Community-integrated omics links dominance of a microbial generalist to fine-tuned resource usage.
Community-integrated omics links dominance of a microbial generalist to fine-tuned resource usage.
复制标题
社区综合的OMIC将微生物通才的主导地位与微调的资源使用联系在一起。
DOI：
10.1038/ncomms6603
复制
发表时间：
2014-11-26
影响因子：
16.6
通讯作者：
Wilmes, Paul
中科院分区：
文献类型：
--
作者：
Muller, Emilie E. L.;Pinel, Nicolas;Laczny, Cedric C.;Hoopmann, Michael R.;Narayanasamy, Shaman;Lebrun, Laura A.;Roume, Hugo;Lin, Jake;May, Patrick;Hicks, Nathan D.;Heintz-Buschart, Anna;Wampach, Linda;Liu, Cindy M.;Price, Lance B.;Gillece, John D.;Guignard, Cedric;Schupp, James M.;Vlassis, Nikos;Baliga, Nitin S.;Moritz, Robert L.;Keim, Paul S.;Wilmes, Paul
微生物群落是一个复杂的动态系统，主要是根据其成员的生态位构建的。为了研究生态位宽度（通才与专业生活方式策略）与生态成功的关系，我们开发并应用了一个综合工作流程，用于对生物废水处理厂的产油混合微生物群落进行多组学分析。时间和空间分辨率的代谢组学和分类学分析表明，整个群落的脂质积累表型与多能菌微丝酵母（Candidatus Microthrix spp）的优势有关。通过整合群体水平的基因组重建（反映基本生态位）与转录组学和蛋白质组学数据（实现生态位），我们确定了精细调节的基因表达随着时间的推移控制着小丝酵母（Candidatus Microthrix parvicella）资源利用。此外，我们的研究结果表明，波动的环境条件可能由于适应度权衡而限制了微小微刺候选菌遗传变异的积累。根据我们的观察，生态位宽度必须被视为理解控制（微生物）种群大小和原位结构的进化过程的重要因素。在微生物群落中，微生物采用不同的生活方式策略来利用可利用的资源。在这里，作者使用了一种综合的“多组学”方法来研究缺氧废水处理池中产油微生物组合的生态位宽度（通才与专才的生活方式）。
Microbial communities are complex and dynamic systems that are primarily structured according to their members’ ecological niches. To investigate how niche breadth (generalist versus specialist lifestyle strategies) relates to ecological success, we develop and apply an integrative workflow for the multi-omic analysis of oleaginous mixed microbial communities from a biological wastewater treatment plant. Time- and space-resolved coupled metabolomic and taxonomic analyses demonstrate that the community-wide lipid accumulation phenotype is associated with the dominance of the generalist bacterium Candidatus Microthrix spp. By integrating population-level genomic reconstructions (reflecting fundamental niches) with transcriptomic and proteomic data (realised niches), we identify finely tuned gene expression governing resource usage by Candidatus Microthrix parvicella over time. Moreover, our results indicate that the fluctuating environmental conditions constrain the accumulation of genetic variation in Candidatus Microthrix parvicella likely due to fitness trade-offs. Based on our observations, niche breadth has to be considered as an important factor for understanding the evolutionary processes governing (microbial) population sizes and structures in situ. Within microbial communities, microorganisms adopt different lifestyle strategies to use the available resources. Here, the authors use an integrated ‘multi-omic’ approach to study niche breadth (generalist versus specialist lifestyles) in oleaginous microbial assemblages from an anoxic wastewater treatment tank.
登录
查看更多内容
影响因子：
6.4
作者：
Liu CM;Hungate BA;Tobian AA;Serwadda D;Ravel J;Lester R;Kigozi G;Aziz M;Galiwango RM;Nalugoda F;Contente-Cuomo TL;Wawer MJ;Keim P;Gray RH;Price LB
通讯作者：
Price LB
影响因子：
48
作者：
Langmead, Ben;Salzberg, Steven L.
通讯作者：
Salzberg, Steven L.
影响因子：
2.9
作者：
EMLEN, JM
通讯作者：
EMLEN, JM
影响因子：
3.2
作者：
Konstantinidis, KT;Tiedje, JM
通讯作者：
Tiedje, JM
影响因子：
14.9
作者：
Cole JR;Wang Q;Cardenas E;Fish J;Chai B;Farris RJ;Kulam-Syed-Mohideen AS;McGarrell DM;Marsh T;Garrity GM;Tiedje JM
通讯作者：
Tiedje JM