Journal article 48 views 13 downloads
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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Sascha Ott,
Richard Stark,
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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
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 |
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| ISSN: | 2041-1723 |
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Springer Science and Business Media LLC
2022
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| URI: | https://cronfa.swan.ac.uk/Record/cronfa66417 |
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<?xml version="1.0" encoding="utf-8"?><rfc1807 xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns:xsd="http://www.w3.org/2001/XMLSchema"><bib-version>v2</bib-version><id>66417</id><entry>2024-05-14</entry><title>Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission</title><swanseaauthors><author><sid>83efcf2a9dfcf8b55586999d3d152ac6</sid><ORCID>0000-0001-5225-000X</ORCID><firstname>Ronan</firstname><surname>Lyons</surname><name>Ronan Lyons</name><active>true</active><ethesisStudent>false</ethesisStudent></author></swanseaauthors><date>2024-05-14</date><deptcode>MEDS</deptcode><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.</abstract><type>Journal Article</type><journal>Nature Communications</journal><volume>13</volume><journalNumber>1</journalNumber><paginationStart/><paginationEnd/><publisher>Springer Science and Business Media LLC</publisher><placeOfPublication/><isbnPrint/><isbnElectronic/><issnPrint/><issnElectronic>2041-1723</issnElectronic><keywords/><publishedDay>8</publishedDay><publishedMonth>2</publishedMonth><publishedYear>2022</publishedYear><publishedDate>2022-02-08</publishedDate><doi>10.1038/s41467-021-27942-w</doi><url/><notes/><college>COLLEGE NANME</college><department>Medical School</department><CollegeCode>COLLEGE CODE</CollegeCode><DepartmentCode>MEDS</DepartmentCode><institution>Swansea University</institution><apcterm/><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.</funders><projectreference/><lastEdited>2024-06-24T12:18:52.6028317</lastEdited><Created>2024-05-14T15:10:26.3997733</Created><path><level id="1">Faculty of Medicine, Health and Life Sciences</level><level id="2">Swansea University Medical School - Health Data Science</level></path><authors><author><firstname>Dinesh</firstname><surname>Aggarwal</surname><orcid>0000-0002-5938-8172</orcid><order>1</order></author><author><firstname>Ben</firstname><surname>Warne</surname><orcid>0000-0003-1326-0373</orcid><order>2</order></author><author><firstname>Aminu S.</firstname><surname>Jahun</surname><orcid>0000-0002-4585-1701</orcid><order>3</order></author><author><firstname>William 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J.</firstname><surname>Page</surname><orcid>0000-0001-6919-6062</orcid><order>23</order></author><author><firstname>Marina</firstname><surname>Metaxaki</surname><orcid>0000-0002-4552-1622</orcid><order>24</order></author><author><firstname>Stewart</firstname><surname>Fuller</surname><order>25</order></author><author><firstname>Gillian</firstname><surname>Weale</surname><orcid>0000-0003-4728-5915</orcid><order>26</order></author><author><firstname>Jon</firstname><surname>Holgate</surname><order>27</order></author><author><firstname>Christopher A.</firstname><surname>Brown</surname><orcid>0000-0001-7773-0878</orcid><order>28</order></author><author><firstname>Alexandra</firstname><surname>Orton</surname><order>29</order></author><author><firstname>Julie</firstname><surname>Douthwaite</surname><order>30</order></author><author><firstname>Steve</firstname><surname>Rees</surname><order>31</order></author><author><firstname>Christopher</firstname><surname>Brown</surname><order>32</order></author><author><firstname>Roger</firstname><surname>Clark</surname><order>33</order></author><author><firstname>Daniel R.