resistance to ABA. On the other hand, loss of AIT1.1 activity promoted the expression of endosperm-weakening-related genes, and seed-coat scarification eliminated the promoting effect of ait1.1 on radicle emergence. Therefore, we propose that imbibition-induced AIT1.1 expression in the micropylar endosperm mediates ABA-uptake into micropylar cells to restrain endosperm weakening. While salinity conditions strongly inhibited wild-type M82 seed germination, high salinity had a much weaker effect on ait1.1 germination. We suggest that AIT1.1 evolved to inhibit germination under unfavorable conditions, such as salinity. Unlike other ABA mutants, ait1.1 exhibited normal seed longevity, and therefore, the ait1.1 allele may be exploited to improve seed germination in crops.
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Affiliation(s)
- Hagai Shohat
- Institute of Plant Sciences and Genetics in Agriculture, The Hebrew University of Jerusalem, P.O. Box 12, Rehovot 76100, Israel
| | - Hadar Cheriker
- Institute of Plant Sciences and Genetics in Agriculture, The Hebrew University of Jerusalem, P.O. Box 12, Rehovot 76100, Israel
| | - Amir Cohen
- Institute of Plant Sciences and Genetics in Agriculture, The Hebrew University of Jerusalem, P.O. Box 12, Rehovot 76100, Israel
| | - David Weiss
- Institute of Plant Sciences and Genetics in Agriculture, The Hebrew University of Jerusalem, P.O. Box 12, Rehovot 76100, Israel
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Chen WQ, Liu DP, Li ZX, Chen K, Luo J, Xu JL. Transcriptome analysis of knockout mutants of rice seed dormancy gene OsVP1 and Sdr4. PLANT CELL REPORTS 2023; 42:309-319. [PMID: 36445461 DOI: 10.1007/s00299-022-02958-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/27/2022] [Accepted: 11/21/2022] [Indexed: 06/16/2023]
Abstract
OsVP1 and Sdr4 play an important role in regulating seed dormancy that involved in multiple metabolism and regulatory pathways. Seed dormancy and germination are critical agricultural traits influencing rice grain yield. Although there are some genes have identified previously, the comprehensive understanding based on transcriptome is still deficient. In this study, we generated mutants of two representative regulators of seed germination, Oryza sativa Viviparous1 (OsVP1) and Seed dormancy 4 (Sdr4), by CRISPR/Cas9 approach and named them cr-osvp1 and cr-sdr4. The weakened dormancy of mutants indicated that the functions of OsVP1 and Sdr4 are required for normal early seed dormancy. There were 4157 and 8285 differentially expressed genes (DEGs) were identified in cr-osvp1 vs. NIP and cr-sdr4 vs. NIP groups, respectively, with a large number of overlapped DEGs between two groups. The gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis of common DEGs in two groups showed that genes related to carbohydrate metabolic, nucleoside metabolic, amylase activity and plant hormone signal transduction were involved in the dormancy regulation. These results suggest that OsVP1 and Sdr4 play an important role in regulating seed dormancy by multiple metabolism and regulatory pathways. The systematic analysis of the transcriptional level changes provides theoretical basis for the research of seed dormancy and germination in rice.
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Affiliation(s)
- Wen-Qiang Chen
- Engineering Research Center of Ecology and Agricultural Use of Wetland, Ministry of Education/College of Agriculture, Yangtze University, Jingzhou, 434025, Hubei, China
- State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou, 310006, Zhejiang, China
| | - Da-Pu Liu
- National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Zhi-Xin Li
- Engineering Research Center of Ecology and Agricultural Use of Wetland, Ministry of Education/College of Agriculture, Yangtze University, Jingzhou, 434025, Hubei, China
| | - Kai Chen
- Shenzhen Branch, Guangdong Laboratory for Lingnan Modern Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, Guangdong, China
| | - Ju Luo
- State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou, 310006, Zhejiang, China.
| | - Jian-Long Xu
- National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
- Shenzhen Branch, Guangdong Laboratory for Lingnan Modern Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, Guangdong, China.
