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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 (CC BY 3.0).

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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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