Cargando…
Identification of Differentially Expressed Drought-Responsive Genes in Guar [Cyamopsis tetragonoloba (L.) Taub]
Drought remains one of the most serious environmental stresses because of the continuous reduction in soil moisture, which requires the improvement of crops with features such as drought tolerance. Guar [Cyamopsis tetragonoloba (L.) Taub], a forage and industrial crop, is a nonthirsty plant. However...
Autores principales: | , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Hindawi
2020
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7732403/ https://www.ncbi.nlm.nih.gov/pubmed/33344629 http://dx.doi.org/10.1155/2020/4147615 |
_version_ | 1783622086263046144 |
---|---|
author | Alshameri, Aref Al-Qurainy, Fahad Gaafar, Abdel-Rhman Khan, Salim Nadeem, Mohammad Alansi, Saleh Shaikhaldein, Hassan O. Salih, Abdalrhaman M. |
author_facet | Alshameri, Aref Al-Qurainy, Fahad Gaafar, Abdel-Rhman Khan, Salim Nadeem, Mohammad Alansi, Saleh Shaikhaldein, Hassan O. Salih, Abdalrhaman M. |
author_sort | Alshameri, Aref |
collection | PubMed |
description | Drought remains one of the most serious environmental stresses because of the continuous reduction in soil moisture, which requires the improvement of crops with features such as drought tolerance. Guar [Cyamopsis tetragonoloba (L.) Taub], a forage and industrial crop, is a nonthirsty plant. However, the information on the transcriptome changes that occur under drought stress in guar is very limited; therefore, a gene expression analysis is necessary in this context. Here, we studied the differentially expressed genes (DEGs) in response to drought stress and their metabolic pathways. RNA-Seq via an expectation-maximization algorithm was used to estimate gene abundance. Subsequently, an Empirical Analysis of Digital Gene Expression Data in the R Bioconductor package was used to identify DEGs. Blast2GO, InterProScan, and the Kyoto Encyclopedia of Genes and Genomes were used to explore functional annotation, protein analysis, enzymes, and metabolic pathways. Transcription factors were identified using the PlantTFDB database. Our study identified 499 upregulated and 191 downregulated genes in response to drought stress. Of those, 32 upregulated and six downregulated genes were deemed as novel genes exclusive to guar. An aggregate of 137 protein families, 306 domains, 12 repeats, and two sites were upregulated. The proton-dependent oligopeptide transporter family and transferase, aquaporin transporter, calcium/calmodulin-dependent/calcium-dependent protein kinase, aspartic peptidase A1 family, UDP-glucuronosyl/UDP-glucosyltransferase, and major intrinsic protein were the most upregulated protein families. The upregulated unigenes were associated with 88 enzymes and 77 KEGG pathways. Finally, the MYB-related, MYB, and ERF transcription factor families were upregulated. These data may be useful for understanding the plant molecular response to drought stress. |
format | Online Article Text |
id | pubmed-7732403 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | Hindawi |
record_format | MEDLINE/PubMed |
spelling | pubmed-77324032020-12-18 Identification of Differentially Expressed Drought-Responsive Genes in Guar [Cyamopsis tetragonoloba (L.) Taub] Alshameri, Aref Al-Qurainy, Fahad Gaafar, Abdel-Rhman Khan, Salim Nadeem, Mohammad Alansi, Saleh Shaikhaldein, Hassan O. Salih, Abdalrhaman M. Int J Genomics Research Article Drought remains one of the most serious environmental stresses because of the continuous reduction in soil moisture, which requires the improvement of crops with features such as drought tolerance. Guar [Cyamopsis tetragonoloba (L.) Taub], a forage and industrial crop, is a nonthirsty plant. However, the information on the transcriptome changes that occur under drought stress in