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Identification of new flaviviruses in the Kokobera virus complex

¹ Department of Microbiology and Parasitology, School of Molecular and Microbial Sciences, University of Queensland, St Lucia, Queensland 4072, Australia
² Arbovirus Diseases Branch, Division of Vector-borne Infectious Diseases, National Center for Infectious Diseases, Centers for Disease Control and Prevention, Fort Collins, CO 80522, USA
³ Tropical Public Health Unit, Cairns, Queensland 4870, Australia
⁴ School of Public Health and Tropical Medicine, James Cook University, PO Box 6811, Cairns, Queensland 4870, Australia

Correspondence
Roy A. Hall
roy.hall{at}uq.edu.au

Novel flavivirus isolates from mosquitoes collected in northern Australia were analysed by partial genomic sequencing, monoclonal antibody-binding assays and polyclonal cross-neutralization tests. Two isolates were found to be antigenically distinct from, but related to, viruses of the Kokobera virus complex, which currently contains Kokobera (KOKV) and Stratford (STRV) viruses. Nucleotide sequence comparison of two separate regions of the genome revealed that an isolate from Saibai Island in the Torres Strait in 2000 (TS5273) was related closely to KOKV and STRV, with 74–80 and 75–76 % nucleotide similarity, respectively. An isolate from mainland Cape York in 1998 (CY1014) was found to be more divergent from KOKV and STRV, with <70 % nucleotide sequence similarity to either virus. It is proposed that isolate TS5273 represents a new subtype of KOKV and that CY1014 be classified as a novel species within the Kokobera virus complex of flaviviruses, named New Mapoon virus.

The GenBank/EMBL/DDBJ accession numbers for the sequences reported in this paper are available as supplementary material in JGV Online.

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