David Alan Rasmussen
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Works (17)
Updated: July 5th, 2023 15:33
2022 article
Epidemiology of Plasmid Lineages Mediating the Spread of Extended-Spectrum Beta-Lactamases among Clinical Escherichia coli
Mahmud, B., Wallace, M. A., Reske, K. A., Alvarado, K., Muenks, C. E., Rasmussen, D. A., … Dantas, G. (2022, August 22). (C. W. Marshall, Ed.). MSYSTEMS, Vol. 8.
Ed(s): C. Marshall
author keywords: Escherichia coli; beta-lactamases; plasmid-mediated resistance
MeSH headings : Humans; Escherichia coli / genetics; Escherichia coli Infections / epidemiology; beta-Lactamases / genetics; Plasmids / genetics; Hospitals
Sources: Web Of Science, ORCID
Added: August 24, 2022
2022 article
Plasmodium falciparum Genetic Diversity in Coincident Human and Mosquito Hosts
Lapp, Z., Obala, A. A., Abel, L., Rasmussen, D. A., Sumner, K. M., Freedman, E., … Prudhomme-O'Meara, W. (2022, September 8). MBIO.
author keywords: malaria; Plasmodium falciparum; transmission; comparative genomics; genetic diversity
MeSH headings : Animals; Humans; Culicidae / parasitology; Genetic Variation; Longitudinal Studies; Malaria, Falciparum / parasitology; Plasmodium falciparum / genetics
doi.org (repository)
Source: Web Of Science
Added: September 26, 2022
2022 journal article
Recombination-aware phylogeographic inference using the structured coalescent with ancestral recombination
PLOS COMPUTATIONAL BIOLOGY, 18(8).
MeSH headings : Genetics, Population; Genome; Humans; Models, Genetic; Phylogeography; Population Density; Recombination, Genetic / genetics
Sources: Web Of Science, ORCID
Added: March 6, 2023
2022 journal article
The evolving SARS-CoV-2 epidemic in Africa: Insights from rapidly expanding genomic surveillance
SCIENCE, 378(6615), 42-+.
MeSH headings : Africa / epidemiology; COVID-19 / epidemiology; COVID-19 / virology; Epidemiological Monitoring; Genomics; Humans; Pandemics; SARS-CoV-2 / genetics
Source: Web Of Science
Added: February 13, 2023
2021 journal article
A year of genomic surveillance reveals how the SARS-CoV-2 pandemic unfolded in Africa
SCIENCE, 374(6566), 423-+.
MeSH headings : Africa / epidemiology; COVID-19 / epidemiology; COVID-19 / transmission; COVID-19 / virology; Epidemiological Monitoring; Genetic Variation; Genomics; Humans; Pandemics; SARS-CoV-2 / genetics; SARS-CoV-2 / isolation & purification
Source: Web Of Science
Added: November 15, 2021
2021 journal article
Decomposing the sources of SARS-CoV-2 fitness variation in the United States
VIRUS EVOLUTION, 7(2).
author keywords: SARS-CoV-2; transmission fitness; phylodynamics; birth-death model
Source: Web Of Science
Added: March 7, 2022
2021 journal article
HIV-1 molecular diversity in Brazil unveiled by 10 years of sampling by the national genotyping network
SCIENTIFIC REPORTS, 11(1).
MeSH headings : Adolescent; Adult; Brazil / epidemiology; Female; Genotype; HIV Infections / blood; HIV Infections / epidemiology; HIV Infections / virology; HIV Seropositivity; HIV-1 / classification; HIV-1 / genetics; Humans; Longitudinal Studies; Male; Middle Aged; Phylogeny; Young Adult
Source: Web Of Science
Added: August 30, 2021
2021 journal article
Inferring environmental transmission using phylodynamics: a case-study using simulated evolution of an enteric pathogen
JOURNAL OF THE ROYAL SOCIETY INTERFACE, 18(179).
