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Genome-wide survey and comprehensive expression profiling of Aux/IAA gene family in chickpea and soybean
Auxin plays a central role in many aspects of plant growth and development. Auxin/Indole-3-Acetic Acid (Aux/IAA) genes cooperate with several other components in the perception and signaling of plant hormone auxin. An investigation of chickpea and soybean genomes revealed 22 and 63 putative Aux/IAA...
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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Frontiers Media S.A.
2015
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4621760/ https://www.ncbi.nlm.nih.gov/pubmed/26579165 http://dx.doi.org/10.3389/fpls.2015.00918 |
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author | Singh, Vikash K. Jain, Mukesh |
author_facet | Singh, Vikash K. Jain, Mukesh |
author_sort | Singh, Vikash K. |
collection | PubMed |
description | Auxin plays a central role in many aspects of plant growth and development. Auxin/Indole-3-Acetic Acid (Aux/IAA) genes cooperate with several other components in the perception and signaling of plant hormone auxin. An investigation of chickpea and soybean genomes revealed 22 and 63 putative Aux/IAA genes, respectively. These genes were classified into six subfamilies on the basis of phylogenetic analysis. Among 63 soybean Aux/IAA genes, 57 (90.5%) were found to be duplicated via whole genome duplication (WGD)/segmental events. Transposed duplication played a significant role in tandem arrangements between the members of different subfamilies. Analysis of Ka/Ks ratio of duplicated Aux/IAA genes revealed purifying selection pressure with restricted functional divergence. Promoter sequence analysis revealed several cis-regulatory elements related to auxin, abscisic acid, desiccation, salt, seed, and endosperm, indicating their role in development and stress responses. Expression analysis of chickpea and soybean Aux/IAA genes in various tissues and stages of development demonstrated tissue/stage specific differential expression. In soybean, at least 16 paralog pairs, duplicated via WGD/segmental events, showed almost indistinguishable expression pattern, but eight pairs exhibited significantly diverse expression patterns. Under abiotic stress conditions, such as desiccation, salinity and/or cold, many Aux/IAA genes of chickpea and soybean revealed differential expression. qRT-PCR analysis confirmed the differential expression patterns of selected Aux/IAA genes in chickpea. The analyses presented here provide insights on putative roles of chickpea and soybean Aux/IAA genes and will facilitate elucidation of their precise functions during development and abiotic stress responses. |
format | Online Article Text |
id | pubmed-4621760 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2015 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-46217602015-11-17 Genome-wide survey and comprehensive expression profiling of Aux/IAA gene family in chickpea and soybean Singh, Vikash K. Jain, Mukesh Front Plant Sci Plant Science Auxin plays a central role in many aspects of plant growth and development. Auxin/Indole-3-Acetic Acid (Aux/IAA) genes cooperate with several other components in the perception and signaling of plant hormone auxin. An investigation of chickpea and soybean genomes revealed 22 and 63 putative Aux/IAA genes, respectively. These genes were classified into six subfamilies on the basis of phylogenetic analysis. Among 63 soybean Aux/IAA genes, 57 (90.5%) were found to be duplicated via whole genome duplication (WGD)/segmental events. Transposed duplication played a significant role in tandem arrangements between the members of different subfamilies. Analysis of Ka/Ks ratio of duplicated Aux/IAA genes revealed purifying selection pressure with restricted functional divergence. Promoter sequence analysis revealed several cis-regulatory elements related to auxin, abscisic acid, desiccation, salt, seed, and endosperm, indicating their role in development and stress responses. Expression analysis of chickpea and soybean Aux/IAA genes in various tissues and stages of development demonstrated tissue/stage specific differential expression. In soybean, at least 16 paralog pairs, duplicated via WGD/segmental events, showed almost indistinguishable expression pattern, but eight pairs exhibited significantly diverse expression patterns. Under abiotic stress conditions, such as desiccation, salinity and/or cold, many Aux/IAA genes of chickpea and soybean revealed differential expression. qRT-PCR analysis confirmed the differential expression patterns of selected Aux/IAA genes in chickpea. The analyses presented here provide insights on putative roles of chickpea and soybean Aux/IAA genes and will facilitate elucidation of their precise functions during development and abiotic stress responses. Frontiers Media S.A. 2015-10-27 /pmc/articles/PMC4621760/ /pubmed/26579165 http://dx.doi.org/10.3389/fpls.2015.00918 Text en Copyright © 2015 Singh and Jain. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
spellingShingle | Plant Science Singh, Vikash K. Jain, Mukesh Genome-wide survey and comprehensive expression profiling of Aux/IAA gene family in chickpea and soybean |
title | Genome-wide survey and comprehensive expression profiling of Aux/IAA gene family in chickpea and soybean |
title_full | Genome-wide survey and comprehensive expression profiling of Aux/IAA gene family in chickpea and soybean |
title_fullStr | Genome-wide survey and comprehensive expression profiling of Aux/IAA gene family in chickpea and soybean |
title_full_unstemmed | Genome-wide survey and comprehensive expression profiling of Aux/IAA gene family in chickpea and soybean |
title_short | Genome-wide survey and comprehensive expression profiling of Aux/IAA gene family in chickpea and soybean |
title_sort | genome-wide survey and comprehensive expression profiling of aux/iaa gene family in chickpea and soybean |
topic | Plant Science |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4621760/ https://www.ncbi.nlm.nih.gov/pubmed/26579165 http://dx.doi.org/10.3389/fpls.2015.00918 |
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