Candidate gene analysis for determinacy in pigeonpea (Cajanus spp.)

Mir, R R and Kudapa, H and Srikanth, S and Saxena, R K and Sharma, A and Azam, S and Saxena, K B and Penmetsa, R V and Varshney, R K (2014) Candidate gene analysis for determinacy in pigeonpea (Cajanus spp.). Theoretical and Applied Genetics, 127 (12). pp. 2663-2678. ISSN 0040-5752

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Pigeonpea (Cajanus cajan) is the sixth most important legume crop grown on ~5 million hectares globally. Determinacy is an agronomically important trait selected during pigeonpea domestication. In the present study, seven genes related to determinacy/flowering pattern in pigeonpea were isolated through a comparative genomics approach. Single nucleotide polymorphism (SNP) analysis of these candidate genes on 142 pigeonpea lines found a strong association of SNPs with the determinacy trait for three of the genes. Subsequently, QTL analysis highlighted one gene, CcTFL1, as a likely candidate for determinacy in pigeonpea since it explained 45–96 % of phenotypic variation for determinacy, 45 % for flowering time and 77 % for plant height. Comparative genomics analysis of CcTFL1 with the soybean (Glycine max) and common bean (Phaseolus vulgaris) genomes at the micro-syntenic level further enhanced our confidence in CcTFL1 as a likely candidate gene. These findings have been validated by expression analysis that showed down regulation of CcTFL1 in a determinate line in comparison to an indeterminate line. Gene-based markers developed in the present study will allow faster manipulation of the determinacy trait in future breeding programs of pigeonpea and will also help in the development of markers for these traits in other related legume species.

Item Type: Article
Divisions: RP-Grain Legumes
CRP: CGIAR Research Program on Grain Legumes
Subjects: Mandate crops > Pigeonpea
Depositing User: Mr B K Murthy
Date Deposited: 01 Dec 2014 08:31
Last Modified: 06 Dec 2018 02:54
Official URL:
Acknowledgement: UNSPECIFIED
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