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Comparative Transcriptomics and Co-Expression Networks Reveal Tissue- and Genotype-Specific Responses of qDTYs to Reproductive-Stage Drought Stress in Rice (Oryza sativa L.)

Rice (Oryza sativa L.) is more sensitive to drought stress than other cereals. To dissect molecular mechanisms underlying drought-tolerant yield in rice, we applied differential expression and co-expression network approaches to transcriptomes from flag-leaf and emerging panicle tissues of a drought...

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Autores principales: Tarun, Jeshurun Asher, Mauleon, Ramil, Arbelaez, Juan David, Catausan, Sheryl, Dixit, Shalabh, Kumar, Arvind, Brown, Patrick, Kohli, Ajay, Kretzschmar, Tobias
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7650634/
https://www.ncbi.nlm.nih.gov/pubmed/32987927
http://dx.doi.org/10.3390/genes11101124
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author Tarun, Jeshurun Asher
Mauleon, Ramil
Arbelaez, Juan David
Catausan, Sheryl
Dixit, Shalabh
Kumar, Arvind
Brown, Patrick
Kohli, Ajay
Kretzschmar, Tobias
author_facet Tarun, Jeshurun Asher
Mauleon, Ramil
Arbelaez, Juan David
Catausan, Sheryl
Dixit, Shalabh
Kumar, Arvind
Brown, Patrick
Kohli, Ajay
Kretzschmar, Tobias
author_sort Tarun, Jeshurun Asher
collection PubMed
description Rice (Oryza sativa L.) is more sensitive to drought stress than other cereals. To dissect molecular mechanisms underlying drought-tolerant yield in rice, we applied differential expression and co-expression network approaches to transcriptomes from flag-leaf and emerging panicle tissues of a drought-tolerant yield introgression line, DTY-IL, and the recurrent parent Swarna, under moderate reproductive-stage drought stress. Protein turnover and efficient reactive oxygen species scavenging were found to be the driving factors in both tissues. In the flag-leaf, the responses further included maintenance of photosynthesis and cell wall reorganization, while in the panicle biosynthesis of secondary metabolites was found to play additional roles. Hub genes of importance in differential drought responses included an expansin in the flag-leaf and two peroxidases in the panicle. Overlaying differential expression data with allelic variation in DTY-IL quantitative trait loci allowed for the prioritization of candidate genes. They included a differentially regulated auxin-responsive protein, with DTY-IL-specific amino acid changes in conserved domains, as well as a protein kinase with a DTY-IL-specific frameshift in the C-terminal region. The approach highlights how the integration of differential expression and allelic variation can aid in the discovery of mechanism and putative causal contribution underlying quantitative trait loci for drought-tolerant yield.
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spelling pubmed-76506342020-11-10 Comparative Transcriptomics and Co-Expression Networks Reveal Tissue- and Genotype-Specific Responses of qDTYs to Reproductive-Stage Drought Stress in Rice (Oryza sativa L.) Tarun, Jeshurun Asher Mauleon, Ramil Arbelaez, Juan David Catausan, Sheryl Dixit, Shalabh Kumar, Arvind Brown, Patrick Kohli, Ajay Kretzschmar, Tobias Genes (Basel) Article Rice (Oryza sativa L.) is more sensitive to drought stress than other cereals. To dissect molecular mechanisms underlying drought-tolerant yield in rice, we applied differential expression and co-expression network approaches to transcriptomes from flag-leaf and emerging panicle tissues of a drought-tolerant yield introgression line, DTY-IL, and the recurrent parent Swarna, under moderate reproductive-stage drought stress. Protein turnover and efficient reactive oxygen species scavenging were found to be the driving factors in both tissues. In the flag-leaf, the responses further included maintenance of photosynthesis and cell wall reorganization, while in the panicle biosynthesis of secondary metabolites was found to play additional roles. Hub genes of importance in differential drought responses included an expansin in the flag-leaf and two peroxidases in the panicle. Overlaying differential expression data with allelic variation in DTY-IL quantitative trait loci allowed for the prioritization of candidate genes. They included a differentially regulated auxin-responsive protein, with DTY-IL-specific amino acid changes in conserved domains, as well as a protein kinase with a DTY-IL-specific frameshift in the C-terminal region. The approach highlights how the integration of differential expression and allelic variation can aid in the discovery of mechanism and putative causal contribution underlying quantitative trait loci for drought-tolerant yield. MDPI 2020-09-24 /pmc/articles/PMC7650634/ /pubmed/32987927 http://dx.doi.org/10.3390/genes11101124 Text en © 2020 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
Tarun, Jeshurun Asher
Mauleon, Ramil
Arbelaez, Juan David
Catausan, Sheryl
Dixit, Shalabh
Kumar, Arvind
Brown, Patrick
Kohli, Ajay
Kretzschmar, Tobias
Comparative Transcriptomics and Co-Expression Networks Reveal Tissue- and Genotype-Specific Responses of qDTYs to Reproductive-Stage Drought Stress in Rice (Oryza sativa L.)
title Comparative Transcriptomics and Co-Expression Networks Reveal Tissue- and Genotype-Specific Responses of qDTYs to Reproductive-Stage Drought Stress in Rice (Oryza sativa L.)
title_full Comparative Transcriptomics and Co-Expression Networks Reveal Tissue- and Genotype-Specific Responses of qDTYs to Reproductive-Stage Drought Stress in Rice (Oryza sativa L.)
title_fullStr Comparative Transcriptomics and Co-Expression Networks Reveal Tissue- and Genotype-Specific Responses of qDTYs to Reproductive-Stage Drought Stress in Rice (Oryza sativa L.)
title_full_unstemmed Comparative Transcriptomics and Co-Expression Networks Reveal Tissue- and Genotype-Specific Responses of qDTYs to Reproductive-Stage Drought Stress in Rice (Oryza sativa L.)
title_short Comparative Transcriptomics and Co-Expression Networks Reveal Tissue- and Genotype-Specific Responses of qDTYs to Reproductive-Stage Drought Stress in Rice (Oryza sativa L.)
title_sort comparative transcriptomics and co-expression networks reveal tissue- and genotype-specific responses of qdtys to reproductive-stage drought stress in rice (oryza sativa l.)
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7650634/
https://www.ncbi.nlm.nih.gov/pubmed/32987927
http://dx.doi.org/10.3390/genes11101124
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