Phylogenomic Analysis Demonstrates a Pattern of Rare and Ancient Horizontal Gene Transfer between Plants and Fungi
Phylogenomic Analysis Demonstrates a Pattern of Rare and Ancient Horizontal Gene Transfer between Plants and Fungi
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DOI：
10.1105/tpc.109.065805
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发表时间：
2009-07-01
期刊：
影响因子：
11.6
通讯作者：
Talbot, Nicholas J.
中科院分区：
文献类型：
--
作者：
Richards, Thomas A.;Soanes, Darren M.;Talbot, Nicholas J.
水平基因转移（Horizontal gene transfer，HGT）描述了遗传物质跨物种边界的传递，是许多微生物祖先中的重要进化现象。然而，HGT在植物进化史中的作用在很大程度上尚未被探索。在这里，我们比较了6种植物的基因组与159种原核和真核生物的基因组，并确定了1689个基因，这些基因与真菌的相应基因具有最高的相似性。我们构建了一个所有1689个基因鉴定和所有同源组可从水稻（水稻）基因组（3177个基因家族），并使用这些来定义14个候选植物真菌HGT事件。这14个数据集的综合系统发育分析，使用的方法，占网站率异质性，证明支持9 HGT事件，表明植物和真菌之间的HGT的罕见模式。五个HGT是真菌到植物的转移，四个是植物到真菌的HGT。真菌对植物的HGT都不涉及被子植物受体。这些结果改变了目前对HGT的生物屏障的看法，表明吞噬，另一个整个细胞的消耗，不一定是真核生物之间HGT的先决条件。HGT候选基因的推定功能注释表明，两种真菌到植物的转移增加了在土壤环境中生活的重要表型。我们的研究表明，植物和真菌之间的遗传交换是非常罕见的，特别是在被子植物中，但在它们的进化历史中已经发生，并为植物谱系增加了重要的代谢特征。
Horizontal gene transfer (HGT) describes the transmission of genetic material across species boundaries and is an important evolutionary phenomenon in the ancestry of many microbes. The role of HGT in plant evolutionary history is, however, largely unexplored. Here, we compare the genomes of six plant species with those of 159 prokaryotic and eukaryotic species and identify 1689 genes that show the highest similarity to corresponding genes from fungi. We constructed a phylogeny for all 1689 genes identified and all homolog groups available from the rice (Oryza sativa) genome (3177 gene families) and used these to define 14 candidate plant-fungi HGT events. Comprehensive phylogenetic analyses of these 14 data sets, using methods that account for site rate heterogeneity, demonstrated support for nine HGT events, demonstrating an infrequent pattern of HGT between plants and fungi. Five HGTs were fungi-to-plant transfers and four were plant-to-fungi HGTs. None of the fungal-to-plant HGTs involved angiosperm recipients. These results alter the current view of organismal barriers to HGT, suggesting that phagotrophy, the consumption of a whole cell by another, is not necessarily a prerequisite for HGT between eukaryotes. Putative functional annotation of the HGT candidate genes suggests that two fungi-to-plant transfers have added phenotypes important for life in a soil environment. Our study suggests that genetic exchange between plants and fungi is exceedingly rare, particularly among the angiosperms, but has occurred during their evolutionary history and added important metabolic traits to plant lineages.