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Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission
Dinesh Aggarwal 
,
Ben Warne ,
Aminu S. Jahun ,
William L. Hamilton ,
Thomas Fieldman,
Louis du Plessis ,
Verity Hill ,
Beth Blane ,
Emmeline Watkins,
Elizabeth Wright ,
Grant Hall ,
Catherine Ludden,
Richard Myers,
Myra Hosmillo,
Yasmin Chaudhry ,
Malte L. Pinckert ,
Iliana Georgana,
Rhys Izuagbe ,
Danielle Leek,
Olisaeloka Nsonwu ,
Gareth J. Hughes ,
Simon Packer ,
Andrew J. Page ,
Marina Metaxaki ,
Stewart Fuller,
Gillian Weale ,
Jon Holgate,
Christopher A. Brown ,
Alexandra Orton,
Julie Douthwaite,
Steve Rees,
Christopher Brown,
Roger Clark,
Daniel R. Jones,
Fred Kuenzi,
Jennifer Rankin,
Ian Waddell,
Patrick Maxwell,
Nicholas Matheson,
Chris Abell,
Vickie Braithwaite,
Craig Brierley,
Jon Crowcroft,
Aastha Dahal,
Kathryn Faulkner,
Michael Glover,
Ian Goodfellow,
Jane Greatorex,
Laura James,
Paul Lehner,
Ian Leslie,
Kathleen Liddell,
Ben Margolis,
Sally Morgan,
Linda Sheridan,
Sally Valletta,
Anna Vignoles,
Martin Vinnell,
Mark Wills,
Sarah Hilborne,
Sarah Berry,
Mahin Bagheri Kahkeshi,
Dawn Hancock,
Jennifer Winster,
Jessica Enright,
Richard Samworth,
Vijay Samtani,
Gabriela Ahmadi-Assalemi,
Tom Feather,
Robin Goodall,
Steve Hoensch,
Dean Johnson,
Martin Hunt,
Nick Mathieson,
Katya Nikitina,
Zara Sheldrake,
Martin Keen,
Aris Sato,
David Connor,
Jonathan Tolhurst,
Jack Williman,
Victoria Hollamby,
Sinead Jordan,
Tania Fatseas,
Peter Taylor,
Christine Georgiou,
Michelle Caspersz,
Claire McNulty,
Richard Davies,
Rebecca Clarke,
Darius Danaei,
Rory Dyer,
Rob Glew,
Oliver Lambson,
Karen Gibbs,
Barbara Mozdzen,
Gabor Raub,
Asako Radecki,
Phil White,
Robert Hughes,
Lucie Gransden,
Matt Ceaser,
Robert Sing,
Karl Wilson,
Ajith Parlikad,
Maharshi Dhada,
Tom Ridgman,
Diane Mungovan,
Steve Matthews,
Paul Searle,
John Mills,
Andy Neely,
Robert Henderson,
Edna Murphy,
Matthew Russell,
Anthony Freeling,
Steve Poppitt,
Jo Tynan,
James Knapton,
Filippo Marchetti,
Daniela De Angelis,
Theresa Feltwell,
Nazreen F. Hadjirin,
William L. Hamilton,
Aminu Jahun,
Malte Pinckert,
Ashley Shaw,
Afzal Chaudhry,
Nicholas M. Brown,
Lenette Mactavous,
Sophie Hannan,
Aleksandra Hosaja,
Clare Leong,
Jo Wright,
Natalie Quinnell,
Chris Workman,
Mark Ferris,
Giles Wright,
Elizabeth Wright ,
Dinesh Aggarwal ,
Ellena Brooks,
Alessandro M. Carabelli,
Carol M. Churcher,
Katerina Galai,
Sophia T. Girgis,
Ravi K. Gupta,
Catherine Ludden,
Georgina M. McManus,
Sophie Palmer,
Sharon J. Peacock ,
Kim S. Smith,
Elias Allara,
David Bibby,
Chloe Bishop,
Andrew Bosworth,
Daniel Bradshaw,
Vicki Chalker,
Meera Chand,
Gavin Dabrera,
Nicholas Ellaby,
Eileen Gallagher,
Natalie Groves,
Ian Harrison,
