Phylogenetic analysis of spring viraemia of carp virus isolates from Austria indicates the existence of at least two subgroups within genogroup Id

Basic, A; Schachner, Oskar; Bilić, Ivana; Heß, Michael

doi:10.3354/dao02069

Cited by 25 publications

(20 citation statements)

References 15 publications

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“…The Val 290 →Ile substitution was also seen in all Id1 nucleotide sequences. The nucleotide sequence of isolates V-637 and V-636 was found to be identical to that of Id2 Austrian isolate 38-06 (Basic et al 2009). The present study did not find any unique nucleotide substitution shared only among the Id Czech vesiculovirus isolates (data not shown).…”

Section: Sequencing and Phylogenetic Analysismentioning

confidence: 79%

“…The sequences of the 550 bp region of the G gene of Czech isolates were identified as SVCV or pike fry-like rhabdovirus by the Basic Local Table 1). Phylogenetic analysis of the 401 nt sequences (corresponding to nucleotides 3545 to 3945 of GenBank sequence U18101) of newly and previously isolated vesiculo viruses (Björklund et al 1996, Stone et al 2003, Garver et al 2007, Miller et al 2007, Sheppard et al 2007, Teng et al 2007, Warg et al 2007, Yue et al 2008, Basic et al 2009) was done, as this allowed most isolates for which sequence data is available to be included. Phylo genetic analyses were also performed with subsets of the isolates for which 550 nt (nucleotides 3498 to 4047 of GenBank sequence U18101) and 520 nt (nucleotides 3498 to 4017 of GenBank se quence U18101) were available.…”

Section: Methodsmentioning

confidence: 99%

“…Phylogenetic analyses based on the 401 nt, as well as the 550 nt, region of the G gene showed that all Czech vesiculovirus isolates, except for the barbel isolate (V-630), were grouped with the representative SVCV isolates (Björklund et al 1996, Stone et al 2003, Garver et al 2007, Miller et al 2007, Sheppard et al 2007, Teng et al 2007, Warg et al 2007, Yue et al 2008, Basic et al 2009) in Genogroup I (Fig. 2) and therefore should be classified as SVCV.…”

Section: Sequencing and Phylogenetic Analysismentioning

confidence: 99%

“…Isolates from Asia cluster into Subgroup Ia, Eastern European isolates are grouped into Subgroups Ib and Ic and Western European isolates mostly form Subgroup Id which also contains the reference strain of spring viraemia of carp S30 (Fijan et al 1971) from the former Yugoslavia. Further phylogenetic analysis including SVCV isolates from Austria distinguished 3 clusters within the Subgroup Id, designated Id1, Id2 and Id3 (Basic et al 2009). With respect to the Austrian isolates, the viruses falling within the Id1 cluster were isolated during the period 1994 to 2007, while those found within the Id2 cluster were all detected after 2003.…”

Section: Introductionmentioning

confidence: 99%

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First detection of pike fry-like rhabdovirus in barbel and spring viraemia of carp virus in sturgeon and pike in aquaculture in the Czech Republic

Vícenová

Pokorová²,

Hulova³

et al. 2011

Dis. Aquat. Org.

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Rapid antigen detection enzyme-linked immunosorbent assay (ELISA) testing of cell cultures with organ homogenate from fish, collected from farms with a predominance of common carp or in natural aquaculture in the Czech Republic between 1995 and 2008, identified piscine vesiculovirus in 27 of 178 samples. Using reverse transcription semi-nested PCR, targeting a 550 nucleotide region of the glycoprotein (G) gene, piscine vesiculovirus was confirmed in 23 of the 27 organ samples diagnosed by ELISA as infected. PCR products were amplified and sequenced from 18 isolates from common carp Cyprinus carpio (family Cyprinidae), 2 isolates from northern pike Esox lucius (family Esocidae), and 1 isolate each from Siberian sturgeon Acipenser baerii (family Acipenseridae), common barbel Barbus barbus (family Cyprinidae), and koi carp Cyprinus carpio koi (family Cyprinidae). The sequences (based on 401 nucleotides) clustered into 2 genogroups. The majority of isolates (n = 22), including those from sturgeon and pike, grouped with the spring viraemia of carp virus (SVCV) Genogroup I and Subgroup Id. The 22 isolates could be further subdivided into 2 groups: Id1 (n = 20) and Id2 (n = 2). A marker (a non-conservative nucleotide substitution) for the Id1 SVCV group was identified. It was specifically found in all sequences of Id1 isolates when testing SVCV originating from different countries. The remaining isolate from barbel, was classified in the pike fry-like rhabdovirus Genogroup IV. This is the first confirmation of natural SVCV infection in sturgeon and pike, and pike fry-like rhabdovirus infection in barbel. In the case of the pike fry-like rhabdovirus, this is also its first identification in the Czech Republic. According to the presence/absence of evident clinical signs of rhabdoviral disease in the 3 infected hosts, only the sturgeon seemed to be susceptible to the monitored rhabdovirus.

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Section: Sequencing and Phylogenetic Analysismentioning

confidence: 79%

Section: Methodsmentioning

confidence: 99%

Section: Sequencing and Phylogenetic Analysismentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

First detection of pike fry-like rhabdovirus in barbel and spring viraemia of carp virus in sturgeon and pike in aquaculture in the Czech Republic

Vícenová

Pokorová²,

Hulova³

et al. 2011

Dis. Aquat. Org.

View full text Add to dashboard Cite

show abstract

“…However, recently it has been reported in the United States, Middle East, China, Canada, and Brazil. (2) SVCV, one of the rhabdoviruses, is a member of Rhabdoviridae, genus Vesiculovirus. (3) The genome of the virus is situated in an elongated nucleocapsid and surrounded by a lipoprotein layer with glycoprotein projections.…”

Section: Introductionmentioning

confidence: 99%

Monoclonal Antibody Against M Protein of Spring Viremia of Carp Virus

Zhang

Luo

et al. 2015

Monoclonal Antibodies in Immunodiagnosis and Immunotherapy

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Codon usage bias of the phosphoprotein gene of spring viraemia of carp virus and high codon adaptation to the host

Zhou

Liu

et al. 2014

Arch Virol

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In this study, we calculated the relative synonymous codon usage (RSCU) value and the effective number of codons (ENC) value to carry out principal component analysis (PCA) and correlation analysis of the codon usage pattern of the phosphoprotein gene (P gene) of spring viraemia of carp virus (SVCV). The synonymous codon usage pattern in P genes is geography-specific, based on PCA analysis. The high correlation between (G + C)1,2 % and (G + C)3 % suggests that mutational pressure rather than natural selection is the main factor that determines the codon usage and base components in P genes. At least 40 out of 59 synonymous codons are similarly selected in all functional genes within five complete SVCV genomes, and the hosts based on the RSCU data. These results not only provide insight into variations in the codon usage pattern of SVCV but also may help in understanding the processes governing the evolution of SVCV.

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Phylogenetic analysis of spring viraemia of carp virus isolates from Austria indicates the existence of at least two subgroups within genogroup Id

Cited by 25 publications

References 15 publications

First detection of pike fry-like rhabdovirus in barbel and spring viraemia of carp virus in sturgeon and pike in aquaculture in the Czech Republic

First detection of pike fry-like rhabdovirus in barbel and spring viraemia of carp virus in sturgeon and pike in aquaculture in the Czech Republic

Monoclonal Antibody Against M Protein of Spring Viremia of Carp Virus

Codon usage bias of the phosphoprotein gene of spring viraemia of carp virus and high codon adaptation to the host

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