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Phenotypic, genetic, and epigenetic data from 29 Serratia marcescens strains from an evolution experiment

Citation

Bruneaux, Matthieu; Ashrafi, Roghaieh; Kronholm, Ilkka; Ketola, Tarmo (2021), Phenotypic, genetic, and epigenetic data from 29 Serratia marcescens strains from an evolution experiment, Dryad, Dataset, https://doi.org/10.5061/dryad.g79cnp5qd

Abstract

This dataset contains phenotypic, genetic, and epigenetic data from 29 Serratia marcescens strains from an evolution experiment. In a previous study (https://doi.org/10.1111/evo.12148), the bacterium S. marcescens was left to evolve from a common ancestor culture in replicated populations kept under different temperature regimes, and evolved clones were isolated and their phenotypes measured. Here, we randomly selected 28 evolved clones from this experiment, as well as the original reference strain, and used PacBio single molecule real-time (SMRT) sequencing to obtain genetic and epigenetic (N6-methyladenine modifications, m6A) data. The goal of our study was to obtain a detailed description of the methylation landscape of S. marcescens and to examine the potential contributions of genetic and epigenetic changes to phenotypic adaptation.

Methods

A full description of the methods are available in Ketola et al. 2013 (https://doi.org/10.1111/evo.12148) for phenotypic measurements (and for the original evolution experiment) and in Bruneaux et al. 2021 (http://dx.doi.org/10.1080/15592294.2021.1966215) for the PacBio sequencing leading to the genetic and epigenetic data.

Funding

Academy of Finland, Award: 278751

Academy of Finland, Award: 252411