Hassan Hartman,
Richard Hopes,
Jonathan Hubb,
Stephanie Hutchings,
Angie Lackenby,
Juan Ledesma,
David Lee,
Nikos Manesis,
Carmen Manso,
Tamyo Mbisa,
Shahjahan Miah,
Peter Muir,
Husam Osman,
Vineet Patel,
Clare Pearson,
Steven Platt,
Hannah M. Pymont,
Mary Ramsay,
Esther Robinson,
Ulf Schaefer,
Alicia Thornton,
Katherine A. Twohig,
Ian B. Vipond,
David Williams,
William L. Hamilton ,
Louise Aigrain,
Alex Alderton,
Roberto Amato,
Cristina V. Ariani,
Jeff Barrett,
Andrew R. Bassett,
Mathew A. Beale,
Charlotte Beaver,
Katherine L. Bellis,
Emma Betteridge,
James Bonfield,
Iraad F. Bronner,
Michael H. S. Chapman,
John Danesh,
Robert Davies,
Matthew J. Dorman,
Eleanor Drury,
Jillian Durham,
Ben W. Farr,
Luke Foulser,
Sonia Goncalves,
Scott Goodwin,
Marina Gourtovaia,
David K. Jackson,
Keith James,
Dorota Jamrozy,
Ian Johnston,
Leanne Kane,
Sally Kay,
Jon-Paul Keatley,
Dominic Kwiatkowski,
Cordelia F. Langford,
Mara Lawniczak,
Stefanie V. Lensing,
Steven Leonard,
Laura Letchford,
Kevin Lewis,
Jennifier Liddle,
Rich Livett,
Stephanie Lo,
Alex Makunin,
Inigo Martincorena,
Shane McCarthy,
Samantha McGuigan,
Robin J. Moll,
Rachel Nelson,
Karen Oliver,
Steve Palmer,
Naomi R. Park,
Minal Patel,
Liam Prestwood,
Christoph Puethe,
Michael A. Quail,
Diana Rajan,
Shavanthi Rajatileka,
Nicholas M. Redshaw,
Carol Scott,
Lesley Shirley,
John Sillitoe,
Scott A. J. Thurston,
Gerry Tonkin-Hill,
Jaime M. Tovar-Corona,
Danni Weldon,
Andrew Whitwham,
Myra Hosmillo,
Stephen W. Attwood,
Louis du Plessis ,
Marina Escalera Zamudio,
Sarah Francois,
Bernardo Gutierrez,
Moritz U. G. Kraemer,
Jayna Raghwani,
Tetyana I. Vasylyeva,
Alex E. Zarebski,
Nabil-Fareed Alikhan,
Alp Aydin,
David J. Baker,
Leonardo de Oliveira Martins,
Gemma L. Kay,
Thanh Le-Viet,
Alison E. Mather,
Lizzie Meadows,
Justin O’Grady,
Steven Rudder,
Alexander J. Trotter,
Chris J. Illingworth,
Chris Jackson,
Elihu Aranday-Cortes,
Patawee Asamaphan,
Alice Broos,
Stephen N. Carmichael,
Ana da Silva Filipe,
Joseph Hughes,
Natasha G. Jesudason,
Natasha Johnson,
Kathy K. Li,
Daniel Mair,
Jenna Nichols,
Seema Nickbakhsh,
Marc O. Niebel,
Kyriaki Nomikou,
Richard J. Orton,
David L. Robertson,
Rajiv N. Shah,
James G. Shepherd,
Joshua B. Singer,
Igor Starinskij,
Emma C. Thomson,
Lily Tong,
Sreenu Vattipally,
Amy Ash,
Cherian Koshy,
Nick Cortes,
Stephen Kidd,
Jessica Lynch,
Nathan Moore,
Matilde Mori,
Emma Wise,
Tanya Curran,
Derek J. Fairley,
James P. McKenna,
Helen Adams,
David Bonsall,
Christophe Fraser,
Tanya Golubchik,
Benjamin J. Cogger,
Mohammed O. Hassan-Ibrahim,
Cassandra S. Malone,
Nicola Reynolds,
Michelle Wantoch,
Safiah Afifi,
Robert Beer,
Michaela John,
Joshua Maksimovic,
Kathryn McCluggage,
Sian Morgan,
Karla Spellman,
