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CicArVarDB: SNP and InDel database for advancing genetics research and breeding applications in chickpea

OAR@ICRISAT

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Relation http://oar.icrisat.org/8954/
http://dx.doi.org/10.1093/database/bav078
10.1093/database/bav078
 
Title CicArVarDB: SNP and InDel database for advancing genetics research and breeding applications in chickpea
 
Creator Doddamani, D
Khan, A W
Katta, M A V S K
Agarwal, G
Thudi, M
Ruperao, P
Edwards, D
Varshney, R K
 
Subject Chickpea
 
Description Molecular markers are valuable tools for breeders to help accelerate crop improvement. High throughput sequencing technologies facilitate the discovery of large-scale variations such as single nucleotide polymorphisms (SNPs) and simple sequence repeats (SSRs). Sequencing of chickpea genome along with re-sequencing of several chickpea lines has enabled the discovery of 4.4 million variations including SNPs and InDels. Here we report a repository of 1.9 million variations (SNPs and InDels) anchored on eight pseudomolecules in a custom database, referred as CicArVarDB that can be accessed at http://cicarvardb.icrisat.org/. It includes an easy interface for users to select variations around specific regions associated with quantitative trait loci, with embedded webBLAST search and JBrowse visualisation. We hope that this database will be immensely useful for the chickpea research community for both advancing genetics research as well as breeding applications for crop improvement.
 
Publisher Oxford University Press
 
Date 2015
 
Type Article
PeerReviewed
 
Format application/pdf
 
Language en
 
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Identifier http://oar.icrisat.org/8954/1/2015_Database_Doddamani.pdf
Doddamani, D and Khan, A W and Katta, M A V S K and Agarwal, G and Thudi, M and Ruperao, P and Edwards, D and Varshney, R K (2015) CicArVarDB: SNP and InDel database for advancing genetics research and breeding applications in chickpea. Database. 01-07. ISSN 1758-0463