Strawberry GenBank-derived and Genomic Simple Sequence Repeat (SSR) Markers and Their Utility with Strawberry, Blackberry, and Red and Black Raspberry
By K. Lewers, S. Styan, S. Hokanson, N. Bassil. 2005
101 citations recorded by the source corpus.
Although simple sequence repeat (SSR) markers have been developed for species in the closely related genera Fragaria L. (strawberry) and Rubus L. (raspberry and blackberry), the number of SSRs available is insuffi cient for genetic mapping. Our objective was to use and compare multiple approaches for developing additional SSRs for Fragaria and Rubus. The approaches included: the development of SSRs from GenBank sequences from species of varied relatedness to Fragaria and Rubus and identifi ed with two different data-mining methods (BLAST and SSRIT); the evaluation of some previously published SSRs designed from related species; and the development of SSRs from a genomic library made from F. ×ananassa Duschene ex Rozier ʻEarliglowʼ. When an SSR was developed from a known gene sequence, the location of the repeat in the gene was determined to evaluate the effect on amplifi cation and poly- morphism detection. Cross-generic amplifi cation between closely related Fragaria and Rubus as well as transference from species of varied relatedness to Fragaria and Rubus also was evaluated and indicated limited transference within the subfamily Rosoideae. However, development of SSRs for Fragaria and Rubus from Rosa L. (rose) and Rosaceae genera outside Rosoideae was not effi cient enough to be practical for new map development. SSRIT was superior to BLAST for identifying GenBank sequences containing repeats. SSRs developed from repeats found in either the 5´UTR (80% polymorphic) or 3´UTR (85% polymorphic) were most likely to detect polymorphisms, compared with those developed from coding regions (30%). SSRs developed from the genomic library were only slightly superior to GenBank-derived SSRs in their ability to detect polymorphisms. Single sequence repeat (SSR) molecular markers have become valuable genetic markers in plant studies, with applications that include linkage mapping (Akkaya et al., 1995), cultivar identifi ca-
Subfields: Cell Biology, Plant Science
View Paper: https://www.semanticscholar.org/paper/733e2a004c7a0616df3fcdc8d5c65b4d2819533a
How researchers see this paper
The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.
In Cell Biology
In Plant Science
Citations in the corpus
- Strawberry Genes and Genomics (2006, methodology): “This study found that SSR marker transferability among Fragaria species and subspecies was generally very good (in the 70 to 100% range), as compared with the poor to zero rates of Fragaria-derived SSR primer pair functionality in other Rosoideae genera, as reported by Lewers et al. (2005).”
- Blackberry Breeding and Genetics (2007, unknown): “, Lewers et al. (2004, 2005) (derived from Fragaria × ananassa), and Rosa.”