eprintid: 9436
rev_number: 12
eprint_status: archive
userid: 1305
dir: disk0/00/00/94/36
datestamp: 2016-04-18 08:24:51
lastmod: 2016-10-21 09:35:55
status_changed: 2016-04-18 08:24:51
type: article
metadata_visibility: show
creators_name: Upadhyaya, H D
creators_name: Bajaj, D
creators_name: Das, S
creators_name: Kumar, V
creators_name: Gowda, C L L
creators_name: Sharma, S
creators_name: Tyagi, A K
creators_name: Parida, S K
icrisatcreators_name: Upadhyaya, H D
icrisatcreators_name: Gowda, C L L
icrisatcreators_name: Sharma, S
affiliation: ICRISAT (Patancheru)
affiliation: National Institute of Plant Genome Research (NIPGR) (New Delhi)
affiliation: National Research Centre on Plant Biotechnology (NRCPB) (New Delhi)
country: India
title: Genetic dissection of seed-iron and zinc concentrations in chickpea
ispublished: pub
subjects: s1.1
subjects: s2.10
subjects: s2.13
divisions: D3
crps: crp1.5
full_text_status: public
keywords: Genetic markers, Genome-wide association studies, Genetics, QTL mapping, Chickpea
note: The authors gratefully acknowledge the financial support for this study provided by a research grant from the
Department of Biotechnology (DBT), Government of India (102/IFD/SAN/2161/2013-14). Shouvik Das
acknowledges the DBT for Senior Research Fellowship award
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.
date: 2016-04-11
date_type: published
publication: Scientific Reports
volume: 06
number: 24050
publisher: Nature Publishing Group
pagerange: 01-12
id_number: 10.1038/srep24050
refereed: TRUE
issn: 2045-2322
official_url: http://dx.doi.org/10.1038/srep24050
related_url_url: https://scholar.google.co.in/scholar?hl=en&q=Genetic+dissection+of+seed-iron+and+zinc+concentrations+in+chickpea&btnG=
related_url_type: pub
funders: Department of Biotechnology (DBT), Government of India
citation:   Upadhyaya, H D and Bajaj, D and Das, S and Kumar, V and Gowda, C L L and Sharma, S and Tyagi, A K and Parida, S K  (2016) Genetic dissection of seed-iron and zinc concentrations in chickpea.  Scientific Reports, 06 (24050).  01-12.  ISSN 2045-2322     
document_url: http://oar.icrisat.org/9436/1/srep24050.pdf