Identification of Evolutionary Trajectories Shared across Human Betacoronaviruses

Escalera-Zamudio, Marina; Kosakovsky Pond, Sergei L; Martínez de la Viña, Natalia; Gutiérrez, Bernardo; Inward, Rhys P D; Thézé, Julien; van Dorp, Lucy; Castelán-Sánchez, Hugo G; Bowden, Thomas A; Pybus, Oliver G; Hulswit, Ruben J G

doi:10.1093/gbe/evad076

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Comparing the evolutionary dynamics of predominant SARS-CoV-2 virus lineages co-circulating in Mexico (2023)
Journal Article
Castelán-Sánchez, H., Delaye, L., Inward, R., Dellicour, S., Gutierrez, B., de la Vina, N., …Zamudio, M. (2023). Comparing the evolutionary dynamics of predominant SARS-CoV-2 virus lineages co-circulating in Mexico. eLife, 12, https://doi.org/10.7554/eLife.82069

Over 200 different SARS-CoV-2 lineages have been observed in Mexico by November 2021. To investigate lineage replacement dynamics, we applied a phylodynamic approach and explored the evolutionary trajectories of five dominant lineages that circulated... Read More about Comparing the evolutionary dynamics of predominant SARS-CoV-2 virus lineages co-circulating in Mexico.

SARS-CoV-2 evolution in the Omicron era (2023)
Journal Article
Roemer, C., Sheward, D., Hisner, R., Gueli, F., Sakaguchi, H., Frohberg, N., …Peacock, T. (2023). SARS-CoV-2 evolution in the Omicron era. Nature Microbiology, 8(11), 1952-1959. https://doi.org/10.1038/s41564-023-01504-w

Since SARS-CoV-2 BA.5 (Omicron) emerged and spread in 2022, Omicron lineages have markedly diversified. Here we review the evolutionary trajectories and processes that underpin the emergence of these lineages, and identify the most prevalent sublinea... Read More about SARS-CoV-2 evolution in the Omicron era.

Ancient chicken remains reveal the origins of virulence in Marek's disease virus (2023)
Journal Article
Fiddaman, S., Dimopoulos, E., Lebrasseur, O., du Plessis, L., Vrancken, B., Charlton, S., …Frantz, L. (2023). Ancient chicken remains reveal the origins of virulence in Marek's disease virus. Science, 382(6676), 1276-1281. https://doi.org/10.1126/science.adg2238

The pronounced growth in livestock populations since the 1950s has altered the epidemiological and evolutionary trajectory of their associated pathogens. For example, Marek's disease virus (MDV), which causes lymphoid tumors in chickens, has experien... Read More about Ancient chicken remains reveal the origins of virulence in Marek's disease virus.

Dispersal patterns and influence of air travel during the global expansion of SARS-CoV-2 variants of concern (2024)
Journal Article
Tegally,, H., Wilkinson,, E., Tsui,, . J. L. -., Moir,, M., Martin,, D., Brito,, A. F., …de Oliveira, T. (2024). Dispersal patterns and influence of air travel during the global expansion of SARS-CoV-2 variants of concern. Cell, https://doi.org/10.1016/j.cell.2023.06.001

Identification of Evolutionary Trajectories Shared across Human Betacoronaviruses (2023)
Journal Article
Escalera-Zamudio, M., Kosakovsky Pond, S. L., Martínez de la Viña, N., Gutiérrez, B., Inward, R. P. D., Thézé, J., …Hulswit, R. J. G. (2023). Identification of Evolutionary Trajectories Shared across Human Betacoronaviruses. Genome Biology and Evolution, 15(6), https://doi.org/10.1093/gbe/evad076

Comparing the evolution of distantly related viruses can provide insights into common adaptive processes related to shared ecological niches. Phylogenetic approaches, coupled with other molecular evolution tools, can help identify mutations informati... Read More about Identification of Evolutionary Trajectories Shared across Human Betacoronaviruses.