author keywords: environmental transmission; disease transmission modelling; phylodynamics; whole-genome sequencing
MeSH headings : Epidemics; Phylogeny; Probability
Sources: Web Of Science, ORCID
Added: June 9, 2021
2021 journal article
Phylogeographic Approaches to Characterize the Emergence of Plant Pathogens
PHYTOPATHOLOGY, 111(1), 68–77.
author keywords: coalescent theory; evolution; genomics; population biology; population genetics; phylogenetics; techniques
MeSH headings : Models, Genetic; Phylogeny; Phylogeography; Plant Diseases
Source: Web Of Science
Added: March 15, 2021
2020 review
Aphid Transmission ofPotyvirus: The Largest Plant-Infecting RNA Virus Genus
[Review of ]. VIRUSES-BASEL, 12(7).
author keywords: potyviruses; vector-virus interactions; aphid transmission; plant viruses; insect vectors
MeSH headings : Agriculture; Animals; Aphids / physiology; Aphids / virology; Genetic Variation; Genomics; Host Microbial Interactions; Insect Vectors / virology; Plant Diseases / virology; Potyvirus / genetics; Potyvirus / physiology; Proteomics
Source: Web Of Science
Added: August 24, 2020
2020 journal article
Evolutionary dynamics of Tomato spotted wilt virus within and between alternate plant hosts and thrips
SCIENTIFIC REPORTS, 10(1).
MeSH headings : Animals; Biodiversity; Biological Evolution; Datura stramonium / virology; Flowers / virology; Host Specificity / genetics; Insect Vectors / virology; Plant Diseases / genetics; Plant Diseases / virology; Thysanoptera / virology; Tospovirus / genetics; Tospovirus / isolation & purification
Source: Web Of Science
Added: November 2, 2020
2019 journal article
BEAST 2.5: An advanced software platform for Bayesian evolutionary analysis
PLOS COMPUTATIONAL BIOLOGY, 15(4).
MeSH headings : Animals; Bayes Theorem; Biological Evolution; Computational Biology; Computer Simulation; Evolution, Molecular; Humans; Markov Chains; Models, Genetic; Monte Carlo Method; Phylogeny; Software
Source: Web Of Science
Added: May 28, 2019
2019 journal article
Coupling adaptive molecular evolution to phylodynamics using fittness-dependent birth-death models
ELIFE, 8.
MeSH headings : Adaptation, Biological; Ebolavirus / genetics; Ebolavirus / physiology; Evolution, Molecular; Genetic Fitness; Genotype; Models, Genetic; Orthomyxoviridae / genetics; Orthomyxoviridae / physiology
Source: Web Of Science
Added: September 23, 2019
2019 article
Entry of bunyaviruses into plants and vectors
VIRUS ENTRY, Vol. 104, pp. 65–96.
MeSH headings : Animals; Arthropod Vectors / virology; Bunyaviridae / physiology; Feeding Behavior; Plants / parasitology; Plants / virology; Virus Internalization
Sources: Web Of Science, ORCID
Added: October 21, 2019
2019 journal article
Estimating Epidemic Incidence and Prevalence from Genomic Data
MOLECULAR BIOLOGY AND EVOLUTION, 36(8), 1804–1816.
author keywords: phylodynamics; particle filter; epidemiology; Bayesian phylogenetics
MeSH headings : Bayes Theorem; Genomics / methods; Hemorrhagic Fever, Ebola / epidemiology; Humans; Incidence; Molecular Epidemiology / methods; Prevalence; Sierra Leone / epidemiology
Source: Web Of Science
Added: November 18, 2019
2018 journal article
MASCOT: parameter and state inference under the marginal structured coalescent approximation
BIOINFORMATICS, 34(22), 3843–3848.
MeSH headings : Algorithms; Influenza A Virus, H3N2 Subtype; Phylogeny; Probability; Software
Source: Web Of Science
Added: December 3, 2018
2018 journal article
Tracking external introductions of HIV using phylodynamics reveals a major source of infections in rural KwaZulu-Natal, South Africa
VIRUS EVOLUTION, 4(2).
author keywords: HIV; molecular epidemiology; phylodynamics; migration
Source: Web Of Science
Added: February 11, 2019
