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Identification of major QTLs underlying tomato spotted wilt virus resistance in peanut cultivar Florida-EPTM ‘113’

Tseng, Yu-Chien, Tillman, Barry L., Peng, Ze, Wang, Jianping
BMC genetics 2016 v.17 no.1 pp. 128
quantitative trait loci, cultivars, microsatellite repeats, peanuts, marker-assisted selection, phenotype, chromosomes, genome, vascular wilt, breeding programs, environmental factors, chromosome mapping, genotype, genotyping by sequencing, Arachis hypogaea, Tomato spotted wilt orthotospovirus, genetic markers, single nucleotide polymorphism, Southeastern United States, Mexico
BACKGROUND: Spotted wilt caused by tomato spotted wilt virus (TSWV) is one of the major peanut (Arachis hypogaea L.) diseases in the southeastern United States. Occurrence, severity, and symptoms of spotted wilt disease are highly variable from season to season, making it difficult to efficiently evaluate breeding populations for resistance. Molecular markers linked to spotted wilt resistance could overcome this problem and allow selection of resistant lines regardless of environmental conditions. Florida-EPᵀᴹ ‘113’ is a spotted wilt resistant cultivar with a significantly lower infection frequency. However, the genetic basis is still unknown. The objective of this study is to map the major quantitative trait loci (QTLs) linked to spotted wilt resistance in Florida-EPᵀᴹ ‘113’. RESULTS: Among 2,431 SSR markers located across the whole peanut genome screened between the two parental lines, 329 were polymorphic. Those polymorphic markers were used to further genotype a representative set of individuals in a segregating population. Only polymorphic markers on chromosome A01 showed co-segregation between genotype and phenotype. Genotyping by sequencing (GBS) of the representative set of individuals in the segregating population also depicted a strong association between several SNPs on chromosome A01 and the trait, indicating a major QTL on chromosome A01. Therefore marker density was enriched on the A01 chromosome. A linkage map with 23 makers on chromosome A01 was constructed, showing collinearity with the physical map. Combined with phenotypic data, a major QTL flanked by marker AHGS4584 and GM672 was identified on chromosome A01, with up to 22.7 % PVE and 9.0 LOD value. CONCLUSION: A major QTL controlling the spotted wilt resistance in Florida-EPᵀᴹ ‘113’ was identified. The resistance is most likely contributed by PI 576638, a hirsuta botanical-type line, introduced from Mexico with spotted wilt resistance. The flanking markers of this QTL can be used for further fine mapping and marker assisted selection in peanut breeding programs.