</firstname><surname>Jones</surname><order>34</order></author><author><firstname>Fred</firstname><surname>Kuenzi</surname><order>35</order></author><author><firstname>Jennifer</firstname><surname>Rankin</surname><order>36</order></author><author><firstname>Ian</firstname><surname>Waddell</surname><order>37</order></author><author><firstname>Patrick</firstname><surname>Maxwell</surname><order>38</order></author><author><firstname>Nicholas</firstname><surname>Matheson</surname><order>39</order></author><author><firstname>Chris</firstname><surname>Abell</surname><order>40</order></author><author><firstname>Vickie</firstname><surname>Braithwaite</surname><order>41</order></author><author><firstname>Craig</firstname><surname>Brierley</surname><order>42</order></author><author><firstname>Jon</firstname><surname>Crowcroft</surname><order>43</order></author><author><firstname>Aastha</firstname><surname>Dahal</surname><order>44</order></author><author><firstname>Kathryn</firstname><surname>Faulkner</surname><order>45</order></author><author><firstname>Michael</firstname><surname>Glover</surname><order>46</order></author><author><firstname>Ian</firstname><surname>Goodfellow</surname><order>47</order></author><author><firstname>Jane</firstname><surname>Greatorex</surname><order>48</order></author><author><firstname>Laura</firstname><surname>James</surname><order>49</order></author><author><firstname>Paul</firstname><surname>Lehner</surname><order>50</order></author><author><firstname>Ian</firstname><surname>Leslie</surname><order>51</order></author><author><firstname>Kathleen</firstname><surname>Liddell</surname><order>52</order></author><author><firstname>Ben</firstname><surname>Margolis</surname><order>53</order></author><author><firstname>Sally</firstname><surname>Morgan</surname><order>54</order></author><author><firstname>Linda</firstname><surname>Sheridan</surname><order>55</order></author><author><firstname>Sally</firstname><surname>Valletta</surname><order>56</order></author><author><firstname>Anna</firstname><surname>Vignoles</surname><order>57</order></author><author><firstname>Martin</firstname><surname>Vinnell</surname><order>58</order></author><author><firstname>Mark</firstname><surname>Wills</surname><order>59</order></author><author><firstname>Sarah</firstname><surname>Hilborne</surname><order>60</order></author><author><firstname>Sarah</firstname><surname>Berry</surname><order>61</order></author><author><firstname>Mahin Bagheri</firstname><surname>Kahkeshi</surname><order>62</order></author><author><firstname>Dawn</firstname><surname>Hancock</surname><order>63</order></author><author><firstname>Jennifer</firstname><surname>Winster</surname><order>64</order></author><author><firstname>Jessica</firstname><surname>Enright</surname><order>65</order></author><author><firstname>Richard</firstname><surname>Samworth</surname><order>66</order></author><author><firstname>Vijay</firstname><surname>Samtani</surname><order>67</order></author><author><firstname>Gabriela</firstname><surname>Ahmadi-Assalemi</surname><order>68</order></author><author><firstname>Tom</firstname><surname>Feather</surname><order>69</order></author><author><firstname>Robin</firstname><surname>Goodall</surname><order>70</order></author><author><firstname>Steve</firstname><surname>Hoensch</surname><order>71</order></author><author><firstname>Dean</firstname><surname>Johnson</surname><order>72</order></author><author><firstname>Martin</firstname><surname>Hunt</surname><order>73</order></author><author><firstname>Nick</firstname><surname>Mathieson</surname><order>74</order></author><author><firstname>Katya</firstname><surname>Nikitina</surname><order>75</order></author><author><firstname>Zara</firstname><surname>Sheldrake</surname><order>76</order></author><author><firstname>Martin</firstname><surname>Keen</surname><order>77</order></author><author><firstname>Aris</firstname><surname>Sato</surname><order>78</order></author><author><firstname>David</firstname><surname>Connor</surname><order>79</order></author><author><firstname>Jonathan</firstname><surname>Tolhurst</surname><order>80</order></author><author><firstname>Jack</firstname><surname>Williman</surname><order>81</order></author><author><firstname>Victoria</firstname><surname>Hollamby</surname><order>82</order></author><author><firstname>Sinead</firstname><surname>Jordan</surname><order>83