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Mo Z, Ke Y, Huang Y, Duan L, Wang P, Luo W, Que Y, Pi K, Zeng S, Liu R. Integrated transcriptome and proteome analysis provides insights into the mechanism of cytoplasmic male sterility (CMS) in tobacco (Nicotiana tabacum L.). J Proteomics 2023; 275:104825. [PMID: 36754348 DOI: 10.1016/j.jprot.2023.104825] [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: 11/15/2022] [Revised: 01/06/2023] [Accepted: 01/15/2023] [Indexed: 02/08/2023]
Abstract
Cytoplasmic male sterility (CMS) is critical in maximizing crop yield and quality by utilizing tobacco heterosis. However, the mechanism of tobacco CMS formation remains unknown. Using paraffin section observation, transcriptome sequencing, and TMT proteomic analysis, this study describes the differences in expression profiles in morphology, transcription, and translation between the sua-CMS tobacco line (MSYY87) and its corresponding maintainer line (YY87). According to the microspore morphology, MSYY87 began to exhibit abnormal microspore development during the early stages of germination and differentiation (androgynous primordium differentiation stage). According to transcriptomic and proteomic analyses, 17 genes/proteins involved in lipid transport/binding and phenylpropane metabolism were significantly down-regulated at both the mRNA and protein levels. Through further analysis, we identified some key genes that may be involved in tobacco male sterility, including β-GLU related to energy metabolism, 4CL and bHLHs related to anther wall formation, nsLTPs related to pollen germination and anther cuticle, and bHLHs related to pollen tapetum degradation. We speculate that the down-regulation of these genes affects the normal physiological metabolism, making tobacco plants show male sterility. SIGNIFICANCE: Cytoplasmic male sterility (CMS) plays a vital role in utilizing tobacco heterosis and enhancing crop yield and quality. We observed paraffin sections and conducted transcriptome sequencing and mitochondrial proteomics to examine the tobacco CMS line Yunyan 87 (MSYY87) and its maintainer line Yunyan 87 (YY87). The down-regulation expression of β-GLU resulted in insufficient ATP supply, which resulted in disordered energy metabolism. The down-regulation expression of 4CL, nsLTPs and bHLHs may affect the formation of anther wall and anther cuticle, pollen germination, as well as the degradation of pollen tapetum. These various abnormal physiological processes, the male sterility of tobacco is finally caused. The findings shed light on the molecular mechanisms of tobacco CMS and serve as a model for fertility research in other flowering plants.
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Affiliation(s)
- Zejun Mo
- College of Agriculture, Guizhou University, Guiyang, China; Key Laboratory of Tobacco Quality in Guizhou Province, Guiyang, China
| | - Yuzhou Ke
- College of Tobacco, Guizhou University, Guiyang, China; Key Laboratory of Tobacco Quality in Guizhou Province, Guiyang, China
| | - Ying Huang
- College of Tobacco, Guizhou University, Guiyang, China; Key Laboratory of Tobacco Quality in Guizhou Province, Guiyang, China
| | - Lili Duan
- College of Agriculture, Guizhou University, Guiyang, China; Key Laboratory of Tobacco Quality in Guizhou Province, Guiyang, China
| | - Pingsong Wang
- College of Agriculture, Guizhou University, Guiyang, China; Key Laboratory of Tobacco Quality in Guizhou Province, Guiyang, China
| | - Wen Luo
- College of Tobacco, Guizhou University, Guiyang, China; Key Laboratory of Tobacco Quality in Guizhou Province, Guiyang, China
| | - Yuanhui Que
- College of Tobacco, Guizhou University, Guiyang, China; Key Laboratory of Tobacco Quality in Guizhou Province, Guiyang, China
| | - Kai Pi
- College of Tobacco, Guizhou University, Guiyang, China; Key Laboratory of Tobacco Quality in Guizhou Province, Guiyang, China
| | - Shuaibo Zeng
- College of Tobacco, Guizhou University, Guiyang, China; Key Laboratory of Tobacco Quality in Guizhou Province, Guiyang, China
| | - Renxiang Liu
- College of Tobacco, Guizhou University, Guiyang, China; Key Laboratory of Tobacco Quality in Guizhou Province, Guiyang, China.
