Please use this identifier to cite or link to this item:
http://223.31.159.10:8080/jspui/handle/123456789/635
Title: | Genome-wide scans for delineation of candidate genes regulating seed-protein content in chickpea |
Authors: | Upadhyaya, Hari D. Bajaj, Deepak Narnoliya, Laxmi Das, Shouvik Kumar, Vinod Gowda, C. L. L. Sharma, Shivali Tyagi, Akhilesh K. Parida, Swarup K. |
Keywords: | chickpea GBS GWAS QTL seed-protein content SNP |
Issue Date: | 2016 |
Publisher: | Frontiers Media S.A. |
Citation: | Front. Plant Sc., 7: 302 |
Abstract: | Identification of potential genes/alleles governing complex seed-protein content (SPC) is essential in marker-assisted breeding for quality trait improvement of chickpea. Henceforth, the present study utilized an integrated genomics-assisted breeding strategy encompassing trait association analysis, selective genotyping in traditional bi-parental mapping population and differential expression profiling for the first-time to understand the complex genetic architecture of quantitative SPC trait in chickpea. For GWAS (genome-wide association study), high-throughput genotyping information of 16376 genome-based SNPs (single nucleotide polymorphism) discovered from a structured population of 336 sequenced desi and kabuli accessions [with 150–200 kb LD (linkage disequilibrium) decay] was utilized. This led to identification of seven most effective genomic loci (genes) associated [10–20% with 41% combined PVE (phenotypic variation explained)] with SPC trait in chickpea. Regardless of the diverse desi and kabuli genetic backgrounds, a comparable level of association potential of the identified seven genomic loci with SPC trait was observed. Five SPC-associated genes were validated successfully in parental accessions and homozygous individuals of an intra-specific desi RIL (recombinant inbred line) mapping population (ICC 12299 × ICC 4958) by selective genotyping. The seed-specific expression, including differential up-regulation (>four fold) of six SPC-associated genes particularly in accessions, parents and homozygous individuals of the aforementioned mapping population with a high level of contrasting SPC (21–22%) was evident. Collectively, the integrated genomic approach delineated diverse naturally occurring novel functional SNP allelic variants in six potential candidate genes regulating SPC trait in chickpea. Of these, a non-synonymous SNP allele-carrying zinc finger transcription factor gene exhibiting strong association with SPC trait was found to be the most promising in chickpea. The informative functionally relevant molecular tags scaled-down essentially have potential to accelerate marker-assisted genetic improvement by developing nutritionally rich chickpea cultivars with enhanced SPC. |
Description: | Accepted date: 25 February 2016 |
URI: | http://172.16.0.77:8080/jspui/handle/123456789/635 |
ISSN: | 1664-462X |
Appears in Collections: | Institutional Publications |
Files in This Item:
File | Description | Size | Format | |
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Parida SK_2016_2.pdf | 3.52 MB | Adobe PDF | ![]() View/Open |
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