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A Reverse Ecology Approach Based on a Biological Definition of Microbial Populations.
Arevalo, Philip; VanInsberghe, David; Elsherbini, Joseph; Gore, Jeff; Polz, Martin F.
Afiliação
  • Arevalo P; Microbiology Graduate Program, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
  • VanInsberghe D; Microbiology Graduate Program, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
  • Elsherbini J; Microbiology Graduate Program, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
  • Gore J; Physics of Living Systems, Department of Physics, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
  • Polz MF; Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA. Electronic address: mpolz@mit.edu.
Cell ; 178(4): 820-834.e14, 2019 08 08.
Article em En | MEDLINE | ID: mdl-31398339
Delineating ecologically meaningful populations among microbes is important for identifying their roles in environmental and host-associated microbiomes. Here, we introduce a metric of recent gene flow, which when applied to co-existing microbes, identifies congruent genetic and ecological units separated by strong gene flow discontinuities from their next of kin. We then develop a pipeline to identify genome regions within these units that show differential adaptation and allow mapping of populations onto environmental variables or host associations. Using this reverse ecology approach, we show that the human commensal bacterium Ruminococcus gnavus breaks up into sharply delineated populations that show different associations with health and disease. Defining populations by recent gene flow in this way will facilitate the analysis of bacterial and archaeal genomes using ecological and evolutionary theory developed for plants and animals, thus allowing for testing unifying principles across all biology.
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Texto completo: 1 Base de dados: MEDLINE Assunto principal: Fluxo Gênico / Microbiota / Clostridiales Tipo de estudo: Prognostic_studies Limite: Humans Idioma: En Ano de publicação: 2019 Tipo de documento: Article

Texto completo: 1 Base de dados: MEDLINE Assunto principal: Fluxo Gênico / Microbiota / Clostridiales Tipo de estudo: Prognostic_studies Limite: Humans Idioma: En Ano de publicação: 2019 Tipo de documento: Article