Genetic dissection of seed-iron and zinc concentrations in chickpea
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Title |
Genetic dissection of seed-iron and zinc concentrations in chickpea
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Creator |
Upadhyaya, Hari D.
Bajaj, Deepak Das, Shouvik Kumar, Vinod Gowda, C. L. L. Sharma, Shivali Tyagi, Akhilesh K. Parida, Swarup K. |
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Subject |
Genome-wide association studies
Genetic markers |
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Description |
Accepted date: 18 March 2016
he 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. 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. |
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Date |
2016-04-18T09:42:42Z
2016-04-18T09:42:42Z 2016 |
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Type |
Article
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Identifier |
Scientific Reports, 6: 24050
2045-2322 http://172.16.0.77:8080/jspui/handle/123456789/638 http://www.nature.com/articles/srep24050 10.1038/srep24050 |
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Language |
en_US
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Publisher |
Nature Publishing Group
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