Phylogenetic and genomic analysis of the <i>Daubentonia madagascariensis</i> rhadinovirus.

<p>Panel A is a maximum likelihood amino acid phylogeny of DNA polymerase, indicating the subfamily placement of the DmadHVL sequence as a gammaherpesvirus. Numbers at each node represent bootstrap support and only those above 50% are shown. Lineages other than those leading to DmadHVL are collapsed for clarity. In Panel B, the tree shown is a maximum likelihood phylogeny estimated using a concatenated alignment of 6 core genes (terminase, large tegument, uracil-DNA glycosylase, kinase, capsid and helicase). Coloured clades represent the different genera within gamma-2 herpesviruses, and bootstrap support is shown for each node. Panel C shows DmadHVL sequences mapped to <i>Saimiriine herpesvirus 2</i> (SaHV2) as a guide, and major repeat blocks as well as noteworthy genomic differences and genes discussed in the main text are highlighted in coloured boxes. The green blocks are the FGAM synthase coding sequences, which are found at the termini. The red box annotated as glycoprotein H is presumed to be an assembly error. Pink boxes are discussed genes present in SaHV2, while the yellow ORFs are those found in different viruses. The blue lines indicate the different sequences that are a composite of multiple wgs contigs, the number of which is indicated above each sequence. The composite DmadHVL sequences discussed in the main text are numbered from 1–16 in a left-right direction. The DmadHVL virus genome appears to have a slightly larger region spanning herpes core block (HCB) 3 and HCB4, and so contig 11 is drawn to represent this. The scale of the schematic is approximate. Abbreviations for Panel B are porc2/3: OvHV2: <i>Ovine herpesvirus 2</i>, AlHV1: <i>Alcelaphine herpesvirus 1</i>, <i>Porcine lymphotropic herpesvirus 2/3</i>, EqHV2: <i>Equine herpesvirus 2</i>, RodHV: <i>Rodent herpesvirus peru</i>, MuHV4: <i>Murid herpesvirus 4</i>, AtHV3: <i>Ateline herpesvirus 3</i>, SaHV2: <i>Saimiriine herpesvirus 2</i>, BoHV4: <i>Bovine herpesvirus 4</i>, HHV8: <i>human herpesvirus 8</i>, MaHV5: <i>Macacine herpesvirus 5</i>.