Biological insights and methodological challenges learned from working with a diverse heterotrophic marine bacterial library

作者：Waseem Bashir Valiya Kalladi, Melisa L. Osborne, Helen C. Scott, Franziska Kratzl, Cecilia Gutiérrez, Elena Forchielli, N. I. Gurevich, Joseline Velasquez-Reyes, Krupa Sampat, Luca Zoccarato, Konrad Herbst, Osnat Weissberg, Hans‐Peter Grossart, Daniel Segrè, Daniel Sher · 发表于：bioRxiv (Cold Spring Harbor Laboratory) · 年份：2025 · DOI：10.1101/2025.11.25.689180 · 被引用次数：1 · 研究领域：Microbial Community Ecology and Physiology、Vibrio bacteria research studies、Bacteriophages and microbial interactions

ABSTRACT Background Organized collections of bacterial strains can help bridge the gap between studying model organisms and communities, through comparative experiments between genetically and phenotypically diverse strains. We describe the establishment and initial characterization of a library of 62 marine heterotrophic bacteria, selected to represent a significant fraction of the genome-encoded functional diversity and a wide range of known phytoplankton-bacteria interactions. We focus on important but often undiscussed aspects of collecting and maintaining such a library, verifying strain identity, and applying classical microbiological methods across diverse strains. Results Cultured strains contain up to hundreds of mutations compared with the reference genomes, with non-synonymous mutations in rpoB and/or rpoC genes observed in ∼15% of the cultures. Most strains grow well at 25°C, but the dependence of growth rate on temperature and the width of the temperature niche vary between strains in a systematic manner. We describe steps towards designing a universal, defined, minimal media for marine bacteria, revealing that growth inhibition on amino acids and peptides by carbohydrates is widespread. Cell counts obtained from flow cytometry and colony plating differ systematically, as do different methods to assess motility. Finally, we discuss traits potentially related to microbial interactions such as hemolysis, biofilm formation, and antibiotic resistance. Gammaproteobact...