title: Novel microsatellite markers acquired from Rubus coreanus Miq. and cross-amplification in other Rubus species.
abstract: The Rubus genus consists of more than 600 species that are distributed globally. Only a few Rubus species, including raspberries and blueberries, have been domesticated. Genetic diversity within and between Rubus species is an important resource for breeding programs. We developed genomic microsatellite markers using an SSR-enriched R. coreanus library to study the diversity of the Rubus species. Microsatellite motifs were discovered in 546 of 646 unique clones, and a dinucleotide repeat was the most frequent (75.3%) type of repeat. From 97 microsatellite loci with reproducible amplicons, we acquired 29 polymorphic microsatellite markers in the Rubus coreanus collection. The transferability values ranged from 59.8% to 84% across six Rubus species, and Rubus parvifolius had the highest transferability value (84%). The average number of alleles and the polymorphism information content were 5.7 and 0.541, respectively, in the R. coreanus collection. The diversity index of R. coreanus was similar to the values reported for other Rubus species. A phylogenetic dendrogram based on SSR profiles revealed that seven Rubus species could be allocated to three groups, and that R. coreanus was genetically close to Rubus crataegifolius (mountain berry). These new microsatellite markers might prove useful in studies of the genetic diversity, population structure, and evolutionary relationships among Rubus species.
authors: National Agrobiodiversity Center, National Academy of Agricultural Science, Rural Development Administration, Jeonju 560-500, Korea. gkntl1@korea.kr.
authors: Gi-An
authors: GA
authors: Lee
authors: National Agrobiodiversity Center, National Academy of Agricultural Science, Rural Development Administration, Jeonju 560-500, Korea. jysong77@korea.kr.
authors: Jae Young
authors: JY
authors: Song
authors: Black Raspberry R&D Team, Gochanggun Agricultural Extension Center, Gochang, Jeollabuk-do 585-943, Korea. hehranchoi@korea.kr.
authors: Heh-Ran
authors: HR
authors: Choi
authors: National Agrobiodiversity Center, National Academy of Agricultural Science, Rural Development Administration, Jeonju 560-500, Korea. jwchung73@korea.kr.
authors: Jong-Wook
authors: JW
authors: Chung
authors: National Agrobiodiversity Center, National Academy of Agricultural Science, Rural Development Administration, Jeonju 560-500, Korea. yjeon@korea.kr.
authors: Young-Ah
authors: YA
authors: Jeon
authors: National Agrobiodiversity Center, National Academy of Agricultural Science, Rural Development Administration, Jeonju 560-500, Korea. jrmail@korea.kr.
authors: Jung-Ro
authors: JR
authors: Lee
authors: National Agrobiodiversity Center, National Academy of Agricultural Science, Rural Development Administration, Jeonju 560-500, Korea. khma@korea.kr.
authors: Kyung-Ho
authors: KH
authors: Ma
authors: National Agrobiodiversity Center, National Academy of Agricultural Science, Rural Development Administration, Jeonju 560-500, Korea. mcleekor@korea.kr.
authors: Myung-Chul
authors: MC
authors: Lee
mesh_terms: D018744:DNA, Plant; D005819:Genetic Markers; D014644:Genetic Variation; D018895:Microsatellite Repeats; D021141:Nucleic Acid Amplification Techniques; D059372:Nucleotide Motifs; D010802:Phylogeny; D011110:Polymorphism, Genetic; D065856:Rubus / Q000145:classification / Q000235:genetics*
chemical_list: D018744:DNA, Plant; D005819:Genetic Markers