Genome sequence analysis of dengue virus 1 isolated in Key West, Florida

PLoS One. 2013 Sep 30;8(9):e74582. doi: 10.1371/journal.pone.0074582. eCollection 2013.

Abstract

Dengue virus (DENV) is transmitted to humans through the bite of mosquitoes. In November 2010, a dengue outbreak was reported in Monroe County in southern Florida (FL), including greater than 20 confirmed human cases. The virus collected from the human cases was verified as DENV serotype 1 (DENV-1) and one isolate was provided for sequence analysis. RNA was extracted from the DENV-1 isolate and was used in reverse transcription polymerase chain reaction (RT-PCR) to amplify PCR fragments to sequence. Nucleic acid primers were designed to generate overlapping PCR fragments that covered the entire genome. The DENV-1 isolate found in Key West (KW), FL was sequenced for whole genome characterization. Sequence assembly, Genbank searches, and recombination analyses were performed to verify the identity of the genome sequences and to determine percent similarity to known DENV-1 sequences. We show that the KW DENV-1 strain is 99% identical to Nicaraguan and Mexican DENV-1 strains. Phylogenetic and recombination analyses suggest that the DENV-1 isolated in KW originated from Nicaragua (NI) and the KW strain may circulate in KW. Also, recombination analysis results detected recombination events in the KW strain compared to DENV-1 strains from Puerto Rico. We evaluate the relative growth of KW strain of DENV-1 compared to other dengue viruses to determine whether the underlying genetics of the strain is associated with a replicative advantage, an important consideration since local transmission of DENV may result because domestic tourism can spread DENVs.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Base Sequence
  • Cluster Analysis
  • DNA Primers / genetics
  • Dengue / epidemiology*
  • Dengue Virus / genetics*
  • Disease Outbreaks*
  • Florida / epidemiology
  • Genome, Viral / genetics*
  • Humans
  • Molecular Sequence Data
  • Phylogeny
  • Phylogeography
  • Reverse Transcriptase Polymerase Chain Reaction
  • Sequence Alignment
  • Sequence Analysis, DNA
  • Sequence Homology

Substances

  • DNA Primers

Grants and funding

This study is supported by Department of Agriculture and Consumer Services (DACS: http://www.freshfromflorida.com) 2010 grant 00090369 and Southeast Regional Center of Excellence for Emerging Infections & Biodefense (SERCEB: http://www.serceb.org) 2011 grant 00102092. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.