Microsatellite markers for the Ussuri white-toothed shrew (Soricidae: Crocidura lasiura) developed by Ion Torrent sequencing and their application to the shrew populations in disturbed forests

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• 作者：Soo Hyung Eo ; Woo-Shin Lee ; Byeong-Ju Lee ; Byung June Ko ; Jong U. Kim…
• 关键词：Forest management practice ; Genetic diversity ; Next generation sequencing ; Simple sequence repeats
• 刊名：Genes & Genomics
• 出版年：2016
• 出版时间：April 2016
• 年：2016
• 卷：38
• 期：4
• 页码：351-357
• 全文大小：481 KB
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• 作者单位：Soo Hyung Eo (1)
  Woo-Shin Lee (2)
  Byeong-Ju Lee (1)
  Byung June Ko (1)
  Jong U. Kim (2)
  Jong Hoon Jeon (2)
  
  1. Department of Forest Resources, Kongju National University, Choongnam, 32439, South Korea
  2. Department of Forest Science, Seoul National University, Seoul, 08826, South Korea
  
• 刊物主题：Microbial Genetics and Genomics; Plant Genetics & Genomics; Animal Genetics and Genomics; Human Genetics;
• 出版者：Springer Netherlands
• ISSN：2092-9293

文摘

Understanding the impacts of forest management practices on genetic diversity is essential for effective animal management and conservation. We characterized novel microsatellite loci in the Ussuri white-toothed shrew (Crocidura lasiura Dobson, 1890) to test the impacts of anthropogenic thinning of forest trees on the shrew populations and their genetic diversity. Using Ion Torrent sequencing technology, we characterized 611 potential microsatellite markers with complete di- to tetra-nucleotide motifs, identifying nine polymorphic loci. The observed and expected heterozygosities across the nine loci were 0.526 and 0.527, respectively. Mean allelic diversity was 5.2 alleles per locus, with the mean polymorphism information content at 0.498. In comparison among shrew populations, which inhabited in the forests thinned in 2004 (CLA; n = 10), 2008 (CLB; n = 9) and 2014 (CLC; n = 3), the observed heterozygosities are similar among the three populations (0.525 at CLA, 0.532 at CLB and 0.519 at CLC), whereas the expected heterozygosities were much lower in population of CLC (0.377) than that of CLA (0.509) and CLB (0.533). The small sample size at CLC limited effective comparison and evaluation of the impact of forest thinning on genetic diversity in this shrew population. Future application of the species-specific microsatellite markers described here to a larger sample size would be valuable in estimating the ecological parameters of shrew populations associated with existing forest management practices.