Catherine Bresner,
Thomas R. Connor,
William Fuller,
Martyn Guest,
Huw Gulliver,
Christine Kitchen,
Angela Marchbank,
Ian Merrick,
Robert Munn,
Anna Price,
Joel Southgate,
Trudy Workman,
Amita Patel,
Luke B. Snell,
Rahul Batra,
Themoula Charalampous,
Jonathan Edgeworth,
Gaia Nebbia,
Angela H. Beckett,
Samuel C. Robson,
David M. Aanensen,
Khalil Abudahab,
Mirko Menegazzo,
Ben E. W. Taylor,
Anthony P. Underwood,
Corin A. Yeats,
Louise Berry,
Tim Boswell,
Gemma Clark,
Vicki M. Fleming,
Hannah C. Howson-Wells,
Carl Jones,
Amelia Joseph,
Manjinder Khakh,
Michelle M. Lister,
Wendy Smith,
Iona Willingham,
Paul Bird,
Karlie Fallon,
Thomas Helmer,
Christopher Holmes,
Julian Tang,
Victoria Blakey,
Sharon Campbell,
Veena Raviprakash,
Nicola Sheriff,
Lesley-Anne Williams,
Matthew Carlile,
Johnny Debebe,
Nadine Holmes,
Matthew W. Loose,
Christopher Moore,
Fei Sang,
Victoria Wright,
Francesc Coll,
Gilberto Betancor,
Adrian W. Signell,
Harry D. Wilson,
Thomas Davis,
Sahar Eldirdiri,
Anita Kenyon,
M. Estee Torok,
Hannah Lowe,
Samuel Moses,
Luke Bedford,
Jonathan Moore,
Susanne Stonehouse,
Ali R. Awan,
Chloe L. Fisher,
John BoYes,
Laura Atkinson,
Judith Breuer,
Julianne R. Brown,
Kathryn A. Harris,
Jack C. D. Lee,
Divya Shah,
Nathaniel Storey,
Flavia Flaviani,
Adela Alcolea-Medina,
Gabrielle Vernet,
Rebecca Williams,
Michael R. Chapman,
Wendy Chatterton,
Judith Heaney,
Lisa J. Levett,
Monika Pusok,
Li Xu-McCrae,
Matthew Bashton,
Darren L. Smith,
Gregory R. Young,
Frances Bolt,
Alison Cox,
Alison Holmes,
Pinglawathee Madona,
Siddharth Mookerjee,
James Price,
Paul A. Randell,
Olivia Boyd,
Fabricia F. Nascimento,
Lily Geidelberg,
Rob Johnson,
David Jorgensen,
Manon Ragonnet-Cronin,
Aileen Rowan,
Igor Siveroni,
Graham P. Taylor,
Erik M. Volz,
Katherine L. Smollett,
Nicholas J. Loman,
Claire McMurray,
Alan McNally,
Sam Nicholls,
Radoslaw Poplawski,
Joshua Quick,
Will Rowe,
Joanne Stockton,
Rocio T. Martinez Nunez,
Cassie Breen,
Angela Cowell,
Jenifer Mason,
Elaine O’Toole,
Trevor I. Robinson,
Joanne Watts,
Graciela Sluga,
Shazaad S. Y. Ahmad,
Ryan P. George,
Nicholas W. Machin,
Fenella Halstead,
Wendy Hogsden,
Venkat Sivaprakasam,
Holli Carden,
Antony D. Hale,
Katherine L. Harper,
Louissa R. Macfarlane-Smith,
Shirelle Burton-Fanning,
Jennifer Collins,
Gary Eltringham,
Brendan AI. Payne,
Yusri Taha,
Sheila Waugh,
Sarah O’Brien,
Steven Rushton,
Rachel Blacow,
Amanda Bradley,
Alasdair Maclean,
Guy Mollett,
Rebecca Dewar,
Martin P. McHugh,
Kate E. Templeton,
Elizabeth Wastenge,
Lindsay Coupland,
Samir Dervisevic,
Emma J. Meader,
Rachael Stanley,
Louise Smith,
Edward Barton,
Clive Graham,
Debra Padgett,
Garren Scott,
Jane Greenaway,
Emma Swindells,
Clare M. McCann,
