2024
Combining genomic data and infection estimates to characterize the complex dynamics of SARS-CoV-2 Omicron variants in the US
Lopes R, Pham K, Klaassen F, Chitwood M, Hahn A, Redmond S, Swartwood N, Salomon J, Menzies N, Cohen T, Grubaugh N. Combining genomic data and infection estimates to characterize the complex dynamics of SARS-CoV-2 Omicron variants in the US. Cell Reports 2024, 43: 114451. PMID: 38970788, DOI: 10.1016/j.celrep.2024.114451.Peer-Reviewed Original Research
2021
Intrahost speciations and host switches played an important role in the evolution of herpesviruses
Brito AF, Baele G, Nahata KD, Grubaugh ND, Pinney JW. Intrahost speciations and host switches played an important role in the evolution of herpesviruses. Virus Evolution 2021, 7: veab025. PMID: 33927887, PMCID: PMC8062258, DOI: 10.1093/ve/veab025.Peer-Reviewed Original ResearchIntrahost speciationHost switchingHost switchesEvolutionary historyTree reconciliationTree reconciliation analysesEvolution of herpesvirusesViral phylogenyHost biogeographyDivergence timingTopological incongruenceCophylogenetic analysesReconciliation analysisHost evolutionPhylogenetic differencesSequence dataGenomic dataViral speciesPhylogenyTemporal incongruenceCospeciationSpeciationImportant roleHostIncongruence