Comparative genomic analysis of the 'pseudofungus' Hyphochytrium catenoides.
Comparative genomic analysis of the 'pseudofungus' Hyphochytrium catenoides.
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DOI：
10.1098/rsob.170184
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发表时间：
2018-01
期刊：
影响因子：
5.8
通讯作者：
Richards TA
中科院分区：
文献类型：
--
作者：
Leonard G;Labarre A;Milner DS;Monier A;Soanes D;Wideman JG;Maguire F;Stevens S;Sain D;Grau-Bové X;Sebé-Pedrós A;Stajich JE;Paszkiewicz K;Brown MW;Hall N;Wickstead B;Richards TA
真核微生物获取营养和能量的机制主要有三种：吞噬、光合和反硝化。与后两种功能相关的特征在真核生物中独立出现多次。真菌成功地将营养与丝状生长相结合，并且类似的特征也表现在假真菌（卵菌纲和丝壶菌纲）中。真菌和假真菌都包含多种植物和动物寄生虫。基因组测序工作集中在与宿主相关的微生物（互惠共生体或寄生虫）上，与自由生活的亲戚进行有限的比较。在这里，我们报告的第一个草案基因组序列的菌丝壶菌'假真菌'; Hyphochytrium catenoides。使用基因组学方法，我们确定了最近的病毒祖先的基因，与相关的病毒衍生基因也存在于卵菌的基因组，这表明一个复杂的历史，病毒的共同进化和整合的假真菌。H. catenoides具有复杂的生活史，包括多种丝状结构和具有单个前部丝状鞭毛的鞭毛游动孢子。我们使用基因组比较，药物敏感性分析和高通量培养阵列来研究卵菌/假真菌特征的祖先，表明许多与寄生性状相关的遗传特征在卵菌辐射中特异性地进化。比较基因组学还确定了真菌和假真菌之间与丝状生长相关的基因库的差异，包括囊泡运输系统，细胞壁合成途径和马达蛋白库的差异，表明独特的细胞系统支持这两个真核生物群体中丝状嗜热生长的趋同进化。
Eukaryotic microbes have three primary mechanisms for obtaining nutrients and energy: phagotrophy, photosynthesis and osmotrophy. Traits associated with the latter two functions arose independently multiple times in the eukaryotes. The Fungi successfully coupled osmotrophy with filamentous growth, and similar traits are also manifested in the Pseudofungi (oomycetes and hyphochytriomycetes). Both the Fungi and the Pseudofungi encompass a diversity of plant and animal parasites. Genome-sequencing efforts have focused on host-associated microbes (mutualistic symbionts or parasites), providing limited comparisons with free-living relatives. Here we report the first draft genome sequence of a hyphochytriomycete ‘pseudofungus’; Hyphochytrium catenoides. Using phylogenomic approaches, we identify genes of recent viral ancestry, with related viral derived genes also present on the genomes of oomycetes, suggesting a complex history of viral coevolution and integration across the Pseudofungi. H. catenoides has a complex life cycle involving diverse filamentous structures and a flagellated zoospore with a single anterior tinselate flagellum. We use genome comparisons, drug sensitivity analysis and high-throughput culture arrays to investigate the ancestry of oomycete/pseudofungal characteristics, demonstrating that many of the genetic features associated with parasitic traits evolved specifically within the oomycete radiation. Comparative genomics also identified differences in the repertoire of genes associated with filamentous growth between the Fungi and the Pseudofungi, including differences in vesicle trafficking systems, cell-wall synthesis pathways and motor protein repertoire, demonstrating that unique cellular systems underpinned the convergent evolution of filamentous osmotrophic growth in these two eukaryotic groups.
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影响因子：
10.7
作者：
Minh BQ;Nguyen MA;von Haeseler A
通讯作者：
von Haeseler A
影响因子：
56.9
作者：
Armbrust, EV;Berges, JA;Rokhsar, DS
通讯作者：
Rokhsar, DS
DOI：
10.1098/rspb.2013.1755
发表时间：
2013-10-22
影响因子：
4.7
作者：
Brown, Matthew W.;Sharpe, Susan C.;Roger, Andrew J.
通讯作者：
Roger, Andrew J.
影响因子：
2.8
作者：
BARR, DJS
通讯作者：
BARR, DJS
DOI：
10.1093/bioinformatics/btp348
发表时间：
2009-08-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Capella-Gutiérrez S;Silla-Martínez JM;Gabaldón T
通讯作者：
Gabaldón T