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Abstract
BackgroundRestoration of fertility (Rf) is an important trait for pigeonpea hybrid breeding. Few coarse quantitative trait locus (QTL) studies conducted in the past identified QTLs with large confidence intervals on the genetic map and could not provide any information on possible genes responsible for Rf in pigeonpea. Therefore, a larger population comprising of 369 F2s derived from ICPA 2039 × ICPL 87119 was genotyped with high density Axiom Cajanus SNP Array with 56 K single nucleotide polymorphism (SNPs) for high resolution mapping of Rf.ResultsA genetic map with 4867 markers was developed and a total of four QTLs for Rf were identified. While one major effect QTL (qRf8.1) was co-localized with the QTL identified in two previous studies and its size was refined from 1.2 Mb to 0.41 Mb. Further analysis of qRf8.1 QTL with genome sequence provided 20 genes including two genes namely flowering locus protein T and 2-oxoglutarate/Fe (II)-dependent dioxygenases (2-ODDs) superfamily protein with known function in the restoration of fertility.ConclusionThe qRf8.1 QTL and the potential candidate genes present in this QTL will be valuable for genomics-assisted breeding and identification of causal genes/nucleotides for the restoration of fertility in the hybrid breeding program of pigeonpea.
Highlights
Restoration of fertility (Rf) is an important trait for pigeonpea hybrid breeding
Success of the three-line hybrid breeding system i.e. cytoplasmic genetic male sterility system (CGMS) in any crop species depends on the stability of male sterility and extent/frequency of restoration of fertility (Rf)
Some studies in past indicated that Rf is affected by both minor and major effect quantitative traits loci (QTLs) in pigeonpea [Cajanus cajan
Summary
Restoration of fertility (Rf) is an important trait for pigeonpea hybrid breeding. Few coarse quantitative trait locus (QTL) studies conducted in the past identified QTLs with large confidence intervals on the genetic map and could not provide any information on possible genes responsible for Rf in pigeonpea. A larger population comprising of 369 F2s derived from ICPA 2039 × ICPL 87119 was genotyped with high density Axiom Cajanus SNP Array with 56 K single nucleotide polymorphism (SNPs) for high resolution mapping of Rf. Success of the three-line hybrid breeding system i.e. cytoplasmic genetic male sterility system (CGMS) in any crop species depends on the stability of male sterility and extent/frequency of restoration of fertility (Rf). Fine mapping and subsequently cloning of these QTLs to identify the genes will be useful for pigeonpea improvement. The importance of high resolution mapping and fine mapping has been realized in a number of crop species for several disease resistance and agronomic traits [3,4,5,6,7,8]. QTLs/ genes associated with Rf have been isolated in few crops and vegetable species including barley [9], maize [10] and Chinese cabbage [11]
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