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Ge N, Jia JS, Yang L, Huang RM, Wang QY, Chen C, Meng ZG, Li LG, Chen JW. Exogenous gibberellic acid shortening after-ripening process and promoting seed germination in a medicinal plant Panax notoginseng. BMC PLANT BIOLOGY 2023; 23:67. [PMID: 36721119 PMCID: PMC9890714 DOI: 10.1186/s12870-023-04084-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/28/2022] [Accepted: 01/23/2023] [Indexed: 06/18/2023]
Abstract
BACKGROUND Panax notoginseng (Burk) F.H. Chen is an essential plant in the family of Araliaceae. Its seeds are classified as a type of morphophysiological dormancy (MPD), and are characterized by recalcitrance during the after-ripening process. However, it is not clear about the molecular mechanism on the after-ripening in recalcitrant seeds. RESULTS In this study, exogenous supply of gibberellic acid (GA3) with different concentrations shortened after-ripening process and promoted the germination of P. notoginseng seeds. Among the identified plant hormone metabolites, exogenous GA3 results in an increased level of endogenous hormone GA3 through permeation. A total of 2971 and 9827 differentially expressed genes (DEGs) were identified in response to 50 mg L-1 GA3 (LG) and 500 mg L-1 GA3 (HG) treatment, respectively, and the plant hormone signal and related metabolic pathways regulated by GA3 was significantly enriched. Weighted gene co-expression network analysis (WGCNA) revealed that GA3 treatment enhances GA biosynthesis and accumulation, while inhibiting the gene expression related to ABA signal transduction. This effect was associated with higher expression of crucial seed embryo development and cell wall loosening genes, Leafy Contyledon1 (LEC1), Late Embryogenesis Abundant (LEA), expansins (EXP) and Pectinesterase (PME). CONCLUSIONS Exogenous GA3 application promotes germination and shorts the after-ripening process of P. notoginseng seeds by increasing GA3 contents through permeation. Furthermore, the altered ratio of GA and ABA contributes to the development of the embryo, breaks the mechanical constraints of the seed coat and promotes the protrusion of the radicle in recalcitrant P. notoginseng seeds. These findings improve our knowledge of the contribution of GA to regulating the dormancy of MPD seeds during the after-ripening process, and provide new theoretical guidance for the application of recalcitrant seeds in agricultural production and storage.
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Affiliation(s)
- Na Ge
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
- The Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
- National and Local Joint Engineering Research Center on Germplasm Innovation and Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Yunnan, 650201, Kunming, China
| | - Jin-Shan Jia
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
- The Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
- National and Local Joint Engineering Research Center on Germplasm Innovation and Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Yunnan, 650201, Kunming, China
| | - Ling Yang
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
- The Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
- National and Local Joint Engineering Research Center on Germplasm Innovation and Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Yunnan, 650201, Kunming, China
| | - Rong-Mei Huang
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
- The Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
- National and Local Joint Engineering Research Center on Germplasm Innovation and Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Yunnan, 650201, Kunming, China
| | - Qing-Yan Wang
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
- The Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
- National and Local Joint Engineering Research Center on Germplasm Innovation and Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Yunnan, 650201, Kunming, China
| | - Cui Chen
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
- The Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
- National and Local Joint Engineering Research Center on Germplasm Innovation and Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Yunnan, 650201, Kunming, China
| | - Zhen-Gui Meng
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
- The Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
- National and Local Joint Engineering Research Center on Germplasm Innovation and Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Yunnan, 650201, Kunming, China
| | - Long-Geng Li
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
- The Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
- National and Local Joint Engineering Research Center on Germplasm Innovation and Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Yunnan, 650201, Kunming, China
| | - Jun-Wen Chen
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, Yunnan, China.
- The Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural University, Kunming, 650201, Yunnan, China.
- National and Local Joint Engineering Research Center on Germplasm Innovation and Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Yunnan, 650201, Kunming, China.
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Khan MN, Fu C, Li J, Tao Y, Li Y, Hu J, Chen L, Khan Z, Wu H, Li Z. Seed nanopriming: How do nanomaterials improve seed tolerance to salinity and drought? CHEMOSPHERE 2023; 310:136911. [PMID: 36270526 DOI: 10.1016/j.chemosphere.2022.136911] [Citation(s) in RCA: 9] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/08/2022] [Revised: 09/25/2022] [Accepted: 10/14/2022] [Indexed: 06/16/2023]
Abstract
Salt and drought stress are major environmental issues world-widely. These stresses can result in failures of seed germination, limiting agricultural production. New approaches are needed to increase crop production, ensuring food safety, quality, and agriculture sustainability. Nanopriming (priming seeds with nanomaterials) is an emerging seed technology improving crop production under the drastic climate change associated with stress factors. The present review not only provided an overview of nanopriming achieved salt and drought tolerance but also tried to discuss the behind mechanisms. We argued that the physico-chemical properties of the nanomaterials are key factors affecting their negative or positive effects on seed germination in terms of seed nanopriming. Furthermore, we highlighted the possible critical role of seed coat anatomy in effective nanopriming, in terms of saving costs and reducing biosafety issues. This review aims to help researchers to better understand and follow this fast-developing, cost-effective, and environmentally friendly research area.
