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A comprehensive analysis of the B3 superfamily identifies tissue-specific and stress-responsive genes in chickpea (Cicer arietinum L.)

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Title A comprehensive analysis of the B3 superfamily identifies tissue-specific and stress-responsive genes in chickpea (Cicer arietinum L.)
 
Creator Verma, Subodh
Bhatia, Sabhyata
 
Subject Chickpea
B3 domain-containing protein
Phylogeny
Expression analysis
 
Description Accepted date: 14 August 2019
The aim of this study was to provide a comprehensive analysis of the plant-specifc B3 domain-containing transcription factors (TFs) in chickpea. Scanning of the chickpea genome resulted in the identifcation of 51 B3 domain-containing TFs that
were located on seven out of eight chickpea chromosomes. Based on the presence of additional domains other than the B3
domain, the candidates were classifed into four subfamilies, i.e., ARF (24), REM (19), LAV (6) and RAV (2). Phylogenetic
analysis classifed them into four groups in which members of the same group had similar intron–exon organization and motif
composition. Genome duplication analysis of the candidate B3 genes revealed an event of segmental duplication that was
instrumental in the expansion of the B3 gene family. Ka/Ks analysis showed that the B3 gene family was under purifying
selection. Further, chickpea B3 genes showed maximum orthology with Medicago followed by soybean and Arabidopsis.
Promoter analyses of the B3 genes led to the identifcation of several tissue-specifc and stress-responsive cis-regulatory
elements. Expression profling of the candidate B3 genes using publicly available RNA-seq data of several chickpea tissues
indicated their putative role in plant development and abiotic stress response. These fndings were further validated by realtime expression analysis. Overall, this study provides a comprehensive analysis of the B3 domain-containing proteins in
chickpea that would aid in devising strategies for crop manipulation in chickpea.
This work was funded by the Department of Biotechnology, Ministry of Science and Technology, Government of India,
under the Challenge Programme on Chickpea Functional Genomics (Grant number: BT/AGR/CG-Phase II/01/2014). SV acknowledges the
award of a research fellowship from the Department of Biotechnology,
Govt. of India. The authors are thankful to DBT-eLibrary Consortium
(DeLCON) for providing access to e-resources.
 
Date 2019-09-11T07:21:41Z
2019-09-11T07:21:41Z
2019
 
Type Article
 
Identifier 3 Biotech 9(9): 346
2190-5738
http://223.31.159.10:8080/jspui/handle/123456789/981
https://link.springer.com/article/10.1007%2Fs13205-019-1875-5
https://doi.org/10.1007/s13205-019-1875-5
 
Language en_US
 
Format application/pdf
 
Publisher Springer Nature Publishing AG