Genotyping of marine viral haemorrhagic septicaemia virus isolated from the Flemish Cap by nucleotide sequence analysis and restriction fragment length polymorphism patterns

• Published in: Diseases of aquatic organisms Vol. 73; no. 1; pp. 23 - 31
• Main Authors: LOPEZ-VAZQUEZ, C, RAYNARD, R. S, BAIN, N, SNOW, M, BANDIN, I, DOPAZO, C. P
• Format: Journal Article
• Language: English
• Published: Oldendorf Inter-Research 21-11-2006
• Subjects: Anguilla anguilla; Animal viral diseases; Animals; Base Sequence - genetics; Biological and medical sciences; DNA Primers - chemistry; DNA Restriction Enzymes - metabolism; Fish Diseases - virology; Flounder - virology; Fundamental and applied biological sciences. Psychology; Genotype; Glycoproteins - genetics; Infectious diseases; Marine; Medical sciences; Microbiology; Molecular Sequence Data; Novirhabdovirus - classification; Novirhabdovirus - genetics; Nucleoproteins - genetics; Phylogeny; Polymorphism, Restriction Fragment Length; Reinhardtius hippoglossoides; Restriction Mapping; Rhabdoviridae Infections - veterinary; Rhabdoviridae Infections - virology; RNA, Viral - chemistry; Scophthalmus maximus; Sequence Analysis, RNA; Systematics; Viral diseases; Viral hemorrhagic septicemia virus; Virology; ANE, North Sea; AN, North Atlantic; ANE, France; Canada; ANE, Eire; Eire; ANW, Canada, Newfoundland and Labrador, Newfoundland; France; ANW, Atlantic, Grand Banks of Newfoundland, Flemish Cap; British Isles; ANE, British Isles; AN, Greenland; Viral haemorrhagic septicaemia virus, VHSV; Edible fish; Nucleotide sequence; Taxonomy; Wild fish, Genotyping, Restriction fragment length polymorphism; Zoopathogen; Phylogeny; Marine environment; Virus; Vertebrata; Restriction fragment length polymorphism; Pathogenic; Pisces; Phylogenetics; Sequencing analysis; Detection; Sequencing; RFLP
• ISSN: 0177-5103; 1616-1580
• DOI: 10.3354/dao073023

A total of 14 viral haemorrhagic septicaemia virus (VHSV) isolates obtained from Greenland halibut Reinhardtius hippoglossoides caught at the Flemish Cap, a fishing ground in the North Atlantic Ocean near Newfoundland, were characterised using restriction fragment length polymorphism (RFLP) and nucleotide sequence analysis. RFLP analysis was performed on a 1259 bp fragment of the glycoprotein (G) gene, and a 305 nucleotide region within the nucleoprotein (N) gene was used for sequence analysis. Representative strains of the 4 established genotypes were employed for comparative purposes. Sequencing analysis indicated that the Flemish cap isolates grouped in Genotype 3, which also includes isolates from wild fish caught in the North Sea and coastal waters of the UK and Ireland, isolates derived from outbreaks of VHS in turbot farms in the British Isles, and an isolate from European eel Anguilla anguilla caught in northern France. Characterisation using RFLPs resulted in the development of a simple and reliable method of typing VHSV at the genotype level using a 2-step restriction analysis (2-SRA) assay.