Muroid rodent phylogenetics: 900-species tree reveals increasing diversification rates.
Muroid rodent phylogenetics: 900-species tree reveals increasing diversification rates.
复制标题
DOI：
10.1371/journal.pone.0183070
复制
发表时间：
2017
期刊：
影响因子：
3.7
通讯作者：
Schenk JJ
中科院分区：
文献类型：
--
作者：
Steppan SJ;Schenk JJ
我们将 300 多种鼠类啮齿动物的新序列数据与之前发布的多达 5 个核基因和 1 个线粒体基因的序列相结合，生成了鼠类进化关系最广泛、最密集的采样假设。对公开序列进行了详尽的筛选程序，以避免超级矩阵研究中常见的分类错误的传播。来自 GenBank 上所有可用序列的仔细筛选序列与我们的新数据的组合数据集，为大约 1,620 个鼠科动物中的 900 个提供了稳健的最大似然系统发育。在之前的研究中被模棱两可地解决的几个区域现在得到了更明确的解决，我们使用 28 个化石校准来估计年代表，以实现迄今为止最完整的年龄和拓扑估计。结果用于更新鼠类分类并突出显示需要额外数据的问题。我们还将像这样的多基因超级矩阵研究的结果与主要已发表的超级树进行比较，并得出结论，后者对于鼠类的任何比较研究都是不可靠的。此外，我们通过检测鼠类树上随着时间的推移净多样化率不断增加的证据，探索了多样化模式，以解释为什么鼠类啮齿类动物是物种最丰富的哺乳动物群体之一。我们认为观察到的速率增加可能是由于各进化枝速率的平行增加和高平均灭绝率的结合。推断出五次增加的多样化率变化，表明多个但可能不是独立的事件导致了该总科中显着的物种多样性。我们的结果为比较研究提供了一个系统发育框架，该框架不高度依赖于任何一个基因的信号。
We combined new sequence data for more than 300 muroid rodent species with our previously published sequences for up to five nuclear and one mitochondrial genes to generate the most widely and densely sampled hypothesis of evolutionary relationships across Muroidea. An exhaustive screening procedure for publically available sequences was implemented to avoid the propagation of taxonomic errors that are common to supermatrix studies. The combined data set of carefully screened sequences derived from all available sequences on GenBank with our new data resulted in a robust maximum likelihood phylogeny for 900 of the approximately 1,620 muroids. Several regions that were equivocally resolved in previous studies are now more decisively resolved, and we estimated a chronogram using 28 fossil calibrations for the most integrated age and topological estimates to date. The results were used to update muroid classification and highlight questions needing additional data. We also compared the results of multigene supermatrix studies like this one with the principal published supertrees and concluded that the latter are unreliable for any comparative study in muroids. In addition, we explored diversification patterns as an explanation for why muroid rodents represent one of the most species-rich groups of mammals by detecting evidence for increasing net diversification rates through time across the muroid tree. We suggest the observation of increasing rates may be due to a combination of parallel increases in rate across clades and high average extinction rates. Five increased diversification-rate-shifts were inferred, suggesting that multiple, but perhaps not independent, events have led to the remarkable species diversity in the superfamily. Our results provide a phylogenetic framework for comparative studies that is not highly dependent upon the signal from any one gene.
登录
查看更多内容
Arvicolinae啮齿动物的进化辐射（田鼠和诱饵）：核和线粒体DNA系统发育的相对贡献。
影响因子：
3.4
作者：
Galewski, Thomas;Tilak, Marie-ka;Sanchez, Sophie;Chevret, Pascale;Paradis, Emmanuel;Douzery, Emmanuel J. P.
通讯作者：
Douzery, Emmanuel J. P.
影响因子：
8.8
作者：
Fritz, Susanne A.;Bininda-Emonds, Olaf R. P.;Purvis, Andy
通讯作者：
Purvis, Andy
影响因子：
1.9
作者：
Alhajeri, Bader H.;Schenk, John J.;Steppan, Scott J.
通讯作者：
Steppan, Scott J.
影响因子：
6.8
作者：
AKAIKE, H
通讯作者：
AKAIKE, H
影响因子：
4.1
作者：
Dubois, JYF;Catzeflis, FM;Beintema, JJ
通讯作者：
Beintema, JJ