Skip to main content
Dryad logo

Human-associated microbiota suppress invading bacteria even under disruption by antibiotics

Citation

Letten, Andrew et al. (2021), Human-associated microbiota suppress invading bacteria even under disruption by antibiotics, Dryad, Dataset, https://doi.org/10.5061/dryad.d51c5b02r

Abstract

In light of their adverse impacts on resident microbial communities, it is widely predicted that broad-spectrum antibiotics can promote the spread of resistance by releasing resistant strains from competition with other strains and species. We investigated the competitive suppression of a resistant strain of Escherichia coli inoculated into human-associated communities in the presence and absence of the broad and narrow spectrum antibiotics rifampicin and polymyxin B, respectively. We found strong evidence of community-level suppression of the resistant strain in the absence of antibiotics and, despite large changes in community composition and abundance following rifampicin exposure, suppression of the invading resistant strain was maintained in both antibiotic treatments. Instead, the strength of competitive suppression was more strongly associated with the source community (stool sample from individual human donor). This suggests microbiome composition strongly influences the competitive suppression of antibiotic-resistant strains, but at least some antibiotic-associated disruption can be tolerated before competitive release is observed. A deeper understanding of this association will aid the development of ecologically-aware strategies for managing antibiotic resistance.

Methods

Please see: Letten, A.D., Baumgartner, M., Pfrunder-Cardozo, K.R., Levine, J.M. and Hall, A.R. 2021. Human-associated microbiota suppress invading bacteria even under disruption by antibiotics. The ISME Journal

Usage Notes

otufile.txt - OTU abundance and taxonomic identification file
mapfile.txt - Metadata mapping file containing sequencing and experimental info for each sample
cfu_counts.csv - Counts of colony forming units across each treatment

See readme.txt for an explanation of all variables

Funding

European Union Horizon 2020 Marie Skłodowska-Curie awards, Award: 750779

Swiss National Science Foundation Project, Award: 31003A\_165803

European Union Horizon 2020 Marie Skłodowska-Curie awards, Award: 750779

Swiss National Science Foundation Project, Award: 31003A\_165803