2024

Herder, V. et al. (2024) Correlates of disease severity in bluetongue as a model of acute arbovirus infection. PLoS Pathogens, 20(8), e1012466. (doi: 10.1371/journal.ppat.1012466) (PMID:39150989) (Early Online Publication)

Herder, V. et al. (2024) A machine learning framework to identify the correlates of disease severity in acute arbovirus infection. bioRxiv, (doi: 10.1101/2024.02.23.581333)

2023

Pascall, D. J. et al. (2023) Directions of change in intrinsic case severity across successive SARS-CoV-2 variant waves have been inconsistent. Journal of Infection, 87(2), pp. 128-135. (doi: 10.1016/j.jinf.2023.05.019) (PMID:37270070) (PMCID:PMC10234362)

Hardy, A. et al. (2023) The timing and magnitude of the type I interferon response are correlated with disease tolerance in arbovirus infection. mBio, 14(3), e0010123. (doi: 10.1128/mbio.00101-23) (PMID:37097030) (PMCID:PMC10294695)

Pascall, D. J. et al. (2023) The SARS-CoV-2 Alpha variant was associated with increased clinical severity of COVID-19 in Scotland: a genomics-based retrospective cohort analysis. PLoS ONE, 18(4), e0284187. (doi: 10.1371/journal.pone.0284187) (PMID:37053201) (PMCID:PMC10101505)

2022

Willett, B. J. et al. (2022) Publisher Correction: SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway. Nature Microbiology, 7, 1709. (doi: 10.1038/s41564-022-01241-6) (PMID:36114232) (PMCID:PMC9483304)

Willett, B. J. et al. (2022) SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway. Nature Microbiology, 7(8), pp. 1161-1179. (doi: 10.1038/s41564-022-01143-7) (PMID:35798890) (PMCID:PMC9352574)

Martin, D. P. et al. (2022) Selection analysis identifies clusters of unusual mutational changes in Omicron lineage BA.1 that likely impact Spike function. Molecular Biology and Evolution, 39(4), msac061. (doi: 10.1093/molbev/msac061) (PMID:35325204) (PMCID:PMC9037384)

de Klerk, A. et al. (2022) Conserved recombination patterns across coronavirus subgenera. Virus Evolution, 8(2), veac054. (doi: 10.1093/ve/veac054) (PMID:35814334) (PMCID:PMC9261289)

2021

Martin, D. P. et al. (2021) The emergence and ongoing convergent evolution of the SARS-CoV-2 N501Y lineages. Cell, 184(20), 5189-5200.e7. (doi: 10.1016/j.cell.2021.09.003) (PMID:34537136) (PMCID:PMC8421097)

Szemiel, A. M. et al. (2021) In vitro selection of Remdesivir resistance suggests evolutionary predictability of SARS-CoV-2. PLoS Pathogens, 17(9), e1009929. (doi: 10.1371/journal.ppat.1009929) (PMID:34534263) (PMCID:PMC8496873)

MacLean, O. A. , Lytras, S., Weaver, S., Singer, J. B., Boni, M. F., Lemey, P., Kosakovsky Pond, S. L. and Robertson, D. L. (2021) Natural selection in the evolution of SARS-CoV-2 in bats created a generalist virus and highly capable human pathogen. PLoS Biology, 19(3), e3001115. (doi: 10.1371/journal.pbio.3001115) (PMID:33711012) (PMCID:PMC7990310)

2020

MacLean, O. A. , Orton, R. J. , Singer, J. B. and Robertson, D. L. (2020) No evidence for distinct types in the evolution of SARS-CoV-2. Virus Evolution, 6(1), veaa034. (doi: 10.1093/ve/veaa034) (PMID:32817804) (PMCID:PMC7197565)

2018

Loy, D. E. et al. (2018) Evolutionary history of human Plasmodium vivax revealed by genome-wide analyses of related ape parasites. Proceedings of the National Academy of Sciences of the United States of America, 115(36), E8450-E8459. (doi: 10.1073/pnas.1810053115) (PMID:30127015) (PMCID:PMC6130405)

Plenderleith, L. J., Liu, W., MacLean, O. A. , Li, Y., Loy, D. E., Sundararaman, S. A., Bibollet-Ruche, F., Learn, G. H., Hahn, B. H. and Sharp, P. M. (2018) Adaptive evolution of RH5 in ape Plasmodium species of the Laverania subgenus. mBio, 9(1), e02237-17. (doi: 10.1128/mbio.02237-17) (PMID:29362238) (PMCID:PMC5784257)