Publications by authors named "David A Rasmussen"

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Optimizing genomic sampling for demographic and epidemiological inference with Markov decision processes.
David A Rasmussen, Madeline G Bursell, Frank Burkhart

Genetics· November 2025

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Experimental Evolution of on Tomato Reveals Rapid Genotypic and Phenotypic Adaptation and Dynamic RXLR Genome Variation.
Allison Coomber, David A Rasmussen, Jean Beagle Ristaino

Phytopathology· August 2025

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Phylodynamics beyond neutrality: the impact of incomplete purifying selection on viral phylogenies and inference.
Katia Koelle, David A Rasmussen

Philos Trans R Soc Lond B Biol Sci· February 2025

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Quantifying the strength of viral fitness trade-offs between hosts: a meta-analysis of pleiotropic fitness effects.
Xuechun 'May' Wang, Julia Muller, Mya McDowell, David A Rasmussen

Evol Lett· December 2024

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Exploring the Accuracy and Limits of Algorithms for Localizing Recombination Breakpoints.
Shi Cen, David A Rasmussen

Mol Biol Evol· July 2024

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Espalier: Efficient Tree Reconciliation and Ancestral Recombination Graphs Reconstruction Using Maximum Agreement Forests.
David A Rasmussen, Fangfang Guo

Syst Biol· November 2023

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Diversity and Pathobiology of an Ilarvirus Unexpectedly Detected in Diverse Plants and Global Sequencing Data.
Mark Paul Selda Rivarez, Chantal Faure, Laurence Svanella-Dumas, Anja Pecman, Magda Tušek-Žnidaric, David A Rasmussen

Phytopathology· September 2023

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Evolutionarily diverse origins of deformed wing viruses in western honey bees.
Nonno Hasegawa, Maeva A Techer, Noureddine Adjlane, Muntasser Sabah Al-Hissnawi, Karina Antúnez, David A Rasmussen

Proc Natl Acad Sci U S A· June 2023

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Epidemiology of Plasmid Lineages Mediating the Spread of Extended-Spectrum Beta-Lactamases among Clinical Escherichia coli.
Bejan Mahmud, Meghan A Wallace, Kimberly A Reske, Kelly Alvarado, Carol E Muenks, David A Rasmussen

mSystems· October 2022

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Plasmodium falciparum Genetic Diversity in Coincident Human and Mosquito Hosts.
Zena Lapp, Andrew A Obala, Lucy Abel, David A Rasmussen, Kelsey M Sumner

mBio· October 2022

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The evolving SARS-CoV-2 epidemic in Africa: Insights from rapidly expanding genomic surveillance.
Houriiyah Tegally, James E San, Matthew Cotten, Monika Moir, Bryan Tegomoh, David A Rasmussen

Science· October 2022

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Recombination-aware phylogeographic inference using the structured coalescent with ancestral recombination.
Fangfang Guo, Ignazio Carbone, David A Rasmussen

PLoS Comput Biol· August 2022

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A year of genomic surveillance reveals how the SARS-CoV-2 pandemic unfolded in Africa.
Eduan Wilkinson, Marta Giovanetti, Houriiyah Tegally, James E San, Richard Lessells, David A Rasmussen

Science· October 2021

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Decomposing the sources of SARS-CoV-2 fitness variation in the United States.
Lenora Kepler, Marco Hamins-Puertolas, David A Rasmussen

Virus Evol· September 2021

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HIV-1 molecular diversity in Brazil unveiled by 10 years of sampling by the national genotyping network.
Tiago Gräf, Gonzalo Bello, Paula Andrade, Ighor Arantes, João Marcos Pereira, David A Rasmussen

Sci Rep· August 2021

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Porcine reproductive and respiratory syndrome virus dissemination across pig production systems in the United States.
Manuel Jara, David A Rasmussen, Cesar A Corzo, Gustavo Machado

Transbound Emerg Dis· March 2021

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Phylogeographic Approaches to Characterize the Emergence of Plant Pathogens.
David A Rasmussen, Niklaus J Grünwald

Phytopathology· January 2021

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Evolutionary dynamics of Tomato spotted wilt virus within and between alternate plant hosts and thrips.
Casey L Ruark-Seward, Brian Bonville, George Kennedy, David A Rasmussen

Sci Rep· September 2020

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Aphid Transmission of : The Largest Plant-Infecting RNA Virus Genus.
Kiran R Gadhave, Saurabh Gautam, David A Rasmussen, Rajagopalbabu Srinivasan

Viruses· July 2020

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Entry of bunyaviruses into plants and vectors.
Yuting Chen, Moshe Dessau, Dorith Rotenberg, David A Rasmussen, Anna E Whitfield

Adv Virus Res· December 2019

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Estimating Epidemic Incidence and Prevalence from Genomic Data.
Timothy G Vaughan, Gabriel E Leventhal, David A Rasmussen, Alexei J Drummond, David Welch

Mol Biol Evol· August 2019

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Coupling adaptive molecular evolution to phylodynamics using fitness-dependent birth-death models.
David A Rasmussen, Tanja Stadler

Elife· August 2019

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Tracking external introductions of HIV using phylodynamics reveals a major source of infections in rural KwaZulu-Natal, South Africa.
David A Rasmussen, Eduan Wilkinson, Alain Vandormael, Frank Tanser, Deenan Pillay

Virus Evol· July 2018

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Taming the BEAST-A Community Teaching Material Resource for BEAST 2.
Joëlle Barido-Sottani, Veronika Bošková, Louis Du Plessis, Denise Kühnert, Carsten Magnus, David A Rasmussen

Syst Biol· January 2018

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A51 Dengue virus multi-strain models as hypotheses for serotype interaction.
C Souto-Maior, David A Rasmussen, Maciel De Freitas, M G M Gomes

Virus Evol· March 2017

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