Andrew Nelson,
Wen C. Yew,
Monique Andersson,
Derrick Crook,
David Eyre,
Anita Justice,
Timothy Peto,
Nichola Duckworth,
Tim J. Sloan,
Sarah Walsh,
Kelly Bicknell,
Anoop J. Chauhan,
Scott Elliott,
Sharon Glaysher,
Robert Impey,
Allyson Lloyd,
Sarah Wyllie,
Nick Levene,
Lynn Monaghan,
Declan T. Bradley,
Tim Wyatt,
Martin D. Curran,
Surendra Parmar,
Matthew T. G. Holden,
Sharif Shaaban,
Alexander Adams,
Hibo Asad,
Alec Birchley,
Matthew Bull,
Jason Coombes,
Sally Corden,
Simon Cottrell,
Noel Craine,
Michelle Cronin,
Alisha Davies,
Elen De Lacy,
Fatima Downing,
Sue Edwards,
Johnathan M. Evans,
Laia Fina,
Amy Gaskin,
Bree Gatica-Wilcox,
Laura Gifford,
Lauren Gilbert,
Lee Graham,
David Heyburn,
Ember Hilvers,
Robin Howe,
Hannah Jones,
Rachel Jones,
Sophie Jones,
Sara Kumziene-SummerhaYes,
Caoimhe McKerr,
Catherine Moore,
Mari Morgan,
Nicole Pacchiarini,
Malorie Perry,
Amy Plimmer,
Sara Rey,
Giri Shankar,
Sarah Taylor,
Joanne Watkins,
Chris Williams,
Anna Casey,
Liz Ratcliffe,
Erwan Acheson,
Zoltan Molnar,
David A. Simpson,
Thomas Thompson,
Cressida Auckland,
Sian Ellard,
Christopher R. Jones,
Bridget A. Knight,
Jane A. H. Masoli,
Tanzina Haque,
Jennifer Hart,
Dianne Irish-Tavares,
Tabitha W. Mahungu,
Eric Witele,
Ashok Dadrah,
Melisa L. Fenton,
Tranprit Saluja,
Amanda Symmonds,
Yann Bourgeois,
Garry P. Scarlett,
Kate Cook,
Hannah Dent,
Christopher Fearn,
Salman Goudarzi,
Katie F. Loveson,
Hannah Paul,
Cariad Evans,
Kate Johnson,
David G. Partridge,
Mohammad Raza,
Paul Baker,
Stephen Bonner,
Sarah Essex,
Steven Liggett,
Ronan A. Lyons,
Adhyana I. K. Mahanama,
Kordo Saeed,
Buddhini Samaraweera,
Siona Silveira,
Eleri Wilson-Davies,
P. Emanuela,
Nadua Bayzid,
Marius Cotic,
Leah Ensell,
John A. Hartley,
Riaz Jannoo,
Angeliki Karamani,
Mark Kristiansen,
Helen L. Lowe,
Sunando Roy,
Adam P. Westhorpe,
Rachel J. Williams,
Charlotte A. Williams,
Sarah Jeremiah,
Jacqui A. Prieto,
Lisa Berry,
Dimitris Grammatopoulos,
Katie Jones,
Sarojini Pandey,
Andrew Beggs,
Alex Richter,
Fiona Ashcroft,
Angus Best,
Liam Crawford,
Nicola Cumley,
Megan Mayhew,
Oliver Megram,
Jeremy Mirza,
Emma Moles-Garcia,
Benita Percival,
Giselda Bucca,
Andrew R. Hesketh,
Colin P. Smith,
Rose K. Davidson,
Carlos E. Balcazar,
Michael D. Gallagher,
Áine O’Toole,
Andrew Rambaut,
Stefan Rooke,
Thomas D. Stanton,
Thomas Williams,
Kathleen A. Williamson,
Claire M. Bewshea,
Audrey Farbos,
James W. Harrison,
Aaron R. Jeffries,
Robin Manley,
Stephen L. Michell,
Michelle L. Michelsen,
Christine M. Sambles,
David J. Studholme,
Ben Temperton,
Joanna Warwick-Dugdale,
Alistair C. Darby,
Richard Eccles,
Matthew Gemmell,
Richard Gregory,
Sam T. Haldenby,
Julian A. Hiscox,
Margaret Hughes,
Miren Iturriza-Gomara,
