Reassessment of Annamocarya sinesis (Carya sinensis) Taxonomy through Concatenation and Coalescence Phylogenetic Analysis.
Reassessment of Annamocarya sinesis (Carya sinensis) Taxonomy through Concatenation and Coalescence Phylogenetic Analysis.
复制标题
DOI：
10.3390/plants11010052
复制
发表时间：
2021-12-24
期刊：
影响因子：
--
通讯作者：
Wang Z
中科院分区：
文献类型：
--
作者：
Luo J;Chen J;Guo W;Yang Z;Lim KJ;Wang Z
由于其独特的形态特征，核桃科植物华楠属到底是番荔枝属还是山核桃属，一直存在争议。大多数形态学者认为它应该与山核桃属区分开来，而基因学家则认为中华山核桃属于山核桃属。为了利用叶绿体基因研究山核桃的分类地位，我们收集了16种植物的叶绿体基因组，组装了10个未发表的山核桃属植物的叶绿体基因组。我们通过两种分析方法(串联和合并)分析了所有26个物种的叶绿体基因组，使用了完整和唯一的叶绿体编码序列(CDS)和完整的和蛋白质序列。我们的结果表明，对叶绿体基因组的CDS和蛋白质序列或独特的CDS和独特的蛋白质序列的分析表明，中华山核桃确实属于山核桃属。此外，我们的分析表明，与单个叶绿体基因相比，由多个基因构建的系统发育树显示出更高的一致性。此外，用合并方法和独特的基因序列计算的系统发育分析比用串联方法计算的系统发育分析更稳健，特别是在分析系统发育有争议的物种时。通过分析，我们得出的结论是中华绒毛虫应命名为中华绒毛虫。
Due to its peculiar morphological characteristics, there is dispute as to whether the genus of Annamocarya sinensis, a species of Juglandaceae, is Annamocarya or Carya. Most morphologists believe it should be distinguished from the Carya genus while genomicists suggest that A. sinensis belongs to the Carya genus. To explore the taxonomic status of A. sinensis using chloroplast genes, we collected chloroplast genomes of 16 plant species and assembled chloroplast genomes of 10 unpublished Carya species. We analyzed all 26 species’ chloroplast genomes through two analytical approaches (concatenation and coalescence), using the entire and unique chloroplast coding sequence (CDS) and entire and protein sequences. Our results indicate that the analysis of the CDS and protein sequences or unique CDS and unique protein sequence of chloroplast genomes shows that A. sinensis indeed belongs to the Carya genus. In addition, our analysis shows that, compared to single chloroplast genes, the phylogeny trees constructed using numerous genes showed higher consistency. Moreover, the phylogenetic analysis calculated with the coalescence method and unique gene sequences was more robust than that done with the concatenation method, particularly for analyzing phylogenetically controversial species. Through the analysis, our results concluded that A. sinensis should be called C. sinensis.
登录
查看更多内容
影响因子：
14.9
作者：
Letunic I;Bork P
通讯作者：
Bork P
影响因子：
10.7
作者：
Price MN;Dehal PS;Arkin AP
通讯作者：
Arkin AP
影响因子：
5.8
作者：
Li, Heng
通讯作者：
Li, Heng
影响因子：
10.7
作者：
Katoh K;Standley DM
通讯作者：
Standley DM
影响因子：
10.7
作者：
Leebens-Mack, J;Raubeson, LA;dePamphilis, CW
通讯作者：
dePamphilis, CW