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马达加斯加猬的分子系统发育与分歧时间:数据划分和分类群抽样对年代测定分析的影响。

Molecular phylogeny and divergence times of Malagasy tenrecs: influence of data partitioning and taxon sampling on dating analyses.

作者信息

Poux Céline, Madsen Ole, Glos Julian, de Jong Wilfried W, Vences Miguel

机构信息

Department of Biomolecular Chemistry 271, Radboud University Nijmegen, PO Box 9101, 6500 HB Nijmegen, The Netherlands.

出版信息

BMC Evol Biol. 2008 Mar 31;8:102. doi: 10.1186/1471-2148-8-102.

Abstract

BACKGROUND

Malagasy tenrecs belong to the Afrotherian clade of placental mammals and comprise three subfamilies divided in eight genera (Tenrecinae: Tenrec, Echinops, Setifer and Hemicentetes; Oryzorictinae: Oryzorictes, Limnogale and Microgale; Geogalinae:Geogale). The diversity of their morphology and incomplete taxon sampling made it difficult until now to resolve phylogenies based on either morphology or molecular data for this group. Therefore, in order to delineate the evolutionary history of this family, phylogenetic and dating analyses were performed on a four nuclear genes dataset (ADRA2B, AR, GHR and vWF) including all Malagasy tenrec genera. Moreover, the influence of both taxon sampling and data partitioning on the accuracy of the estimated ages were assessed.

RESULTS

Within Afrotheria the vast majority of the nodes received a high support, including the grouping of hyrax with sea cow and the monophyly of both Afroinsectivora (Macroscelidea + Afrosoricida) and Afroinsectiphillia (Tubulidentata + Afroinsectivora). Strongly supported relationships were also recovered among all tenrec genera, allowing us to firmly establish the grouping of Geogale with Oryzorictinae, and to confirm the previously hypothesized nesting of Limnogale within the genus Microgale. The timeline of Malagasy tenrec diversification does not reflect a fast adaptive radiation after the arrival on Madagascar, indicating that morphological specializations have appeared over the whole evolutionary history of the family, and not just in a short period after colonization. In our analysis, age estimates at the root of a clade became older with increased taxon sampling of that clade. Moreover an augmentation of data partitions resulted in older age estimates as well, whereas standard deviations increased when more extreme partition schemes were used.

CONCLUSION

Our results provide as yet the best resolved gene tree comprising all Malagasy tenrec genera, and may lead to a revision of tenrec taxonomy. A timeframe of tenrec evolution built on the basis of this solid phylogenetic framework showed that morphological specializations of the tenrecs may have been affected by environmental changes caused by climatic and/or subsequent colonization events. Analyses including various taxon sampling and data partitions allow us to point out some possible pitfalls that may lead to biased results in molecular dating; however, further analyses are needed to corroborate these observations.

摘要

背景

马达加斯加猬属于胎盘哺乳动物非洲兽总目分支,包含三个亚科,分为八个属(马岛猬亚科:马岛猬属、针鼹猬属、硬毛猬属和纹猬属;稻田猬亚科:稻田猬属、水猥属和小麝鼩属;地猬亚科:地猬属)。其形态的多样性以及分类单元采样的不完整性使得迄今为止,基于形态学或分子数据来解析该类群的系统发育变得困难。因此,为了描绘这个家族的进化历史,我们对包含所有马达加斯加猬属的四个核基因数据集(ADRA2B、AR、GHR和vWF)进行了系统发育和定年分析。此外,还评估了分类单元采样和数据划分对估计年龄准确性的影响。

结果

在非洲兽总目内部,绝大多数节点得到了高度支持,包括蹄兔与海牛的聚类以及非洲食虫目(象鼩目 + 非洲猬目)和非洲食虫总目(管齿目 + 非洲食虫目)的单系性。在所有猬属之间也恢复了得到有力支持的关系,这使我们能够确定地猬属与稻田猬亚科的聚类关系,并确认先前假设的水猥属嵌套在小麝鼩属内。马达加斯加猬多样化的时间线并不反映其到达马达加斯加后快速的适应性辐射,这表明形态特化出现在该家族的整个进化历史中,而不仅仅是在殖民后的短时间内。在我们的分析中,一个分支根部的年龄估计随着该分支分类单元采样数量的增加而变老。此外,数据划分的增加也导致年龄估计变老,而当使用更极端的划分方案时,标准差会增加。

结论

我们的结果提供了迄今解析度最高的包含所有马达加斯加猬属的基因树,可能会导致对猬类分类法的修订。基于这个坚实的系统发育框架构建的猬类进化时间框架表明,猬类的形态特化可能受到了气候和/或随后殖民事件引起的环境变化的影响。包括各种分类单元采样和数据划分的分析使我们能够指出一些可能导致分子定年结果有偏差的潜在陷阱;然而,需要进一步分析来证实这些观察结果。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/29c3/2330147/1375eb8b41bf/1471-2148-8-102-1.jpg

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