RNA-Seq analysis revealed genes associated with drought stress response in kabuli chickpea (Cicer arietinum L.)

Mahdavi Mashaki, K and Garg, V and Ghomi, A A N and Kudapa, H and Chitikineni, A and Zaynali Nezhad, K and Yamchi, A and Soltanloo, H and Varshney, R K and Thudi, M (2018) RNA-Seq analysis revealed genes associated with drought stress response in kabuli chickpea (Cicer arietinum L.). PLoS ONE (TSI), 13 (6). pp. 1-17. ISSN 1932-6203

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Abstract

Drought is the most important constraint that effects chickpea production globally. RNA-Seq has great potential to dissect the molecular mechanisms of tolerance to environmental stresses. Transcriptome profiles in roots and shoots of two contrasting Iranian kabuli chickpea genotypes (Bivanij and Hashem) were investigated under water-limited conditions at early flowering stage using RNA-Seq approach. A total of 4,572 differentially expressed genes (DEGs) were identified. Of these, 261 and 169 drought stress responsive genes were identified in the shoots and the roots, respectively, and 17 genes were common in the shoots and the roots. Gene Ontology (GO) analysis revealed several sub-categories related to the stress, including response to stress, defense response and response to stimulus in the tolerant genotype Bivanij as compared to the sensitive genotype Hashem under drought stress. In addition, several Transcription factors (TFs) were identified in major metabolic pathways such as, ABA, proline and flavonoid biosynthesis. Furthermore, a number of the DEGs were observed in "QTL-hotspot" regions which were reported earlier in chickpea. Drought tolerance dissection in the genotypes revealed that the genes and the pathways involved in shoots of Bivanij were the most important factor to make a difference between the genotypes for drought tolerance. The identified TFs in the experiment, particularly those which were up-regulated in shoots of Bivanij during drought stress, were potential candidates for enhancing tolerance to drought.

Item Type: Article
Divisions: Research Program : Genetic Gains
CRP: CGIAR Research Program on Grain Legumes
Uncontrolled Keywords: RNA-Seq analysis, drought stress, kabuli chickpea, chickpea, drought tolerance, QTLs, abiotic stress
Subjects: Others > Abiotic Stress
Others > Crop Improvement
Mandate crops > Chickpea
Others > Drought
Others > Genetics and Genomics
Depositing User: Mr Ramesh K
Date Deposited: 03 Jul 2018 08:54
Last Modified: 03 Jul 2018 08:54
URI: http://oar.icrisat.org/id/eprint/10777
Official URL: http://dx.doi.org/10.1371/journal.pone.0199774
Projects: UNSPECIFIED
Funders: UNSPECIFIED
Acknowledgement: Funding: The work reported in this article was undertaken as a part of the CGIAR Research Program on Genetic Gains. Acknowledgments: The work reported in this article was undertaken as a part of the CGIAR Research Program on Genetic Gains. ICRISAT is a member of the CGIAR Consortium.
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