Abstract
ORF virus (ORFV), the etiological agent of contagious pustular dermatitis in small ruminants, belongs to members of the genus Parapoxvirus of the Poxviridae. The genome of the ORFV is dsDNA of 139,962 bp which has about 89% coding region, 63% GC content and codes 130 proteins. There are four unique genes within the genome revealed by homology search of them two posses’ strong regulatory region and transmembrane helices. One of the ORF-039 contains signal peptide indicating the possibilities to be secretory protein coding gene. Comparative genomic analysis reveals significant differences in Bovine Papular Stomatitis Virus (BPSV) strain BV-AR02 and ORFV strain OV-SA00, and these may account for differences in host range. Interspecies sequence variability is observed in all functional classes of genes but is the highest in putative virulence/host range genes. Notably, ORFV contains genes which are homologous of Vaccinia virus. Phylogenetic analysis reveals that although divergent, ORFV virus is distinct from other known mammalian cowpox virus. An improved understanding of Parapoxvirus (PPV) biology will permit the engineering of novel vaccine viruses and expression vectors with enhanced efficacy and greater versatility. The novel vaccine will have a significant role in the economy of a country through the control of disease in an economically important and small ruminant caused by ORFV.
Highlights
Genome annotation is the analysis of genome sequence of a particular species which includes all the possibleHow to cite this paper: Firoj Mahmud, A.K.M., Zillur Rahman, K.M., Dey, S.K., Islam, T. and Talukder, A.A. (2014) Genome Annotation and Comparative Genomics of Open Reading Frame (ORF) Virus
Comparative genome sequences with other two closely related viruses vacccinia virus (VACV) and bovine papular stomatitis virus (BPSV) here provide a comparative view of Parapoxvirus (PPV) genomics and basic knowledge of viral functions associated with virus replication and manipulation of cellular responses
Based on comparative genomic analysis, the genomes of BPSV and ORF virus (ORFV) differ significantly which may be responsible for differences in host range
Summary
Genome annotation is the analysis of genome sequence of a particular species which includes all the possibleHow to cite this paper: Firoj Mahmud, A.K.M., Zillur Rahman, K.M., Dey, S.K., Islam, T. and Talukder, A.A. (2014) Genome Annotation and Comparative Genomics of ORF Virus. Genome annotation is the analysis of genome sequence of a particular species which includes all the possible. (2014) Genome Annotation and Comparative Genomics of ORF Virus. An individual gene and its protein (or RNA) product can be predicted by in depth analysis of several gene features, such as ORFs length, % (G + C) content, promoter, polyA tail, homology, etc. Several genome annotation tools are freely available for further analysis of genome sequence. BLAST is the most used homology tool for homology prediction but there are many other options are available, such as MPsrch, PSI-BLAST and WU-BLAST [5]. There are many Genome annotation pipelines available, such as PASA and MAKER, in which several analysis tools are integrated [6]. Users are required to select the tools or pipeline according to their needs that serve best for their purpose
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