Publication Overview
TitleGenetic dissection of seed-iron and zinc concentrations in chickpea
AuthorsUpadhyaya H, Bajaj D, Das S, Kumar V, Gowda CLL, Sharma S, Tyagi A, Parida S
TypeJournal Article
Journal NameScientific Reports
Volume6
Issue24050
Year2016
Page(s)1-12
CitationUpadhyaya H, Bajaj D, Das S, Kumar V, Gowda CLL, Sharma S, Tyagi A, Parida S. Genetic dissection of seed-iron and zinc concentrations in chickpea. Scientific Reports. 2016; 6(24050):1-12.

Abstract

The SNP-based high-resolution QTL mapping mapped eight major genomic regions harbouring robust QTLs governing seed-Fe and Zn concentrations (39.4% combined phenotypic variation explained/PVE) on six chromosomes of an intra-specific high-density genetic linkage map (1.56 cM map-density). 24620 SNPs discovered from genome-wide GBS (genotyping-by-sequencing) and 13 known cloned Fe and Zn contents-related chickpea gene-orthologs were genotyped in a structured population of 92 sequenced desi and kabuli accessions. The large-scale 16591 SNP genotyping- and phenotyping-based GWAS (genome-wide association study) identified 16 genomic loci/genes associated (29% combined PVE) with seed-Fe and Zn concentrations. Of these, 11 trait-associated SNPs in the genes linked tightly with eight QTLs were validated by QTL mapping. The seed-specific expression, including pronounced differential-regulation of 16 trait-associated genes particularly in accessions/mapping individuals with contrasting level of seed-Fe and Zn contents was apparent. Collectively, the aforementioned rapid integrated genomic strategy led to delineate novel functional non-synonymous and regulatory SNP allelic-variants from 16 known/candidate genes, including three strong trait-associated genes (encoding late embryogenesis abundant and yellow stripe-like 1 protein, and vacuolar protein sorting-associated protein) and eight major QTLs regulating seed-Fe and Zn concentrations in chickpea. These essential inputs thus have potential to be deployed in marker-assisted genetic enhancement for developing nutritionally-rich iron/zinc-biofortified chickpea cultivars.
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Pages

Projects
This publication contains information about 1 projects:
Project NameDescription
Chickpea-Iron_Zinc_Conc-Upadhyaya-2016
Featuremaps
This publication contains information about 1 maps:
Map Name
Chickpea-ICC4958_x_ICC8261-RIL-2016
Stocks
This publication contains information about 3 stocks:
Stock NameUniquenameType
ICC 4958ICC 4958accession
ICC 8261ICC 8261accession
ICC4958_x_ICC8261ICC4958_x_ICC8261population
Properties
Additional details for this publication include:
Property NameValue
DOIDOI: 10.1038/srep24050
URLhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4827059/