Kathryn A. Jackson,
Anita O. Lucaci,
Charlotte Nelson,
Steve Paterson,
Lucille Rainbow,
Lance Turtle,
Edith E. Vamos,
Hermione J. Webster,
Mark Whitehead,
Claudia Wierzbicki,
Adrienn Angyal,
Rebecca Brown,
Thushan I. de Silva,
Timothy M. Freeman,
Marta Gallis,
Luke R. Green,
Danielle C. Groves,
Alexander J. Keeley,
Benjamin B. Lindsey,
Stavroula F. Louka,
Matthew D. Parker,
Paul J. Parsons,
Nikki Smith,
Rachel M. Tucker,
Dennis Wang,
Max Whiteley,
Matthew Wyles,
Peijun Zhang,
Mohammad T. Alam,
Laura Baxter,
Hannah E. Bridgewater,
Paul E. Brown,
Jeffrey K. J. Cheng,
Chrystala Constantinidou,
Lucy R. Frost,
Sascha Ott,
Richard Stark,
Grace Taylor-Joyce,
Meera Unnikrishnan,
Alberto C. Cerda,
Tammy V. Merrill,
Rebekah E. Wilson,
Jonathan Ball,
Joseph G. Chappell,
Patrick C. McClure,
Theocharis Tsoleridis,
David Buck,
Mariateresa de Cesare,
Angie Green,
George MacIntyre-Cockett,
John A. Todd,
Amy Trebes,
Rory N. Gunson,
Claire Cormie,
Joana Dias,
Sally Forrest,
Harmeet K. Gill,
Ellen E. Higginson,
Leanne M. Kermack,
Mailis Maes,
Chris Ruis,
Sushmita Sridhar,
Jamie Young,
Rob Howes,
Duncan McFarlane,
Gordon Dougan,
Oliver G. Pybus ,
Daniela De Angelis,
Patrick H. Maxwell,
Sharon J. Peacock ,
Michael P. Weekes ,
Chris Illingworth,
Ewan M. Harrison ,
Nicholas J. Matheson ,
Ian G. Goodfellow ,
(The Cambridge Covid-19 testing Centre),
(University of Cambridge Asymptomatic COVID-19 Screening Programme Consortium),
(The COVID-19 Genomics UK (COG-UK) Consortium),
Ronan Lyons
,
Ben Warne ,
Aminu S. Jahun ,
William L. Hamilton ,
Thomas Fieldman,
Louis du Plessis ,
Verity Hill ,
Beth Blane ,
Emmeline Watkins,
Elizabeth Wright ,
Grant Hall ,
Catherine Ludden,
Richard Myers,
Myra Hosmillo,
Yasmin Chaudhry ,
Malte L. Pinckert ,
Iliana Georgana,
Rhys Izuagbe ,
Danielle Leek,
Olisaeloka Nsonwu ,
Gareth J. Hughes ,
Simon Packer ,
Andrew J. Page ,
Marina Metaxaki ,
Stewart Fuller,
Gillian Weale ,
Jon Holgate,
Christopher A. Brown ,
Alexandra Orton,
Julie Douthwaite,
Steve Rees,
Christopher Brown,
Roger Clark,
Daniel R. Jones,
Fred Kuenzi,
Jennifer Rankin,
Ian Waddell,
Patrick Maxwell,
Nicholas Matheson,
Chris Abell,
Vickie Braithwaite,
Craig Brierley,
Jon Crowcroft,
Aastha Dahal,
Kathryn Faulkner,
Michael Glover,
Ian Goodfellow,
Jane Greatorex,
Laura James,
Paul Lehner,
Ian Leslie,
Kathleen Liddell,
Ben Margolis,
Sally Morgan,
Linda Sheridan,
Sally Valletta,
Anna Vignoles,
Martin Vinnell,
Mark Wills,
Sarah Hilborne,
Sarah Berry,
Mahin Bagheri Kahkeshi,
Dawn Hancock,
Jennifer Winster,
Jessica Enright,
Richard Samworth,
Vijay Samtani,
Gabriela Ahmadi-Assalemi,
Tom Feather,
Robin Goodall,
Steve Hoensch,
Dean Johnson,
Martin Hunt,
Nick Mathieson,
Katya Nikitina,
Zara Sheldrake,
Martin Keen,
