Genotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea

Saxena, R K and Kale, S M and Kumar, V and Parupalli, S and Joshi, S and Singh, V K and Garg, V and Das, R R and Sharma, M and Yamini, K N and Ghanta, A and Rathore, A and Sameer Kumar, C V and Saxena, K B and Varshney, R K (2017) Genotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea. Scientific Reports, 7 (1813). pp. 1-10. ISSN 2045-2322

[img]
Preview
PDF (It is an Open Access article) - Published Version
Download (2MB) | Preview

Abstract

Sterility mosaic disease (SMD) is one of the serious production constraints that may lead to complete yield loss in pigeonpea. Three mapping populations including two recombinant inbred lines and one F2, were used for phenotyping for SMD resistance at two locations in three different years. Genotyping-by-sequencing approach was used for simultaneous identification and genotyping of SNPs on above mentioned populations. In total, 212,464, 89,699 and 64,798 SNPs were identified in ICPL 20096 × ICPL 332 (PRIL_B), ICPL 20097 × ICP 8863 (PRIL_C) and ICP 8863 × ICPL 87119 (F2) respectively. By using high-quality SNPs, genetic maps were developed for PRIL_B (1,101 SNPs; 921.21 cM), PRIL_C (484 SNPs; 798.25 cM) and F2 (996 SNPs; 1,597.30 cM) populations. The average inter marker distance on these maps varied from 0.84 cM to 1.65 cM, which was lowest in all genetic mapping studies in pigeonpea. Composite interval mapping based QTL analysis identified a total of 10 QTLs including three major QTLs across the three populations. The phenotypic variance of the identified QTLs ranged from 3.6 to 34.3%. One candidate genomic region identified on CcLG11 seems to be promising QTL for molecular breeding in developing superior lines with enhanced resistance to SMD.

Item Type: Article
Divisions: Research Program : Genetic Gains
CRP: CGIAR Research Program on Grain Legumes
Uncontrolled Keywords: Genetic mapping, QTL analysis, Mapping populations, pigeonpea, Sterility mosaic disease, SMD
Subjects: Mandate crops > Pigeonpea
Others > Genetics and Genomics
Depositing User: Mr Ramesh K
Date Deposited: 12 Jun 2017 03:32
Last Modified: 12 Jul 2017 04:59
URI: http://oar.icrisat.org/id/eprint/10042
Official URL: http://dx.doi.org/10.1038/s41598-017-01535-4
Projects: UNSPECIFIED
Funders: United States Agency for International Development (USAID) & Department of Agriculture and Cooperation, Ministry of Agriculture, Government of India
Acknowledgement: Authors are thankful to the United States Agency for International Development (USAID)-India Mission and Department of Agriculture and Cooperation, Ministry of Agriculture, Government of India for the financial support. This work has been undertaken as part of the CGIAR Research Program on Grain Legumes. ICRISAT is a member of CGIAR Consortium.
Links:

Actions (login required)

View Item View Item