Microevolutionary genomics of bacteria
Microevolutionary genomics of bacteria
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DOI：
10.1006/tpbi.2002.1588
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发表时间：
2002-06-01
影响因子：
1.4
通讯作者：
Koonin, EV
中科院分区：
文献类型：
--
作者：
Jordan, IK;Rogozin, IB;Koonin, EV
来自同一物种的多个完整基因组序列的可用性可以促进系统地解决基因组进化中的基本问题的尝试。我们将此类努力称为“微进化基因组学”。我们报告的结果比较分析的完整种内基因组（和蛋白质组）序列从四种细菌-肺炎衣原体，大肠杆菌，幽门螺杆菌和奈瑟氏菌，脑膜炎。比较了同义词（K-s）和非同义词（K.）取代率用于评估各种生物因素对蛋白质进化速率的影响。例如，E.大肠杆菌经历了最强烈的纯化选择的物种分析，这可能是由于该物种的相对较大的人口规模。此外，必需基因在进化上比非必需基因更为保守。除了C.外，所有物种的cofi和重复基因的进化速率都高于独特基因。肺炎。不同的功能类别的基因被证明以显着不同的速度进化，强调特定类别的功能限制在确定进化速率的作用。最后，具有功能特征的基因往往在菌株之间是保守的，而未表征的基因在独特的菌株特异性基因中过度表达。这表明非必需基因可能是驱动菌株之间进化多样化的原因。(C)2002 Elsevier Science（美国）。
The availability of multiple complete genome sequences from the same species can facilitate attempts to systematically address basic questions in genome evolution. We refer to such efforts as "microevolutionary genomics". We report the results of comparative analyses of complete intraspecific genome (and proteome) sequences from four bacterial species-Chlamydophila pneumoniae, Escherichia coli, Helicobacter pylori and Neisseria, meningitidis. Comparisons of average synonymous (K-s) and nonsynonymous (K.) substitution rates were used to assess the influence of various biological factors on the rate of protein evolution. For example, E. coli experiences the most intense purifying selection of the species analyzed, and this may be due to the relatively larger population size of this species. In addition, essential genes were shown to be more evolutionarily conserved than nonessential genes in E. cofi and duplicated genes have higher rates of evolution than unique genes for all species studied except C. pneumoniae. Different functional categories of genes were shown to evolve at significantly different rates emphasizing the role of category-specific functional constraints in determining evolutionary rates. Finally, functionally characterized genes tend to be conserved between strains, while uncharacterized genes are over-represented among the unique, strain-specific genes. This suggests the possibility that nonessential genes are responsible for driving the evolutionary diversification between strains. (C) 2002 Elsevier Science (USA).