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Tempo and mode of genome evolution in a 50,000-generation experiment

机译：50,000代实验中基因组进化的速度和模式

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摘要

Adaptation by natural selection depends on the rates, effects and interactions of many mutations, making it difficult to determine what proportion of mutations in an evolving lineage are beneficial. Here we analysed 264 complete genomes from 12 Escherichia coli populations to characterize their dynamics over 50,000 generations. The populations that retained the ancestral mutation rate support a model in which most fixed mutations are beneficial, the fraction of beneficial mutations declines as fitness rises, and neutral mutations accumulate at a constant rate. We also compared these populations to mutation-accumulation lines evolved under a bottlenecking regime that minimizes selection. Nonsynonymous mutations, intergenic mutations, insertions and deletions are overrepresented in the long-term populations, further supporting the inference that most mutations that reached high frequency were favoured by selection. These results illuminate the shifting balance of forces that govern genome evolution in populations adapting to a new environment.
机译：通过自然选择进行适应取决于许多突变的发生率，作用和相互作用，这使得很难确定进化谱系中有益的突变比例。在这里，我们分析了来自12个大肠杆菌种群的264个完整基因组，以表征其50,000代以上的动力学。保留祖先突变率的种群支持一种模型，其中大多数固定突变是有益的，随着适应性的提高，有益突变的比例下降，并且中性突变以恒定的速率积累。我们还将这些种群与在最小化选择的瓶颈制度下进化的突变积累系进行了比较。非同义突变，基因间突变，插入和缺失在长期种群中过分代表，进一步支持了推断，大多数达到高频率的突变都受到选择的青睐。这些结果阐明了适应新环境的种群中控制基因组进化的力的转移平衡。

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  • 来源
    《Nature》 |2016年第7615期|165-170|共6页
  • 作者

    Tenaillon Olivier; Barrick Jeffrey E.; Ribeck Noah; Deatherage Daniel E.; Blanchard Jeffrey L.; Dasgupta Aurko; Wu Gabriel C.; Wielgoss Sebastien; Cruveiller Stephane; Medigue Claudine; Schneider Dominique; Lenski Richard E.;

  • 作者单位

    Univ Paris Diderot, Sorbonne Paris Cite, INSERM, IAME,UMR 1137, F-75018 Paris, France;

    Univ Texas Austin, Inst Cellular & Mol Biol, Ctr Syst & Synthet Biol, Dept Mol Biosci,Ctr Computat Biol & Bioinformat, Austin, TX 78712 USA|Michigan State Univ, BEACON Ctr Study Evolut Act, E Lansing, MI 48824 USA;

    Michigan State Univ, BEACON Ctr Study Evolut Act, E Lansing, MI 48824 USA|Michigan State Univ, Dept Microbiol & Mol Genet, E Lansing, MI 48824 USA;

    Univ Texas Austin, Inst Cellular & Mol Biol, Ctr Syst & Synthet Biol, Dept Mol Biosci,Ctr Computat Biol & Bioinformat, Austin, TX 78712 USA;

    Univ Massachusetts, Dept Biol, Amherst, MA 01003 USA;

    Univ Texas Austin, Inst Cellular & Mol Biol, Ctr Syst & Synthet Biol, Dept Mol Biosci,Ctr Computat Biol & Bioinformat, Austin, TX 78712 USA|Washington Univ, Sch Med, Dept Internal Med, St Louis, MO 63110 USA;

    Univ Texas Austin, Inst Cellular & Mol Biol, Ctr Syst & Synthet Biol, Dept Mol Biosci,Ctr Computat Biol & Bioinformat, Austin, TX 78712 USA;

    ETH, Inst Integrat Biol, Univ Str 16, CH-8092 Zurich, Switzerland|Univ Grenoble Alpes, Lab Technol Ingn Med & Complexite Informat Math &, F-38000 Grenoble, France;

    Univ Evry Val dEssonne, CEA, Lab Anal Bioinformat Genom & Metabol, Inst Genom,CNRS,UMR 8030, F-91000 Evry, France;

    Univ Evry Val dEssonne, CEA, Lab Anal Bioinformat Genom & Metabol, Inst Genom,CNRS,UMR 8030, F-91000 Evry, France;

    Univ Grenoble Alpes, Lab Technol Ingn Med & Complexite Informat Math &, F-38000 Grenoble, France|CNRS, TIMC IMAG, F-38000 Grenoble, France;

    Michigan State Univ, BEACON Ctr Study Evolut Act, E Lansing, MI 48824 USA|Michigan State Univ, Dept Microbiol & Mol Genet, E Lansing, MI 48824 USA;

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