Tracking the international spread of SARS-CoV-2 lineages B.1.1.7 and B.1.351/501Y-V2 with grinch

• Author(s): O'Toole, Áine ; Hill, Verity ; Pybus, Oliver G. ; Watts, Alexander ; Bogoch, Issac I. ; Khan, Kamran ; Messina, Jane P. ; Tegally, Houriiyah ; Lessells, Richard R. ; Giandhari, Jennifer ; Pillay, Sureshnee ; Tumedi, Kefentse Arnold ; Nyepetsi, Gape ; Kebabonye, Malebogo ; Matsheka, Maitshwarelo ; Mine, Madisa ; Tokajian, Sima ; Hassan, Hamad ; Salloum, Tamara ; Merhi, Georgi ; Koweyes, Jad ; Geoghegan, Jemma L. ; de Ligt, Joep ; Ren, Xiaoyun ; Storey, Matthew ; Freed, Nikki E. ; Pattabiraman, Chitra ; Prasad, Pramada ; Desai, Anita S. ; Vasanthapuram, Ravi ; Schulz, Thomas F. ; Steinbrück, Lars ; Stadler, Tanja ; Parisi, Antonio ; Bianco, Angelica ; García de Viedma, Darío ; Buenestado-Serrano, Sergio ; Borges, Vítor ; Isidro, Joana ; Duarte, Sílvia ; Gomes, João Paulo ; Zuckerman, Neta S. ; Mandelboim, Michal ; Mor, Orna ; Seemann, Torsten ; Arnott, Alicia ; Draper, Jenny ; Gall, Mailie ; Rawlinson, William ; Deveson, Ira ; Schlebusch, Sanmarié ; McMahon, Jamie ; Leong, Lex ; Lim, Chuan Kok ; Chironna, Maria ; Loconsole, Daniela ; Bal, Antonin ; Josset, Laurence ; Holmes, Edward ; St. George, Kirsten ; Lasek-Nesselquist, Erica ; Sikkema, Reina S. ; Oude Munnink, Bas ; Koopmans, Marion ; Brytting, Mia ; Sudha rani, V. ; Pavani, S. ; Smura, Teemu ; Heim, Albert ; Kurkela, Satu ; Umair, Massab ; Salman, Muhammad ; Bartolini, Barbara ; Rueca, Martina ; Drosten, Christian ; Wolff, Thorsten ; Silander, Olin ; Eggink, Dirk ; Reusken, Chantal ; Vennema, Harry ; Park, Aekyung ; Carrington, Christine ; Sahadeo, Nikita ; Carr, Michael ; Gonzalez, Gabo ; de Oliveira, Tulio ; Faria, Nuno ; Rambaut, Andrew ; Kraemer, Moritz U.G.
• Date: 2021
• Persistent ID: http://hdl.handle.net/10400.18/8059
• Origin: Repositório Científico do Instituto Nacional de Saúde
• Subject(s): B.1.1.7; B.1.351; N501Y; SARS-CoV-2; Air Travel; Coronavirus; Genome Sequencing; Genomic Epidemiology; Genomic Surveillance; Genomics; Pandemic; Sequencing; Surveillance; Virus; COVID-19; Infecções Respiratórias
• Document Type: Journal article
• Language: English
• Contributor(s): Repositório Científico do Instituto Nacional de Saúde

Description

Late in 2020, two genetically-distinct clusters of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) with mutations of biological concern were reported, one in the United Kingdom and one in South Africa. Using a combination of data from routine surveillance, genomic sequencing and international travel we track the international dispersal of lineages B.1.1.7 and B.1.351 (variant 501Y-V2). We account for potential biases in genomic surveillance efforts by including passenger volumes from location of where the lineage was first reported, London and South Africa respectively. Using the software tool grinch (global report investigating novel coronavirus haplotypes), we track the international spread of lineages of concern with automated daily reports, Further, we have built a custom tracking website (cov-lineages.org/global_report.html) which hosts this daily report and will continue to include novel SARS-CoV-2 lineages of concern as they are detected.