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Into the microbial niche.

Lucie A Malard1, Antoine Guisan2

  • 1Department of Ecology and Evolution, University of Lausanne, 1015 Lausanne, Switzerland.

Trends in Ecology & Evolution
|May 26, 2023
PubMed
Summary
This summary is machine-generated.

We introduce a metabolic niche framework to understand microbial habitats. This approach uses advanced sequencing to reveal microbial metabolism, plasticity, and invasion dynamics.

Keywords:
environmental nichemetabolic nichemetagenomicsmetatranscriptomicsmicrobial communities

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Area of Science:

  • Microbial Ecology
  • Systems Biology
  • Bioinformatics

Background:

  • The environmental niche concept is crucial for understanding ecological dynamics but limited in microbial ecology due to system complexity and methods.
  • Shotgun metagenomics and metatranscriptomics offer new avenues to explore microbial niches, particularly their metabolic aspects.

Purpose of the Study:

  • To propose a novel metabolic niche framework for microorganisms.
  • To leverage advanced sequencing techniques for a deeper understanding of microbial habitat preferences and metabolism.
  • To explore microbial metabolic plasticity, niche shifts, and invasion dynamics.

Main Methods:

  • Utilizing shotgun metagenomics and metatranscriptomics data.
  • Defining the fundamental and realized metabolic niche for microorganisms.
  • Analyzing microbial habitat preferences and metabolic functions.

Main Results:

  • The proposed framework provides insights into microbial habitat preferences and associated metabolism.
  • It aids in understanding metabolic plasticity and niche shifts in microbial communities.
  • Potential applications in studying microbial invasions are highlighted.

Conclusions:

  • The metabolic niche framework enhances the application of niche concepts in microbial ecology.
  • This approach offers novel perspectives on microbial life and interactions.
  • It paves the way for more sophisticated analyses of microbial systems.