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Characterizing a stable five-species microbial community for use in experimental evolution and ecology.

Meaghan CastledineJoseph PennycookArthur NewburyLuke LearZoltan ErdosRai LewisSuzanne KayDirk SandersDavid SünderhaufAngus BucklingElze HesseDaniel Padfield
Published in: Microbiology (Reading, England) (2024)
Model microbial communities are regularly used to test ecological and evolutionary theory as they are easy to manipulate and have fast generation times, allowing for large-scale, high-throughput experiments. A key assumption for most model microbial communities is that they stably coexist, but this is rarely tested experimentally. Here we report the (dis)assembly of a five-species microbial community from a metacommunity of soil microbes that can be used for future experiments. Using reciprocal invasion-from-rare experiments we show that all species can coexist and we demonstrate that the community is stable for a long time (~600 generations). Crucially for future work, we show that each species can be identified by their plate morphologies, even after >1 year in co-culture. We characterise pairwise species interactions and produce high-quality reference genomes for each species. This stable five-species community can be used to test key questions in microbial ecology and evolution.
Keyphrases
  • microbial community
  • high throughput
  • antibiotic resistance genes
  • healthcare
  • mental health
  • genetic diversity
  • risk assessment
  • gene expression
  • climate change
  • dna methylation
  • single cell
  • genome wide