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

Áine O'Toole; Moritz U. G. Kraemer; Verity Hill; Oliver G. Pybus; Alexander Watts; Issac I. Bogoch; Kamran Khan; Jane P. Messina; Houriiyah Tegally; Richard R. Lessells; Jennifer Giandhari; Sureshnee Pillay; Kefentse Arnold Tumedi; Gape Nyepetsi; Malebogo Kebabonye; Maitshwarelo Matsheka; Madisa Mine; Sima Tokajian; Hamad Hassan; Tamara Salloum; Georgi Merhi; Jad Koweyes; Jemma L. Geoghegan; Joep de Ligt; Xiaoyun Ren; Matthew Storey; Nikki E. Freed; Chitra Pattabiraman; Pramada Prasad; Anita S. Desai; Ravi Vasanthapuram; Thomas F. Schulz; Lars Steinbrück; Tanja Stadler; Antonio Parisi; Angelica Bianco; Darío García de Viedma; Sergio Buenestado-Serrano; V. tor Borges; Joana Isidro; S. lvia Duarte; João Paulo Gomes; Neta S. Zuckerman; Michal Mandelboim; Orna Mor; Torsten Seemann; Alicia Arnott; Jenny Draper; Mailie Gall; William Rawlinson; Ira Deveson; Sanmarié Schlebusch; Jamie McMahon; Lex Leong; Chuan Kok Lim; Maria Chironna; Daniela Loconsole; Antonin Bal; Laurence Josset; Edward Holmes; Kirsten St. George; Erica Lasek-Nesselquist; Reina S. Sikkema; Bas Oude Munnink; Marion Koopmans; Mia Brytting; V. Sudha rani; S. Pavani; Teemu Smura; Albert Heim; Satu Kurkela; Massab Umair; Muhammad Salman; Barbara Bartolini; Martina Rueca; Christian Drosten; Thorsten Wolff; Olin Silander; Dirk Eggink; Chantal Reusken; Harry Vennema; Aekyung Park; Christine Carrington; Nikita Sahadeo; Michael Carr; Gabo Gonzalez; Tulio de Oliveira; Nuno Faria; Andrew Rambaut

doi:https://doi.org/10.12688/wellcomeopenres.16661.1

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

Áine O'Toole, Moritz U. G. Kraemer, Verity Hill, Oliver G. Pybus, Alexander Watts, Issac I. Bogoch, Kamran Khan, Jane P. Messina, Houriiyah Tegally, Richard R. Lessells, Jennifer Giandhari, Sureshnee Pillay, Kefentse Arnold Tumedi, Gape Nyepetsi, Malebogo Kebabonye, Maitshwarelo Matsheka, Madisa Mine, Sima Tokajian, Hamad Hassan, Tamara SalloumGeorgi Merhi, Jad Koweyes, Jemma L. Geoghegan, Joep de Ligt, Xiaoyun Ren, Matthew Storey, Nikki E. Freed, Chitra Pattabiraman, Pramada Prasad, Anita S. Desai, Ravi Vasanthapuram, Thomas F. Schulz, Lars Steinbrück, Tanja Stadler, Antonio Parisi, Angelica Bianco, Darío García de Viedma, Sergio Buenestado-Serrano, V. tor Borges, Joana Isidro, S. lvia Duarte, João Paulo Gomes, Neta S. Zuckerman, Michal Mandelboim, Orna Mor, Torsten Seemann, Alicia Arnott, Jenny Draper, Mailie Gall, William Rawlinson, Ira Deveson, Sanmarié Schlebusch, Jamie McMahon, Lex Leong, Chuan Kok Lim, Maria Chironna, Daniela Loconsole, Antonin Bal, Laurence Josset, Edward Holmes, Kirsten St. George, Erica Lasek-Nesselquist, Reina S. Sikkema, Bas Oude Munnink, Marion Koopmans, Mia Brytting, V. Sudha rani, S. Pavani, Teemu Smura, Albert Heim, Satu Kurkela, Massab Umair, Muhammad Salman, Barbara Bartolini, Martina Rueca, Christian Drosten, Thorsten Wolff, Olin Silander, Dirk Eggink, Chantal Reusken, Harry Vennema, Aekyung Park, Christine Carrington, Nikita Sahadeo, Michael Carr, Gabo Gonzalez, Tulio de Oliveira, Nuno Faria, Andrew Rambaut

AII - Infectious diseases (AMC)

Research output: Contribution to journal › Article › Academic › peer-review

111 Citations (Scopus)

Abstract

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.

