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Meta-Analysis of Salt Stress Transcriptome Responses in Different Rice Genotypes at the Seedling Stage

Rice (Oryza sativa L.) is one of the most important staple food crops worldwide, while its growth and productivity are threatened by various abiotic stresses, especially salt stress. Unraveling how rice adapts to salt stress at the transcription level is vital. It can provide valuable information on...

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Autores principales: Kong, Weilong, Zhong, Hua, Gong, Ziyun, Fang, Xinyi, Sun, Tong, Deng, Xiaoxiao, Li, Yangsheng
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6473595/
https://www.ncbi.nlm.nih.gov/pubmed/30871082
http://dx.doi.org/10.3390/plants8030064
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author Kong, Weilong
Zhong, Hua
Gong, Ziyun
Fang, Xinyi
Sun, Tong
Deng, Xiaoxiao
Li, Yangsheng
author_facet Kong, Weilong
Zhong, Hua
Gong, Ziyun
Fang, Xinyi
Sun, Tong
Deng, Xiaoxiao
Li, Yangsheng
author_sort Kong, Weilong
collection PubMed
description Rice (Oryza sativa L.) is one of the most important staple food crops worldwide, while its growth and productivity are threatened by various abiotic stresses, especially salt stress. Unraveling how rice adapts to salt stress at the transcription level is vital. It can provide valuable information on enhancing the salt stress tolerance performance of rice via genetic engineering technologies. Here, we conducted a meta-analysis of different rice genotypes at the seedling stage based on 96 public microarray datasets, aiming to identify the key salt-responsive genes and understand the molecular response mechanism of rice under salt stress. In total, 5559 genes were identified to be differentially expressed genes (DEGs) under salt stress, and 3210 DEGs were identified during the recovery process. The Gene Ontology (GO) enrichment results revealed that the salt-response mechanisms of shoots and roots were different. A close-knit signaling network, consisting of the Ca(2+) signal transduction pathway, the mitogen-activated protein kinase (MAPK) cascade, multiple hormone signals, transcription factors (TFs), transcriptional regulators (TRs), protein kinases (PKs), and other crucial functional proteins, plays an essential role in rice salt stress response. In this study, many unreported salt-responsive genes were found. Besides this, MapMan results suggested that TNG67 can shift to the fermentation pathway to produce energy under salt stress and may enhance the Calvin cycle to repair a damaged photosystem during the recovery stage. Taken together, these findings provide novel insights into the salt stress molecular response and introduce numerous candidate genes for rice salt stress tolerance breeding.
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spelling pubmed-64735952019-04-29 Meta-Analysis of Salt Stress Transcriptome Responses in Different Rice Genotypes at the Seedling Stage Kong, Weilong Zhong, Hua Gong, Ziyun Fang, Xinyi Sun, Tong Deng, Xiaoxiao Li, Yangsheng Plants (Basel) Article Rice (Oryza sativa L.) is one of the most important staple food crops worldwide, while its growth and productivity are threatened by various abiotic stresses, especially salt stress. Unraveling how rice adapts to salt stress at the transcription level is vital. It can provide valuable information on enhancing the salt stress tolerance performance of rice via genetic engineering technologies. Here, we conducted a meta-analysis of different rice genotypes at the seedling stage based on 96 public microarray datasets, aiming to identify the key salt-responsive genes and understand the molecular response mechanism of rice under salt stress. In total, 5559 genes were identified to be differentially expressed genes (DEGs) under salt stress, and 3210 DEGs were identified during the recovery process. The Gene Ontology (GO) enrichment results revealed that the salt-response mechanisms of shoots and roots were different. A close-knit signaling network, consisting of the Ca(2+) signal transduction pathway, the mitogen-activated protein kinase (MAPK) cascade, multiple hormone signals, transcription factors (TFs), transcriptional regulators (TRs), protein kinases (PKs), and other crucial functional proteins, plays an essential role in rice salt stress response. In this study, many unreported salt-responsive genes were found. Besides this, MapMan results suggested that TNG67 can shift to the fermentation pathway to produce energy under salt stress and may enhance the Calvin cycle to repair a damaged photosystem during the recovery stage. Taken together, these findings provide novel insights into the salt stress molecular response and introduce numerous candidate genes for rice salt stress tolerance breeding. MDPI 2019-03-12 /pmc/articles/PMC6473595/ /pubmed/30871082 http://dx.doi.org/10.3390/plants8030064 Text en © 2019 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Kong, Weilong
Zhong, Hua
Gong, Ziyun
Fang, Xinyi
Sun, Tong
Deng, Xiaoxiao
Li, Yangsheng
Meta-Analysis of Salt Stress Transcriptome Responses in Different Rice Genotypes at the Seedling Stage
title Meta-Analysis of Salt Stress Transcriptome Responses in Different Rice Genotypes at the Seedling Stage
title_full Meta-Analysis of Salt Stress Transcriptome Responses in Different Rice Genotypes at the Seedling Stage
title_fullStr Meta-Analysis of Salt Stress Transcriptome Responses in Different Rice Genotypes at the Seedling Stage
title_full_unstemmed Meta-Analysis of Salt Stress Transcriptome Responses in Different Rice Genotypes at the Seedling Stage
title_short Meta-Analysis of Salt Stress Transcriptome Responses in Different Rice Genotypes at the Seedling Stage
title_sort meta-analysis of salt stress transcriptome responses in different rice genotypes at the seedling stage
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6473595/
https://www.ncbi.nlm.nih.gov/pubmed/30871082
http://dx.doi.org/10.3390/plants8030064
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