Extended Data Fig. 8: Intragenic invertons are rare across genomes yet consistently enriched in some Pfam clans.
From: Intragenic DNA inversions expand bacterial coding capacity
(A) Histograms showing the number of clades (genomes, species, or genera) at various numbers of invertons indicate that invertons are rare, as only one to three invertons can be detected in the majority of clades. Only clades with at least five invertons (red line; number of clades is indicated in the top-right corner of each subplot) were included for the subsequent enrichment analysis. (B) KEGG pathways and Pfam clans were tested for enrichment of intragenic (or partial intergenic) invertons in included clades, using a one-sided Fisher’s exact test per clade (see Methods). Enrichment was only calculated for sets with at least five invertons associated with genes in the set. Histograms show the number of sets with enrichment score at the number of included clades, showing that most enrichments could be calculated for single clades only. For example, all KEGG pathways associated with enough intragenic invertons for an enrichment analysis on genome-level were specific for each genome. Sets with enrichment scores across at least five clades (red line) are labeled with their corresponding identifiers. (C) Heatmap showing the log-odds ratio (effect size for the enrichment of intragenic invertons) across included clades for the six Pfam clans that have enrichment scores on genus-level (see panel B). Stars indicate significance of the enrichment as calculated by Fisher’s exact test and corrected for multiple hypothesis testing using the Benjamini-Hochberg procedure.
