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

Publication Overview
TitleA combinatorial approach of comprehensive QTL-based comparative genome mapping and transcript profiling identified a seed weight-regulating candidate gene in chickpea
AuthorsBajaj D, Upadhyaya HD, Khan Y, Das S, Badoni S, Shree T, Kumar V, Tripathi S, Gowda CLL, Singh S, Sharma S, Tyagi AK, Chattopdhyay D, Parida SK
TypeJournal Article
Journal NameScientific Reports
Volume5
Year2015
Page(s)9264
CitationBajaj D, Upadhyaya HD, Khan Y, Das S, Badoni S, Shree T, Kumar V, Tripathi S, Gowda CLL, Singh S, Sharma S, Tyagi AK, Chattopdhyay D, Parida SK. A combinatorial approach of comprehensive QTL-based comparative genome mapping and transcript profiling identified a seed weight-regulating candidate gene in chickpea. Scientific Reports. 2015; 5:9264.

Abstract

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 3 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.
Features
This publication contains information about 2,044 features:
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Ca-II-SNP0402Ca-II-SNP0402genetic_marker
Ca-II-SNP0403Ca-II-SNP0403genetic_marker
Ca-II-SNP0404Ca-II-SNP0404genetic_marker
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Ca-II-SNP0424Ca-II-SNP0424genetic_marker
Ca-II-SNP0425Ca-II-SNP0425genetic_marker

Pages

Projects
This publication contains information about 1 projects:
Project NameDescription
Chickpea-Seed_weight-Bajaj-2015
Featuremaps
This publication contains information about 1 maps:
Map Name
Chickpea-ICC4958/ICC12968-F4
Stocks
This publication contains information about 1 stocks:
Stock NameUniquenameType
ICC4958/ICC12968-F4ICC4958/ICC12968-F4population
Properties
Additional details for this publication include:
Property NameValue
URLhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4365403/