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Wang D, Wang Y, Zhang L, Yang Y, Wu Q, Hu G, Wang W, Li J, Huang Z. Integrated transcriptomic and proteomic analysis of a cytoplasmic male sterility line and associated maintainer line in soybean. FRONTIERS IN PLANT SCIENCE 2023; 14:1098125. [PMID: 36818857 PMCID: PMC9933710 DOI: 10.3389/fpls.2023.1098125] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/14/2022] [Accepted: 01/18/2023] [Indexed: 06/18/2023]
Abstract
INTRODUCTION Heterosis is a critical phenomenon in crop improvement. Cytoplasmic male sterility (CMS) and Restorer gene (Rf) systems are essential components for heterosis-based breeding. However, the molecular mechanism underlying CMS remains largely unclear in soybean. METHODS We integrated a morphological investigation with comparative analyses of transcriptomic and proteomic changes in pollen from the CMS line W931A and its maintainer line, W931B, at the uninucleate microspore (UM) and binucleate pollen (BP) stages. RESULTS Compared to W931B, which had healthy, oval pollen grains, W931A showed shrunken or degraded pollen grains with an irregularly thickened endothelium and decreased starch accumulation. Transcriptomic comparisons revealed a total of 865 differentially expressed genes (DEGs) in W931A over the two stages. These genes were primarily associated with pentose and glucuronate interconversions, sphingolipid metabolism, and glycerolipid metabolism. Proteomic analysis revealed 343 differentially expressed proteins (DEPs), which were mainly involved in carbon metabolism, glycolysis/gluconeogenesis, and nitrogen metabolism. Consistently, Gene Ontology (GO) biological process terms related to pollen development were enriched among DEGs at the UM and BP stages. Notably, four genes with demonstrated roles in pollen development were differentially expressed, including AGAMOUS-LIKE 104, PROTEIN-TYROSINE-PHOSPHATASE 1, and PHOSPHOLIPASE A2. A total of 53 genes and the corresponding proteins were differentially expressed in W931A at both the UM and BP stages, and many of these were pectinesterases, polygalacturonases, peroxidases, and ATPases. DISCUSSION The results of this study suggest that pollen development in W931A is likely regulated through suppression of the identified DEGs and DEPs. These findings increase our understanding of the molecular mechanism underlying CMS in soybean, aiding future research into soybean fertility and promoting the efficient use of heterosis for soybean improvement.
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Affiliation(s)
| | | | | | | | | | | | | | - Jiekun Li
- *Correspondence: Zhiping Huang, ; Jiekun Li,
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Tyrka M, Bakera B, Szeliga M, Święcicka M, Krajewski P, Mokrzycka M, Rakoczy-Trojanowska M. Identification of Rf Genes in Hexaploid Wheat ( Triticumaestivum L.) by RNA-Seq and Paralog Analyses. Int J Mol Sci 2021; 22:ijms22179146. [PMID: 34502055 PMCID: PMC8431562 DOI: 10.3390/ijms22179146] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2021] [Revised: 08/19/2021] [Accepted: 08/20/2021] [Indexed: 11/16/2022] Open
Abstract
Among the natural mechanisms used for wheat hybrid breeding, the most desirable is the system combining the cytoplasmic male sterility (cms) of the female parent with the fertility-restoring genes (Rf) of the male parent. The objective of this study was to identify Rf candidate genes in the wheat genome on the basis of transcriptome sequencing (RNA-seq) and paralog analysis data. Total RNA was isolated from the anthers of two fertility-restorer (Primépi and Patras) and two non-restorer (Astoria and Grana) varieties at the tetrad and late uninucleate microspore stages. Of 36,912 differentially expressed genes (DEGs), 21 encoding domains in known fertility-restoring proteins were selected. To enrich the pool of Rf candidates, 52 paralogs (PAGs) of the 21 selected DEGs were included in the analyses. The expression profiles of most of the DEGs and PAGs determined bioinformatically were as expected (i.e., they were overexpressed in at least one fertility-restorer variety). However, these results were only partially consistent with the quantitative real-time PCR data. The DEG and PAG promoters included cis-regulatory elements common among PPR-encoding genes. On the basis of the obtained results, we designated seven genes as Rf candidate genes, six of which were identified for the first time in this study.