Aris Sato,
David Connor,
Jonathan Tolhurst,
Jack Williman,
Victoria Hollamby,
Sinead Jordan,
Tania Fatseas,
Peter Taylor,
Christine Georgiou,
Michelle Caspersz,
Claire McNulty,
Richard Davies,
Rebecca Clarke,
Darius Danaei,
Rory Dyer,
Rob Glew,
Oliver Lambson,
Karen Gibbs,
Barbara Mozdzen,
Gabor Raub,
Asako Radecki,
Phil White,
Robert Hughes,
Lucie Gransden,
Matt Ceaser,
Robert Sing,
Karl Wilson,
Ajith Parlikad,
Maharshi Dhada,
Tom Ridgman,
Diane Mungovan,
Steve Matthews,
Paul Searle,
John Mills,
Andy Neely,
Robert Henderson,
Edna Murphy,
Matthew Russell,
Anthony Freeling,
Steve Poppitt,
Jo Tynan,
James Knapton,
Filippo Marchetti,
Daniela De Angelis,
Theresa Feltwell,
Nazreen F. Hadjirin,
William L. Hamilton,
Aminu Jahun,
Malte Pinckert,
Ashley Shaw,
Afzal Chaudhry,
Nicholas M. Brown,
Lenette Mactavous,
Sophie Hannan,
Aleksandra Hosaja,
Clare Leong,
Jo Wright,
Natalie Quinnell,
Chris Workman,
Mark Ferris,
Giles Wright,
Elizabeth Wright ,
Dinesh Aggarwal ,
Ellena Brooks,
Alessandro M. Carabelli,
Carol M. Churcher,
Katerina Galai,
Sophia T. Girgis,
Ravi K. Gupta,
Catherine Ludden,
Georgina M. McManus,
Sophie Palmer,
Sharon J. Peacock ,
Kim S. Smith,
Elias Allara,
David Bibby,
Chloe Bishop,
Andrew Bosworth,
Daniel Bradshaw,
Vicki Chalker,
Meera Chand,
Gavin Dabrera,
Nicholas Ellaby,
Eileen Gallagher,
Natalie Groves,
Ian Harrison,
Hassan Hartman,
Richard Hopes,
Jonathan Hubb,
Stephanie Hutchings,
Angie Lackenby,
Juan Ledesma,
David Lee,
Nikos Manesis,
Carmen Manso,
Tamyo Mbisa,
Shahjahan Miah,
Peter Muir,
Husam Osman,
Vineet Patel,
Clare Pearson,
Steven Platt,
Hannah M. Pymont,
Mary Ramsay,
Esther Robinson,
Ulf Schaefer,
Alicia Thornton,
Katherine A. Twohig,
Ian B. Vipond,
David Williams,
William L. Hamilton ,
Louise Aigrain,
Alex Alderton,
Roberto Amato,
Cristina V. Ariani,
Jeff Barrett,
Andrew R. Bassett,
Mathew A. Beale,
Charlotte Beaver,
Katherine L. Bellis,
Emma Betteridge,
James Bonfield,
Iraad F. Bronner,
Michael H. S. Chapman,
John Danesh,
Robert Davies,
Matthew J. Dorman,
Eleanor Drury,
Jillian Durham,
Ben W. Farr,
Luke Foulser,
Sonia Goncalves,
Scott Goodwin,
Marina Gourtovaia,
David K. Jackson,
Keith James,
Dorota Jamrozy,
Ian Johnston,
Leanne Kane,
Sally Kay,
Jon-Paul Keatley,
Dominic Kwiatkowski,
Cordelia F. Langford,
Mara Lawniczak,
Stefanie V. Lensing,
Steven Leonard,
Laura Letchford,
Kevin Lewis,
Jennifier Liddle,
Rich Livett,
Stephanie Lo,
Alex Makunin,
Inigo Martincorena,
Shane McCarthy,
Samantha McGuigan,
Robin J. Moll,
Rachel Nelson,
Karen Oliver,
Steve Palmer,
Naomi R. Park,
Minal Patel,
Liam Prestwood,
Christoph Puethe,
Michael A. Quail,
Diana Rajan,
Shavanthi Rajatileka,
Nicholas M. Redshaw,
Carol Scott,
Lesley Shirley,
John Sillitoe,
