Comparative analysis of ribosomal proteins in complete genomes: an example of reductive evolution at the domain scale - PubMed

Figure 4

Genomic context of dispensable r-protein genes in Archaea: L34e and L14e (A), LXa (B) and L30e (C). Arrows represent genes with their relative orientation in the genomes. Contiguous arrows represent adjacent genes while broken lines indicate a loss of proximity. r-protein genes are labeled according to the r-protein families. Conserved r-protein genes are colored in orange and dispensable ones in dark orange while other genes are colored according to general functional categories: translation (light orange), protein processing (yellow), transcription (green), replication (dark green), nucleotide synthesis (blue) and unknown function (white). Abbreviations used for gene names: SECY (preprotein translocase secY subunit), ADK (adenylate kinase), CMK (cytidylate kinase), GATA [glutamyl-tRNA(Gln) amidotransferase subunit A], TRUB (tRNA pseudouridine synthase B), TRUBa (tRNA pseudouridine synthase B subunit a), TRUBb (tRNA pseudouridine synthase B subunit b), Hyp (hypothetical protein), EIF6 (translation initiation factor 6), PFDA (prefoldin alpha subunit), DPA (signal recognition particle protein), SECE (preprotein translocase secE subunit), NUSG (transcription antitermination protein nusG), ALARS (alanyl-tRNA synthetase), PDCD5 (DNA-binding protein belonging to the PDCD5 family), RFCs (replication factor C small subunit), SRP54 (signal recognition 54 kDa protein), NUSA (nusA protein homolog), EF2 (translation elongation factor 2), EF1A (elongation factor 1-alpha). RPOH, RPOB, RPOB2, RPOB1, RPOA1, RPOA2, RPOD, RPON correspond to subunits of the DNA-directed RNA polymerase. Abbreviation used for organisms: Af, A.fulgidus; Ap, A.pernix; Mj, M.janaschii; Mk, M.kandleri; Mt, M.thermoautrophicum; Pa, P.abyssi; Pf, P.furiosus; Ph, P.horikoshii; Py, P.aerophilum; St, S.tokodaii; Ss, S.solfataricus. The LXa gene of Methanococcus jannaschii is not represented since the cluster organization is disrupted for this gene.