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Int. J. Mol. Sci. 2009, 10(1), 18-27; doi:10.3390/ijms10010018

Isolation and Characterization of Novel Microsatellite Markers for Yellow Perch (Perca flavescens)

1 Aquaculture Genetics and Breeding Laboratory, Ohio State University Aquaculture Research and Development Integration Program, 1864 Shyville Road, Piketon, Ohio 45661, USA 2 Department of Chemical & Biomolecular Engineering, Ohio State University, 140 West 19th Ave., Columbus, Ohio 43210, USA 3 Ecological Genetics Laboratory, Virginia Commonwealth University, Richmond, Virginia 23284, USA
* Author to whom correspondence should be addressed.
Received: 27 November 2008 / Revised: 15 December 2008 / Accepted: 18 December 2008 / Published: 27 December 2008
(This article belongs to the Section Biochemistry, Molecular Biology and Biophysics)
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To perform whole genome scanning for complex trait analysis, we isolated and characterized a total of 21 novel genomic-SSRs and EST-SSRs for yellow perch (Perca flavescens), using the methods of construction of SSR-enrichment libraries and EST database mining of a related species P. fluviatilis. Of 16 genomic-SSR primer pairs examined, eight successfully amplified scorable products. The number of alleles at these informative loci varied from 3 - 14 with an average of 8.5 alleles per locus. When tested on wild perch from a population in Pennsylvania, observed and expected heterozygosities ranged from 0.07 - 0.81 and from 0.37 - 0.95, respectively. Of 2,226 EST sequences examined, only 110 (4.93%) contained microsatellites and for those, 13 markers were tested, 12 of which exhibited polymorphism. Compared with genomic-SSRs, EST-SSRs exhibited a lower level of genetic variability with the number of alleles of averaging only 2.6 alleles per locus. Cross-species utility indicated that three of the genomic-SSRs and eight of the EST-SSRs successfully cross-amplified in a related species, the walleye (Sander vitreus).
Keywords: Microsatellite; genomic-SSRs; EST-SSRs; yellow perch Perca flavescens Microsatellite; genomic-SSRs; EST-SSRs; yellow perch Perca flavescens
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.

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Zhan, A.; Wang, Y.; Brown, B.; Wang, H.-P. Isolation and Characterization of Novel Microsatellite Markers for Yellow Perch (Perca flavescens). Int. J. Mol. Sci. 2009, 10, 18-27.

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