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Affiliation(s)
- Mohammad Nauman Khan
- MOA Key Laboratory of Crop Ecophysiology and Farming System in the Middle Reaches of the Yangtze River, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Chengcheng Fu
- MOA Key Laboratory of Crop Ecophysiology and Farming System in the Middle Reaches of the Yangtze River, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Jiaqi Li
- MOA Key Laboratory of Crop Ecophysiology and Farming System in the Middle Reaches of the Yangtze River, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Yunpeng Tao
- MOA Key Laboratory of Crop Ecophysiology and Farming System in the Middle Reaches of the Yangtze River, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Yanhui Li
- MOA Key Laboratory of Crop Ecophysiology and Farming System in the Middle Reaches of the Yangtze River, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Jin Hu
- MOA Key Laboratory of Crop Ecophysiology and Farming System in the Middle Reaches of the Yangtze River, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Lingling Chen
- MOA Key Laboratory of Crop Ecophysiology and Farming System in the Middle Reaches of the Yangtze River, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Zaid Khan
- MOA Key Laboratory of Crop Ecophysiology and Farming System in the Middle Reaches of the Yangtze River, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Honghong Wu
- MOA Key Laboratory of Crop Ecophysiology and Farming System in the Middle Reaches of the Yangtze River, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China; Hongshan Laboratory, Wuhan, Hubei, 430070, China; College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100083, China.
| | - Zhaohu Li
- MOA Key Laboratory of Crop Ecophysiology and Farming System in the Middle Reaches of the Yangtze River, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China; Hongshan Laboratory, Wuhan, Hubei, 430070, China; College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100083, China.
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Ramírez-Rodas YC, Arévalo-Galarza MDL, Cadena-Iñiguez J, Soto-Hernández RM, Peña-Valdivia CB, Guerrero-Analco JA. Chayote Fruit ( Sechium edule var. virens levis) Development and the Effect of Growth Regulators on Seed Germination. PLANTS (BASEL, SWITZERLAND) 2022; 12:108. [PMID: 36616239 PMCID: PMC9823722 DOI: 10.3390/plants12010108] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/07/2022] [Revised: 12/19/2022] [Accepted: 12/19/2022] [Indexed: 06/17/2023]
Abstract
The chayote fruit is a nontraditional vegetable belonging to the Cucurbitaceae family. The fruit has an endocarpic recalcitrant seed that emerges postharvest, drastically shortening its shelf life. In this study, the changes during fruit and seed development before and after harvest (ah) are reported. Additionally, in order to investigate how growth regulators (GRs) affect seed germination, 2-cloroethylphosphonic acid (CPA) (200 µL L-1), gibberellic acid (GA3) (100 and 200 mg L-1), auxin (2,4-D) (0.5 and 1.0 mM), and abscisic acid (ABA) (0.5 and 1.0 mM) were applied after harvest. The results showed that the chayote fruit reached horticultural maturity at 21 days after anthesis, with a sigmoid trend: phase I featured slow growth and high transpiration; in phase II, growth was accelerated and accumulation of endosperm was observed; and in phase III, both growth rate and transpiration were reduced, soluble sugars increased, and the seed showed 25% cotyledon development. At day 13 ah, CPA, GA3, and 2,4-D (0.5 mM) increased seed germination, with values between 10 and 15 mm of the embryonary axis, and the treatments with 2,4-D (1 mM) and ABA (0.5 and 1.0 mM) retarded their growth (2-6 mm). This research allowed us to reveal the phenological phases and the shelf life of the chayote fruit, as well as the results of possible postharvest treatment with GRs; our results suggest that strategies to delay viviparism and prolong the shelf life of the fruit should be applied before 10 days ah, when the embryonic axis of the seed has not developed.
