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通过“基于中心的聚类”方法推断陆地软体动物庭院蜗牛的空间遗传模式。

Spatial genetic pattern in the land mollusc Helix aspersa inferred from a 'centre-based clustering' procedure.

作者信息

Guiller Annie, Bellido Alain, Coutelle Alain, Madec Luc

机构信息

Laboratoire de Parasitologie Pharmaceutique (CNRS UMR 6553), Faculté des Sciences Pharmaceutiques et Biologiques, 35043 Rennes, France.

出版信息

Genet Res. 2006 Aug;88(1):27-44. doi: 10.1017/S0016672306008305.

DOI:10.1017/S0016672306008305
PMID:17014742
Abstract

The present work provides the first broad-scale screening of allozymes in the land snail Helix aspersa. By using overall information available on the distribution of genetic variation between 102 populations previously investigated, we expect to strengthen our knowledge on the spread of the invasive aspersa subspecies in the Western Mediterranean. We propose a new approach based on a centre-based clustering procedure to cluster populations into groups following rules of geographical proximity and genetic similarity. Assuming a stepping-stone model of diffusion, we apply a partitioning algorithm which clusters only populations that are geographically contiguous. The algorithm used, which is actually part of leading methods developed for analysing large microarray datasets, is that of the k-means. Its goal is to minimize the within-group variance. The spatial constraint is provided by a list of connections between localities deduced from a Delaunay network. After testing each optimal group for the presence of spatial arrangement in the genetic data, the inferred genetic structure was compared with partitions obtained from other methods published for defining homogeneous groups (i.e. the Monmonier and SAMOVA algorithms). Competing biogeographical scenarios inferred from the k-means procedure were then compared and discussed to shed more light on colonization routes taken by the species.

摘要

本研究首次对陆地蜗牛法国蜗牛(Helix aspersa)的等位酶进行了大规模筛选。通过利用先前调查的102个种群之间遗传变异分布的现有总体信息,我们期望加强对入侵性法国蜗牛亚种在西地中海扩散情况的了解。我们提出了一种基于中心聚类程序的新方法,按照地理邻近性和遗传相似性规则将种群聚类成组。假设扩散的踏脚石模型,我们应用一种划分算法,该算法仅对地理上相邻的种群进行聚类。所使用的算法实际上是为分析大型微阵列数据集而开发的领先方法的一部分,即k均值算法。其目标是最小化组内方差。空间约束由从德劳内网络推导的地点之间的连接列表提供。在测试每个最优组的遗传数据中是否存在空间排列后,将推断出的遗传结构与从其他已发表的用于定义同质组的方法(即蒙莫尼尔算法和SAMOVA算法)获得的划分进行比较。然后对从k均值程序推断出的相互竞争的生物地理情景进行比较和讨论,以更清楚地了解该物种所采取的定殖路线。

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引用本文的文献

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PLoS One. 2012;7(12):e49674. doi: 10.1371/journal.pone.0049674. Epub 2012 Dec 5.
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Queen conch (Strombus gigas) testis regresses during the reproductive season at nearshore sites in the Florida Keys.在佛罗里达群岛近岸海域,季节繁殖期间 queen conch(巨凤螺)的精巢会退化。
PLoS One. 2010 Sep 15;5(9):e12737. doi: 10.1371/journal.pone.0012737.
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Historical biogeography of the land snail Cornu aspersum: a new scenario inferred from haplotype distribution in the Western Mediterranean basin.
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BMC Evol Biol. 2010 Jan 20;10:18. doi: 10.1186/1471-2148-10-18.