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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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Abstract

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.

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Acknowledgments

We appreciate valuable comments on the manuscript by an anonymous reviewer. This study was carried out with the support of ‘R&D Program for Forestry Technology (Project Nos. S211315L020120 and S211315L020130)’ provided by Korea Forest Service.

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Authors and Affiliations

  1. Department of Forest Resources, Kongju National University, Choongnam, 32439, South Korea

    Soo Hyung Eo, Byeong-Ju Lee & Byung June Ko

  2. Department of Forest Science, Seoul National University, Seoul, 08826, South Korea

    Woo-Shin Lee, Jong U. Kim & Jong Hoon Jeon

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  1. Soo Hyung Eo
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  2. Woo-Shin Lee
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  3. Byeong-Ju Lee
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  4. Byung June Ko
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Correspondence to Soo Hyung Eo.

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The authors declare no conflict of interest.

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All animal experiments throughout the study were conducted in accordance with guidelines of Kongju National University for the care and use of animals.

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Eo, S.H., Lee, WS., Lee, BJ. et al. 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. Genes Genom 38, 351–357 (2016). https://doi.org/10.1007/s13258-015-0375-1

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  • DOI: https://doi.org/10.1007/s13258-015-0375-1

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