Fragaria x ananassa
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Whole Genome Sequences & Annotations for Fragaria x ananassa
Fragaria x ananassa is the primary cultivated strawberry. It is an octoploid (2n=8x=56) that originated from a natural hybridization, believed to have originated in France, between the two octoploid species F. virginiana (North American origin) and F. chiloensis (South American origin). The estimated genome size of a diploid species, Fragaria vesca, is 240 Mb. Fragaria species grow as perennial crowns and can be propagated sexually by seed, and can also be propagated asexually as runners and crown divisions. Strawberry is used for its nutraceutical properties (fruit and leaf) as well as fresh fruit and processed fruit products. Plants are valued for landscaping and several non-fruiting varieties are available through plant nurseries. Focus of general breeding efforts include yield, flavor, fruit firmness, production timing and disease resistance. Whole genome assembly of F. x ananassa from a Japanese variety 'Reikou' (FAN_r1.1) bred in Chiba Prefecture, is available as well as a virtual 'reference genome', which integrates genome sequences of homeologous chromosomes, and was constructed by eliminating heterozygous bases during sequence assembly (FANhybrid_r1.2). Several linkage and quantitative trait locus (QTL) maps are available for the crop and some species. The diploid species, F. vesca, has been sequenced and the annotated genome is available through GDR.
DNA Testing Handbook
Strawberry DNA Testing Handbook (Download v3.0)
Nahla V. Bassil, USDA-ARS National Clonal Germplasm Repository
In this book, tests are organized by trait (e.g. fruit quality and disease resistance), the gene/QTL being tested, and the test being used. Multiple tests exist for some genes/QTLs that differ in how they are interpreted (e.g. a test visualized via capillary electrophoresis versus one visualized via melt curve analysis). Each test will be listed to allow users to best adapt to available laboratory equipment. For each test, a brief background is provided telling the user: 1) what trait the test targets, 2) what gene/QTL is targeted, and 3) what resources are available that can further describe the test. Next the technical details of the test are provided including the primer sequences and suggested starting reaction mixtures and PCR protocols. Following the technical details, a description of how to interpret the test and control cultivars are listed. Many of these control cultivars can be found at the USDA-ARS National Clonal Germplasm Repository in Corvallis, OR. The final section consists of additional notes and caveats surrounding the test. Users are reminded to read the entire protocol prior to use to identify any caveats related to their testing needs.