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Int. J. Mol. Sci. 2012, 13(6), 7080-7097; doi:10.3390/ijms13067080

Development of 101 Gene-based Single Nucleotide Polymorphism Markers in Sea Cucumber, Apostichopus japonicus

Key Laboratory of Marine Genetics and Breeding, College of Marine Life Science, Ocean University of China, Qingdao 266003, China
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Received: 25 April 2012 / Revised: 25 May 2012 / Accepted: 25 May 2012 / Published: 8 June 2012
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Abstract

Single nucleotide polymorphisms (SNPs) are currently the marker of choice in a variety of genetic studies. Using the high resolution melting (HRM) genotyping approach, 101 gene-based SNP markers were developed for Apostichopus japonicus, a sea cucumber species with economic significance for the aquaculture industry in East Asian countries. HRM analysis revealed that all the loci showed polymorphisms when evaluated using 40 A. japonicus individuals collected from a natural population. The minor allele frequency ranged from 0.035 to 0.489. The observed and expected heterozygosities ranged from 0.050 to 0.833 and 0.073 to 0.907, respectively. Thirteen loci were found to depart significantly from Hardy–Weinberg equilibrium (HWE) after Bonferroni corrections. Significant linkage disequilibrium (LD) was detected in one pair of markers. These SNP markers are expected to be useful for future quantitative trait loci (QTL) analysis, and to facilitate marker-assisted selection (MAS) in A. japonicus. View Full-Text
Keywords: single nucleotide polymorphism (SNP); Apostichopus japonicus; high resolution melting (HRM) analysis; marker-assisted selection (MAS) single nucleotide polymorphism (SNP); Apostichopus japonicus; high resolution melting (HRM) analysis; marker-assisted selection (MAS)
This is an open access article distributed under the Creative Commons Attribution License (CC BY 3.0).

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Du, H.; Bao, Z.; Yan, J.; Tian, M.; Mu, X.; Wang, S.; Lu, W. Development of 101 Gene-based Single Nucleotide Polymorphism Markers in Sea Cucumber, Apostichopus japonicus. Int. J. Mol. Sci. 2012, 13, 7080-7097.

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