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Affiliation(s)
- Yeimy C. Ramírez-Rodas
- Colegio de Postgraduados, Campus Montecillo, Km. 36.5 Carretera México-Texcoco, Montecillo 56230, Mexico
| | | | - Jorge Cadena-Iñiguez
- Colegio de Postgraduados, Campus San Luis Potosí, San Iturbide No. 73, Salinas de Hidalgo, San Luis Potosí 78600, Mexico
| | - Ramón M. Soto-Hernández
- Colegio de Postgraduados, Campus Montecillo, Km. 36.5 Carretera México-Texcoco, Montecillo 56230, Mexico
| | - Cecilia B. Peña-Valdivia
- Colegio de Postgraduados, Campus Montecillo, Km. 36.5 Carretera México-Texcoco, Montecillo 56230, Mexico
| | - José A. Guerrero-Analco
- Red de Estudios Moleculares Avanzados, Clúster Biomimic, Instituto de Ecología, A. C. Carretera Antigua a Coatepec 351, Xalapa, Veracruz 91073, Mexico
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Yang B, Sun S, Li S, Zeng J, Xu F. RNA-seq study reveals the signaling and carbohydrate metabolism regulators involved in dormancy release by warm stratification in Paris polyphylla var. yunnanensis. PLANT BIOTECHNOLOGY (TOKYO, JAPAN) 2022; 39:355-365. [PMID: 37283615 PMCID: PMC10240920 DOI: 10.5511/plantbiotechnology.22.0824a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/10/2022] [Accepted: 08/24/2022] [Indexed: 06/08/2023]
Abstract
Long-term seed dormancy of Paris polyphylla var. yunnanensis limits its large-scale artificial cultivation. It is crucial to understand the regulatory genes involving in dormancy release for artificial cultivation in this species. In this study, seed dormancy of Paris polyphylla var. yunnanensis was effectively released by warm stratification (20°C) for 90 days. The freshly harvested seeds (dormant) and stratified seeds (non-dormant) were used to sequence, and approximately 147 million clean reads and 28,083 annotated unigenes were detected. In which, a total of 10,937 differentially expressed genes (DEGs) were identified between dormant and non-dormant seeds. Gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) classification revealed that the majority unigenes involved in signaling transduction and carbohydrate metabolism. Of them, the signaling transduction-related DEGs were mainly hormones-, reactive oxygen species (ROS)-, and transcription factor (TF)-related genes. The largest number of signaling transduction-related DEGs were auxin-responsive genes (SAUR, AUX/IAA, and ARF) and AP2-like ethylene-responsive transcription factor (ERF/AP2). Moreover, at least 29 DEGs such as α-amylase (AMY), β-glucosidase (Bglb/Bglu/Bglx), and endoglucanase (Glu) were identified involving in carbohydrate metabolism. These identified genes provide a valuable resource to investigate the molecular basis of dormancy release in Paris polyphylla var. yunnanensis.
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Affiliation(s)
- Bin Yang
- Guangzhou Key Laboratory for Research and Development of Crop Germplasm Resources, Zhongkai University of Agriculture and Engineering, Guangzhou 510225, China
| | - Shan Sun
- The Laboratory of Seed Science and Technology, Guangdong Key Laboratory of Plant Molecular Breeding, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510642, China
| | - Shengyu Li
- Guangzhou Key Laboratory for Research and Development of Crop Germplasm Resources, Zhongkai University of Agriculture and Engineering, Guangzhou 510225, China
| | - Jiali Zeng
- Guangzhou Key Laboratory for Research and Development of Crop Germplasm Resources, Zhongkai University of Agriculture and Engineering, Guangzhou 510225, China
| | - Furong Xu
- College of Traditional Chinese Medicine, Yunnan University of Chinese Medicine, Kunming 650500, China
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Nagel M, Arc E, Rajjou L, Cueff G, Bailly M, Clément G, Sanchez-Vicente I, Bailly C, Seal CE, Roach T, Rolletschek H, Lorenzo O, Börner A, Kranner I. Impacts of drought and elevated temperature on the seeds of malting barley. FRONTIERS IN PLANT SCIENCE 2022; 13:1049323. [PMID: 36570960 PMCID: PMC9773840 DOI: 10.3389/fpls.2022.1049323] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/20/2022] [Accepted: 11/10/2022] [Indexed: 06/17/2023]
Abstract
High seed quality is key to agricultural production, which is increasingly affected by climate change. We studied the effects of drought and elevated temperature during seed production on key seed quality traits of two genotypes of malting barley (Hordeum sativum L.). Plants of a "Hana-type" landrace (B1) were taller, flowered earlier and produced heavier, larger and more vigorous seeds that resisted ageing longer compared to a semi-dwarf breeding line (B2). Accordingly, a NAC domain-containing transcription factor (TF) associated with rapid response to environmental stimuli, and the TF ABI5, a key regulator of seed dormancy and vigour, were more abundant in B1 seeds. Drought significantly reduced seed yield in both genotypes, and elevated temperature reduced seed size. Genotype B2 showed partial thermodormancy that was alleviated by drought and elevated temperature. Metabolite profiling revealed clear differences between the embryos of B1 and B2. Drought, but not elevated temperature, affected the metabolism of amino acids, organic acids, osmolytes and nitrogen assimilation, in the seeds of both genotypes. Our study may support future breeding efforts to produce new lodging and drought resistant malting barleys without trade-offs that can occur in semi-dwarf varieties such as lower stress resistance and higher dormancy.
