title: Genomic epidemiology of a dengue virus epidemic in urban Singapore.
abstract: Dengue is one of the most important emerging diseases of humans, with no preventative vaccines or antiviral cures available at present. Although one-third of the world's population live at risk of infection, little is known about the pattern and dynamics of dengue virus (DENV) within outbreak situations. By exploiting genomic data from an intensively studied major outbreak, we are able to describe the molecular epidemiology of DENV at a uniquely fine-scaled temporal and spatial resolution. Two DENV serotypes (DENV-1 and DENV-3), and multiple component genotypes, spread concurrently and with similar epidemiological and evolutionary profiles during the initial outbreak phase of a major dengue epidemic that took place in Singapore during 2005. Although DENV-1 and DENV-3 differed in viremia and clinical outcome, there was no evidence for adaptive evolution before, during, or after the outbreak, indicating that ecological or immunological rather than virological factors were the key determinants of epidemic dynamics.
authors.affiliation: Novartis Institute for Tropical Diseases, Chromos, Singapore. mark.schreiber@novartis.com
authors.forename: Mark J
authors.initials: MJ
authors.lastname: Schreiber
authors.forename: Edward C
authors.initials: EC
authors.lastname: Holmes
authors.forename: Swee Hoe
authors.initials: SH
authors.lastname: Ong
authors.forename: Harold S H
authors.initials: HS
authors.lastname: Soh
authors.forename: Wei
authors.initials: W
authors.lastname: Liu
authors.forename: Lukas
authors.initials: L
authors.lastname: Tanner
authors.forename: Pauline P K
authors.initials: PP
authors.lastname: Aw
authors.forename: Hwee Cheng
authors.initials: HC
authors.lastname: Tan
authors.forename: Lee Ching
authors.initials: LC
authors.lastname: Ng
authors.forename: Yee Sin
authors.initials: YS
authors.lastname: Leo
authors.forename: Jenny G H
authors.initials: JG
authors.lastname: Low
authors.forename: Adrian
authors.initials: A
authors.lastname: Ong
authors.forename: Eng Eong
authors.initials: EE
authors.lastname: Ooi
authors.forename: Subhash G
authors.initials: SG
authors.lastname: Vasudevan
authors.forename: Martin L
authors.initials: ML
authors.lastname: Hibberd
mesh_terms: D000595:Amino Acid Sequence; D000818:Animals; D002460:Cell Line; D009033:Culicidae; D003715:Dengue / Q000097:blood / Q000453:epidemiology*; D003716:Dengue Virus / Q000737:chemistry / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification; D016679:Genome, Viral / Q000235:genetics; D023281:Genomics; D006801:Humans; D008969:Molecular Sequence Data; D010802:Phylogeny; D016415:Sequence Alignment; D012846:Singapore / Q000453:epidemiology; D014504:Urban Health / Q000706:statistics & numerical data*; D014764:Viral Proteins / Q000737:chemistry / Q000235:genetics / Q000378:metabolism
chemical_list: D014764:Viral Proteins