Fig. 5
From: Producing polished prokaryotic pangenomes with the Panaroo pipeline
a A diagram indicating how gene triplets are called in the graph. A single genome can only pass through a node once; thus, variations in the arrangement of genes in different genomes can be called using triplets. These triplets are summarised as a binary presence/absence matrix. b A family of related plasmids present in the N. gonorrhoeae pangenome gene network. The path highlighted in red contained 4 structural variant gene triplets significantly negatively associated with tetracycline resistance, or associated with tetracycline susceptibility by a structural variant pan-GWAS (all adjusted p value < 0.05). The gene highlighted in yellow, group_1999, was found to be a tetM resistance gene. c A subsection of the N. gonorrhoeae pangenome gene network of the region surrounding gene group_1138. The presence of gene triplets (group_771-group_1002-group_1138) and (group_1131-group_795-group_1138) is positively associated with tetracycline resistance whilst the triplets (group_1002-group_795-group_1131) and (group_771-group_1002-group_795) are negatively associated with tetracycline resistance (all adjusted p value < 0.05)