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J Gen Virol 87 (2006), 3545-3549; DOI 10.1099/vir.0.82373-0

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© 2006 Society for General Microbiology

Short Communication

Retention of 1.2 kbp of ‘novel’ genomic sequence in two European field isolates and some vaccine strains of Fowlpox virus extends open reading frame fpv241

Susan A. Jarmin1,{dagger}, Ruth Manvell2, Richard E. Gough2, Stephen M. Laidlaw1,{dagger} and Michael A. Skinner1,{dagger}

1 Institute for Animal Health, Compton, Newbury RG20 7NN, UK
2 Veterinary Laboratory Agency (VLA), New Haw, Addlestone, Surrey KT15 3NB, UK

Correspondence
Michael A. Skinner
m.skinner{at}imperial.ac.uk

The emergence of variant fowlpox viruses (FWPVs) and increasing field use of recombinants against avian influenza H5N1 emphasize the need to monitor vaccines and to distinguish them from field strains. Five commercial vaccines, two laboratory viruses and two European field isolates were characterized by PCR and sequencing at 18 loci differing between attenuated FP9 and its pathogenic progenitor. PCR failed to discriminate between the viruses and sequence determination revealed no significant differences at any locus, except for a polymorphic locus encompassed by deletion 24 (9.3 kbp) in FP9. Surprisingly, ‘novel’ previously unreported sequence (spanning 1.2 kbp) was found in both European field isolates and three of the vaccines. It was absent from the other two vaccines, removed by a 1.2 kbp deletion identical to that surprisingly also observed in the completely sequenced genome of FPV USDA. This locus (H9) adds a potentially useful tool for discriminating between FWPV field isolates and vaccines.

The GenBank/EMBL/DDBJ accession numbers for the sequences reported in this paper are AM396435–AM396442.

{dagger}Present address: Department of Virology, Imperial College London, Faculty of Medicine, St Mary's Campus, Norfolk Place, London W2 1PG, UK.






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