• Co-infecting pathogens can contribute to inflammatory responses and severe symptoms in COVID-19 

      Chen, Liping; Shen, Lihan; Wu, Weichen; Guan, Wenda; Zhou, Jinchao; Luo, Gengyan; Chen, Qimin; Zhou, Hongxia; Deng, Zhenxuan; Chen, Yaoqing; Zhao, Wenjing; Jin, Wenxiang; Qiu, Minshan; Zheng, Qianwei; Wang, Yutao; Liu, Chen; Bai, Xiangxiang; Guo, Deyin; Holmes, Edward C.; Zhong, Nanshan; Shi, Mang; Yang, Zifeng
      Published 2022
      Background: The current COVID-19 pandemic is posing a major challenge to public health on a global scale. While it is generally believed that severe COVID-19 results from over-expression of inflammatory mediators (i.e., a ...
      Article
    • Assessment of Coronavirus Disease 2019 Intervention Strategies in the Nordic Countries Using Genomic Epidemiology 

      Duchene, Sebastian; Featherstone, Leo; Freiesleben de Blasio, Birgitte; Holmes, Edward C.; Bohlin, Jon; Pettersson, John H O
      Published 2022
      We explored how the duration, size, and number of virus transmission clusters, defined as country-specific monophyletic groups in a severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) phylogenetic tree, differed ...
      Article
    • Co-infection with SARS-COV-2 Omicron and Delta Variants Revealed by Genomic Surveillance 

      Rockett, Rebecca J; Draper, Jenny; Gall, Mailie; Sim, Eby M; Arnott, Alicia; Agius, Jessica E; Johnson-Mackinnon, Jessica; Martinez, Elena; Drew, Alexander P; Lee, Clement; Ngo, Christine; Ramsperger, Marc; Ginn, Andrew N; Wang, Qinning; Fennell, Michael; Ko, Danny; Huston, Linda; Kairaitis, Lukas; Holmes, Edward C.; O'Sullivan, Matthew N; Chen, Sharon C-A; Kok, Jen; Dwyer, Dominic E; Sintchenko, Vitali
      Published 2022
      We identified the co-infection of the SARS-CoV-2 Omicron and Delta variants in two epidemiologically unrelated patients with chronic kidney disease requiring haemodialysis. Both SARS-CoV-2 variants were co-circulating ...
      Preprint
    • COVID-19 - lessons for zoonotic disease 

      Holmes, Edward C.
      Published 2022
      Disease emergence is driven by human-animal contact in a global viral ecosystem.
      Article
    • Replacement of the Gamma by the Delta variant in Brazil: Impact of lineage displacement on the ongoing pandemic 

      Giovanetti, Marta; Fonseca, Vagner; Wilkinson, Eduan; Tegally, Houriiyah; San, Emmanuel James; Althaus, Christian L; Xavier, Joilson; Nanev Slavov, Svetoslav; Viala, Vincent Louis; Ranieri Jerônimo Lima, Alex; Ribeiro, Gabriela; Souza-Neto, Jayme A; Fukumasu, Heidge; Lehmann Coutinho, Luiz; Venancio da Cunha, Rivaldo; Freitas, Carla; Campelo de A E Melo, Carlos F; Navegantes de Araújo, Wildo; Do Carmo Said, Rodrigo Fabiano; Almiron, Maria; de Oliveira, Tulio; Coccuzzo Sampaio, Sandra; Elias, Maria Carolina; Covas, Dimas Tadeu; Holmes, Edward C; Lourenço, José; Kashima, Simone; de Alcantara, Luiz Carlos Junior
      Published 2022
      The coronavirus disease 2019 (COVID-19) epidemic in Brazil was driven mainly by the spread of Gamma (P.1), a locally emerged variant of concern (VOC) that was first detected in early January 2021. This variant was estimated ...
      Article