A Preliminary List of Horizontally Transferred Genes in Prokaryotes Determined by Tree Reconstruction and Reconciliation.
A Preliminary List of Horizontally Transferred Genes in Prokaryotes Determined by Tree Reconstruction and Reconciliation.
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DOI：
10.3389/fgene.2017.00112
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发表时间：
2017
影响因子：
3.7
通讯作者：
Nasir A
中科院分区：
文献类型：
--
作者：
Jeong H;Nasir A
水平基因转移(HGT)相关基因的全基因组检测仍然是医学微生物学和进化基因组学研究的一个活跃领域。利用显式进化方法，将总共154,805个同源基因树的拓扑结构与相应的16S rRNA参考树进行比较，我们先前在2472个完全测序的原核基因组中检测到总共660,894个候选HGT事件。在这里，我们报告了每个单独的基因-参考树对协调的HGT指数，代表在基因树上检测到的HGT事件的总数除以该树的基因组(分类群)成员的总数。因此，HGT指数是一种简单的衡量原核生物基因参与(或不参与)HGT的敏感性的指标。我们的初步清单提供了总共69,365个基因的HGT指数(在>；10和<；50%可用原核生物基因组中检测到)，这些基因涉及广泛的生物过程，如新陈代谢、信息和细菌对环境的反应。识别水平衍生的基因对于对抗抗生素耐药性很重要，是朝着重建描述生命历史的改进的系统发育的方向迈出的一步。因此，我们的努力有望有利于临床微生物学和进化生物学领域正在进行的研究。
Genome-wide global detection of genes involved in horizontal gene transfer (HGT) remains an active area of research in medical microbiology and evolutionary genomics. Utilizing the explicit evolutionary method of comparing topologies of a total of 154,805 orthologous gene trees against corresponding 16S rRNA “reference” trees, we previously detected a total of 660,894 candidate HGT events in 2,472 completely-sequenced prokaryotic genomes. Here, we report an HGT-index for each individual gene-reference tree pair reconciliation, representing the total number of detected HGT events on the gene tree divided by the total number of genomes (taxa) member of that tree. HGT-index is thus a simple measure indicating the sensitivity of prokaryotic genes to participate (or not participate) in HGT. Our preliminary list provides HGT-indices for a total of 69,365 genes (detected in >10 and <50% available prokaryotic genomes) that are involved in a wide range of biological processes such as metabolism, information, and bacterial response to environment. Identification of horizontally-derived genes is important to combat antibiotic resistance and is a step forward toward reconstructions of improved phylogenies describing the history of life. Our effort is thus expected to benefit ongoing research in the fields of clinical microbiology and evolutionary biology.
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影响因子：
2.9
作者：
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通讯作者：
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