Another Look at the Root of the Angiosperms Reveals a Familiar Tale
Another Look at the Root of the Angiosperms Reveals a Familiar Tale
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DOI：
10.1093/sysbio/syt108
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发表时间：
2014-05-01
影响因子：
6.5
通讯作者：
Soltis, Douglas E.
中科院分区：
文献类型：
--
作者：
Drew, Bryan T.;Ruhfel, Brad R.;Soltis, Douglas E.
自从25年前分子系统发育学问世以来，植物系统学家的一个主要目标就是辨别被子植物的根。尽管大多数研究表明Amborella毛目动物是现存的所有开花植物的姊妹种，但对这一观点的支持因序列数据集和所用分析的不同而不同。最近，Goremykin et al.(2013)使用降噪方法质疑了Amborella姐妹说，并报告了AmborellaNymphaeles(睡莲)姐妹植物与所有剩余被子植物的拓扑结构。通过对叶绿体基因组和线粒体基因的一系列分析，我们继续找到对Amborella姐妹假说的大多数强有力的支持，并反驳了Goremykin等人的说法。(2013年)。Goremykin等人的主要宗旨。Amborella的姐妹位置是由嘈杂的数据决定的，即具有高变化率和缺乏真正的系统发育信号的性状。为了进一步研究这些噪声数据中的信号，我们分析了从去噪对齐中丢弃的字符。我们恢复了一棵与目前公认的被子植物框架完全相同的树，包括Amborella作为所有其他被子植物以及所有其他主要支系的姊妹植物的位置。因此，噪声数据中的信号与我们的完整数据集中的信号是一致的-反对使用他们的降噪方法。我们还确定了Goremykin等人提出的一种比对。结果与他们的中心声明不一致，他们的数据集实际上支持Amborella作为所有其他被子植物的姐妹，我们这里提供的更大的叶绿体数据集也是如此，这些数据集拥有更完整的单子叶植物和一般被子植物的分类单元样本。以前对线粒体DNA(MtDNA)数据进行的未分割、多位点分析为AmborellaNymphabeles作为其他被子植物的姊妹植物提供了最有力的支持。然而，我们对mtDNA序列数据中第三个密码子位置的分析也支持Amborella-SISTER假说。最后，我们对Goremykin等人的结论提出质疑。最早开花的植物是水生和草本的，这再次表明，即使水生百合或睡莲单独是被子植物的姐妹植物，最早的被子植物也不一定是水生和或草本的。被子植物；安波雷拉；若虫；叶绿体基因组；睡莲。
Since the advent of molecular phylogenetics more than 25 years ago, a major goal of plant systematists has been to discern the root of the angiosperms. Although most studies indicate that Amborella trichopoda is sister to all remaining extant flowering plants, support for this position has varied with respect to both the sequence data sets and analyses employed. Recently, Goremykin et al. (2013) questioned the Amborella-sister hypothesis using a noise-reduction approach and reported a topology with AmborellaNymphaeales (water lilies) sister to all remaining angiosperms. Through a series of analyses of both plastid genomes and mitochondrial genes, we continue to find mostly strong support for the Amborella-sister hypothesis and offer a rebuttal of Goremykin et al. (2013). The major tenet of Goremykin et al. is that the Amborella-sister position is determined by noisy datauthat is, characters with high rates of change and lacking true phylogenetic signal. To investigate the signal in these noisy data further, we analyzed the discarded characters from their noise-reduced alignments. We recovered a tree identical to that of the currently accepted angiosperm framework, including the position of Amborella as sister to all other angiosperms, as well as all other major clades. Thus, the signal in the noisy data is consistent with that of our complete data setsuarguing against the use of their noise-reduction approach. We also determined that one of the alignments presented by Goremykin et al. yields results at odds with their central claimutheir data set actually supports Amborella as sister to all other angiosperms, as do larger plastid data sets we present here that possess more complete taxon sampling both within the monocots and for angiosperms in general. Previous unpartitioned, multilocus analyses of mitochondrial DNA (mtDNA) data have provided the strongest support for AmborellaNymphaeales as sister to other angiosperms. However, our analysis of third codon positions from mtDNA sequence data also supports the Amborella-sister hypothesis. Finally, we challenge the conclusion of Goremykin et al. that the first flowering plants were aquatic and herbaceous, reasserting that even if Amborellawater lilies, or water lilies alone, are sister to the rest of the angiosperms, the earliest angiosperms were not necessarily aquatic andor herbaceous. [Angiosperms; Amborella; Nymphaeales; plastid genome; water lilies.].