Culture Volume Influences the Dynamics of Adaptation under Long-Term Stationary Phase

• Published in: Genome biology and evolution 2020-12, Vol.12 (12), p.2292-2301
• Main Authors: Gross, Jonathan, Avrani, Sarit, Katz, Sophia, Hilau, Sabrin, Hershberg, Ruth
• Format: Article
• Language: English
• ISSN: 1759-6653; 1759-6653
• DOI: 10.1093/gbe/evaa210

Abstract Escherichia coli and many other bacterial species, which are incapable of sporulation, can nevertheless survive within resource exhausted media by entering a state termed long-term stationary phase (LTSP). We have previously shown that E. coli populations adapt genetically under LTSP in an extremely convergent manner. Here, we examine how the dynamics of LTSP genetic adaptation are influenced by varying a single parameter of the experiment—culture volume. We find that culture volume affects survival under LTSP, with viable counts decreasing as volumes increase. Across all volumes, mutations accumulate with time, and the majority of mutations accumulated demonstrate signals of being adaptive. However, positive selection appears to affect mutation accumulation more strongly at higher, compared with lower volumes. Finally, we find that several similar genes are likely involved in adaptation across volumes. However, the specific mutations within these genes that contribute to adaptation can vary in a consistent manner. Combined, our results demonstrate how varying a single parameter of an evolutionary experiment can substantially influence the dynamics of observed adaptation.