High‐density genetic map using whole‐genome resequencing for fine mapping and candidate gene discovery for disease resistance in peanut

Autor:	Guodong Huang, Rupesh Deshmukh, David J. Bertioli, Hui Wang, Xin Liu, Josh Clevenger, Scott A. Jackson, Xingjun Wang, Rajeev K. Varshney, Yaduru Shasidhar, Manish K. Pandey, Jake C. Fountain, Divya Choudhary, Gaurav Agarwal, Albert K. Culbreath, Baozhu Guo, C. Corley Holbrook, Ye Chu, Peggy Ozias-Akins
Jazyk:	angličtina
Rok vydání:	2018
Předmět:	0106 biological sciences 0301 basic medicine Candidate gene Arachis Population Plant Science Quantitative trait locus Biology whole‐genome resequencing early leaf spot Genes Plant 01 natural sciences 03 medical and health sciences Gene mapping Gene interaction education Research Articles Disease Resistance Genetics education.field_of_study high‐density genetic map food and beverages Chromosome Mapping Plant disease Tomato spotted wilt virus 030104 developmental biology Genetic marker quantitative trait loci Epistasis late leaf spot Agronomy and Crop Science Genome Plant 010606 plant biology & botany Biotechnology Research Article
Zdroj:	Plant Biotechnology Journal
ISSN:	1467-7652 1467-7644
Popis:	Summary Whole‐genome resequencing (WGRS) of mapping populations has facilitated development of high‐density genetic maps essential for fine mapping and candidate gene discovery for traits of interest in crop species. Leaf spots, including early leaf spot (ELS) and late leaf spot (LLS), and Tomato spotted wilt virus (TSWV) are devastating diseases in peanut causing significant yield loss. We generated WGRS data on a recombinant inbred line population, developed a SNP‐based high‐density genetic map, and conducted fine mapping, candidate gene discovery and marker validation for ELS, LLS and TSWV. The first sequence‐based high‐density map was constructed with 8869 SNPs assigned to 20 linkage groups, representing 20 chromosomes, for the ‘T’ population (Tifrunner × GT‐C20) with a map length of 3120 cM and an average distance of 1.45 cM. The quantitative trait locus (QTL) analysis using high‐density genetic map and multiple season phenotyping data identified 35 main‐effect QTLs with phenotypic variation explained (PVE) from 6.32% to 47.63%. Among major‐effect QTLs mapped, there were two QTLs for ELS on B05 with 47.42% PVE and B03 with 47.38% PVE, two QTLs for LLS on A05 with 47.63% and B03 with 34.03% PVE and one QTL for TSWV on B09 with 40.71% PVE. The epistasis and environment interaction analyses identified significant environmental effects on these traits. The identified QTL regions had disease resistance genes including R‐genes and transcription factors. KASP markers were developed for major QTLs and validated in the population and are ready for further deployment in genomics‐assisted breeding in peanut.
Databáze:	OpenAIRE
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