Structure and presentation of a World Wide Web database of CSF virus isolates held at the EU Reference Laboratory

Greiser‐Wilke, I.; Zimmermann, Bernd; Fritzemeier, J; Floegel, Gundula; Moennig, V.

doi:10.1016/s0378-1135(00)00140-1

Cited by 51 publications

(28 citation statements)

References 6 publications

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“…CSFV specific primers were designed considering sequences of the 5'NTR of the genome of 55 different pestivirus strains, available in GenBank or in the database of CSF European reference laboratory of Hanover (Germany), that includes 37 CSFV representing subgroups described by Lowings [20]: 1.1, 1.2, 2.1, 2.2, 2.3 and disparate virus outgrouped [12,13,15,25,27,[31][32][33], fourteen BVDV belonging to types I and II [5,8,32] and four BDV isolates [4,29]. Sequences were aligned, using Clustal W software, and five oligonucleotides were primarily selected from highly conserved sequences among the different CSFV strains but showing high divergence with the other pestiviruses.…”

Section: Primers and Restriction Endonuclease Selectionmentioning

confidence: 99%

A highly sensitive and specific gel-based multiplex RT-PCR assay for the simultaneous and differential diagnosis of African swine fever and Classical swine fever in clinical samples

Agüero

Fernández²,

Romero

et al. 2004

Vet. Res.

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-The development and standardisation of a novel, highly sensitive and specific one-step hot start multiplex RT-PCR assay is presented for the simultaneous and differential diagnosis of African swine fever (ASF) and Classical swine fever (CSF). The method uses two primer sets, each one specific for the corresponding virus, amplifying DNA fragments different in length, allowing a gel-based differential detection of the PCR products. Universal detection of ASF and CSF virus strains was achieved through selection of primers in conserved viral genome regions. The detection range was confirmed by analysis of a large collection of isolates of the two viruses. The high specificity of the assay was proven by testing related viruses, uninfected cell line cultures and healthy pig tissues. Additional confirmatory tests of the ASF and CSF virus amplicon specificity, based on restriction endonuclease analysis with BsmA I or Ban II, respectively, are also described. The analysis of whole blood and serum samples from experimentally infected animals proved the usefulness of the method for an early diagnosis of both diseases, even before the appearance of the first clinical signs. A study of 150 positive field samples from several ASF and CSF outbreaks showed the suitability of this method for a rapid (less than five hours), sensitive and specific differential diagnosis in clinical samples. In addition, a highly sensitive and specific uniplex RT-PCR for CSFV was also developed and standardised as a powerful tool for fast and early diagnosis of the disease.

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Section: Primers and Restriction Endonuclease Selectionmentioning

confidence: 99%

A highly sensitive and specific gel-based multiplex RT-PCR assay for the simultaneous and differential diagnosis of African swine fever and Classical swine fever in clinical samples

Agüero

Fernández²,

Romero

et al. 2004

Vet. Res.

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“…Four-hundred-and-nine nucleotides within the NS5B region from the 23 Indian CSFV isolates were aligned with those of 36 other strains, available either in GenBank or in the nucleotide sequence database of European Union Reference Laboratory (EURL) [25] and were used for nucleotide sequence analysis and construction of phylogenetic tree (Fig. 1).…”

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confidence: 99%

Phylogenetic analysis of NS5B gene of classical swine fever virus isolates indicates plausible Chinese origin of Indian subgroup 2.2 viruses

et al. 2011

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Twenty-three CSFV isolates recovered from field outbreaks in various parts of India during 2006-2009 were used for genetic analysis in the NS5B region (409 nts). Seventeen of these were studied earlier [16] in the 5'UTR region. Phylogenetic analysis indicated the continued dominance of subgroup 1.1 strains in the country. Detailed analysis of a subgroup 2.2 virus indicated the plausible Chinese origin of this subgroup in India and provided indirect evidence of routes of CSFV movement within South East Asia region.

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“…Eradication programs against CSF are based on rapid identification of outbreaks, slaughter of infected herds, control of pig and pork movements within infected regions, and forwards and backwards tracing of disease spread. In recent years, molecular typing has proven to be a potent method to find relations between different outbreaks of CSF and in combination with epidemiological surveys has helped to trace the spread of the disease [14]. …”

Section: Discussionmentioning

confidence: 99%

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

et al. 2013

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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.

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Structure and presentation of a World Wide Web database of CSF virus isolates held at the EU Reference Laboratory

Cited by 51 publications

References 6 publications

A highly sensitive and specific gel-based multiplex RT-PCR assay for the simultaneous and differential diagnosis of African swine fever and Classical swine fever in clinical samples

A highly sensitive and specific gel-based multiplex RT-PCR assay for the simultaneous and differential diagnosis of African swine fever and Classical swine fever in clinical samples

Phylogenetic analysis of NS5B gene of classical swine fever virus isolates indicates plausible Chinese origin of Indian subgroup 2.2 viruses

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

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