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Genome wide identification of LIM genes in Cicer arietinum and response of Ca-2LIMs in development, hormone and pathogenic stress

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Title Genome wide identification of LIM genes in Cicer arietinum and response of Ca-2LIMs in development, hormone and pathogenic stress
 
Creator Srivastava, Vikas
Verma, Praveen K.
 
Subject Cicer arietinum
Pathogenic Stress
LIM Genes
 
Description Accepted date: September 2, 2015
The eukaryotic lineage-specific LIM protein (LIN11, ISL1, and MEC3) family play pivotal role in modulation of actin dynamics and transcriptional regulation. The systematic investigation of this family has not been carried in detail and rare in legumes. Current study involves the mining of Cicer arietinum genome for the genes coding for LIM domain proteins and displayed significant homology with LIM genes of other species. The analysis led to the identification of 15 members, which were positioned on chickpea chromosomes. The phylogenetic and motif analysis suggested their categorization into two sub-families i.e., Ca-2LIMs and Ca-DA1/DAR, which comprised of nine and six candidates, respectively. Further sub-categories of Ca-2LIMs were recognised as αLIM, βLIM, δLIM and γLIM. The LIM genes within their sub-families displayed conserved genomic and motif organization. The expression pattern of Ca-2LIMs across developmental and reproductive tissues demonstrated strong correlation with established consensus. The Ca-2LIM belongs to PLIM and GLIM (XLIM) was found highly expressed in floral tissue. Others showed ubiquitous expression pattern with their dominance in stem. Under hormonal and pathogenic conditions these LIMs were found to up-regulate during salicylic acid, abscisic acid and Ascochyta rabiei treatment or infection; and down-regulated in response to jasmonic acid treatment. The findings of this work, particularly in terms of modulation of LIM genes under biotic stress will open up the way to further explore and establish the role of chickpea LIMs in plant defense response.
This work is supported by a research grant provided by Department of Biotechnology, Government of India, for Next Generation Challenge Program on Chickpea Genomics project (Sanction No. BT/PR12919/AGR/02/676/2009), and National Institute of Plant Genome Research (NIPGR), New Delhi. VS acknowledges NIPGR for short term research fellowship. Authors also acknowledge Central Instrument Facility, NIPGR, for Real-Time PCR. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
 
Date 2016-01-25T08:50:39Z
2016-01-25T08:50:39Z
2015
 
Type Article
 
Identifier PLoS One, 10: e0138719
1932-6203
http://172.16.0.77:8080/jspui/handle/123456789/585
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0138719
10.1371/journal.pone.0138719
 
Language en_US
 
Publisher PLOS