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Affiliation(s)
- Manuela Nagel
- Genebank Department, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Gatersleben, Seeland, Germany
| | - Erwann Arc
- Department of Botany and Center for Molecular Biosciences Innsbruck (CMBI), University of Innsbruck, Innsbruck, Austria
| | - Loïc Rajjou
- Université Paris-Saclay, INRAE, AgroParisTech, Institut Jean-Pierre Bourgin (IJPB), Versailles, France
| | - Gwendal Cueff
- Université Paris-Saclay, INRAE, AgroParisTech, Institut Jean-Pierre Bourgin (IJPB), Versailles, France
| | - Marlene Bailly
- Université Paris-Saclay, INRAE, AgroParisTech, Institut Jean-Pierre Bourgin (IJPB), Versailles, France
| | - Gilles Clément
- Université Paris-Saclay, INRAE, AgroParisTech, Institut Jean-Pierre Bourgin (IJPB), Versailles, France
| | - Inmaculada Sanchez-Vicente
- Department of Botany and Plant Physiology, Instituto de Investigación en Agrobiotecnología (CIALE), Facultad de Biología, Universidad de Salamanca, Salamanca, Spain
| | - Christophe Bailly
- Unité Mixte de Recherche (UMR) 7622 Biologie du Développement, Institut de Biologie Paris Seine (IBPS), Sorbonne Université, CNRS, Paris, France
| | - Charlotte E. Seal
- Royal Botanic Gardens, Kew, Wakehurst, Ardingly, Haywards Heath, West Sussex, Haywards Heath, United Kingdom
| | - Thomas Roach
- Department of Botany and Center for Molecular Biosciences Innsbruck (CMBI), University of Innsbruck, Innsbruck, Austria
| | - Hardy Rolletschek
- Genebank Department, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Gatersleben, Seeland, Germany
| | - Oscar Lorenzo
- Department of Botany and Plant Physiology, Instituto de Investigación en Agrobiotecnología (CIALE), Facultad de Biología, Universidad de Salamanca, Salamanca, Spain
| | - Andreas Börner
- Genebank Department, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Gatersleben, Seeland, Germany
| | - Ilse Kranner
- Department of Botany and Center for Molecular Biosciences Innsbruck (CMBI), University of Innsbruck, Innsbruck, Austria
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DELAY OF GERMINATION 1, the Master Regulator of Seed Dormancy, Integrates the Regulatory Network of Phytohormones at the Transcriptional Level to Control Seed Dormancy. Curr Issues Mol Biol 2022; 44:6205-6217. [PMID: 36547084 PMCID: PMC9777134 DOI: 10.3390/cimb44120423] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2022] [Revised: 11/30/2022] [Accepted: 12/05/2022] [Indexed: 12/13/2022] Open
Abstract
Seed dormancy, an important adaptive trait that governs germination timing, is endogenously controlled by phytohormones and genetic factors. DELAY OF GERMINATION 1 (DOG1) is the vital genetic regulator of dormancy, significantly affecting the expression of numerous ABA and GA metabolic genes. However, whether DOG1 could influence the expression of other phytohormone-related genes is still unknown. Here, we comprehensively investigated all well-documented hormone-related genes which might be affected in dog1-2 dry or imbibed seeds by using whole-transcriptome sequencing (RNA-seq). We found that DOG1 could systematically control the expression of phytohormone-related genes. An evident decrease was observed in the endogenous signal intensity of abscisic acid (ABA) and indole-3-acetic acid (IAA), while a dramatic increase appeared in that of gibberellins (GA), brassinosteroids (BR), and cytokinin (CK) in the dog1-2 background, which may contribute considerably to its dormancy-deficient phenotype. Collectively, our data highlight the role of DOG1 in balancing the expression of phytohormone-related genes and provide inspirational evidence that DOG1 may integrate the phytohormones network to control seed dormancy.
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Liu D, Zeng M, Wu Y, Du Y, Liu J, Luo S, Zeng Y. Comparative transcriptomic analysis provides insights into the molecular basis underlying pre-harvest sprouting in rice. BMC Genomics 2022; 23:771. [PMID: 36434522 PMCID: PMC9701047 DOI: 10.1186/s12864-022-08998-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2022] [Accepted: 11/09/2022] [Indexed: 11/27/2022] Open
Abstract
BACKGROUND Pre-harvest sprouting (PHS) is one of the most serious rice production constraints in areas where prolonged rainfall occurs during harvest. However, the molecular mechanisms of transcriptional regulation underlying PHS remain largely unknown. RESULTS In the current study, comparative transcriptome analyses were performed to characterize the similarities and differences between two rice varieties: PHS-sensitive Jiuxiangzhan (JXZ) and PHS-resistant Meixiangxinzhan (MXXZ). The physiological experimental results indicated that PHS causes a significant decrease in starch content and, in contrast, a significant increase in soluble sugar content and amylase activity. The extent of change in these physiological parameters in the sensitive variety JXZ was greater than that in the resistant variety MXXZ. A total of 9,602 DEGs were obtained from the transcriptome sequencing data, and 5,581 and 4,021 DEGs were identified in JXZ and MXXZ under high humidity conditions, respectively. The KEGG pathway enrichment analysis indicated that many DEGs under high humidity treatment were mainly linked to plant hormone signal transduction, carbon metabolism, starch and sucrose metabolism, and phenylpropanoid biosynthesis. Furthermore, the number of upregulated genes involved in these pathways was much higher in JXZ than in MXXZ, while the number of downregulated genes was higher in MXXZ than in JXZ. These results suggest that the physiological and biochemical processes of these pathways are more active in the PHS-sensitive JXZ than in the PHS-resistant MXXZ. CONCLUSION Based on these results, we inferred that PHS in rice results from altered phytohormone regulation, more active carbon metabolism and energy production, and enhanced phenylpropanoid biosynthesis. Our study provides a theoretical foundation for further elucidation of the complex regulatory mechanism of PHS in rice and the molecular breeding of PHS-resistant rice varieties.
