PT  - JOURNAL ARTICLE
AU  - Angela Liu
AU  - Anne Archer
AU  - Matthew B. Biggs
AU  - Jason A. Papin
TI  - Growth-Altering Microbial Interactions Are Highly Sensitive to Environmental Context
AID  - 10.1101/079251
DP  - 2016 Jan 01
TA  - bioRxiv
PG  - 079251
4099  - http://biorxiv.org/content/early/2016/10/04/079251.short
4100  - http://biorxiv.org/content/early/2016/10/04/079251.full
AB  - Microbial interactions are ubiquitous in nature, and equally as relevant to human wellbeing as the identities of the interacting microbes. However, microbial interactions are difficult to measure and characterize. Furthermore, there is growing evidence that they are not fixed, but dependent on environmental context. We present a novel workflow for inferring microbial interactions that integrates semi-automated image analysis with a colony stamping mechanism, with the overall effect of improving throughput and reproducibility of colony interaction assays. We apply our approach to infer interactions among bacterial species associated with the normal lung microbiome, and how those interactions are altered by the presence of benzo[a]pyrene, a carcinogenic compound found in cigarettes. We found that the presence of this single compound changed the interaction network, demonstrating that microbial interactions are indeed highly dynamic and responsive to environmental context.