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Affiliation(s)
- Mirosław Tyrka
- Department of Biotechnology and Bioinformatics, Rzeszów University of Technology, Powstańców Warszawy 12, 35-959 Rzeszów, Poland; (M.T.); (M.S.)
| | - Beata Bakera
- Department of Plant Genetics, Breeding and Biotechnology, Warsaw University of Life Sciences, Nowoursynowska 166, 02-787 Warszawa, Poland; (B.B.); (M.Ś.)
| | - Magdalena Szeliga
- Department of Biotechnology and Bioinformatics, Rzeszów University of Technology, Powstańców Warszawy 12, 35-959 Rzeszów, Poland; (M.T.); (M.S.)
| | - Magdalena Święcicka
- Department of Plant Genetics, Breeding and Biotechnology, Warsaw University of Life Sciences, Nowoursynowska 166, 02-787 Warszawa, Poland; (B.B.); (M.Ś.)
| | - Paweł Krajewski
- Institute of Plant Genetics, Polish Academy of Sciences, Strzeszyńska 34, 60-479 Poznań, Poland; (P.K.); (M.M.)
| | - Monika Mokrzycka
- Institute of Plant Genetics, Polish Academy of Sciences, Strzeszyńska 34, 60-479 Poznań, Poland; (P.K.); (M.M.)
| | - Monika Rakoczy-Trojanowska
- Department of Plant Genetics, Breeding and Biotechnology, Warsaw University of Life Sciences, Nowoursynowska 166, 02-787 Warszawa, Poland; (B.B.); (M.Ś.)
- Correspondence: ; Tel./Fax: +48-22-59-32152
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Bohra A, Rathore A, Gandham P, Saxena RK, Satheesh Naik SJ, Dutta D, Singh IP, Singh F, Rathore M, Varshney RK, Singh NP. Genome-wide comparative transcriptome analysis of the A4-CMS line ICPA 2043 and its maintainer ICPB 2043 during the floral bud development of pigeonpea. Funct Integr Genomics 2021; 21:251-263. [PMID: 33635500 DOI: 10.1007/s10142-021-00775-y] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2020] [Revised: 02/05/2021] [Accepted: 02/09/2021] [Indexed: 12/29/2022]
Abstract
Cytoplasmic male sterility (CMS) offers a unique system to understand cytoplasmic nuclear crosstalk, and is also employed for exploitation of hybrid vigor in various crops. Pigeonpea A4-CMS, a predominant source of male sterility, is being used for efficient hybrid seed production. The molecular mechanisms of CMS trait remain poorly studied in pigeonpea. We performed genome-wide transcriptome profiling of A4-CMS line ICPA 2043 and its isogenic maintainer ICPB 2043 at two different stages of floral bud development (stage S1 and stage S2). Consistent with the evidences from some other crops, we also observed significant difference in the expression levels of genes in the later stage, i.e., stage S2. Differential expression was observed for 143 and 55 genes within the two stages of ICPA 2043 and ICPB 2043, respectively. We obtained only 10 differentially expressed genes (DEGs) between the stage S1 of the two genotypes, whereas expression change was significant for 582 genes in the case of stage S2. The qRT-PCR assay of randomly selected six genes supported the differential expression of genes between ICPA 2043 and ICPB 2043. Further, GO and KEGG pathway mapping suggested a possible compromise in key bioprocesses during flower and pollen development. Besides providing novel insights into the functional genomics of CMS trait, our results were in strong agreement with the gene expression atlas of pigeonpea that implicated various candidate genes like sucrose-proton symporter 2 and an uncharacterized protein along with pectate lyase, pectinesterase inhibitors, L-ascorbate oxidase homolog, ATPase, β-galactosidase, polygalacturonase, and aldose 1-epimerase for pollen development of pigeonpea. The dataset presented here provides a rich genomic resource to improve understanding of CMS trait and its deployment in heterosis breeding in pigeonpea.
