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      First Reported Complete Genome Sequence of a Dengue Virus Serotype 4 Strain from Papua New Guinea

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          Abstract

          A male patient in his 50s who traveled from Papua New Guinea (PNG) to Australia in 2016 was diagnosed with a dengue virus serotype 4 (DENV-4) infection, and the virus was isolated from his acute-phase serum. Here, we describe the first complete genome sequence of a DENV-4 strain from PNG.

          ABSTRACT

          A male patient in his 50s who traveled from Papua New Guinea (PNG) to Australia in 2016 was diagnosed with a dengue virus serotype 4 (DENV-4) infection, and the virus was isolated from his acute-phase serum. Here, we describe the first complete genome sequence of a DENV-4 strain from PNG.

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          Molecular evolution and distribution of dengue viruses type 1 and 2 in nature.

          R Rico-Hesse (1990)
          During the past several decades, dengue viruses have progressively extended their geographic distribution, and are currently some of the most important mosquito-borne viruses associated with human illness. Determining the genetic variability and transmission patterns of these RNA viruses is crucial in developing effective control strategies for the disease. Primer-extension sequencing of less than 3% of the dengue genome (across the E/NS1 gene junction) provided sufficient information for estimating genetic relationships among 40 dengue type 1 and 40 type 2 virus isolates from diverse geographic areas and hosts. A quantitative comparison of these 240-nucleotide-long sequences revealed previously unrecognized evolutionary relationships between disease outbreaks. Five distinct virus genotypic groups were detected for each of the two serotypes. The evolutionary rates of epidemic dengue viruses of types 1 and 2 were similar, although the transmission pathways of these viruses around the world are different. For dengue type 2, one genotypic group represents an isolated, forest virus cycle which seems to have evolved independently in West Africa. This is the first genetic evidence of the existence of a sylvatic cycle of dengue virus, which is clearly distinct from outbreak viruses.
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            Nucleotide sequence of yellow fever virus: implications for flavivirus gene expression and evolution

            C. Rice, E Lenches, Eddy … (1985)
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              Development and evaluation of serotype- and group-specific fluorogenic reverse transcriptase PCR (TaqMan) assays for dengue virus.

              Shu Wu, B. Mangold, W Suharyono … (2001)
              Five fluorogenic probe hydrolysis (TaqMan) reverse transcriptase PCR (RT-PCR) assays were developed for serotypes 1 to 4 and group-specific detection of dengue virus. Serotype- and group-specific oligonucleotide primers and fluorogenic probes were designed against conserved regions of the dengue virus genome. The RT-PCR assay is a rapid single-tube method consisting of a 30-min RT step linked to a 45-cycle PCR at 95 and 60 degrees C that generates a fluorogenic signal in positive samples. Assays were initially evaluated against cell culture-derived dengue stock viruses and then with 67 dengue viremic human sera received from Peru, Indonesia, and Taiwan. The TaqMan assays were compared to virus isolation using C6/36 cells followed by an immunofluorescence assay using serotype-specific monoclonal antibodies. Viral titers in sera were determined by plaque assay in Vero cells. The serotype-specific TaqMan RT-PCR assay detected 62 of 67 confirmed dengue virus-positive samples, for a sensitivity of 92.5%, while the group-specific assay detected 66 of 67 confirmed dengue virus-positive samples, for a sensitivity of 98.5%. The TaqMan RT-PCR assays have a specificity of 100% based on the serotype concordance of all assays compared to cell culture isolation and negative results obtained when 21 normal human sera and plasma samples were tested. Our results demonstrate that the dengue virus TaqMan RT-PCR assays may be utilized as rapid, sensitive, and specific screening and serotyping tools for epidemiological studies of dengue virus infections.
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                Author and article information

                Contributors
                Julie C. Dunning Hotopp: Role: Editor
                Journal
                Journal ID (nlm-ta): Microbiol Resour Announc
                Journal ID (iso-abbrev): Microbiol Resour Announc
                Journal ID (hwp): ga
                Journal ID (pmc): mra
                Journal ID (publisher-id): MRA
                Title: Microbiology Resource Announcements
                Publisher: American Society for Microbiology (1752 N St., N.W., Washington, DC )
                ISSN (Electronic): 2576-098X
                Publication date (Electronic): 27 September 2018
                Publication date Collection: September 2018
                Volume: 7
                Issue: 12
                Electronic Location Identifier: e01082-18
                Affiliations
                [a ]Public Health Virology Laboratory, Forensic and Scientific Services, Coopers Plains, Queensland, Australia
                University of Maryland School of Medicine
                Author notes
                Address correspondence to Alyssa T. Pyke, Alyssa.Pyke@ 123456health.qld.gov.au .

                Citation Pyke AT, Moore PR, Hewitson G, Burtonclay P. 2018. First reported complete genome sequence of a dengue virus serotype 4 strain from Papua New Guinea. Microbiol Resour Announc 7:e01082-18. https://doi.org/10.1128/MRA.01082-18.

                Author information
                https://orcid.org/0000-0003-3512-4321
                Article
                Publisher ID: MRA01082-18
                DOI: 10.1128/MRA.01082-18
                PMC ID: 6256681
                SO-VID: 67f144e5-6253-41ed-afca-d622c558138a
                Copyright © Copyright © 2018 Pyke et al.
                License:

                This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International license.

                History
                Date received : 15 August 2018
                Date accepted : 31 August 2018
                Page count
                Figures: 0, Tables: 0, Equations: 0, References: 17, Pages: 2, Words: 1416
                Funding
                Funded by: Department of Health, Queensland (Queensland Health), https://doi.org/10.13039/100010230;
                Award Recipient : Award Recipient : Award Recipient : Award Recipient :
                Categories
                Subject: Genome Sequences
                Custom metadata
                cover-date September 2018

                Data availability:

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