Development of 101 gene-based single nucleotide polymorphism markers in sea cucumber, Apostichopus japonicus.

Huixia Du, Zhenmin Bao, Jingjing Yan, Meilin Tian, Xiaoyu Mu, Shi Wang, Wei Lu

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Article in International journal of molecular sciences, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

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1 citing paper in PubMed.

Single Nucleotide Polymorphism Markers with Applications in Conservation and Exploitation of Aquatic Natural Populations.Animals : an open access journal from MDPI · 2023
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7 authors.

Huixia DuKey Laboratory of Marine Genetics and Breeding, College of Marine Life Science, Ocean University of China, Qingdao 266003, China.

Zhenmin BaoKey Laboratory of Marine Genetics and Breeding, College of Marine Life Science, Ocean University of China, Qingdao 266003, China.

Jingjing YanKey Laboratory of Marine Genetics and Breeding, College of Marine Life Science, Ocean University of China, Qingdao 266003, China.

Meilin TianKey Laboratory of Marine Genetics and Breeding, College of Marine Life Science, Ocean University of China, Qingdao 266003, China.

Xiaoyu MuKey Laboratory of Marine Genetics and Breeding, College of Marine Life Science, Ocean University of China, Qingdao 266003, China.

Shi WangKey Laboratory of Marine Genetics and Breeding, College of Marine Life Science, Ocean University of China, Qingdao 266003, China.

Wei LuKey Laboratory of Marine Genetics and Breeding, College of Marine Life Science, Ocean University of China, Qingdao 266003, China.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

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.

Indexed as

Genetic MarkersPolymorphism, Single NucleotideAlgorithmsAnimalsGene FrequencyGenotypeHeterozygoteLinkage DisequilibriumMicrosatellite RepeatsQuantitative Trait LociSea CucumbersTranscriptomeGenetic MarkersApostichopus japonicushigh resolution melting (HRM) analysismarker-assisted selection (MAS)single nucleotide polymorphism (SNP)

Identifiers

PMID22837680

DOI10.3390/ijms13067080

PMCPMC3397512

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