guar is very limited; therefore, a gene expression analysis is necessary in this context. Here, we studied the differentially expressed genes (DEGs) in response to drought stress and their metabolic pathways. RNA-Seq via an expectation-maximization algorithm was used to estimate gene abundance. Subsequently, an Empirical Analysis of Digital Gene Expression Data in the R Bioconductor package was used to identify DEGs. Blast2GO, InterProScan, and the Kyoto Encyclopedia of Genes and Genomes were used to explore functional annotation, protein analysis, enzymes, and metabolic pathways. Transcription factors were identified using the PlantTFDB database. Our study identified 499 upregulated and 191 downregulated genes in response to drought stress. Of those, 32 upregulated and six downregulated genes were deemed as novel genes exclusive to guar. An aggregate of 137 protein families, 306 domains, 12 repeats, and two sites were upregulated. The proton-dependent oligopeptide transporter family and transferase, aquaporin transporter, calcium/calmodulin-dependent/calcium-dependent protein kinase, aspartic peptidase A1 family, UDP-glucuronosyl/UDP-glucosyltransferase, and major intrinsic protein were the most upregulated protein families. The upregulated unigenes were associated with 88 enzymes and 77 KEGG pathways. Finally, the MYB-related, MYB, and ERF transcription factor families were upregulated. These data may be useful for understanding the plant molecular response to drought stress. Hindawi 2020-12-03 /pmc/articles/PMC7732403/ /pubmed/33344629 http://dx.doi.org/10.1155/2020/4147615 Text en Copyright © 2020 Aref Alshameri et al. https://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Research Article Alshameri, Aref Al-Qurainy, Fahad Gaafar, Abdel-Rhman Khan, Salim Nadeem, Mohammad Alansi, Saleh Shaikhaldein, Hassan O. Salih, Abdalrhaman M. Identification of Differentially Expressed Drought-Responsive Genes in Guar [Cyamopsis tetragonoloba (L.) Taub] |
title | Identification of Differentially Expressed Drought-Responsive Genes in Guar [Cyamopsis tetragonoloba (L.) Taub] |
title_full | Identification of Differentially Expressed Drought-Responsive Genes in Guar [Cyamopsis tetragonoloba (L.) Taub] |
title_fullStr | Identification of Differentially Expressed Drought-Responsive Genes in Guar [Cyamopsis tetragonoloba (L.) Taub] |
title_full_unstemmed | Identification of Differentially Expressed Drought-Responsive Genes in Guar [Cyamopsis tetragonoloba (L.) Taub] |
title_short | Identification of Differentially Expressed Drought-Responsive Genes in Guar [Cyamopsis tetragonoloba (L.) Taub] |
title_sort | identification of differentially expressed drought-responsive genes in guar [cyamopsis tetragonoloba (l.) taub] |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7732403/ https://www.ncbi.nlm.nih.gov/pubmed/33344629 http://dx.doi.org/10.1155/2020/4147615 |
work_keys_str_mv | AT alshameriaref identificationofdifferentiallyexpresseddroughtresponsivegenesinguarcyamopsistetragonolobaltaub AT alqurainyfahad identificationofdifferentiallyexpresseddroughtresponsivegenesinguarcyamopsistetragonolobaltaub AT gaafarabdelrhman identificationofdifferentiallyexpresseddroughtresponsivegenesinguarcyamopsistetragonolobaltaub AT khansalim identificationofdifferentiallyexpresseddroughtresponsivegenesinguarcyamopsistetragonolobaltaub AT nadeemmohammad identificationofdifferentiallyexpresseddroughtresponsivegenesinguarcyamopsistetragonolobaltaub AT alansisaleh identificationofdifferentiallyexpresseddroughtresponsivegenesinguarcyamopsistetragonolobaltaub AT shaikhaldeinhassano identificationofdifferentiallyexpresseddroughtresponsivegenesinguarcyamopsistetragonolobaltaub AT salihabdalrhamanm identificationofdifferentiallyexpresseddroughtresponsivegenesinguarcyamopsistetragonolobaltaub |