Draft genome sequence of Cicer reticulatum L., the wild progenitor of chickpea provides a resource for agronomic trait improvement

Publication Overview
TitleDraft genome sequence of Cicer reticulatum L., the wild progenitor of chickpea provides a resource for agronomic trait improvement
AuthorsGupta S, Nawaz K, Parween S, Roy R, Sahu K, Kumar Pole A, Khandal H, Srivastava R, Kumar Parida S, Chattopadhyay D
TypeJournal Article
Journal NameDNA research : an international journal for rapid publication of reports on genes and genomes
Year2016
CitationGupta S, Nawaz K, Parween S, Roy R, Sahu K, Kumar Pole A, Khandal H, Srivastava R, Kumar Parida S, Chattopadhyay D. Draft genome sequence of Cicer reticulatum L., the wild progenitor of chickpea provides a resource for agronomic trait improvement. DNA research : an international journal for rapid publication of reports on genes and genomes. 2016 Aug 26.

Abstract

Cicer reticulatum L. is the wild progenitor of the fourth most important legume crop chickpea (C. arietinum L.). We assembled short-read sequences into 416 Mb draft genome of C. reticulatum and anchored 78% (327 Mb) of this assembly to eight linkage groups. Genome annotation predicted 25,680 protein-coding genes covering more than 90% of predicted gene space. The genome assembly shared a substantial synteny and conservation of gene orders with the genome of the model legume Medicago truncatula. Resistance gene homologs of wild and domesticated chickpeas showed high sequence homology and conserved synteny. Comparison of gene sequences and nucleotide diversity using 66 wild and domesticated chickpea accessions suggested that the desi type chickpea was genetically closer to the wild species than the kabuli type. Comparative analyses predicted gene flow between the wild and the cultivated species during domestication. Molecular diversity and population genetic structure determination using 15,096 genome-wide single nucleotide polymorphisms revealed an admixed domestication pattern among cultivated (desi and kabuli) and wild chickpea accessions belonging to three population groups reflecting significant influence of parentage or geographical origin for their cultivar-specific population classification. The assembly and the polymorphic sequence resources presented here would facilitate the study of chickpea domestication and targeted use of wild Cicer germplasms for agronomic trait improvement in chickpea.

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Additional details for this publication include:
Property NameValue
Publication ModelPrint-Electronic
ISSN1756-1663
eISSN1756-1663
Publication Date2016 Aug 26
Journal AbbreviationDNA Res.
Elocationdsw042
Copyright© The Author 2016. Published by Oxford University Press on behalf of Kazusa DNA Research Institute.
LanguageEnglish
Language AbbrENG
Publication TypeJournal Article
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PMID: PMID:27567261