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Affiliation(s)
- Abhishek Bohra
- ICAR-Indian Institute of Pulses Research (ICAR-IIPR), Kanpur, 208024, India.
| | - Abhishek Rathore
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, 502324, India
| | - Prasad Gandham
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, 502324, India
| | - Rachit K Saxena
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, 502324, India
| | - S J Satheesh Naik
- ICAR-Indian Institute of Pulses Research (ICAR-IIPR), Kanpur, 208024, India
| | - Dibendu Dutta
- ICAR-Indian Institute of Pulses Research (ICAR-IIPR), Kanpur, 208024, India
| | - Indra P Singh
- ICAR-Indian Institute of Pulses Research (ICAR-IIPR), Kanpur, 208024, India
| | - Farindra Singh
- ICAR-Indian Institute of Pulses Research (ICAR-IIPR), Kanpur, 208024, India
| | - Meenal Rathore
- ICAR-Indian Institute of Pulses Research (ICAR-IIPR), Kanpur, 208024, India
| | - Rajeev K Varshney
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, 502324, India
| | - Narendra P Singh
- ICAR-Indian Institute of Pulses Research (ICAR-IIPR), Kanpur, 208024, India
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Shi Z, Ren W, Zhao Y, Wang X, Zhang R, Su A, Wang S, Li C, Wang J, Wang S, Zhang Y, Ji Y, Song W, Zhao J. Identification of a locus associated with genic male sterility in maize via EMS mutagenesis and bulked-segregant RNA-seq. ACTA ACUST UNITED AC 2020. [DOI: 10.1016/j.cj.2020.09.007] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
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Zhang H, Wang B, Li B, Lin Y, Yang H, Ding D, Xue Y, Tang J. Comparative proteomic analysis of mitochondrial proteins from maize CMS-C sterile, maintainer and restorer anthers. THE PLANT GENOME 2020; 13:e20022. [PMID: 33016607 DOI: 10.1002/tpg2.20022] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/10/2019] [Revised: 03/16/2020] [Accepted: 03/28/2020] [Indexed: 06/11/2023]
Abstract
The maize C system of cytoplasmic male sterility (CMS) and its fertility restoration gene Rf4 have been widely used for maize hybrid production; however, the underlying mechanism is still uncertain. The sterility factor functions in mitochondria, where it interacts directly or indirectly with the restorer. Mitoproteomics can capture all participants involved in CMS and restoration at the organelle level. In the present study, we identified and quantified anther mitochondrial proteins from CMS, maintainer and restorer lines. We obtained 14,528 unique peptides belonging to 3,369 proteins. Comparative analysis of 1840 high-confidence proteins revealed 68 were differentially accumulated proteins likely involved in CMS or its restoration within mitochondria. These proteins were mainly associated with fatty acid metabolism, amino acid metabolism and protein-processing pathways. These results suggest that an energy deficiency caused by the sterility factor hinders other proteins or protein complexes required for pollen development through nuclear-mitochondrial interaction. The restorer factor may boost the energy generation by activating alternative metabolic pathways and by improving the post-translation processing efficiency of proteins in energy-producing complexes to restore pollen fertility. Our findings may aid detailed molecular analysis and contribute to a better understanding of maize CMS-C restoration and sterility.
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Affiliation(s)
- Huaisheng Zhang
- College of Agronomy, National Key Laboratory of Crop Science in Wheat and Maize, Henan Agricultural University, Zhengzhou, China
| | - Bin Wang
- College of Agronomy, Henan Science and Technology University, Luoyang, China
| | - Bing Li
- College of Agronomy, National Key Laboratory of Crop Science in Wheat and Maize, Henan Agricultural University, Zhengzhou, China
| | - Yanan Lin
- College of Agronomy, National Key Laboratory of Crop Science in Wheat and Maize, Henan Agricultural University, Zhengzhou, China
| | - Huili Yang
- College of Agronomy, National Key Laboratory of Crop Science in Wheat and Maize, Henan Agricultural University, Zhengzhou, China
| | - Dong Ding
- College of Agronomy, National Key Laboratory of Crop Science in Wheat and Maize, Henan Agricultural University, Zhengzhou, China
| | - Yadong Xue
- College of Agronomy, National Key Laboratory of Crop Science in Wheat and Maize, Henan Agricultural University, Zhengzhou, China
| | - Jihua Tang
- College of Agronomy, National Key Laboratory of Crop Science in Wheat and Maize, Henan Agricultural University, Zhengzhou, China
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Rodríguez-Suárez C, Bagnaresi P, Cattivelli L, Pistón F, Castillo A, Martín AC, Atienza SG, Ramírez C, Martín A. Transcriptomics, chromosome engineering and mapping identify a restorer-of-fertility region in the CMS wheat system msH1. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2020; 133:283-295. [PMID: 31624874 DOI: 10.1007/s00122-019-03457-3] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/03/2019] [Accepted: 10/09/2019] [Indexed: 05/24/2023]
Abstract
An original RNA-seq mapping strategy, validated with chromosome engineering and physical mapping, identifies candidate genes for fertility restoration in the 6HchS chromosome of Hordeum chilense in the wheat msH1 system. Cytoplasmic male sterility (CMS) is a valuable trait for hybrid seed production. The msH1 CMS system in common wheat results from the incompatibility between the nuclear genome of wheat and the cytoplasm of the wild barley Hordeum chilense. This work aims to identify H. chilense candidate genes for fertility restoration in the msH1 system with a multidisciplinary strategy based on chromosome engineering, differential expression analysis and genome mapping. Alloplasmic isogenic wheat lines differing for fertility, associated with the presence of an acrocentric chromosome Hchac resulting from the rearrangement of the short arms of H. chilense chromosomes 1Hch and 6Hch, were used for transcriptome sequencing. Two novel RNA-seq mapping approaches were designed and compared to identify differentially expressed genes of H. chilense associated with male fertility restoration. Minichromosomes (Hchmi), new smaller reorganizations of the Hchac also restoring fertility, were obtained and used to validate the candidate genes. This strategy was successful identifying a putative restorer-of-fertility region on 6HchS, with six candidate genes, including the ortholog of the barley restorer gene Rfm1. Additionally, transcriptomics gave preliminary insights on sterility and restoration networks showing the importance of energy supply, stress, protein metabolism and RNA processing.
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Affiliation(s)
- Cristina Rodríguez-Suárez
- Instituto de Agricultura Sostenible, Consejo Superior de Investigaciones Científicas (IAS-CSIC), Avda. Menéndez Pidal s/n, 14080, Córdoba, Spain.
| | - Paolo Bagnaresi
- Research Centre for Genomics and Bioinformatics, Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria, Via S. Protaso 302, 29017, Fiorenzuola d'Arda, PC, Italy
| | - Luigi Cattivelli
- Research Centre for Genomics and Bioinformatics, Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria, Via S. Protaso 302, 29017, Fiorenzuola d'Arda, PC, Italy
| | - Fernando Pistón
- Instituto de Agricultura Sostenible, Consejo Superior de Investigaciones Científicas (IAS-CSIC), Avda. Menéndez Pidal s/n, 14080, Córdoba, Spain
| | - Almudena Castillo
- Instituto de Agricultura Sostenible, Consejo Superior de Investigaciones Científicas (IAS-CSIC), Avda. Menéndez Pidal s/n, 14080, Córdoba, Spain
| | - Azahara C Martín
- Crop Genetics, John Innes Centre, Norwich Research Park, Norwich, NR4 7UH, UK
| | - Sergio G Atienza
- Instituto de Agricultura Sostenible, Consejo Superior de Investigaciones Científicas (IAS-CSIC), Avda. Menéndez Pidal s/n, 14080, Córdoba, Spain
| | - Carmen Ramírez
- Instituto de Agricultura Sostenible, Consejo Superior de Investigaciones Científicas (IAS-CSIC), Avda. Menéndez Pidal s/n, 14080, Córdoba, Spain
| | - Antonio Martín
- Instituto de Agricultura Sostenible, Consejo Superior de Investigaciones Científicas (IAS-CSIC), Avda. Menéndez Pidal s/n, 14080, Córdoba, Spain
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Liu Y, Qu J, Zhang L, Xu X, Wei G, Zhao Z, Ren M, Cao M. Identification and characterization of the TCA cycle genes in maize. BMC PLANT BIOLOGY 2019; 19:592. [PMID: 31881988 PMCID: PMC6935159 DOI: 10.1186/s12870-019-2213-0] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/31/2019] [Accepted: 12/19/2019] [Indexed: 05/04/2023]
Abstract
BACKGROUND The tricarboxylic acid (TCA) cycle is crucial for cellular energy metabolism and carbon skeleton supply. However, the detailed functions of the maize TCA cycle genes remain unclear. RESULTS In this study, 91 TCA genes were identified in maize by a homology search, and they were distributed on 10 chromosomes and 1 contig. Phylogenetic results showed that almost all maize TCA genes could be classified into eight major clades according to their enzyme families. Sequence alignment revealed that several genes in the same subunit shared high protein sequence similarity. The results of cis-acting element analysis suggested that several TCA genes might be involved in signal transduction and plant growth. Expression profile analysis showed that many maize TCA cycle genes were expressed in specific tissues, and replicate genes always shared similar expression patterns. Moreover, qPCR analysis revealed that some TCA genes were highly expressed in the anthers at the microspore meiosis phase. In addition, we predicted the potential interaction networks among the maize TCA genes. Next, we cloned five TCA genes located on different TCA enzyme complexes, Zm00001d008244 (isocitrate dehydrogenase, IDH), Zm00001d017258 (succinyl-CoA synthetase, SCoAL), Zm00001d025258 (α-ketoglutarate dehydrogenase, αKGDH), Zm00001d027558 (aconitase, ACO) and Zm00001d044042 (malate dehydrogenase, MDH). Confocal observation showed that their protein products were mainly localized to the mitochondria; however, Zm00001d025258 and Zm00001d027558 were also distributed in the nucleus, and Zm00001d017258 and Zm00001d044042 were also located in other unknown positions in the cytoplasm. Through the bimolecular fluorescent complimentary (BiFC) method, it was determined that Zm00001d027558 and Zm00001d044042 could form homologous dimers, and both homologous dimers were mainly distributed in the mitochondria. However, no heterodimers were detected between these five genes. Finally, Arabidopsis lines overexpressing the above five genes were constructed, and those transgenic lines exhibited altered primary root length, salt tolerance, and fertility. CONCLUSION Sequence compositions, duplication patterns, phylogenetic relationships, cis-elements, expression patterns, and interaction networks were investigated for all maize TCA cycle genes. Five maize TCA genes were overexpressed in Arabidopsis, and they could alter primary root length, salt tolerance, and fertility. In conclusion, our findings may help to reveal the molecular function of the TCA genes in maize.
