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. 2021 Feb 11;38(5):2014–2029. doi: 10.1093/molbev/msab003

Fig. 4.

Fig. 4.

Components of the Mimiviridae replication machinery show evidence of coevolution. (A) A matrix of 21 replication proteins of Mimivirus with correlation coefficients shown as a heatmap and (B) the MDS analysis of the same set of proteins showing the cluster of proteins in 2D space. The goodness of fit of MDS assessed by Shepard diagram (supplementary fig. S3, Supplementary Material online) and smaller Kruskal’s stress (1) suggests the better representation of MDS analysis (supplementary table S10, Supplementary Material online). (C) Maximum likelihood phylogenetic trees of mimiviral proteins gp351, gp229, gp515, gp243, gp532, gp441, gp549, gp331, gp544 except gp1 showed cophylogenetic mirror pattern, accession numbers of respective proteins are given in supplementary table S10, Supplementary Material online, Red, Mimiviridae I lineage A; blue, Mimiviridae I lineage B; yellow, Mimiviridae I lineage C; maroon, Mimiviridae III; green, Klosneuvirinae. Putative helicase (gp229), putative replication origin-binding protein (gp1), putative ATP-dependent DNA helicase (gp612), putative helicase (gp635), putative helicase (gp8), putative helicase (gp132), DNA topoisomerase 1 (gp243), DNA topoisomerase 2 (gp515), DNA ligase (gp331), DNA polymerase (gp351), putative proliferating cell nuclear antigen (gp886), probable DNA polymerase sliding clamp (gp532), putative replication factor C small subunit (gp549), putative replication factor C small subunit (gp513), putative replication factor C small subunit (gp425), putative replication factor C large subunit (gp441), putative replication factor C small subunit (gp538), probable ribonuclease H protein (gp326), probable ribonuclease 3 (gp371), hypothetical protein-SSBPs (gp544), putative endonuclease of the XPG family (gp417), and putative nuclease (gp456).