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Affiliation(s)
- Dong Liu
- grid.411859.00000 0004 1808 3238Key Laboratory of Crop Physiology, Ecology and Genetic Breeding, Ministry of Education, Jiangxi Agricultural University, Nanchang, 330045 China
| | - Mingyang Zeng
- grid.411859.00000 0004 1808 3238Key Laboratory of Crop Physiology, Ecology and Genetic Breeding, Ministry of Education, Jiangxi Agricultural University, Nanchang, 330045 China
| | - Yan Wu
- grid.411859.00000 0004 1808 3238Key Laboratory of Crop Physiology, Ecology and Genetic Breeding, Ministry of Education, Jiangxi Agricultural University, Nanchang, 330045 China
| | - Yanli Du
- grid.411859.00000 0004 1808 3238Key Laboratory of Crop Physiology, Ecology and Genetic Breeding, Ministry of Education, Jiangxi Agricultural University, Nanchang, 330045 China
| | - Jianming Liu
- grid.411859.00000 0004 1808 3238Key Laboratory of Crop Physiology, Ecology and Genetic Breeding, Ministry of Education, Jiangxi Agricultural University, Nanchang, 330045 China
| | - Shaoqiang Luo
- grid.411859.00000 0004 1808 3238Key Laboratory of Crop Physiology, Ecology and Genetic Breeding, Ministry of Education, Jiangxi Agricultural University, Nanchang, 330045 China
| | - Yongjun Zeng
- grid.411859.00000 0004 1808 3238Key Laboratory of Crop Physiology, Ecology and Genetic Breeding, Ministry of Education, Jiangxi Agricultural University, Nanchang, 330045 China
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Shen ZJ, Xu SX, Huang QY, Li ZY, Xu YD, Lin CS, Huang YJ. TMT proteomics analysis of a pseudocereal crop, quinoa ( Chenopodium quinoa Willd.), during seed maturation. FRONTIERS IN PLANT SCIENCE 2022; 13:975073. [PMID: 36426144 PMCID: PMC9678934 DOI: 10.3389/fpls.2022.975073] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/21/2022] [Accepted: 09/20/2022] [Indexed: 06/16/2023]
Abstract
Quinoa (Chenopodium quinoa Willd.), an Andean native crop, is increasingly popular around the world due to its high nutritional content and stress tolerance. The production and the popularity of this strategic global food are greatly restricted by many limiting factors, such as seed pre-harvest sprouting, bitter saponin, etc. To solve these problems, the underlying mechanism of seed maturation in quinoa needs to be investigated. In this study, based on the investigation of morphological characteristics, a quantitative analysis of its global proteome was conducted using the combinational proteomics of tandem mass tag (TMT) labeling and parallel reaction monitoring (PRM). The proteome changes related to quinoa seed maturation conversion were monitored to aid its genetic improvement. Typical changes of morphological characteristics were discovered during seed maturation, including mean grain diameter, mean grain thickness, mean hundred-grain weight, palea, episperm color, etc. With TMT proteomics analysis, 581 differentially accumulated proteins (DAPs) were identified. Functional classification analysis and Gene Ontology enrichment analysis showed that most DAPs involved in photosynthesis were downregulated, indicating low levels of photosynthesis. DAPs that participated in glycolysis, such as glyceraldehyde-3-phosphate dehydrogenase, pyruvate decarboxylase, and alcohol dehydrogenase, were upregulated to fulfill the increasing requirement of energy consumption during maturation conversion. The storage proteins, such as globulins, legumins, vicilins, and oleosin, were also increased significantly during maturation conversion. Protein-protein interaction analysis and function annotation revealed that the upregulation of oleosin, oil body-associated proteins, and acyl-coenzyme A oxidase 2 resulted in the accumulation of oil in quinoa seeds. The downregulation of β-amyrin 28-oxidase was observed, indicating the decreasing saponin content, during maturation, which makes the quinoa "sweet". By the PRM and qRT-PCR analysis, the expression patterns of most selected DAPs were consistent with the result of TMT proteomics. Our study enhanced the understanding of the maturation conversion in quinoa. This might be the first and most important step toward the genetic improvement of quinoa.
