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All Outputs (8)

Generation and transmission of interlineage recombinants in the SARS-CoV-2 pandemic (2021)
Journal Article
COVID-19 Genomics UK COG-UK Consor, Jackson, B., Boni, M., Bull, M., Colleran, A., Colquhoun, R., Darby, A., Haldenby, S., Hill, V., Lucaci, A., McCrone, J., Nicholls, S., O'Toole, A., Pacchiarini, N., Poplawski, R., Scher, E., Todd, F., Webster, H., Whitehead, M., Wierzbicki, C., …Rambaut, A. (2021). Generation and transmission of interlineage recombinants in the SARS-CoV-2 pandemic. Cell, 184(20), 5179-+. https://doi.org/10.1016/j.cell.2021.08.014

We present evidence for multiple independent origins of recombinant SARS-CoV-2 viruses sampled from late 2020 and early 2021 in the United Kingdom. Their genomes carry single-nucleotide polymorphisms and deletions that are characteristic of the B.1.1... Read More about Generation and transmission of interlineage recombinants in the SARS-CoV-2 pandemic.

Assessing the impact of COVID-19 border restrictions on dengue transmission in Yunnan Province, China: an observational epidemiological and phylogenetic analysis (2021)
Journal Article
Li, N., Feng, Y., Vrancken, B., Chen, Y., Dong, L., Yang, Q., Kraemer, M., Pybus, O., Zhang, H., Brady, O., & Tian, H. (2021). Assessing the impact of COVID-19 border restrictions on dengue transmission in Yunnan Province, China: an observational epidemiological and phylogenetic analysis. The Lancet Regional Health, 14, https://doi.org/10.1016/j.lanwpc.2021.100259

Background: In response to the COVID-19 pandemic, China implemented strict restrictions on cross-border travel to prevent disease importation. Yunnan, a Chinese province that borders dengue-endemic countries in Southeast Asia, experienced unprecedent... Read More about Assessing the impact of COVID-19 border restrictions on dengue transmission in Yunnan Province, China: an observational epidemiological and phylogenetic analysis.

Evaluating the Effects of SARS-CoV-2 Spike Mutation D614G on Transmissibility and Pathogenicity (2021)
Journal Article
COG-UK Consortium, Volz, E., Hill, V., McCrone, J., Price, A., Jorgensen, D., O'Toole, A., Southgate, J., Johnson, R., Jackson, B., Nascimento, F., Rey, S., Nicholls, S., Colquhoun, R., Filipe, A., Shepherd, J., Pascall, D., Shah, R., Jesudason, N., Li, K., …Connor, T. (2021). Evaluating the Effects of SARS-CoV-2 Spike Mutation D614G on Transmissibility and Pathogenicity. Cell, 184(1), 64-+. https://doi.org/10.1016/j.cell.2020.11.020

Global dispersal and increasing frequency of the SARS-CoV-2 spike protein variant D614G are suggestive of a selective advantage but may also be due to a random founder effect. We investigate the hypothesis for positive selection of spike D614G in the... Read More about Evaluating the Effects of SARS-CoV-2 Spike Mutation D614G on Transmissibility and Pathogenicity.

Establishment and lineage dynamics of the SARS-CoV-2 epidemic in the UK (2021)
Journal Article
COVID-19 Gcnomics UK COG-UK Consor, du Plessis, L., McCrone, J., Zarebski, A., Hill, V., Ruis, C., Gutierrez, B., Raghwani, J., Ashworth, J., Colquhoun, R., Connor, T., Faria, N., Jackson, B., Loman, N., O'Toole, A., Nicholls, S., Parag, K., Scher, E., Vasylyeva, T., Volz, E., …Pybus, O. (2021). Establishment and lineage dynamics of the SARS-CoV-2 epidemic in the UK. Science, 371(6530), 708-+. https://doi.org/10.1126/science.abf2946

The United Kingdom's COVID-19 epidemic during early 2020 was one of world's largest and was unusually well represented by virus genomic sampling. We determined the fine-scale genetic lineage structure of this epidemic through analysis of 50,887 sever... Read More about Establishment and lineage dynamics of the SARS-CoV-2 epidemic in the UK.

Molecular detection and genomic characterization of diverse hepaciviruses in African rodents (2021)
Journal Article
Bletsa, M., Vrancken, B., Gryseels, S., Boonen, I., Fikatas, A., Li, Y., Laudisoit, A., Lequime, S., Bryja, J., Makundi, R., Meheretu, Y., Akaibe, B., Mbalitini, S., Van de Perre, F., Van Houtte, N., Tesikova, J., Wollants, E., Van Ranst, M., Pybus, O., Drexler, J., …Lemey, P. (2021). Molecular detection and genomic characterization of diverse hepaciviruses in African rodents. Virus Evolution, 7(1), https://doi.org/10.1093/ve/veab036

Hepatitis C virus (HCV; genus Hepacivirus) represents a major public health problem, infecting about three per cent of the human population. Because no animal reservoir carrying closely related hepaciviruses has been identified, the zoonotic origins... Read More about Molecular detection and genomic characterization of diverse hepaciviruses in African rodents.

Spatiotemporal invasion dynamics of SARS-CoV-2 lineage B.1.1.7 emergence (2021)
Journal Article
COVID-19 Genomics UK COG-UK Consor, Kraemer, M., Hill, V., Ruis, C., Dellicour, S., Bajaj, S., McCrone, J., Baele, G., Parag, K., Battle, A., Gutierrez, B., Jackson, B., Colquhoun, R., O'Toole, A., Klein, B., Vespignani, A., Volz, E., Faria, N., Aanensen, D., Loman, N., …Pybus, O. (2021). Spatiotemporal invasion dynamics of SARS-CoV-2 lineage B.1.1.7 emergence. Science, 373(6557), 889-+. https://doi.org/10.1126/science.abj0113

Understanding the causes and consequences of the emergence of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variants of concern is crucial to pandemic control yet difficult to achieve because they arise in the context of variable human... Read More about Spatiotemporal invasion dynamics of SARS-CoV-2 lineage B.1.1.7 emergence.

Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil (2021)
Journal Article
Faria, N., Mellan, T., Whittaker, C., Claro, I., Candido, D., Mishra, S., Crispim, M., Sales, F., Hawryluk, I., McCrone, J., Hulswit, R., Franco, L., Ramundo, M., de Jesus, J., Andrade, P., Coletti, T., Ferreira, G., Silva, C., Manuli, E., Pereira, R., …Sabino, E. (2021). Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil. Science, 372(6544), 815-+. https://doi.org/10.1126/science.abh2644

Cases of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection in Manaus, Brazil, resurged in late 2020 despite previously high levels of infection. Genome sequencing of viruses sampled in Manaus between November 2020 and January 202... Read More about Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil.