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Analysis of co-expression and gene regulatory networks associated with sterile lemma development in rice

BACKGROUND: The sterile lemma is a unique organ of the rice (Oryza sativa L.) spikelet. However, the characteristics and origin of the rice sterile lemma have not been determined unequivocally, so it is important to elucidate the molecular mechanism of the development of the sterile lemma. RESULTS:...

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Autores principales: Luo, Xi, Wei, Yidong, Zheng, Yanmei, Wei, Linyan, Wu, Fangxi, Cai, Qiuhua, Xie, Huaan, Zhang, Jianfu
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9817312/
https://www.ncbi.nlm.nih.gov/pubmed/36604645
http://dx.doi.org/10.1186/s12870-022-04012-x
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author Luo, Xi
Wei, Yidong
Zheng, Yanmei
Wei, Linyan
Wu, Fangxi
Cai, Qiuhua
Xie, Huaan
Zhang, Jianfu
author_facet Luo, Xi
Wei, Yidong
Zheng, Yanmei
Wei, Linyan
Wu, Fangxi
Cai, Qiuhua
Xie, Huaan
Zhang, Jianfu
author_sort Luo, Xi
collection PubMed
description BACKGROUND: The sterile lemma is a unique organ of the rice (Oryza sativa L.) spikelet. However, the characteristics and origin of the rice sterile lemma have not been determined unequivocally, so it is important to elucidate the molecular mechanism of the development of the sterile lemma. RESULTS: In the paper, we outline the regulatory mechanism of sterile lemma development by LONG STERILE LEMMA1 (G1), which has been identified as the gene controlling sterile lemma development. Based on the comprehensive analyses of transcriptome dynamics during sterile lemma development with G1 alleles between wild-type (WT) and mutant (MT) in rice, we obtained co-expression data and regulatory networks related to sterile lemma development. Co-transfection assays of rice protoplasts confirmed that G1 affects the expression of various phytohormone-related genes by regulating a number of critical transcription factors, such as OsLBD37 and OSH1. The hormone levels in sterile lemmas from WT and MT of rice supports the hypotheses that lower auxin, lower gibberellin, and higher cytokinin concentrations are required to maintain a normal phenotype of sterile lemmas. CONCLUSION: The regulatory networks have considerable reference value, and some of the regulatory relationships exhibiting strong correlations are worthy of further study. Taken together, these work provided a detailed guide for further studies into the molecular mechanism of sterile lemma development. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12870-022-04012-x.
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spelling pubmed-98173122023-01-07 Analysis of co-expression and gene regulatory networks associated with sterile lemma development in rice Luo, Xi Wei, Yidong Zheng, Yanmei Wei, Linyan Wu, Fangxi Cai, Qiuhua Xie, Huaan Zhang, Jianfu BMC Plant Biol Research BACKGROUND: The sterile lemma is a unique organ of the rice (Oryza sativa L.) spikelet. However, the characteristics and origin of the rice sterile lemma have not been determined unequivocally, so it is important to elucidate the molecular mechanism of the development of the sterile lemma. RESULTS: In the paper, we outline the regulatory mechanism of sterile lemma development by LONG STERILE LEMMA1 (G1), which has been identified as the gene controlling sterile lemma development. Based on the comprehensive analyses of transcriptome dynamics during sterile lemma development with G1 alleles between wild-type (WT) and mutant (MT) in rice, we obtained co-expression data and regulatory networks related to sterile lemma development. Co-transfection assays of rice protoplasts confirmed that G1 affects the expression of various phytohormone-related genes by regulating a number of critical transcription factors, such as OsLBD37 and OSH1. The hormone levels in sterile lemmas from WT and MT of rice supports the hypotheses that lower auxin, lower gibberellin, and higher cytokinin concentrations are required to maintain a normal phenotype of sterile lemmas. CONCLUSION: The regulatory networks have considerable reference value, and some of the regulatory relationships exhibiting strong correlations are worthy of further study. Taken together, these work provided a detailed guide for further studies into the molecular mechanism of sterile lemma development. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12870-022-04012-x. BioMed Central 2023-01-06 /pmc/articles/PMC9817312/ /pubmed/36604645 http://dx.doi.org/10.1186/s12870-022-04012-x Text en © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
spellingShingle Research
Luo, Xi
Wei, Yidong
Zheng, Yanmei
Wei, Linyan
Wu, Fangxi
Cai, Qiuhua
Xie, Huaan
Zhang, Jianfu
Analysis of co-expression and gene regulatory networks associated with sterile lemma development in rice
title Analysis of co-expression and gene regulatory networks associated with sterile lemma development in rice
title_full Analysis of co-expression and gene regulatory networks associated with sterile lemma development in rice
title_fullStr Analysis of co-expression and gene regulatory networks associated with sterile lemma development in rice
title_full_unstemmed Analysis of co-expression and gene regulatory networks associated with sterile lemma development in rice
title_short Analysis of co-expression and gene regulatory networks associated with sterile lemma development in rice
title_sort analysis of co-expression and gene regulatory networks associated with sterile lemma development in rice
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9817312/
https://www.ncbi.nlm.nih.gov/pubmed/36604645
http://dx.doi.org/10.1186/s12870-022-04012-x
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