ArticleBMC evolutionary biology2019
The ability of single genes vs full genomes to resolve time and space in outbreak analysis.
Article in BMC evolutionary biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
38 citing papers in PubMed, 66 citations in OpenAlex.
- Evolutionary history of Jamestown Canyon virus reveals complex multi-vector ecology.Current biology : CB · 2026Article
- Characterizing the informativeness of pathogen genome sequence datasets about transmission between population groups.Proceedings. Biological sciences · 2026Article
- Evolutionary history of Jamestown Canyon virus disentangles complex multi-vector ecology.bioRxiv : the preprint server for biology · 2026Article
- First report of West Nile virus infections in horses in Tunisia from 2018 to 2023.Virology journal · 2025Article
- Molecular epidemiology, evolution, and transmission dynamics of raccoon rabies virus in Connecticut.Virus evolution · 2025Article
- The Bayesian Phylogenetic Bootstrap and its Application to Short Trees and Branches.Molecular biology and evolution · 2024Article
- A new lineage nomenclature to aid genomic surveillance of dengue virus.PLoS biology · 2024Article
- Genomic epidemiology of West Nile virus in Europe.One health (Amsterdam, Netherlands) · 2024Review
- A new lineage nomenclature to aid genomic surveillance of dengue virus.medRxiv : the preprint server for health sciences · 2024Article
- DengueSeq: a pan-serotype whole genome amplicon sequencing protocol for dengue virus.BMC genomics · 2024Article
- The emergence and circulation of human immunodeficiency virus (HIV)-1 subtype C.Journal of medical microbiology · 2024Article
- Article
- Molecular epidemiology identifies the expansion of the DENV2 epidemic lineage from the French Caribbean Islands to French Guiana and mainland France, 2023 to 2024.Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin · 2024Article
- High-performance enrichment-based genome sequencing to support the investigation of hepatitis A virus outbreaks.Microbiology spectrum · 2024Article
- A comprehensive epidemiological approach documenting an outbreak of H5N1 highly pathogenic avian influenza virus clade 2.3.4.4b among gulls, terns, and harbor seals in the Northeastern Pacific.Frontiers in veterinary science · 2024Article
- Early underdetected dissemination across countries followed by extensive local transmission propelled the 2022 mpox epidemic.medRxiv : the preprint server for health sciences · 2023Article
- DengueSeq: A pan-serotype whole genome amplicon sequencing protocol for dengue virus.medRxiv : the preprint server for health sciences · 2023Article
- Integrating full and partial genome sequences to decipher the global spread of canine rabies virus.Nature communications · 2023Article
- Whole mitochondrial genomes reveal the relatedness of the browsing ant incursions in Australia.Scientific reports · 2023Article
- Multi-omic longitudinal study reveals immune correlates of clinical course among hospitalized COVID-19 patients.Cell reports. Medicine · 2023Article
Corrections and comments
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Authors and funding
2 authors at 1 institution in 2 countries.
Funding
Abstract
backgroundInexpensive pathogen genome sequencing has had a transformative effect on the field of phylodynamics, where ever increasing volumes of data have promised real-time insight into outbreaks of infectious disease. As well as the sheer volume of pathogen isolates being sequenced, the sequencing of whole pathogen genomes, rather than select loci, has allowed phylogenetic analyses to be carried out at finer time scales, often approaching serial intervals for infections caused by rapidly evolving RNA viruses. Despite its utility, whole genome sequencing of pathogens has not been adopted universally and targeted sequencing of loci is common in some pathogen-specific fields.
resultsIn this study we highlighted the utility of sequencing whole genomes of pathogens by re-analysing a well-characterised collection of Ebola virus sequences in the form of complete viral genomes (≈19 kb long) or the rapidly evolving glycoprotein (GP, ≈2 kb long) gene. We have quantified changes in phylogenetic, temporal, and spatial inference resolution as a result of this reduction in data and compared these to theoretical expectations.
conclusionsWe propose a simple intuitive metric for quantifying temporal resolution, i.e. the time scale over which sequence data might be informative of various processes as a quick back-of-the-envelope calculation of statistical power available to molecular clock analyses.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.