Estimating taxon-specific population dynamics in diverse microbial communities
Estimating taxon-specific population dynamics in diverse microbial communities
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DOI：
10.1002/ecs2.2090
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发表时间：
2018-01-01
期刊：
影响因子：
2.7
通讯作者：
Hungate, Bruce A.
中科院分区：
文献类型：
--
作者：
Koch, Benjamin J.;McHugh, Theresa A.;Hungate, Bruce A.
了解种群层面的动态如何影响生态系统层面的过程是生态研究的主要焦点，并导致了宏观生物生态学的重要突破。然而，由于无法测量自然组合内微生物类群的种群特定速率（例如生长率），限制了生态学家对微生物种群如何相互作用以调节生态系统过程的理解。在这里，我们利用 DNA 分子内的同位素掺入来模拟存在 O-18 标记水的情况下分类群特异性种群的增长。通过将该模型应用于从稳定同位素探测研究中收集的系统发育标记测序数据，我们估计了土壤组合内单个微生物种群的生长率、死亡率和周转率。当对整个细菌群落进行总结时，我们的分类单元特异性估计值处于细菌周转的其他整体组合测量的范围内。因为它可以应用于环境样本，所以我们提出的方法广泛适用于测量各种生态系统的微生物类群的种群增长、死亡率和相关的生物地球化学过程速率，并且可以帮助揭示单个微生物种群如何驱动生物地球化学通量。
Understanding how population-level dynamics contribute to ecosystem-level processes is a primary focus of ecological research and has led to important breakthroughs in the ecology of macroscopic organisms. However, the inability to measure population-specific rates, such as growth, for microbial taxa within natural assemblages has limited ecologists' understanding of how microbial populations interact to regulate ecosystem processes. Here, we use isotope incorporation within DNA molecules to model taxon-specific population growth in the presence of O-18-labeled water. By applying this model to phylogenetic marker sequencing data collected from stable-isotope probing studies, we estimate rates of growth, mortality, and turnover for individual microbial populations within soil assemblages. When summed across the entire bacterial community, our taxon-specific estimates are within the range of other whole-assemblage measurements of bacterial turnover. Because it can be applied to environmental samples, the approach we present is broadly applicable to measuring population growth, mortality, and associated biogeochemical process rates of microbial taxa for a wide range of ecosystems and can help reveal how individual microbial populations drive biogeochemical fluxes.