Cargando…

Integrative System Biology Analysis of Transcriptomic Responses to Drought Stress in Soybean (Glycine max L.)

Drought is a major abiotic stressor that causes yield losses and limits the growing area for most crops. Soybeans are an important legume crop that is sensitive to water-deficit conditions and suffers heavy yield losses from drought stress. To improve drought-tolerant soybean cultivars through breed...

Descripción completa

Detalles Bibliográficos
Autores principales: Shahriari, Amir Ghaffar, Soltani, Zahra, Tahmasebi, Aminallah, Poczai, Péter
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9602024/
https://www.ncbi.nlm.nih.gov/pubmed/36292617
http://dx.doi.org/10.3390/genes13101732
_version_ 1784817210543308800
author Shahriari, Amir Ghaffar
Soltani, Zahra
Tahmasebi, Aminallah
Poczai, Péter
author_facet Shahriari, Amir Ghaffar
Soltani, Zahra
Tahmasebi, Aminallah
Poczai, Péter
author_sort Shahriari, Amir Ghaffar
collection PubMed
description Drought is a major abiotic stressor that causes yield losses and limits the growing area for most crops. Soybeans are an important legume crop that is sensitive to water-deficit conditions and suffers heavy yield losses from drought stress. To improve drought-tolerant soybean cultivars through breeding, it is necessary to understand the mechanisms of drought tolerance in soybeans. In this study, we applied several transcriptome datasets obtained from soybean plants under drought stress in comparison to those grown under normal conditions to identify novel drought-responsive genes and their underlying molecular mechanisms. We found 2168 significant up/downregulated differentially expressed genes (DEGs) and 8 core modules using gene co-expression analysis to predict their biological roles in drought tolerance. Gene Ontology and KEGG analyses revealed key biological processes and metabolic pathways involved in drought tolerance, such as photosynthesis, glyceraldehyde-3-phosphate dehydrogenase and cytokinin dehydrogenase activity, and regulation of systemic acquired resistance. Genome-wide analysis of plants’ cis-acting regulatory elements (CREs) and transcription factors (TFs) was performed for all of the identified DEG promoters in soybeans. Furthermore, the PPI network analysis revealed significant hub genes and the main transcription factors regulating the expression of drought-responsive genes in each module. Among the four modules associated with responses to drought stress, the results indicated that GLYMA_04G209700, GLYMA_02G204700, GLYMA_06G030500, GLYMA_01G215400, and GLYMA_09G225400 have high degrees of interconnection and, thus, could be considered as potential candidates for improving drought tolerance in soybeans. Taken together, these findings could lead to a better understanding of the mechanisms underlying drought responses in soybeans, which may useful for engineering drought tolerance in plants.
format Online
Article
Text
id pubmed-9602024
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher MDPI
record_format MEDLINE/PubMed
spelling pubmed-96020242022-10-27 Integrative System Biology Analysis of Transcriptomic Responses to Drought Stress in Soybean (Glycine max L.) Shahriari, Amir Ghaffar Soltani, Zahra Tahmasebi, Aminallah Poczai, Péter Genes (Basel) Article Drought is a major abiotic stressor that causes yield losses and limits the growing area for most crops. Soybeans are an important legume crop that is sensitive to water-deficit conditions and suffers heavy yield losses from drought stress. To improve drought-tolerant soybean cultivars through breeding, it is necessary to understand the mechanisms of drought tolerance in soybeans. In this study, we applied several transcriptome datasets obtained from soybean plants under drought stress in comparison to those grown under normal conditions to identify novel drought-responsive genes and their underlying molecular mechanisms. We found 2168 significant up/downregulated differentially expressed genes (DEGs) and 8 core modules using gene co-expression analysis to predict their biological roles in drought tolerance. Gene Ontology and KEGG analyses revealed key biological processes and metabolic pathways involved in drought tolerance, such as photosynthesis, glyceraldehyde-3-phosphate dehydrogenase and cytokinin dehydrogenase activity, and regulation of systemic acquired resistance. Genome-wide analysis of plants’ cis-acting regulatory elements (CREs) and transcription factors (TFs) was performed for all of the identified DEG promoters in soybeans. Furthermore, the PPI network analysis revealed significant hub genes and the main transcription factors regulating the expression of drought-responsive genes in each module. Among the four modules associated with responses to drought stress, the results indicated that GLYMA_04G209700, GLYMA_02G204700, GLYMA_06G030500, GLYMA_01G215400, and GLYMA_09G225400 have high degrees of interconnection and, thus, could be considered as potential candidates for improving drought tolerance in soybeans. Taken together, these findings could lead to a better understanding of the mechanisms underlying drought responses in soybeans, which may useful for engineering drought tolerance in plants. MDPI 2022-09-26 /pmc/articles/PMC9602024/ /pubmed/36292617 http://dx.doi.org/10.3390/genes13101732 Text en © 2022 by the authors. https://creativecommons.org/licenses/by/4.0/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 (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Shahriari, Amir Ghaffar
Soltani, Zahra
Tahmasebi, Aminallah
Poczai, Péter
Integrative System Biology Analysis of Transcriptomic Responses to Drought Stress in Soybean (Glycine max L.)
title Integrative System Biology Analysis of Transcriptomic Responses to Drought Stress in Soybean (Glycine max L.)
title_full Integrative System Biology Analysis of Transcriptomic Responses to Drought Stress in Soybean (Glycine max L.)
title_fullStr Integrative System Biology Analysis of Transcriptomic Responses to Drought Stress in Soybean (Glycine max L.)
title_full_unstemmed Integrative System Biology Analysis of Transcriptomic Responses to Drought Stress in Soybean (Glycine max L.)
title_short Integrative System Biology Analysis of Transcriptomic Responses to Drought Stress in Soybean (Glycine max L.)
title_sort integrative system biology analysis of transcriptomic responses to drought stress in soybean (glycine max l.)
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9602024/
https://www.ncbi.nlm.nih.gov/pubmed/36292617
http://dx.doi.org/10.3390/genes13101732
work_keys_str_mv AT shahriariamirghaffar integrativesystembiologyanalysisoftranscriptomicresponsestodroughtstressinsoybeanglycinemaxl
AT soltanizahra integrativesystembiologyanalysisoftranscriptomicresponsestodroughtstressinsoybeanglycinemaxl
AT tahmasebiaminallah integrativesystembiologyanalysisoftranscriptomicresponsestodroughtstressinsoybeanglycinemaxl
AT poczaipeter integrativesystembiologyanalysisoftranscriptomicresponsestodroughtstressinsoybeanglycinemaxl