Cultivation and quantitative proteomic analyses of acidophilic microbial communities
Cultivation and quantitative proteomic analyses of acidophilic microbial communities
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DOI：
10.1038/ismej.2009.139
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发表时间：
2010-04-01
期刊：
影响因子：
11
通讯作者：
Banfield, Jillian F.
中科院分区：
文献类型：
--
作者：
Belnap, Christopher P.;Pan, Chongle;Banfield, Jillian F.
酸性矿山排水（AMD），一个极端的环境，其特点是低pH值和高金属浓度，可以支持密集的嗜酸微生物生物膜群落，依赖于基于铁氧化的化学自养生产。现场确定的生产率表明，尽管极端的条件下，这些社区是足够好地适应他们的栖息地，以实现初级生产率发生在一些非极端环境中的微生物群落。为了能够对AMD微生物群落的生长、产生和生态学进行实验室研究，设计了培养系统以再现天然生物膜，包括对培养不敏感的生物体。一个全面的代谢标记为基础的定量蛋白质组学分析被用来验证自然和实验室社区在功能水平上是可比的。结果证实，实验室生长的群落的组成和核心代谢活动与自然群落相似，包括存在活性低丰度细菌和尚未分离的古细菌。然而，实验室的生长速度慢，与自然社区相比，这与实验室社区中的优势细菌的应激反应蛋白的丰度增加有关。培养条件的改变减少了应激反应蛋白的丰度，增加了实验室群落的生长速率。这里提出的研究代表了在社区水平上的代谢标记为基础的定量蛋白质组学分析的应用程序的第一个描述，并导致在一个模型微生物群落系统的理想测试生理和生态假设。The ISME Journal（2010）4，520-530; doi：10.1038/ismej.2009.139; 2009年12月24日在线发表
Acid mine drainage (AMD), an extreme environment characterized by low pH and high metal concentrations, can support dense acidophilic microbial biofilm communities that rely on chemoautotrophic production based on iron oxidation. Field determined production rates indicate that, despite the extreme conditions, these communities are sufficiently well adapted to their habitats to achieve primary production rates comparable to those of microbial communities occurring in some non-extreme environments. To enable laboratory studies of growth, production and ecology of AMD microbial communities, a culturing system was designed to reproduce natural biofilms, including organisms recalcitrant to cultivation. A comprehensive metabolic labeling-based quantitative proteomic analysis was used to verify that natural and laboratory communities were comparable at the functional level. Results confirmed that the composition and core metabolic activities of laboratory-grown communities were similar to a natural community, including the presence of active, low abundance bacteria and archaea that have not yet been isolated. However, laboratory growth rates were slow compared with natural communities, and this correlated with increased abundance of stress response proteins for the dominant bacteria in laboratory communities. Modification of cultivation conditions reduced the abundance of stress response proteins and increased laboratory community growth rates. The research presented here represents the first description of the application of a metabolic labeling-based quantitative proteomic analysis at the community level and resulted in a model microbial community system ideal for testing physiological and ecological hypotheses. The ISME Journal (2010) 4, 520-530; doi:10.1038/ismej.2009.139; published online 24 December 2009