文献类型：期刊文献

英文题名：Highly efficient identification of thousands of microsatellite loci in the pearl oyster (Pinctada martensii) from RNA-Seq

作者：Guo, Yu-Song[1];Wang, Xue-Ying[1];Wang, Zhong-Duo[1];Zhao, Xiao-Xia[1];Wang, Qing-Heng[1];Deng, Yue-Wen[1];Du, Xiao-Dong[1]

机构：[1]Guangdong Ocean Univ, Coll Fisheries, Zhanjiang 524025, Peoples R China

年份：2015

卷号：61

起止页码：149

外文期刊名：BIOCHEMICAL SYSTEMATICS AND ECOLOGY

收录：SCI-EXPANDED(收录号：WOS:000361164800019)、、WOS

基金：The study was financially supported National Science and Technology Achievements Transformation Project (2011GB2E000008), China Agriculture Research System (CARS-048), and Excellent Young Teachers Program of Guangdong Province (Yq2013091 and Yq2013089).

语种：英文

外文关键词：Aquatic genomics; Pinctada martensii; High-throughput marker identification; Microsatellite DNA

外文摘要：High-throughput RNA-Seq affords a cost and time effective means of obtaining large numbers of genetic markers for aquatic genomics. Here, we present thousands of novel microsatellite loci developed for the pearl oyster, Pinctada martensii from the Illumina HiSeqTM 2000 library of the pearl sac. Free user-friendly bioinformatics tools were employed to screen for microsatellite loci and design appropriate primers in 102,762 unigenes with 7216 microsatellite loci identified in total, 4862 of which had flanking sequences suitable for polymerase chain reaction primer design. The 50 randomly chosen primer pairs were tested in two populations of pearl oyster (base population (POP1) and selected population (POP2), with 30 individuals of each population). All the primer pairs were amplified successfully in two populations. All loci were polymorphic in POP1, while there were 3 loci showing monomorphism in POP2. In POP1 and POP2, observed heterozygosity from 0.033 to 1.000 and 0.000 to 1.000, 19 and 16 microsatellite loci deviated significantly from Hardy-Weinberg expectations including a Bonferroni correction (P < 0.001). Thirteen loci were highly informative content (PIC >= 0.5) in both populations. These identified loci will be useful for potential application for evolutionary, population genetic and chromosome linkage mapping research on pearl oyster. (C) 2015 Elsevier Ltd. All rights reserved.