Fig. 4: Independent acquisition of light-driven ATP synthesis in two potentially amoeba-associated clades.
From: Pangenomics reveals alternative environmental lifestyles among chlamydiae
a Gene synteny plot of proteorhodopsin related gene clusters in Parachlamydiaceae MAGs. Comparisons are ordered according to the phylogenomic species tree in Fig. 1. Arrows colored in orange, yellow, and blue represent proteorhodopsin (prd), carotene biosynthesis, and circadian clock genes, respectively. Black arrows indicate genes with chlamydial homologs. Bands connect homologs and are colored according to their protein identity. All other proteins of contigs encoding proteorhodopsin gene clusters were blasted against the NCBI non-redundant (nr) database to confirm the chlamydial origin of the contig. b Maximum likelihood phylogenetic tree of proteorhodopsin (Prd) (ENOG4105CSB) with chlamydial sequences showing two distinct clades. Maximum likelihood tree was inferred under LG + C30 + G + F model with 1000 improved ultrafast bootstraps and 1000 replicates of the SH-like approximate likelihood ratio test. Filled circles at nodes indicate a bootstrap support ≥ 95%. Scale bar indicates the number of substitutions per site.
