Fig. 3: Nucleocytoviricota diversity in all samples.
From: Past and present giant viruses diversity explored through permafrost metagenomics
a Consensus of 1000 bootstrapped trees calculated by IQ-TREE through a partitioned analysis on 7 marker genes. The tree was performed on permafrost sequences (colored background labels) with more than three marker genes and on reference sequences (white background). The stars indicate the large (>500 kb) scaffolds identified in this study. The models used were the following: LG + F + I + G4 for the packaging ATPase, the RNA polymerase subunits, VT + F + I + G4 for the DNA polymerase, VT + F + G4 for VLTF3 and LG + F + G4 for the MCP. Black dots represent branch bootstrap support ≥ 90%. One should note that reference genomes coming from bins of previous metagenomic studies (marked with a black dot) are less reliable than the genomes of isolated viruses. The colored clades were manually created to be monophyletic. The marker genes used for this phylogeny are indicated as colored squares. Empty squares correspond to marker genes absent from the reference genomes. Black bars show the relative mean coverage of the scaffolds (%). The Extended_phycodnaviridae group includes Pandoraviridae and Mollivirus. The Extended_klosneuvirinae group includes the Cafeteria roenbergensis virus. b Total marker gene count associated to the taxonomy of scaffolds with at least one marker gene. Total counts of each viral clade and each marker gene are shown as barplots on the right and top panels, respectively. Source data are provided as a Source Data file.
