The Deep Evolutionary Relationships of the Morphologically Heterogeneous Nolinoideae (Asparagaceae) Revealed by Transcriptome Data.
The Deep Evolutionary Relationships of the Morphologically Heterogeneous Nolinoideae (Asparagaceae) Revealed by Transcriptome Data.
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转录组数据揭示形态异质的Nolinoideae（天冬酰胺科）的深层进化关系
DOI：
10.3389/fpls.2020.584981
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发表时间：
2020
影响因子：
5.6
通讯作者：
Meng Y
中科院分区：
文献类型：
--
作者：
Meng R;Luo LY;Zhang JY;Zhang DG;Nie ZL;Meng Y
天门冬科的Nolinoideae亚科是一个形态极其异质的类群，由7个谱系组成，以前称为枇杷科、蓼科、麦冬科、铃兰科、Ruscaceae s.s.、龙血树科和Nolinaceae，它们来自不同的科甚至目。它们截然不同的形态和低水平的分子分辨率阻碍了我们对其进化历史的理解。为了解决 Nolinoideae 可靠且清晰的系统发育关系，基于代表所有 7 个谱系的 15 个物种的转录组测序进行了系统发育研究。使用串联和合并方法分析了包含 2,126 个基因的多达 2,850,331 个位点的数据集。除了Eriospermum作为外类群外，转录组数据将其余6个谱系强烈解析为两组，一组是并系系，包括龙血树科、红锈菌科和诺林科的木本谱系和单系草本进化枝。在草本类群中，麦冬 + Theropogon 是由铃兰科和单系蓼科组成的分支的姐妹。我们的工作首次揭示了高度异质性的 Nolinoideae 之间强大的深层关系，并为进一步研究其复杂的进化铺平了道路。
The subfamily Nolinoideae of Asparagaceae is an extremely morphologically heterogeneous group, which is comprised of seven lineages, formerly known as Eriospermaceae, Polygonateae, Ophiopogoneae, Convallarieae, Ruscaceae s.s., Dracaenaceae, and Nolinaceae from different families or even orders. Their drastically divergent morphologies and low level of molecular resolution have hindered our understanding on their evolutionary history. To resolve reliable and clear phylogenetic relationships of the Nolinoideae, a phylogenetic study was conducted based on transcriptomic sequencing of 15 species representing all the seven lineages. A dataset containing up to 2,850,331 sites across 2,126 genes was analyzed using both concatenated and coalescent methods. Except for Eriospermum as outgroup, the transcriptomic data strongly resolved the remaining six lineages into two groups, one is a paraphyletic grade including the woody lineages of dracaenoids, ruscoids, and nolinoids and a monophyletic herbaceous clade. Within the herbaceous group, the Ophiopogoneae + Theropogon is sister to a clade that is composed of Convallarieae and the monophyletic Polygonateae. Our work provides a first robust deep relationship of the highly heterogeneous Nolinoideae and paves the way for further investigations of its complex evolution.
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DOI：
10.1093/bioinformatics/btx063
发表时间：
2017-06-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Brown JW;Walker JF;Smith SA
通讯作者：
Smith SA
影响因子：
14.9
作者：
Kriventseva EV;Kuznetsov D;Tegenfeldt F;Manni M;Dias R;Simão FA;Zdobnov EM
通讯作者：
Zdobnov EM
影响因子：
3
作者：
Bogler, DJ;Simpson, BB
通讯作者：
Simpson, BB
影响因子：
10.7
作者：
Hoang DT;Chernomor O;von Haeseler A;Minh BQ;Vinh LS
通讯作者：
Vinh LS
影响因子：
4.1
作者：
Bogarin, Diego;Perez-Escobar, Oscar Alejandro;Gravendeel, Barbara
通讯作者：
Gravendeel, Barbara