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Affiliation(s)
- Zhi-Jun Shen
- Fujian Key Laboratory of Subtropical Plant Physiology and Biochemistry, Fujian Institute of Subtropical Botany, Xiamen, China
| | - Su-Xia Xu
- Fujian Key Laboratory of Subtropical Plant Physiology and Biochemistry, Fujian Institute of Subtropical Botany, Xiamen, China
| | - Qing-Yun Huang
- Fujian Key Laboratory of Subtropical Plant Physiology and Biochemistry, Fujian Institute of Subtropical Botany, Xiamen, China
| | - Zi-Yang Li
- Institute of Gene Science for Bamboo and Rattan Resources, International Center for Bamboo and Rattan, Beijing, China
| | - Yi-Ding Xu
- Landscape Architecture and Landscape Research Branch, China Academy of Urban Planning and Design, Beijing, China
| | - Chun-Song Lin
- Fujian Key Laboratory of Subtropical Plant Physiology and Biochemistry, Fujian Institute of Subtropical Botany, Xiamen, China
| | - Yi-Jin Huang
- Department of Dermatology, The First Affiliated Hospital of Xiamen University, Xiamen, China
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Choi B, Kim TM, Jeong S, Kim Y, Kim E. Effects of Seed Endophytic Bacteria on Life History and Reproductive Traits in a Cosmopolitan Weed, Capsella bursa-pastoris. PLANTS (BASEL, SWITZERLAND) 2022; 11:2642. [PMID: 36235508 PMCID: PMC9570735 DOI: 10.3390/plants11192642] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/31/2022] [Revised: 09/27/2022] [Accepted: 10/04/2022] [Indexed: 06/16/2023]
Abstract
Diverse bacteria inhabit plant seeds, and at least some of them can enhance plant performance at the early developmental stage. However, it is still inconclusive whether seed bacteria can influence post-germination traits and their contribution to plant fitness. To explore the evolutionary and ecological consequences of seed endophytic bacteria, we isolated four bacterial strains from the seeds of an annual weedy plant species, Capsella bursa-pastoris, and conducted a common garden experiment using seeds inoculated by isolated bacteria. Seeds infected by bacteria tended to germinate in spring rather than in autumn. Bacterial treatment also altered the expression of plant life history and reproductive traits, including flowering dates, rosette diameter at bolting, number of inflorescences, and fruit production. The results of the path analyses suggested that such effects of bacterial treatments were due to bacterial inoculation as well as germination delayed until spring. Spring germinants with bacterial infection showed a weaker association between post-germination traits and relative fitness than those without bacterial infection. These results suggest that seed bacteria likely affect the expression of post-germination traits directly or indirectly by delaying the germination season. An altered contribution of plant traits to relative fitness implies the influence of seed bacteria on the strength of natural selection.
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Affiliation(s)
| | | | | | | | - Eunsuk Kim
- School of Earth Sciences and Environmental Engineering, Gwangju Institute of Science and Technology, Gwangju 61005, Korea
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Yang QX, Chen D, Zhao Y, Zhang XY, Zhao M, Peng R, Sun NX, Baldwin TC, Yang SC, Liang YL. RNA-seq analysis reveals key genes associated with seed germination of Fritillaria taipaiensis P.Y.Li by cold stratification. FRONTIERS IN PLANT SCIENCE 2022; 13:1021572. [PMID: 36247582 PMCID: PMC9555243 DOI: 10.3389/fpls.2022.1021572] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/17/2022] [Accepted: 09/08/2022] [Indexed: 06/16/2023]
Abstract
Seed dormancy is an adaptive strategy for environmental evolution. However, the molecular mechanism of the breaking of seed dormancy at cold temperatures is still unclear, and the genetic regulation of germination initiated by exposure to cold temperature requires further investigation. In the initial phase of the current study, the seed coat characteristics and embryo development of Fritillaria taipaiensis P.Y.Li at different temperatures (0°C, 4°C, 10°C & 25°C) was recorded. The results obtained demonstrated that embryo elongation and the dormancy-breaking was most significantly affected at 4°C. Subsequently, transcriptome analyses of seeds in different states of dormancy, at two stratification temperatures (4°C and 25°C) was performed, combined with weighted gene coexpression network analysis (WGCNA) and metabolomics, to explore the transcriptional regulation of seed germination in F. taipaiensis at the two selected stratification temperatures. The results showed that stratification at the colder temperature (4°C) induced an up-regulation of gene expression involved in gibberellic acid (GA) and auxin biosynthesis and the down-regulation of genes related to the abscisic acid (ABA) biosynthetic pathway. Thereby promoting embryo development and the stimulation of seed germination. Collectively, these data constitute a significant advance in our understanding of the role of cold temperatures in the regulation of seed germination in F. taipaiensis and also provide valuable transcriptomic data for seed dormancy for other non-model plant species.
