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

D. Doddamani, A.W. Khan, M.A.V.S.K. Katta, G. Agarwal, M. Thudi, Pradeep Ruperao, Dave Edwards, Rajeev K. Varshney

Research output: Contribution to journalArticlepeer-review

16 Citations (Scopus)

Abstract

© The Author(s) 2015. Published by Oxford University Press. 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.
Original languageEnglish
Article numberbav078
Number of pages7
JournalDatabase
Volume2015
DOIs
Publication statusPublished - Aug 2015

Fingerprint

Dive into the research topics of 'CicArVarDB: SNP and InDel database for advancing genetics research and breeding applications in chickpea'. Together they form a unique fingerprint.

Cite this