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

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Title Draft genome sequence of Cicer reticulatum L., the wild progenitor of chickpea provides a resource for agronomic trait improvement
 
Creator Gupta, Sonal
Nawaz, Kashif
Parween, Sabiha
Roy, Riti
Sahu, Kamlesh
Pole, Anil Kumar
Khandal, Hitaishi
Srivastava, Rishi
Parida, Swarup K.
Chattopadhyay, Debasis
 
Subject Cicer reticulatum L. PI489777
annotation
diversity
genome sequence
wild chickpea
 
Description Accepted date: July 19, 2016
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.
This study was financially supported with a core grant from the National Institute of Plant Genome Research, New Delhi, India.
 
Date 2016-08-30T08:18:59Z
2016-08-30T08:18:59Z
2017
 
Type Article
 
Identifier DNA Res., 24(1): 1-10
1756-1663
http://172.16.0.77:8080/jspui/handle/123456789/677
http://dnaresearch.oxfordjournals.org/content/early/2016/08/26/dnares.dsw042.abstract
10.1093/dnares/dsw042
 
Language en_US
 
Publisher Oxford University Press