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.

By: B. Mahmud, M. Wallace*, K. Reske*, K. Alvarado*, C. Muenks*, D. Rasmussen n, C. Burnham*, C. Lanzas n, E. Dubberke*, G. Dantas*

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.

By: Z. Lapp*, A. Obala*, L. Abel*, D. Rasmussen n, K. Sumner*, E. Freedman*, S. Taylor*, W. Prudhomme-O'Meara*

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
Source: Web Of Science
Added: September 26, 2022

2022 journal article

Recombination-aware phylogeographic inference using the structured coalescent with ancestral recombination


By: F. Guo n, I. Carbone n & D. Rasmussen n

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-+.

By: H. Tegally*, J. San*, M. Cotten*, M. Moir*, B. Tegomoh*, G. Mboowa*, D. Martin*, C. Baxter* ...

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-+.

By: E. Wilkinson*, M. Giovanetti*, H. Tegally*, J. San*, R. Lessells*, D. Cuadros*, D. Martin*, D. Rasmussen n ...

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


By: L. Kepler n, M. Hamins-Puertolas n & D. Rasmussen n

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


By: T. Graf*, G. Bello*, P. Andrade*, I. Arantes*, J. Pereira*, A. Silva*, R. Veiga*, D. Mariani* ...

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


By: D. Dawson n, D. Rasmussen n, X. Peng n & C. Lanzas n

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.

By: D. Rasmussen n & N. Grunwald*

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).

By: K. Gadhave n, S. Gautam*, D. Rasmussen n & R. Srinivasan*

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


By: C. Ruark-Seward n, B. Bonville n, G. Kennedy n & D. Rasmussen n

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


By: R. Bouckaert*, T. Vaughan*, J. Barido-Sottani*, S. Duchene*, M. Fourment*, A. Gavryushkina*, J. Heled, G. Jones* ...

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


By: D. Rasmussen n & T. Stadler*

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.

By: Y. Chen n, M. Dessau*, D. Rotenberg n, D. Rasmussen n & A. Whitfield n

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


By: T. Vaughan*, G. Leventhal*, D. Rasmussen n, A. Drummond*, D. Welch* & T. Stadler*

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.

By: N. Mueller, D. Rasmussen n & T. Stadler*

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


By: D. Rasmussen n, E. Wilkinson*, A. Vandormael*, F. Tanser*, D. Pillay*, T. Stadler*, T. Oliveira*

author keywords: HIV; molecular epidemiology; phylodynamics; migration
Source: Web Of Science
Added: February 11, 2019