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      Phylogeography and Genetic Differentiation among Populations of the Moon Turban Snail Lunella granulata Gmelin, 1791 (Gastropoda: Turbinidae)

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          Abstract

          We examined the genetic variation and phylogeographic relationships among 10 populations of Lunella granulata from mainland China, Penghu Archipelago, Taiwan Island, and Japan using mitochondrial COI and 16S markers. A total of 45 haplotypes were obtained in 112 specimens, and relatively high levels of haplotype diversity ( h = 0.903) and low levels of nucleotide diversity (π = 0.0046) were detected. Four major phylogenetic lineage clusters were revealed and were concordant with their geographic distribution, agreeing with the haplotype network. These results suggested that geographic barrier isolating effects were occurring among the populations. This hypothesis was also supported by a significant genetic differentiation index ( F ST = 0.709) and by a spatial analysis of molecular variance (SAMOVA) analysis. A mismatch distribution analysis, neutrality tests and Bayesian skyline plots found a single significant population expansion. This expansion occurred on the coast of mainland China before 20–17 ka. Consequently, although the dispersal ability of the planktonic stage and the circulation of ocean currents generally promote genetic exchanges among populations, L. granulata has tended to maintain distinct genetic groups that reflect the respective geographic origins of the constituent lineages. Although the circulation of ocean currents, in principle, may still play a role in determining the genetic composition of populations, long-distance migration between regions is difficult even at the planktonic stage.

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          Maximum likelihood estimation of a migration matrix and effective population sizes in n subpopulations by using a coalescent approach.

          A maximum likelihood estimator based on the coalescent for unequal migration rates and different subpopulation sizes is developed. The method uses a Markov chain Monte Carlo approach to investigate possible genealogies with branch lengths and with migration events. Properties of the new method are shown by using simulated data from a four-population n-island model and a source-sink population model. Our estimation method as coded in migrate is tested against genetree; both programs deliver a very similar likelihood surface. The algorithm converges to the estimates fairly quickly, even when the Markov chain is started from unfavorable parameters. The method was used to estimate gene flow in the Nile valley by using mtDNA data from three human populations.
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            Signature of ancient population growth in a low-resolution mitochondrial DNA mismatch distribution.

            A mismatch distribution is a tabulation of the number of pairwise differences among all DNA sequences in a sample. In a population that has been stationary for a long time these distributions from nonrecombinant DNA sequences become ragged and erratic, whereas a population that has been growing generates mismatch distributions that are smooth and have a peak. The position of the peak reflects the time of the population growth. The signature of an ancient population expansion is apparent even in the low-resolution mtDNA typings described by Merriwether et al. (1991). The smoothness of the mismatch distribution, an indicator of population expansion, is hardly affected by population structure, whereas mean sequence divergence increases in a pooled sample from highly isolated subpopulations.
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              Some genetic consequences of ice ages, and their role in divergence and speciation

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                Author and article information

                Journal
                Int J Mol Sci
                Int J Mol Sci
                ijms
                International Journal of Molecular Sciences
                Molecular Diversity Preservation International (MDPI)
                1422-0067
                May 2013
                25 April 2013
                : 14
                : 5
                : 9062-9079
                Affiliations
                [1 ]National Museum of Marine Biology and Aquarium, Checheng, Pingtung 944, Taiwan; E-Mail: chiuyw@ 123456nmmba.gov.tw
                [2 ]Department of Biomedical Science and Environmental Biology, Kaohsiung Medical University, Ksohsiung 807, Taiwan; E-Mails: emilebor@ 123456msn.com (H.B.); m795027@ 123456kmu.edu.tw (M.-S.T.)
                [3 ]Department of Physical Therapy, Shu Zen College of Medicine and Management, Kaohsiung 821, Taiwan; E-Mail: varicorhinus@ 123456hotmail.com
                [4 ]The Affiliated School of National Tainan First Senior High School, Tainan 701, Taiwan
                Author notes
                [* ]Author to whom correspondence should be addressed; E-Mail: ctjean@ 123456ms.szmc.edu.tw ; Tel.: +886-7-697-9315; Fax: +886-7-697-9398.
                Article
                ijms-14-09062
                10.3390/ijms14059062
                3676773
                23698764
                4b04a07d-2dba-4636-850f-3d47bf9f0daf
                © 2013 by the authors; licensee MDPI, Basel, Switzerland

                This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution license ( http://creativecommons.org/licenses/by/3.0/).

                History
                : 02 January 2013
                : 11 April 2013
                : 16 April 2013
                Categories
                Article

                Molecular biology
                lunella granulata,mainland china,mtdna,phylogeography,taiwan
                Molecular biology
                lunella granulata, mainland china, mtdna, phylogeography, taiwan

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