A Simple Method to Detect Candidate Overlapping Genes in Viruses Using Single Genome Sequences

Schlub, Timothy E; Buchmann, Jan P; Holmes, Edward C

A 173 codon long ORF was detected within the phosphoprotein P coding gene of Bovine respirovirus virus 3 (singlestranded negative-sense RNA virus, family Paramyxoviridae). This þ2 reading frame ORF was particularly interesting because although its protein alignment didn't match any Bovine respirovirus virus proteins, it did align with V proteins and RNA editing derivatives within the phosphoprotein P gene of (Galinski et al. 1992; Wells and Malur 2008) . These derivatives may play an important role in virus replication (Durbin et al. 1999) , virulence (Huang et al. 2003) , and/or the disruption of interferon expression (Roth et al. 2013) , and the discovery is in agreement with that claims all three reading frames in the P gene of Bovine respirovirus are expressed (Pelet et al. 1991 ).