Genome and Molecular Characterization of a CSFV Strain Isolated from a CSF Outbreak in South China

Abstract

In the present study, the full-length nucleotide sequences of the CSFV-GZ-2009 strain of classical swine fever virus (CSFV) isolated from a hog pen in Guangdong province in China was determined. Results demonstrated that the genome of CSFV-GZ-2009 is 12,298 nucleotides (nt) in length, is composed of a 373-nt 5′-untranslated region (UTR), has an 11,697-nt open reading frame encoding a polyprotein of 3,898 amino acids, and has a 228-nt 3′-UTR. Genome comparison of the CSFV-GZ-2009 isolate (GenBank accession No. HQ380231) with other CSFV strains was also analyzed. Gene regions from CSFV-GZ-2009 and other known strains were shown to share 92.7–96.7% identity at the nucleotide level and 94.7–99.2% identity at the amino acid level. Phylogenetic analysis of the full-length genome and the following regions E^rns, E2 and NS5B revealed that the CSFV-GZ-2009 isolate was classified within subgroup 1.1 of group I and closely related to the highly virulent strain JL1 (06), cF114, Shimen and SWH with pairwise distances of 0.0037, 0.0043, 0.0058 and 0.0107, respectively. Analysis of recombination with the SimPlot program demonstrated that strain CSFV-GZ-2009 was not a naturally homologous recombinant. Furthermore, the change of clinical signs of pigs after infection of CSFV-GZ-2009 isolates showed typical symptoms such as diarrhea, persistent fever, and mononuclear lymphocytopenia after CSFV infection. Based on phylogenetic analysis and an animal infection test, we could conclude that the CSFV-GZ-2009 isolate belonged to subgroup 1.1 of group I and was of high virulence.

Efficiency Comparison of a Novel E2 Subunit Vaccine and a Classic C-Strain Vaccine against Classical Swine Fever

“…Hence, C-vac is still a good choice for farmers. However, CSF was recently demonstrated to occur sporadically or endemically in many regions in China [ 16 , 41 , 42 , 43 , 44 ]. To completely control CSF, an elimination program is the only option.…”

Development of a reverse transcription recombinase polymerase amplification assay with lateral flow dipstick for rapid detection of classical swine fever virus

“…At present, CSF is still endemic in many Asian and Latin American countries, as well as in some countries from Eastern Europe [12,13]. Due to the huge harm of this disease, many countries have developed the eradication program against CSF [4]. What's more, our team has been working on the research of the pathogenesis of CSF, as well as the prevention and control of CSF [14][15][16].…”

“…Classical swine fever (CSF) is an economically important, highly contagious disease affecting pigs worldwide, characterized by high fever, hemorrhagic syndrome, and high mortality [1,2]. The causative agent of CSF is the classical swine fever virus (CSFV), an enveloped RNA virus that belongs to the Pestivirus within the family Flaviviridae [3,4]. Many molecular diagnostic methods for CSFV detection require sophisticated instruments, which is not convenient for clinical detection.…”

Complete genomic characteristics and pathogenic analysis of the newly emerged classical swine fever virus in China

“…And identification of sub-genotypes 2.1c and 2.1d was based on the full-length E2 gene sequence [ 15 , 17 ]. Some labs reported that the whole genome sequence of CSFV could provide more reliable classification criterion [ 29 , 30 ]. In the present study, the phylogenetic tree was constructed based on the complete genomes.…”