Scott A. J. Thurston,
Gerry Tonkin-Hill,
Jaime M. Tovar-Corona,
Danni Weldon,
Andrew Whitwham,
Myra Hosmillo,
Stephen W. Attwood,
Louis du Plessis ,
Marina Escalera Zamudio,
Sarah Francois,
Bernardo Gutierrez,
Moritz U. G. Kraemer,
Jayna Raghwani,
Tetyana I. Vasylyeva,
Alex E. Zarebski,
Nabil-Fareed Alikhan,
Alp Aydin,
David J. Baker,
Leonardo de Oliveira Martins,
Gemma L. Kay,
Thanh Le-Viet,
Alison E. Mather,
Lizzie Meadows,
Justin O’Grady,
Steven Rudder,
Alexander J. Trotter,
Chris J. Illingworth,
Chris Jackson,
Elihu Aranday-Cortes,
Patawee Asamaphan,
Alice Broos,
Stephen N. Carmichael,
Ana da Silva Filipe,
Joseph Hughes,
Natasha G. Jesudason,
Natasha Johnson,
Kathy K. Li,
Daniel Mair,
Jenna Nichols,
Seema Nickbakhsh,
Marc O. Niebel,
Kyriaki Nomikou,
Richard J. Orton,
David L. Robertson,
Rajiv N. Shah,
James G. Shepherd,
Joshua B. Singer,
Igor Starinskij,
Emma C. Thomson,
Lily Tong,
Sreenu Vattipally,
Amy Ash,
Cherian Koshy,
Nick Cortes,
Stephen Kidd,
Jessica Lynch,
Nathan Moore,
Matilde Mori,
Emma Wise,
Tanya Curran,
Derek J. Fairley,
James P. McKenna,
Helen Adams,
David Bonsall,
Christophe Fraser,
Tanya Golubchik,
Benjamin J. Cogger,
Mohammed O. Hassan-Ibrahim,
Cassandra S. Malone,
Nicola Reynolds,
Michelle Wantoch,
Safiah Afifi,
Robert Beer,
Michaela John,
Joshua Maksimovic,
Kathryn McCluggage,
Sian Morgan,
Karla Spellman,
Catherine Bresner,
Thomas R. Connor,
William Fuller,
Martyn Guest,
Huw Gulliver,
Christine Kitchen,
Angela Marchbank,
Ian Merrick,
Robert Munn,
Anna Price,
Joel Southgate,
Trudy Workman,
Amita Patel,
Luke B. Snell,
Rahul Batra,
Themoula Charalampous,
Jonathan Edgeworth,
Gaia Nebbia,
Angela H. Beckett,
Samuel C. Robson,
David M. Aanensen,
Khalil Abudahab,
Mirko Menegazzo,
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Jamie Young,
Rob Howes,
Duncan McFarlane,
Gordon Dougan,
Oliver G. Pybus ,
Daniela De Angelis,
Patrick H. Maxwell,
Sharon J. Peacock ,
Michael P. Weekes ,
Chris Illingworth,
Ewan M. Harrison ,
Nicholas J. Matheson ,
Ian G. Goodfellow ,
(The Cambridge Covid-19 testing Centre),
(University of Cambridge Asymptomatic COVID-19 Screening Programme Consortium),
(The COVID-19 Genomics UK (COG-UK) Consortium),
Ronan Lyons
Nature Communications, Volume: 13, Issue: 1
Swansea University Author:
Ronan Lyons
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DOI (Published version): 10.1038/s41467-021-27942-w
Abstract
Understanding SARS-CoV-2 transmission in higher education settings is important to limit spread between students, and into at-risk populations. In this study, we sequenced 482 SARS-CoV-2 isolates from the University of Cambridge from 5 October to 6 December 2020. We perform a detailed phylogenetic c...
