A combined BSA-Seq and linkage mapping approach identifies genomic regions associated with Phytophthora root and crown rot resistance in squash

Vogel, Gregory; LaPlant, Kyle E.; Mazourek, Michael; Gore, Michael A.; Smart, Christine D.

doi:10.1007/s00122-020-03747-1

Cited by 28 publications

(29 citation statements)

References 85 publications

(69 reference statements)

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“…The phenotypic distribution in the F 2:3 population was normal, but skewed towards susceptibility, thus supporting a three-gene model previously described for resistance in #181761-36P [15]. A similar skewed distribution was observed in a C. pepo F 2:3 population derived from a cross between a crown rot resistant breeding line #Pc-NY21 and a susceptible cultivar (#Dunja F 1 ) [10], indicating a similar but independent inheritance pattern in both resistant sources. Correlation across the three experiments was moderate (0.57-0.65) but significant, supporting the reliability of the modified spray inoculation protocol [13].…”

Section: Phenotypic Analysissupporting

confidence: 85%

“…Correlation across the three experiments was moderate (0.57-0.65) but significant, supporting the reliability of the modified spray inoculation protocol [13]. Unfortunately, other Phytophthora crown rot QTL mapping studies in squash [10,27] used only single phenotypic screens, thus it's difficult to compare the repeatability of the screens and their effect on QTL detection. Correlations between experiments may be improved by screening a larger number of individuals to increase the accuracy of disease severity means in the F 2:3 families [42].…”

Section: Phenotypic Analysismentioning

confidence: 82%

“…Moreover, cultural control through crop rotation or management of standing water in the field is inadequate because P. capsici endures in the soil as persistent oospores [7,8]. Availability of host resistance could complement integrated pest management strategies for the pathogen; however, no resistant commercial C. pepo cultivars are currently available [9,10]. Commercial cultivars of C. pepo Plants 2021, 10, 2115 2 of 12 can be categorized into eight edible cultivar-groups belonging to either subspecies pepo (Zucchini, Pumpkin, Vegetable Marrow, Cocozelle) or subspecies ovifera (Straightneck, Acorn, Crookneck, Scallop) [11,12].…”

Section: Introductionmentioning

confidence: 99%

“…Analysis of recombinant inbred lines advanced from the same cross with 7718 SNPs yielded a high-density linkage map that allowed identification of 48 QTLs across 43 traits [26]. Recently, Vogel et al [10] combined linkage mapping with BSA-Seq to identify six QTLs associated with resistance to Phytophthora root and crown rot in C. pepo in an F 2 population derived from a cross between #Pc-NY21 (resistance derived from PI 615089) and #Dunja F 1 (a susceptible zucchini cultivar). Two of these QTLs were syntenic to genomic regions associated with crown rot resistance in C. moschata [27], suggesting a common evolutionary origin of resistance in Cucurbita [10].…”

Section: Introductionmentioning

confidence: 99%

“…The goal of the current study was to identify QTL, DNA markers and candidate genes associated with Phytophthora crown rot resistance in #181761-36P. These tools will not only allow efficient introgression of #181761-36P resistance into elite cultivars through MAS, but also facilitate pyramiding with other resistance QTLs previously identified in C. pepo [10].…”

Section: Introductionmentioning

confidence: 99%

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A Novel QTL for Resistance to Phytophthora Crown Rot in Squash

Michael

Shrestha

et al. 2021

Plants

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Phytophthora capsici Leonian causes significant yield losses in commercial squash (Cucurbita pepo) production worldwide. The deployment of resistant cultivars can complement integrated management practices for P. capsici, but resistant cultivars are currently unavailable for growers. Moderate resistance to Phytophthora crown rot in a selection of accession PI 181761 (C. pepo) (designated line #181761-36P) is controlled by three dominant genes (R4, R5 and R6). Introgression of these loci into elite germplasm through marker-assisted selection (MAS) can accelerate the release of new C. pepo cultivars resistant to crown rot, but these tools are currently unavailable. Here we describe the identification of a quantitative trait locus (QTL), molecular markers and candidate genes associated with crown rot resistance in #181761-36P. Five hundred and twenty-three SNP markers were genotyped in an F2 (n = 83) population derived from a cross between #181761-36P (R) and Table Queen (S) using targeted genotyping by sequencing. A linkage map (2068.96 cM) consisting of twenty-one linkage groups and an average density of 8.1 markers/cM was developed for the F2 population. The F2:3 families were phenotyped in the greenhouse with a virulent strain of P. capsica, using the spore-spray method. A single QTL (QtlPC-C13) was consistently detected on LG 13 (chromosome 13) across three experiments and explained 17.92–21.47% of phenotypic variation observed in the population. Nine candidate disease resistance gene homologs were found within the confidence interval of QtlPC-C13. Single nucleotide polymorphism (SNP) markers within these genes were converted into Kompetitive Allele Specific PCR (KASP) assays and tested for association with resistance in the F2 population. One SNP marker (C002686) was significantly associated with resistance to crown rot in the F2 population (p < 0.05). This marker is a potential target for MAS for crown rot resistance in C. pepo.

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Section: Phenotypic Analysissupporting

confidence: 85%