Original language	English
Article number	121
Journal	Wellcome open research
Volume	6
DOIs	https://doi.org/10.12688/wellcomeopenres.16661.1
Publication status	Published - 2021

Keywords

Air travel
B.1.1.7
B.1.351
Coronavirus
Genome sequencing
Genomic epidemiology
Genomic surveillance
Genomics
N501Y
Pandemic
SARS-CoV-2
Sequencing
Surveillance
Virus

Access to Document

https://doi.org/10.12688/wellcomeopenres.16661.1

Cite this

O'Toole, Á., Kraemer, M. U. G., Hill, V., Pybus, O. G., Watts, A., Bogoch, I. I., Khan, K., Messina, J. P., Tegally, H., Lessells, R. R., Giandhari, J., Pillay, S., Tumedi, K. A., Nyepetsi, G., Kebabonye, M., Matsheka, M., Mine, M., Tokajian, S., Hassan, H., ... Rambaut, A. (2021). Tracking the international spread of SARS-CoV-2 lineages B.1.1.7 and B.1.351/501Y-V2. Wellcome open research, 6, Article 121. https://doi.org/10.12688/wellcomeopenres.16661.1

@article{90bbed4f4cb24931aed578fbd234be43,

title = "Tracking the international spread of SARS-CoV-2 lineages B.1.1.7 and B.1.351/501Y-V2",

abstract = "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.",

keywords = "Air travel, B.1.1.7, B.1.351, Coronavirus, Genome sequencing, Genomic epidemiology, Genomic surveillance, Genomics, N501Y, Pandemic, SARS-CoV-2, Sequencing, Surveillance, Virus",

author = "{\'A}ine O'Toole and Kraemer, {Moritz U. G.} and Verity Hill and Pybus, {Oliver G.} and Alexander Watts and Bogoch, {Issac I.} and Kamran Khan and Messina, {Jane P.} and Houriiyah Tegally and Lessells, {Richard R.} and Jennifer Giandhari and Sureshnee Pillay and Tumedi, {Kefentse Arnold} and Gape Nyepetsi and Malebogo Kebabonye and Maitshwarelo Matsheka and Madisa Mine and Sima Tokajian and Hamad Hassan and Tamara Salloum and Georgi Merhi and Jad Koweyes and Geoghegan, {Jemma L.} and {de Ligt}, Joep and Xiaoyun Ren and Matthew Storey and Freed, {Nikki E.} and Chitra Pattabiraman and Pramada Prasad and Desai, {Anita S.} and Ravi Vasanthapuram and Schulz, {Thomas F.} and Lars Steinbr{\"u}ck and Tanja Stadler and Antonio Parisi and Angelica Bianco and {Garc{\'i}a de Viedma}, Dar{\'i}o and Sergio Buenestado-Serrano and Borges, {V. tor} and Joana Isidro and Duarte, {S. lvia} and Gomes, {Jo{\~a}o Paulo} and Zuckerman, {Neta S.} and Michal Mandelboim and Orna Mor and Torsten Seemann and Alicia Arnott and Jenny Draper and Mailie Gall and William Rawlinson and Ira Deveson and Sanmari{\'e} Schlebusch and Jamie McMahon and Lex Leong and Lim, {Chuan Kok} and Maria Chironna and Daniela Loconsole and Antonin Bal and Laurence Josset and Edward Holmes and {St. George}, Kirsten and Erica Lasek-Nesselquist and Sikkema, {Reina S.} and {Oude Munnink}, Bas and Marion Koopmans and Mia Brytting and {Sudha rani}, V. and S. Pavani and Teemu Smura and Albert Heim and Satu Kurkela and Massab Umair and Muhammad Salman and Barbara Bartolini and Martina Rueca and Christian Drosten and Thorsten Wolff and Olin Silander and Dirk Eggink and Chantal Reusken and Harry Vennema and Aekyung Park and Christine Carrington and Nikita Sahadeo and Michael Carr and Gabo Gonzalez and {de Oliveira}, Tulio and Nuno Faria and Andrew Rambaut",

note = "Publisher Copyright: {\textcopyright} 2021 O'Toole {\'A} et al.",

year = "2021",

doi = "https://doi.org/10.12688/wellcomeopenres.16661.1",

language = "English",

volume = "6",

journal = "Wellcome open research",

issn = "2398-502X",

publisher = "F1000Research",

}

O'Toole, Á, Kraemer, MUG, Hill, V, Pybus, OG, Watts, A, Bogoch, II, Khan, K, Messina, JP, Tegally, H, Lessells, RR, Giandhari, J, Pillay, S, Tumedi, KA, Nyepetsi, G, Kebabonye, M, Matsheka, M, Mine, M, Tokajian, S, Hassan, H, Salloum, T, Merhi, G, Koweyes, J, Geoghegan, JL, de Ligt, J, Ren, X, Storey, M, Freed, NE, Pattabiraman, C, Prasad, P, Desai, AS, Vasanthapuram, R, Schulz, TF, Steinbrück, L, Stadler, T, Parisi, A, Bianco, A, García de Viedma, D, Buenestado-Serrano, S, Borges, VT, Isidro, J, Duarte, SL, Gomes, JP, Zuckerman, NS, Mandelboim, M, Mor, O, Seemann, T, Arnott, A, Draper, J, Gall, M, Rawlinson, W, Deveson, I, Schlebusch, S, McMahon, J, Leong, L, Lim, CK, Chironna, M, Loconsole, D, Bal, A, Josset, L, Holmes, E, St. George, K, Lasek-Nesselquist, E, Sikkema, RS, Oude Munnink, B, Koopmans, M, Brytting, M, Sudha rani, V, Pavani, S, Smura, T, Heim, A, Kurkela, S, Umair, M, Salman, M, Bartolini, B, Rueca, M, Drosten, C, Wolff, T, Silander, O, Eggink, D, Reusken, C, Vennema, H, Park, A, Carrington, C, Sahadeo, N, Carr, M, Gonzalez, G, de Oliveira, T, Faria, N & Rambaut, A 2021, 'Tracking the international spread of SARS-CoV-2 lineages B.1.1.7 and B.1.351/501Y-V2', Wellcome open research, vol. 6, 121. https://doi.org/10.12688/wellcomeopenres.16661.1