| Published in: | Nature Communications |
|---|---|
| ISSN: | 2041-1723 |
| Published: |
Springer Science and Business Media LLC
2022
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| Online Access: |
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| URI: | https://cronfa.swan.ac.uk/Record/cronfa66417 |
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| Abstract: |
Understanding SARS-CoV-2 transmission in higher education settings is important to limit spread between students, and into at-risk populations. In this study, we sequenced 482 SARS-CoV-2 isolates from the University of Cambridge from 5 October to 6 December 2020. We perform a detailed phylogenetic comparison with 972 isolates from the surrounding community, complemented with epidemiological and contact tracing data, to determine transmission dynamics. We observe limited viral introductions into the university; the majority of student cases were linked to a single genetic cluster, likely following social gatherings at a venue outside the university. We identify considerable onward transmission associated with student accommodation and courses; this was effectively contained using local infection control measures and following a national lockdown. Transmission clusters were largely segregated within the university or the community. Our study highlights key determinants of SARS-CoV-2 transmission and effective interventions in a higher education setting that will inform public health policy during pandemics. |
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| College: |
Faculty of Medicine, Health and Life Sciences |
| Funders: |
Authors A.S.J., W.H. and T.F., and authors L.d.P. and V.H. contributed equally. We thank members of the COVID-19 Genomics Consortium UK and NHS Test and Trace contact tracers for their contributions to generating data used in this study. We thank the Sanger Covid Team for assisting with Samples and Logistics. We are grateful to all students and staff at the University of Cambridge who have contributed to the COVID-19 response during Michaelmas Term. We are grateful to all staff members of the Cambridge COVID-19 Testing Centre for generating qPCR data. D.A. is a Wellcome Clinical PhD Fellow and gratefully supported by the Wellcome Trust (Grant number: 222903/Z/21/Z). B.W. receives funding from the University of Cambridge and the National Institute for Health Research (NIHR) Cambridge Biomedical Research Centre (BRC) at the Cambridge University Hospitals NHS Foundation Trust. I.G. is a Wellcome Senior Fellow and is supported by the Wellcome Trust (Grant number: 207498/Z/17/Z and 206298/B/17/Z). E.M.H. is supported by a UK Research and Innovation (UKRI) Fellowship: MR/S00291X/1. C.J.R.I. acknowledges Medical Research Council (MRC) funding (ref: MC_UU_00002/11). NJM is supported by the MRC (CSF MR/P008801/1) and NHSBT (WPA15-02). A.J.P. gratefully acknowledge the support of the Biotechnology and Biological Sciences Research Council (BBSRC); their research was funded by the BBSRC Institute Strategic Programme Microbes in the Food Chain BB/R012504/1 and its constituent project BBS/E/F/000PR10352, also Quadram Institute Bioscience BBSRC funded Core Capability Grant (project number BB/CCG1860/1). L.d.P. and O.G.P. were supported by the Oxford Martin School. This research was supported by the NIHR Cambridge BRC. The views expressed are those of the authors and not necessarily those of the NHS, the NIHR, or the Department of Health and Social Care. The COVID-19 Genomics UK Consortium is supported by funding from the MRC part of UK Research & Innovation (UKRI), the National Institute of Health Research and Genome Research Limited, operating as the Wellcome Sanger Institute. The Cambridge Covid-19 testing Centre is funded by the Department of Health and Social Care, UK Government. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript. For the purpose of Open Access, the author has applied a CC-BY public copyright licence to any Author Accepted Manuscript version arising from this submission. |
| Issue: |
1 |