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Molecules 2015, 20(4), 6432-6442; doi:10.3390/molecules20046432

Novel Microsatellite Markers Acquired from Rubus coreanus Miq. and Cross-Amplification in Other Rubus Species

1
National Agrobiodiversity Center, National Academy of Agricultural Science, Rural Development Administration, Jeonju 560-500, Korea
2
Black Raspberry R&D Team, Gochanggun Agricultural Extension Center, Gochang, Jeollabuk-do 585-943, Korea
*
Author to whom correspondence should be addressed.
Academic Editor: Derek J. McPhee
Received: 13 February 2015 / Revised: 26 March 2015 / Accepted: 7 April 2015 / Published: 10 April 2015
(This article belongs to the Section Molecular Diversity)
View Full-Text   |   Download PDF [686 KB, uploaded 10 April 2015]   |  

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. View Full-Text
Keywords: microsatellite; genetic diversity; transferability; Rubus genus microsatellite; genetic diversity; transferability; Rubus genus
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This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. (CC BY 4.0).

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MDPI and ACS Style

Lee, G.-A.; Song, J.Y.; Choi, H.-R.; Chung, J.-W.; Jeon, Y.-A.; Lee, J.-R.; Ma, K.-H.; Lee, M.-C. Novel Microsatellite Markers Acquired from Rubus coreanus Miq. and Cross-Amplification in Other Rubus Species. Molecules 2015, 20, 6432-6442.

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