The genome of C. bovis

The following files are key data files used in the manuscript:<br> <br> <strong>caenorhabditis_35species_1167orthos.supermatrix.fa</strong>: supermatrix consisting of the concatenated alignments of 1,167 single-copy orthologues which was used to infer the species tree. <strong>caenorhabditis_35species_1167orthos.treefile</strong>: <em>Caenorhabditis </em>species tree in newick format from IQ-TREE <strong>CBOVI.caenorhabditis_bovis_LS_v1.annotations.gff3</strong>: GFF3 (annotation) file for the <em>C. bovis </em>reference genome from BRAKER <strong>CBOVI.caenorhabditis_bovis_LS_v1.cds.fna</strong>: predicted coding sequences (CDS) for the <em>C. bovis </em>reference genome from BRAKER <strong>CBOVI.caenorhabditis_bovis_LS_v1.proteins.faa</strong>: predicted protein/amino acid sequences for the <em>C. bovis </em>reference genome from BRAKER <strong>CBOVI.caenorhabditis_bovis_LS_v1.scaffolds.fna</strong>: genome fasta for the <em>C. bovis </em>reference genome (Note: contains contigs, file named scaffold.fna to match filenames of other <em>Caenorhabditis</em> species) <strong>Orthogroups.txt</strong>: orthology clustering file of protein sequences from <em>C. bovis, </em>32 other <em>Caenorhabditis </em>species and two <em>Diploscapter </em>outgroup taxa from OrthoFinder The following files are tables that were included in the supplementary information in a previous version of the manuscript: <strong>TableS3_gene_families.tsv</strong>: table with a line for each orthogroup showing counts in <em>C. bovis, </em>averages in other species, and functional annotation generated using Pfam. <strong>TableS6_software_params.xlsx</strong>: versions of software used and relevant parameters. <strong>TableS7_phylogenomics_accessions.xlsx</strong>: accessions for all data using in orthology clustering and phylogenomic analyses.