FIGURE 3.

The transcriptome and phylogenetic analysis of Osmia cornuta nudivirus (OcNV). (A) Nudiviral transcripts (black lines) were mapped to the genome map of Oryctes rhinoceros nudivirus (OrNV). Note that the order of the transcripts is not representative for OcNV since genomic reorganizations are common in dsDNA viruses. In total, 74 orthologs with respect to OrNV genes (boxes) were identified. Red boxes represent the 20 core baculoviral genes that are shared among Baculoviridae and Nudiviridae. Empty (white) boxes represent OcNV genes that were not found in the OrNV transcriptome. In blue is the coverage (100–300x) by realignment of RNA-Seq reads to the contigs which correlates to the abundance of the viral transcript in the library Ocor2. (B) Maximum likelihood trees of OcNV based on DNApol and pif-2 conserved domains pfam03104 and pfam04631, respectively. The phylogenetic analyses included viruses of the families Baculoviridae (four genera) and Nudiviridae (two genera). A third analysis with late expression factor 8 protein gave a tree with a similar topology to that of DNApol and was considered redundant. Both trees depicted here placed OcNV close to OrNV and Gryllus bimaculatus nudivirus of the genus Alphanudivirus. Virus full names and protein accession numbers are included in Supplementary File S2.