A Phylogenomic Framework to Study the Diversity and Evolution of Stramenopiles (=Heterokonts).
A Phylogenomic Framework to Study the Diversity and Evolution of Stramenopiles (=Heterokonts).
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DOI：
10.1093/molbev/msw168
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发表时间：
2016-11
影响因子：
10.7
通讯作者：
Moreira D
中科院分区：
文献类型：
--
作者：
Derelle R;López-García P;Timpano H;Moreira D
层孔类或异孔特类是原生生物中最具物种多样性的分支之一。它包括生态上重要的藻类（如硅藻或大型多细胞棕色海藻），以及异养（如bicosoecids，MAST组）和寄生（如芽囊原虫，卵菌）物种。尽管它们的进化和生态相关性，深层藻群之间的系统发育关系，推断主要是从小亚基（SSU）rDNA同源性，仍然没有得到解决，特别是异养类群。利用最近发布的strateliles转录组和基因组序列，以及在我们的实验室中产生的MAST-3种Incisomonasmarina的基因组组装的数据，我们进行了第一次广泛的strateliles，包括最主要的谱系的代表的基因组分析。我们的分析，基于一个大的数据集的339广泛分布的蛋白质，强烈支持一个根的straviiles躺在两个分支，Bigyra和Gyrista（假真菌加Ochrophyta）。此外，我们的分析挑战Phaeista-Khakista两分法的光合stratifiles（ochrophytes）作为两个组以前被认为是Phaeista（Pelagophyceae和Dictyochophyceae）的一部分，分支与Khakista（Bolidophyceae和Diatomeae）的强有力的支持。我们提出了一个新的分类内的两个组Chrysista和Diatomista的赭色植物，以反映新的染色体组的结果。我们的strageliile原生动物提供了一个强大的系统发育框架，调查这组生态相关的原生动物的进化和多样化。
Stramenopiles or heterokonts constitute one of the most speciose and diverse clades of protists. It includes ecologically important algae (such as diatoms or large multicellular brown seaweeds), as well as heterotrophic (e.g. bicosoecids, MAST groups) and parasitic (e.g. Blastocystis, oomycetes) species. Despite their evolutionary and ecological relevance, deep phylogenetic relationships among stramenopile groups, inferred mostly from small-subunit (SSU) rDNA phylogenies, remain unresolved, especially for the heterotrophic taxa. Taking advantage of recently released stramenopile transcriptome and genome sequences, as well as data from the genomic assembly of the MAST-3 species Incisomonas marina generated in our laboratory, we have carried out the first extensive phylogenomic analysis of stramenopiles, including representatives of most major lineages. Our analyses, based on a large dataset of 339 widely distributed proteins, strongly support a root of stramenopiles lying between two clades, Bigyra and Gyrista (Pseudofungi plus Ochrophyta). Additionally, our analyses challenge the Phaeista-Khakista dichotomy of photosynthetic stramenopiles (ochrophytes) as two groups previously considered to be part of the Phaeista (Pelagophyceae and Dictyochophyceae), branch with strong support with the Khakista (Bolidophyceae and Diatomeae). We propose a new classification of ochrophytes within the two groups Chrysista and Diatomista to reflect the new phylogenomic results. Our stramenopile phylogeny provides a robust phylogenetic framework to investigate the evolution and diversification of this group of ecologically relevant protists.