Transferability of cupped oyster EST (Expressed Sequence Tag)-derived SNP (Single Nucleotide Polymorphism) markers to related crassostrea and ostrea species

Kim, Woo-Jin, Jung, Hyungtaek, Shin, Eun-Ha, & Baek, Ilseon (2014) Transferability of cupped oyster EST (Expressed Sequence Tag)-derived SNP (Single Nucleotide Polymorphism) markers to related crassostrea and ostrea species. The Korean Journal of Malacology, 30(3), pp. 197-210.

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Single nucleotide polymorphisms (SNPs) are widely acknowledged as the marker of choice for many genetic and genomic applications because they show co-dominant inheritance, are highly abundant across genomes and are suitable for high-throughput genotyping. Here we evaluated the applicability of SNP markers developed from Crassostrea gigas and C. virginica expressed sequence tags (ESTs) in closely related Crassostrea and Ostrea species. A total of 213 putative interspecific level SNPs were identified from re-sequencing data in six amplicons, yielding on average of one interspecific level SNP per seven bp. High polymorphism levels were observed and the high success rate of transferability show that genic EST-derived SNP markers provide an efficient method for rapid marker development and SNP discovery in closely related oyster species. The six EST-SNP markers identified here will provide useful molecular tools for addressing questions in molecular ecology and evolution studies including for stock analysis (pedigree monitoring) in related oyster taxa.

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ID Code: 87259
Item Type: Journal Article
Refereed: Yes
Additional URLs:
Keywords: SNPs, EST, Crassostrea, Ostrea, Transferability, Type I markers
DOI: 10.9710/kjm.2014.30.3.197
ISSN: 1225-3480
Divisions: Current > Research Centres > Centre for Tropical Crops and Biocommodities
Current > Schools > School of Earth, Environmental & Biological Sciences
Current > Institutes > Institute for Future Environments
Current > QUT Faculties and Divisions > Science & Engineering Faculty
Copyright Owner: Copyright 2014 please consult author[s].
Copyright Statement: This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License with permits unrestricted non-commercial use, distribution, and reproducibility in any medium, provided the original work is properly cited.
Deposited On: 10 Sep 2015 01:57
Last Modified: 14 Sep 2015 22:50

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