Family‐based linkage and association mapping reveals novel genes affecting Plum pox virus infection in Arabidopsis thaliana

Abstract

SummarySharka is a devastating viral disease caused by the Plum pox virus (PPV) in stone fruit trees and few sources of resistance are known in its natural hosts. Since any knowledge gained from Arabidopsis on plant virus susceptibility factors is likely to be transferable to crop species, Arabidopsis's natural variation was searched for host factors essential for PPV infection.To locate regions of the genome associated with susceptibility to PPV, linkage analysis was performed on six biparental populations as well as on multiparental lines. To refine quantitative trait locus (QTL) mapping, a genome-wide association analysis was carried out using 147 Arabidopsis accessions.Evidence was found for linkage on chromosomes 1, 3 and 5 with restriction of PPV longdistance movement. The most relevant signals occurred within a region at the bottom of chromosome 3, which comprises seven RTM3-like TRAF domain-containing genes. Since the resistance mechanism analyzed here is recessive and the rtm3 knockout mutant is susceptible to PPV infection, it suggests that other gene(s) present in the small identified region encompassing RTM3 are necessary for PPV long-distance movement.In consequence, we report here the occurrence of host factor(s) that are indispensable for virus long-distance movement.

Dissecting quantitative trait variation in the resequencing era: complementarity of bi-parental, multi-parental and association panels

“…He suggested that an increasing number of small effect loci will be detected but also that the combination of pedigree and natural populations will elucidate the patterns of trait variation. In addition, the combination of quantitative and population genetics makes sense as breeding system, effective population size, selective history and population demography influence the genetic architecture of traits, as illustrated in Arabidopsis to detect genes associated to the resistance to the PPV virus [68].…”

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