Phenotyping diverse strawberry (Fragaria spp.) germplasm for aid in marker- assisted breeding, and marker-trait association for red stele (Phytophthora fragariae) resistance marker Rpf1 Public Deposited

http://ir.library.oregonstate.edu/concern/graduate_thesis_or_dissertations/df65vb56v

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  • Strawberry is one of four crops included in the USDA-NIFA Specialty Crop Research Initiative-funded RosBREED project along with apple, peach, and cherry. Phenotyping strawberry for specific horticultural and commercial traits is important to identify associations with genotypic marker(s). This process is the first step in translating genomic knowledge into enhanced breeding efficiency through marker- assisted breeding. Four trait categories were studied: phenology and flowering traits, plant characteristics, fruit characteristics, and fruit chemistry. RosBREED strawberry germplasm consisted of 947 individuals representing the breadth of diversity used in breeding the domesticated strawberry. These individuals were planted in replicated fields in Oregon, California, Michigan, New Hampshire and Florida and phenotyped in 2011 and 2012. In addition, a simple sequence repeat (SSR) set composed of the Rpf1 SSR marker and ARSFL007 was used to genotype the RosBREED strawberry germplasm for marker presence and parentage confirmation. A subset of 153 individuals from the RosBREED collection was inoculated in bench tests with two races of Phytophthora fragariae and disease response was compared to validate the Rpf1 SSR association. Ten progeny from 36 crosses of genotypes representing eastern and western North American and European short day and remontant strawberry cultivars were included as part of the RosBREED strawberry phenotypic collection. This set of germplasm was used to calculate genotype by environment interaction as well as determine general and specific combining ability variance components and effects for the populations among the RosBREED field sites (OR, CA, MI, NH and FL).
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