Additional data for the manuscript "Genetic barriers more than environmental associations explain Serratia marcescens population structure"

Here the source data produced in the main analyses performed in the study associated to the manuscript "Genetic barriers more than environmental associations explain Serratia marcescens population structure". Files are separated in subfolders corresponding to the main analyses performed in the study. Among the data, there are:
The coreSNP alignment, phylogenetic tree and Mash distances used for the clustering analysis.The table with stratified Chi-squared residuals (see Methods in the manuscript) used to determine associations between isolation sources and phylogenetic clusters.Table with frequency of genes associated to clusters and gene presence absence.Cluster-specific orthologs and table with Youden scores and S. marcescens specificity for each ortholog, along with the output table of the marker genes found in MGnify metagenomic samples containing S. marcescens.Alingments and phylogenetic trees of 1062 core genes used for the HGT analysis; SNP alignment and phylogenetic tree for the strain subset used in these analyses; HGT-detection tool output; output of R-M systems identified, R-M compatibility and strain cluster table produced in the R-M analysis.A collection of custom in-house scripts used in the analyses.