Show simple item record

dc.contributorBajaj, Deepaken_US
dc.contributorUpadhyaya, Hari D.en_US
dc.contributorDas, Shouviken_US
dc.contributorRanjan, Rajeeven_US
dc.contributorShree, Tanimaen_US
dc.contributorSaxena, Maneesha S.en_US
dc.contributorBadoni, Saurabhen_US
dc.contributorkumar, vinoden_US
dc.contributorTripathi, Shaileshen_US
dc.contributorGowda, C. L. L.en_US
dc.contributorSharma, Shivalien_US
dc.contributorSingh, Subeen_US
dc.contributorTyagi, Akhilesh K.en_US
dc.contributorParida, Swarup K.en_US
dc.creatorKujur, Aliceen_US
dc.identifier.citationAlice Kujur, Deepak Bajaj, Hari D. Upadhyaya, Shouvik Das, Rajeev Ranjan, Tanima Shree, Maneesha S. Saxena, Saurabh Badoni, vinod kumar, Shailesh Tripathi, C. L. L. Gowda, Shivali Sharma, Sube Singh, Akhilesh K. Tyagi, Swarup K. Parida. (10/7/2015). A genome-wide SNP scan accelerates trait-regulatory genomic loci identification in chickpea. Scientific Reports, 5: 11166, pp. 1-20.en_US
dc.description.abstractWe identified 44844 high-quality SNPs by sequencing 92 diverse chickpea accessions belonging to a seed and pod trait-specific association panel using reference genome- and de novo-based GBS (genotyping-by-sequencing) assays. A GWAS (genome-wide association study) in an association panel of 211, including the 92 sequenced accessions, identified 22 major genomic loci showing significant association (explaining 23–47% phenotypic variation) with pod and seed number/plant and 100-seed weight. Eighteen trait-regulatory major genomic loci underlying 13 robust QTLs were validated and mapped on an intra-specific genetic linkage map by QTL mapping. A combinatorial approach of GWAS, QTL mapping and gene haplotype-specific LD mapping and transcript profiling uncovered one superior haplotype and favourable natural allelic variants in the upstream regulatory region of a CesA-type cellulose synthase (Ca_Kabuli_CesA3) gene regulating high pod and seed number/plant (explaining 47% phenotypic variation) in chickpea. The up-regulation of this superior gene haplotype correlated with increased transcript expression of Ca_Kabuli_CesA3 gene in the pollen and pod of high pod/seed number accession, resulting in higher cellulose accumulation for normal pollen and pollen tube growth. A rapid combinatorial genome-wide SNP genotyping-based approach has potential to dissect complex quantitative agronomic traits and delineate trait-regulatory genomic loci (candidate genes) for genetic enhancement in crop plants, including chickpea.en_US
dc.publisherNature Research (part of Springer Nature) (Fully open access journals)en_US
dc.sourceScientific Reports; 5:11166,(2015) Pagination 1,20en_US
dc.subjectnatural variation in plantsen_US
dc.titleA genome-wide SNP scan accelerates trait-regulatory genomic loci identification in chickpeaen_US
dc.typeJournal Articleen_US
cg.subject.agrovocplant genetic resourcesen_US
cg.contributor.centerNational Institute of Plant Genome Research - NIPGRen_US
cg.contributor.centerInternational Crops Research Institute for the Semi-Arid Tropics - ICRISATen_US
cg.contributor.centerIndian Council of Agricultural Research, National Research Centre on Plant Biotechnology - ICAR- NRCPBen_US
cg.contributor.centerIndian Council of Agricultural Research, Indian Agricultural Research Institute - ICAR-IARIen_US
cg.contributor.crpCGIAR Research Program on Grain Legumes - GLen_US
cg.contributor.funderCGIAR System Organization - CGIARen_US
cg.isijournalISI journalen_US
dc.identifier.statusOpen accessen_US
cg.journalScientific Reportsen_US

Files in this item


There are no files associated with this item.

This item appears in the following Collection(s)

Show simple item record

DSpace software copyright © 2002-2016  DuraSpace
MELSpace content providers and partners accept no liability to any consequence resulting from use of the content or data made available in this repository. Users of this content assume full responsibility for compliance with all relevant national or international regulations and legislation.
Theme by 
Atmire NV