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Affiliation(s)
- Qiu-Xiong Yang
- College of Agronomy & Biotechnology, Yunnan Agricultural University, Kunming, China
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural Waseda University, Fengyuan, Kunming, China
- National & Local Joint Engineering Research Center on Germplasm Innovation & Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Kunming, China
| | - Dan Chen
- College of Agronomy & Biotechnology, Yunnan Agricultural University, Kunming, China
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural Waseda University, Fengyuan, Kunming, China
- National & Local Joint Engineering Research Center on Germplasm Innovation & Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Kunming, China
| | - Yan Zhao
- College of Agronomy & Biotechnology, Yunnan Agricultural University, Kunming, China
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural Waseda University, Fengyuan, Kunming, China
- National & Local Joint Engineering Research Center on Germplasm Innovation & Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Kunming, China
| | - Xiao-Yu Zhang
- College of Agronomy & Biotechnology, Yunnan Agricultural University, Kunming, China
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural Waseda University, Fengyuan, Kunming, China
- National & Local Joint Engineering Research Center on Germplasm Innovation & Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Kunming, China
| | - Min Zhao
- College of Agronomy & Biotechnology, Yunnan Agricultural University, Kunming, China
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural Waseda University, Fengyuan, Kunming, China
- National & Local Joint Engineering Research Center on Germplasm Innovation & Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Kunming, China
| | - Rui Peng
- Chongqing Academy of Chinese Materia Medica, Chongqing, China
| | - Nian-Xi Sun
- Chongqing Academy of Chinese Materia Medica, Chongqing, China
| | - Timothy Charles Baldwin
- Faculty of Science and Engineering, University of Wolverhampton, Wolverhampton, United Kingdom
| | - Sheng-Chao Yang
- College of Agronomy & Biotechnology, Yunnan Agricultural University, Kunming, China
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural Waseda University, Fengyuan, Kunming, China
- National & Local Joint Engineering Research Center on Germplasm Innovation & Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Kunming, China
| | - Yan-Li Liang
- College of Agronomy & Biotechnology, Yunnan Agricultural University, Kunming, China
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, Yunnan Agricultural Waseda University, Fengyuan, Kunming, China
- National & Local Joint Engineering Research Center on Germplasm Innovation & Utilization of Chinese Medicinal Materials in Southwestern China, Yunnan Agricultural University, Kunming, China
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Zhao L, Li M, Ma X, Luo D, Zhou Q, Liu W, Liu Z. Transcriptome analysis and identification of abscisic acid and gibberellin-related genes during seed development of alfalfa (Medicago sativa L.). BMC Genomics 2022; 23:651. [PMID: 36100883 PMCID: PMC9472388 DOI: 10.1186/s12864-022-08875-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2022] [Accepted: 09/06/2022] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Alfalfa (Medicago sativa) is a widely cultivated plant. Unlike many crops, the main goal of breeding alfalfa is to increase its aboveground biomass rather than the biomass of its seeds. However, the low yield of alfalfa seeds limits alfalfa production. Many studies have explored the factors affecting seed development, in which phytohormones, especially ABA and GAs, play an important role in seed development. RESULTS Here, we performed a transcriptome analysis of alfalfa seeds at five development stages. A total of 16,899 differentially expressed genes (DEGs) were identified and classified into 10 clusters, and the enriched Gene Ontology (GO) terms and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways were determined. The contents of ABA, GA1, GA3, GA4 and GA7 in alfalfa seeds at five development stages were determined. In addition, 14 ABA-related DEGs and 20 GA-related DEGs were identified and analysed. These DEGs are involved in plant hormone pathways and play an important role in seed development. Moreover, morphological and physiological analyses revealed the dynamic changes during the development of alfalfa seeds. CONCLUSION Overall, our study is the first to analyse the transcriptome across various stages of seed development in alfalfa. The results of our study could be used to improve alfalfa seed yield. The key ABA and GA related-genes are potential targets for improving alfalfa seed yield via genetic engineering in the future.
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Affiliation(s)
- Lu Zhao
- The State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, People's Republic of China
| | - Mingyu Li
- The State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, People's Republic of China
| | - Xiaomei Ma
- The State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, People's Republic of China
| | - Dong Luo
- The State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, People's Republic of China
| | - Qiang Zhou
- The State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, People's Republic of China
| | - Wenxian Liu
- The State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, People's Republic of China
| | - Zhipeng Liu
- The State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, People's Republic of China.
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