Genomic characterisation of a lentogenic Newcastle disease virus strain HX01 isolated from sick pigs in China

Abstract

This paper describes the complete genome sequence of HX01, an isolate of the Newcastle disease virus (NDV) collected from a swine disease outbreak. The genome is 15,186 nt long and consists of six genes in the order of 3'-NP-P-M-F-HN-L-5'. This genome has the same length as the old NDV genotypes (I-IV), whereas the new NDV genotypes (V-IX) are 15,192 nt long. Compared with the genomic sequences of the reference NDV strains, the HX01 genome is highly similar to the genome of other NDV strains. However, some unique features of the HN gene were found in HX01. HX01 possesses the motif (112)G-R-Q-G-R-L(117) at the fusion protein cleavage site, which is typical of lentogenic strains. Pathogenicity tests based on the mean death time and the intracerebral pathogenicity index also revealed the isolate's lentogenic character. Phylogenetic analysis based on the variable region of the F gene (nt 47-420) revealed that HX01 was clustered to genotype II within class II NDV. Genetically, HX01 has a high similarity with the La Sota vaccine strain based on the single gene or complete genomic but is far different from the prevalent genotype VIId NDV which circulates in fowls and waterfowls in mainland China.