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首页> 外文期刊>Proceedings of the National Academy of Sciences of the United States of America >Evolutionary dynamics of bacteria in a human host environment
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Evolutionary dynamics of bacteria in a human host environment

机译：人类宿主环境中细菌的进化动力学

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摘要

Laboratory evolution experiments have led to important findings relating organism adaptation and genomic evolution. However, continuous monitoring of long-term evolution has been lacking for natural systems, limiting our understanding of these processes in situ. Here we characterize the evolutionary dynamics of a lineage of a clinically important opportunistic bacterial pathogen, Pseudomonas aeruginosa, as it adapts to the airways of several individual cystic fibrosis patients over 200,000 bacterial generations, and provide estimates of mutation rates of bacteria in a natural environment. In contrast to predictions based on in vitro evolution experiments, we document limited diversification of the evolving lineage despite a highly structured and complex host environment. Notably, the lineage went through an initial period of rapid adaptation caused by a small number of mutations with pleiotropic effects, followed by a period of genetic drift with limited phenotypic change and a genomic signature of negative selection, suggesting that the evolving lineage has reached a major adaptive peak in the fitness landscape. This contrasts with previous findings of continued positive selection from long-term in vitro evolution experiments. The evolved phenotype of the infecting bacteria further suggests that the opportunistic pathogen has tran-sitioned to become a primary pathogen for cystic fibrosis patients.
机译：实验室进化实验已导致有关生物适应性和基因组进化的重要发现。然而，自然系统缺乏对长期演化的连续监测，这限制了我们对这些过程的原地理解。在这里，我们描述了临床上重要的机会细菌病原体铜绿假单胞菌谱系的进化动力学，因为它适应了200,000多个细菌世代的数个个体囊性纤维化患者的气道，并提供了自然环境中细菌突变率的估计值。与基于体外进化实验的预测相反，尽管存在高度结构化和复杂的宿主环境，但我们记录了进化谱系有限的多样化。值得注意的是，谱系经历了由少数具有多效性作用的突变引起的快速适应的初始阶段，随后是具有有限表型变化和阴性选择的基因组特征的遗传漂移时期，表明进化的谱系已经达到了健身景观中的主要适应峰。这与长期体外进化实验中持续阳性选择的先前发现相反。感染细菌的进化表型进一步表明，机会性病原体已转变为囊性纤维化患者的主要病原体。

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  • 作者

    Lei Yang; Lars Jelsbak; Rasmus Lykke Marvig; Soren Damkiaer; Christopher T. Workman; Martin Holm Rau; Susse Kirkelund Hansen; Anders Folkesson; Helle Krogh Johansen; Oana Ciofu; Niels Hoiby; Morten O. A. Sommer; Soren Molin;

  • 作者单位

    Department of Systems Biology, Technical University of Denmark, 2800 Lyngby, Denmark;

    Department of Systems Biology, Technical University of Denmark, 2800 Lyngby, Denmark;

    Department of Systems Biology, Technical University of Denmark, 2800 Lyngby, Denmark;

    Department of Systems Biology, Technical University of Denmark, 2800 Lyngby, Denmark;

    Department of Systems Biology, Technical University of Denmark, 2800 Lyngby, Denmark;

    Department of Systems Biology, Technical University of Denmark, 2800 Lyngby, Denmark;

    Department of Systems Biology, Technical University of Denmark, 2800 Lyngby, Denmark;

    Department of Systems Biology, Technical University of Denmark, 2800 Lyngby, Denmark;

    Department of Clinical Microbiology, Rigshospitalet, University Hospital, 2100 Copenhagen, Denmark;

    Institute for International Health, Immunology and Microbiology, University of Copenhagen, 2200 Copenhagen,Denmark;

    Department of Clinical Microbiology, Rigshospitalet, University Hospital, 2100 Copenhagen, Denmark,Institute for International Health, Immunology and Microbiology, University of Copenhagen, 2200 Copenhagen,Denmark;

    Department of Systems Biology, Technical University of Denmark, 2800 Lyngby, Denmark,Department of Genetics, Harvard Medical School, Boston, MA 02115;

    Department of Systems Biology, Technical University of Denmark, 2800 Lyngby, Denmark;

  • 收录信息 美国《科学引文索引》(SCI);美国《生物学医学文摘》(MEDLINE);美国《化学文摘》(CA);
  • 原文格式 PDF
  • 正文语种 eng
  • 中图分类
  • 关键词

    microbial evolution; natural population; chronic infection; genomesequences; transcriptomics;

    机译：微生物进化;自然种群;慢性感染;基因组序列;转录组学;

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