title: Characterization of Malaysian velogenic NDV strain AF2240-I genomic sequence: a comparative study.
abstract: Newcastle disease virus (NDV) strain AF2240 is a viscerotropic velogenic strain that is used as a vaccine challenge virus in Malaysia. The identification of the full length genome will be a crucial platform for further studies of this isolate. In this study, we fully sequenced the genome of a derivative of this strain named AF2240-I. The 15,192 nt long genome contains a 55-nt leader sequence at the 3' whereas the trailer region consists of 114 nt at the 5'. The intergenic sequences between the NP-P, P-M, M-F, F-HN, and HN-L genes comprise 1, 1, 1, 31, and 47 nt, respectively. The acknowledged cleavage site of fusion protein showed amino acid sequence of 112-R-R-Q-K-R-F-117, which corresponds to those of virulent NDV strains. Phylogenetic analysis of the whole virus genome shows that the strain AF2240-I belongs to genotype VIII and is more closely related to velogenic strains QH1, QH4, Fontana, Largo, and Italienas compared to other strains of NDV. Differences are noticed in the hemagglutinin-neuraminidase (HN) and matrix (M) gene between AF2240 and its derivative AF2240-I. This is the first report of a complete genome sequence of an NDV strain isolated in Malaysia.
authors.affiliation: Institute of Biosciences, Universiti Putra Malaysia, 43400, Serdang, Selangor DE, Malaysia.
authors.forename: Kavitha
authors.initials: K
authors.lastname: Murulitharan
authors.forename: Khatijah
authors.initials: K
authors.lastname: Yusoff
authors.forename: Abdul Rahman
authors.initials: AR
authors.lastname: Omar
authors.forename: Aidin
authors.initials: A
authors.lastname: Molouki
mesh_terms: D020413:3' Untranslated Regions; D020121:5' Untranslated Regions; D000818:Animals; D016000:Cluster Analysis; D021901:DNA, Intergenic; D005814:Genes, Viral; D016679:Genome, Viral; D008296:Malaysia; D008969:Molecular Sequence Data; D009522:Newcastle disease virus / Q000235:genetics* / Q000302:isolation & purification; D010802:Phylogeny; D012367:RNA, Viral / Q000235:genetics*; D017422:Sequence Analysis, DNA; D017385:Sequence Homology
chemical_list: D020413:3' Untranslated Regions; D020121:5' Untranslated Regions; D021901:DNA, Intergenic; D012367:RNA, Viral