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Affiliation(s)
- Yongming Liu
- Institute of Urban Agriculture, Chinese Academy of Agricultural Sciences, Chengdu, 610213 China
- Chengdu National Agricultural Science and Technology Center, Chengdu, 610213 China
- Key Laboratory of Biology and Genetic Improvement of Maize in Southwest Region of Ministry of Agriculture, Maize Research Institute, Sichuan Agricultural University, Chengdu, 611130 China
| | - Jingtao Qu
- Key Laboratory of Biology and Genetic Improvement of Maize in Southwest Region of Ministry of Agriculture, Maize Research Institute, Sichuan Agricultural University, Chengdu, 611130 China
| | - Ling Zhang
- Key Laboratory of Biology and Genetic Improvement of Maize in Southwest Region of Ministry of Agriculture, Maize Research Institute, Sichuan Agricultural University, Chengdu, 611130 China
| | - Xiangyu Xu
- Department of Plant Biotechnology and Bioinformatics, Ghent University, B-9052 Ghent, Belgium
- VIB Center for Plant Systems Biology, B-9052 Ghent, Belgium
| | - Gui Wei
- Key Laboratory of Biology and Genetic Improvement of Maize in Southwest Region of Ministry of Agriculture, Maize Research Institute, Sichuan Agricultural University, Chengdu, 611130 China
- College of Agronomy, Sichuan Agricultural University, Chengdu, 611130 China
| | - Zhuofan Zhao
- Key Laboratory of Biology and Genetic Improvement of Maize in Southwest Region of Ministry of Agriculture, Maize Research Institute, Sichuan Agricultural University, Chengdu, 611130 China
| | - Maozhi Ren
- Institute of Urban Agriculture, Chinese Academy of Agricultural Sciences, Chengdu, 610213 China
- Chengdu National Agricultural Science and Technology Center, Chengdu, 610213 China
| | - Moju Cao
- Key Laboratory of Biology and Genetic Improvement of Maize in Southwest Region of Ministry of Agriculture, Maize Research Institute, Sichuan Agricultural University, Chengdu, 611130 China
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Butsayawarapat P, Juntawong P, Khamsuk O, Somta P. Comparative Transcriptome Analysis of Waterlogging-Sensitive and Tolerant Zombi Pea ( Vigna Vexillata) Reveals Energy Conservation and Root Plasticity Controlling Waterlogging Tolerance. PLANTS 2019; 8:plants8080264. [PMID: 31382508 PMCID: PMC6724125 DOI: 10.3390/plants8080264] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/22/2019] [Revised: 07/26/2019] [Accepted: 07/31/2019] [Indexed: 11/16/2022]
Abstract
Vigna vexillata (zombi pea) is an underutilized legume crop considered to be a potential gene source in breeding for abiotic stress tolerance. This study focuses on the molecular characterization of mechanisms controlling waterlogging tolerance using two zombi pea varieties with contrasting waterlogging tolerance. Morphological examination revealed that in contrast to the sensitive variety, the tolerant variety was able to grow, maintain chlorophyll, form lateral roots, and develop aerenchyma in hypocotyl and taproots under waterlogging. To find the mechanism controlling waterlogging tolerance in zombi pea, comparative transcriptome analysis was performed using roots subjected to short-term waterlogging. Functional analysis indicated that glycolysis and fermentative genes were strongly upregulated in the sensitive variety, but not in the tolerant one. In contrast, the genes involved in auxin-regulated lateral root initiation and formation were expressed only in the tolerant variety. In addition, cell wall modification, aquaporin, and peroxidase genes were highly induced in the tolerant variety under waterlogging. Our findings suggest that energy management and root plasticity play important roles in mitigating the impact of waterlogging in zombi pea. The basic knowledge obtained from this study can be used in the molecular breeding of waterlogging-tolerant legume crops in the future.
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Affiliation(s)
| | - Piyada Juntawong
- Department of Genetics, Faculty of Science, Kasetsart University, Bangkok 10900, Thailand.
- Center for Advanced Studies in Tropical Natural Resources, National Research University-Kasetsart University, Bangkok 10900, Thailand.
- Omics Center for Agriculture, Bioresources, Food and Health, Kasetsart University (OmiKU), Bangkok 10900, Thailand.
| | - Ornusa Khamsuk
- Department of Botany, Faculty of Science, Kasetsart University, Bangkok 10900, Thailand
| | - Prakit Somta
- Department of Agronomy, Faculty of Agriculture at Kamphaeng Saen, Kasetsart University, Nakhon Pathom 73140, Thailand
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