Quantitative trait locus analysis and construction of consensus genetic map for foliar disease resistance based on two recombinant inbred line populations in cultivated groundnut (Arachis hypogaea L.)

Sujay, V and Gowda, M V C and Pandey, M K and Bhat, R S and Khedikar, Y P and Nadaf, H L and Gautami, B and Sarvamangala, C and Lingaraju, S and Radhakrishan, T and Knapp, S J and Varshney, R K (2012) Quantitative trait locus analysis and construction of consensus genetic map for foliar disease resistance based on two recombinant inbred line populations in cultivated groundnut (Arachis hypogaea L.). Molecular Breeding, 30 (2). pp. 773-788. ISSN 1572-9788

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Abstract

Late leaf spot (LLS) and rust have the greatest impact on yield losses worldwide in groundnut (Arachis hypogaea L.). With the objective of identifying tightly linked markers to these diseases, a total of 3,097 simple sequence repeats (SSRs) were screened on the parents of two recombinant inbred line (RIL) populations, namely TAG 24 9 GPBD 4 (RIL- 4) and TG 26 9 GPBD 4 (RIL-5), and segregation data were obtained for 209 marker loci for each of the mapping populations. Linkage map analysis of the 209 loci resulted in the mapping of 188 and 181 loci in RIL-4 and RIL-5 respectively. Using 143 markers common to the two maps, a consensus map with 225 SSR loci and total map distance of 1,152.9 cM was developed. Comprehensive quantitative trait locus (QTL) analysis detected a total of 28 QTL for LLS and 15 QTL for rust. A major QTL for LLS, namely QTLLLS01 (GM1573/GM1009-pPGPseq8D09), with 10.27–62.34% phenotypic variance explained (PVE) was detected in all the six environments in the RIL-4 population. In the case of rust resistance, in addition to marker IPAHM103 identified earlier, four new markers (GM2009, GM1536, GM2301 and GM2079) showed significant association with the major QTL (82.96% PVE). Localization of 42 QTL for LLS and rust on the consensus map identified two candidate genomic regions conferring resistance to LLS and rust. One region present on linkage group AhXV contained three QTL each for LLS (up to 67.98% PVE) and rust (up to 82.96% PVE). The second candidate genomic region contained the major QTL with up to 62.34% PVE for LLS. Molecular markers associated with the major QTL for resistance to LLS and rust can be deployed in molecular breeding for developing groundnut varieties with enhanced resistance to foliar diseases.

Item Type: Article
Divisions: UNSPECIFIED
CRP: UNSPECIFIED
Uncontrolled Keywords: Genetic linkage map – Rust resistance – Late leaf spot resistance – Molecular breeding – Molecular markers
Subjects: Mandate crops > Groundnut
Depositing User: Users 6 not found.
Date Deposited: 24 Nov 2011 03:58
Last Modified: 15 Feb 2013 06:11
URI: http://oar.icrisat.org/id/eprint/4277
Official URL: http://dx.doi.org/10.1007/s11032-011-9661-z
Projects: UNSPECIFIED
Funders: Fund for Basic and Strategic Research in Agriculture, Indian Council of Agriculture Research, Government of India - Department of Biotechnology , CGIAR Generation Challenge Programme, Bill and Melinda Gates Foundation
Acknowledgement: The authors are grateful to the National Fund for Basic and Strategic Research in Agriculture (NFBSRA) of the Indian Council of Agriculture Research (ICAR), Department of Biotechnology (DBT) of the Government of India and Tropical Legume I—Objective 1 project of CGIAR Generation Challenge Programme (GCP), Mexico, and the Bill and Melinda Gates Foundation (BMGF), USA.
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