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A combinatorial approach of comprehensive QTL-based comparative genome mapping and transcript profiling identified a seed weight-regulating candidate gene in chickpea

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Title A combinatorial approach of comprehensive QTL-based comparative genome mapping and transcript profiling identified a seed weight-regulating candidate gene in chickpea
 
Creator Bajaj, Deepak
Upadhyaya, Hari D.
Khan, Yusuf
Das, Shouvik
Badoni, Saurabh
Shree, Tanima
Kumar, Vinod
Tripathi, Shailesh
Gowda, C. L. L.
Singh, Sube
Sharma, Shivali
Tyagi, Akhilesh K.
Chattopadhyay, Debasis
Parida, Swarup K.
 
Subject Agricultural genetics
Natural variation in plants
 
Description Accepted date: 13 February 2015
High experimental validation/genotyping success rate (94-96%) and intra-specific polymorphic potential (82-96%) of 1536 SNP and 472 SSR markers showing in silico polymorphism between desi ICC 4958 and kabuli ICC 12968 chickpea was obtained in a 190 mapping population (ICC 4958 × ICC 12968) and 92 diverse desi and kabuli genotypes. A high-density 2001 marker-based intra-specific genetic linkage map comprising of eight LGs constructed is comparatively much saturated (mean map-density: 0.94 cM) in contrast to existing intra-specific genetic maps in chickpea. Fifteen robust QTLs (PVE: 8.8-25.8% with LOD: 7.0-13.8) associated with pod and seed number/plant (PN and SN) and 100 seed weight (SW) were identified and mapped on 10 major genomic regions of eight LGs. One of 126.8 kb major genomic region harbouring a strong SW-associated robust QTL (Caq'SW1.1: 169.1-171.3 cM) has been delineated by integrating high-resolution QTL mapping with comprehensive marker-based comparative genome mapping and differential expression profiling. This identified one potential regulatory SNP (G/A) in the cis-acting element of candidate ERF (ethylene responsive factor) TF (transcription factor) gene governing seed weight in chickpea. The functionally relevant molecular tags identified have potential to be utilized for marker-assisted genetic improvement of chickpea.
The authors gratefully acknowledge the financial support by the Department of
Biotechnology (DBT), Government of India, through their research grant (102/IFD/SAN/
2161/2013-14) for this research work. SD acknowledge the DBT for Junior Research
Fellowship award. We thank the DNA Sequencing Facility, NIPGR for automated fragment
analysis and sequencing.
 
Date 2016-01-01T06:27:13Z
2016-01-01T06:27:13Z
2015
 
Type Article
 
Identifier Scientific Reports, 5: 9264
2045-2322
http://172.16.0.77:8080/jspui/handle/123456789/488
http://www.nature.com/articles/srep09264
10.1038/srep09264
 
Language en_US
 
Publisher Nature Publishing Group