Dispersal strategies shape persistence and evolution of human gut bacteria.
Dispersal strategies shape persistence and evolution of human gut bacteria.
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DOI：
10.1016/j.chom.2021.05.008
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发表时间：
2021-07-14
影响因子：
30.3
通讯作者：
Bork P
中科院分区：
文献类型：
--
作者：
Hildebrand F;Gossmann TI;Frioux C;Özkurt E;Myers PN;Ferretti P;Kuhn M;Bahram M;Nielsen HB;Bork P
人类肠道细菌菌株可以与宿主共存数十年，但人们对这些微生物如何持续、扩散和进化知之甚少。在这里，我们研究了5278个成人和婴儿的粪便后基因组的这些过程，纵向抽样的个人和家庭。我们的分析表明，肠道物种的一个子集在个人、家庭和地理区域中非常持久，通常以当地成功的拟杆菌门菌株为代表。这些“顽强”的细菌表现出对人类宿主的高度遗传适应，但在抗生素干预下损失的可能性很高。相比之下，异源持久性细菌，特别是Firmicum，通常依赖于传播策略，其系统地理格局较弱，但家族传播较强，可能与孢子形成有关。这些分析描述了不同的传播策略如何导致人类肠道微生物的长期存在，并对肠道菌群调节产生了影响。细菌菌株可能通过转移细菌适应扩散策略在家庭成员中持续存在：与遗传瓶颈和有效种群大小相关的持续、空间持续和坚韧的扩散策略。Hildebrand等人利用来自粪便样本的公开可用的时间序列元基因组研究了细菌持续生存的策略。他们发现，三种主要的传播策略是人类肠道细菌持久性的基础。它们具有明显的进化模式，如稀有变异的积累和选择强度的差异。
Human gut bacterial strains can co-exist with their hosts for decades, but little is known about how these microbes persist and disperse, and evolve thereby. Here, we examined these processes in 5,278 adult and infant fecal metagenomes, longitudinally sampled in individuals and families. Our analyses revealed that a subset of gut species is extremely persistent in individuals, families, and geographic regions, represented often by locally successful strains of the phylum Bacteroidota. These “tenacious” bacteria show high levels of genetic adaptation to the human host but a high probability of loss upon antibiotic interventions. By contrast, heredipersistent bacteria, notably Firmicutes, often rely on dispersal strategies with weak phylogeographic patterns but strong family transmissions, likely related to sporulation. These analyses describe how different dispersal strategies can lead to the long-term persistence of human gut microbes with implications for gut flora modulations. Bacterial strains may persist within family members through transfer Bacteria adapt dispersal strategies: heredipersistent, spatiopersistent, and tenacious Dispersal strategies correlate with genetic bottlenecks and effective population size Hildebrand et al., investigated strategies of bacterial persistence using publicly available time series metagenomes from stool samples. They found that three major dispersal strategies underlie human gut bacterial persistence. These have distinct evolutionary patterns such as the accumulation of rare variation and differences in their strength of selection.
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影响因子：
3.9
作者：
Duchêne S;Holt KE;Weill FX;Le Hello S;Hawkey J;Edwards DJ;Fourment M;Holmes EC
通讯作者：
Holmes EC
影响因子：
15.5
作者：
Hildebrand F;Tadeo R;Voigt AY;Bork P;Raes J
通讯作者：
Raes J
DOI：
10.1093/bioinformatics/bts565
发表时间：
2012-12-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Fu L;Niu B;Zhu Z;Wu S;Li W
通讯作者：
Li W
影响因子：
28.3
作者：
Brito, Ilana L.;Gurry, Thomas;Alm, Eric J.
通讯作者：
Alm, Eric J.
DOI：
10.1093/bioinformatics/btu439
发表时间：
2014-09-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Hauswedell H;Singer J;Reinert K
通讯作者：
Reinert K