TY - JOUR

T1 - Tracking the international spread of SARS-CoV-2 lineages B.1.1.7 and B.1.351/501Y-V2

AU - O'Toole, Áine

AU - Kraemer, Moritz U. G.

AU - Hill, Verity

AU - Pybus, Oliver G.

AU - Watts, Alexander

AU - Bogoch, Issac I.

AU - Khan, Kamran

AU - Messina, Jane P.

AU - Tegally, Houriiyah

AU - Lessells, Richard R.

AU - Giandhari, Jennifer

AU - Pillay, Sureshnee

AU - Tumedi, Kefentse Arnold

AU - Nyepetsi, Gape

AU - Kebabonye, Malebogo

AU - Matsheka, Maitshwarelo

AU - Mine, Madisa

AU - Tokajian, Sima

AU - Hassan, Hamad

AU - Salloum, Tamara

AU - Merhi, Georgi

AU - Koweyes, Jad

AU - Geoghegan, Jemma L.

AU - de Ligt, Joep

AU - Ren, Xiaoyun

AU - Storey, Matthew

AU - Freed, Nikki E.

AU - Pattabiraman, Chitra

AU - Prasad, Pramada

AU - Desai, Anita S.

AU - Vasanthapuram, Ravi

AU - Schulz, Thomas F.

AU - Steinbrück, Lars

AU - Stadler, Tanja

AU - Parisi, Antonio

AU - Bianco, Angelica

AU - García de Viedma, Darío

AU - Buenestado-Serrano, Sergio

AU - Borges, V. tor

AU - Isidro, Joana

AU - Duarte, S. lvia

AU - Gomes, João Paulo

AU - Zuckerman, Neta S.

AU - Mandelboim, Michal

AU - Mor, Orna

AU - Seemann, Torsten

AU - Arnott, Alicia

AU - Draper, Jenny

AU - Gall, Mailie

AU - Rawlinson, William

AU - Deveson, Ira

AU - Schlebusch, Sanmarié

AU - McMahon, Jamie

AU - Leong, Lex

AU - Lim, Chuan Kok

AU - Chironna, Maria

AU - Loconsole, Daniela

AU - Bal, Antonin

AU - Josset, Laurence

AU - Holmes, Edward

AU - St. George, Kirsten

AU - Lasek-Nesselquist, Erica

AU - Sikkema, Reina S.

AU - Oude Munnink, Bas

AU - Koopmans, Marion

AU - Brytting, Mia

AU - Sudha rani, V.

AU - Pavani, S.

AU - Smura, Teemu

AU - Heim, Albert

AU - Kurkela, Satu

AU - Umair, Massab

AU - Salman, Muhammad

AU - Bartolini, Barbara

AU - Rueca, Martina

AU - Drosten, Christian

AU - Wolff, Thorsten

AU - Silander, Olin

AU - Eggink, Dirk

AU - Reusken, Chantal

AU - Vennema, Harry

AU - Park, Aekyung

AU - Carrington, Christine

AU - Sahadeo, Nikita

AU - Carr, Michael

AU - Gonzalez, Gabo

AU - de Oliveira, Tulio

AU - Faria, Nuno

AU - Rambaut, Andrew

PY - 2021

Y1 - 2021

N2 - 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.

AB - 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.

KW - Air travel

KW - B.1.1.7

KW - B.1.351

KW - Coronavirus

KW - Genome sequencing

KW - Genomic epidemiology

KW - Genomic surveillance

KW - Genomics

KW - N501Y

KW - Pandemic

KW - SARS-CoV-2

KW - Sequencing

KW - Surveillance

KW - Virus

UR - http://www.scopus.com/inward/record.url?scp=85107141280&partnerID=8YFLogxK

U2 - https://doi.org/10.12688/wellcomeopenres.16661.1

DO - https://doi.org/10.12688/wellcomeopenres.16661.1

M3 - Article

C2 - 34095513

SN - 2398-502X

VL - 6

JO - Wellcome open research

JF - Wellcome open research

M1 - 121

ER -

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

Abstract

Keywords

Access to Document

Other files and links

Cite this