</order></author><author><firstname>Tania</firstname><surname>Fatseas</surname><order>84</order></author><author><firstname>Peter</firstname><surname>Taylor</surname><order>85</order></author><author><firstname>Christine</firstname><surname>Georgiou</surname><order>86</order></author><author><firstname>Michelle</firstname><surname>Caspersz</surname><order>87</order></author><author><firstname>Claire</firstname><surname>McNulty</surname><order>88</order></author><author><firstname>Richard</firstname><surname>Davies</surname><order>89</order></author><author><firstname>Rebecca</firstname><surname>Clarke</surname><order>90</order></author><author><firstname>Darius</firstname><surname>Danaei</surname><order>91</order></author><author><firstname>Rory</firstname><surname>Dyer</surname><order>92</order></author><author><firstname>Rob</firstname><surname>Glew</surname><order>93</order></author><author><firstname>Oliver</firstname><surname>Lambson</surname><order>94</order></author><author><firstname>Karen</firstname><surname>Gibbs</surname><order>95</order></author><author><firstname>Barbara</firstname><surname>Mozdzen</surname><order>96</order></author><author><firstname>Gabor</firstname><surname>Raub</surname><order>97</order></author><author><firstname>Asako</firstname><surname>Radecki</surname><order>98</order></author><author><firstname>Phil</firstname><surname>White</surname><order>99</order></author><author><firstname>Robert</firstname><surname>Hughes</surname><order>100</order></author><author><firstname>Lucie</firstname><surname>Gransden</surname><order>101</order></author><author><firstname>Matt</firstname><surname>Ceaser</surname><order>102</order></author><author><firstname>Robert</firstname><surname>Sing</surname><order>103</order></author><author><firstname>Karl</firstname><surname>Wilson</surname><order>104</order></author><author><firstname>Ajith</firstname><surname>Parlikad</surname><order>105</order></author><author><firstname>Maharshi</firstname><surname>Dhada</surname><order>106</order></author><author><firstname>Tom</firstname><surname>Ridgman</surname><order>107</order></author><author><firstname>Diane</firstname><surname>Mungovan</surname><order>108</order></author><author><firstname>Steve</firstname><surname>Matthews</surname><order>109</order></author><author><firstname>Paul</firstname><surname>Searle</surname><order>110</order></author><author><firstname>John</firstname><surname>Mills</surname><order>111</order></author><author><firstname>Andy</firstname><surname>Neely</surname><order>112</order></author><author><firstname>Robert</firstname><surname>Henderson</surname><order>113</order></author><author><firstname>Edna</firstname><surname>Murphy</surname><order>114</order></author><author><firstname>Matthew</firstname><surname>Russell</surname><order>115</order></author><author><firstname>Anthony</firstname><surname>Freeling</surname><order>116</order></author><author><firstname>Steve</firstname><surname>Poppitt</surname><order>117</order></author><author><firstname>Jo</firstname><surname>Tynan</surname><order>118</order></author><author><firstname>James</firstname><surname>Knapton</surname><order>119</order></author><author><firstname>Filippo</firstname><surname>Marchetti</surname><order>120</order></author><author><firstname>Daniela De</firstname><surname>Angelis</surname><order>121</order></author><author><firstname>Theresa</firstname><surname>Feltwell</surname><order>122</order></author><author><firstname>Nazreen F.</firstname><surname>Hadjirin</surname><order>123</order></author><author><firstname>William L.</firstname><surname>Hamilton</surname><order>124</order></author><author><firstname>Aminu</firstname><surname>Jahun</surname><order>125</order></author><author><firstname>Malte</firstname><surname>Pinckert</surname><order>126</order></author><author><firstname>Ashley</firstname><surname>Shaw</surname><order>127</order></author><author><firstname>Afzal</firstname><surname>Chaudhry</surname><order>128</order></author><author><firstname>Nicholas M.</firstname><surname>Brown</surname><order>129</order></author><author><firstname>Lenette</firstname><surname>Mactavous</surname><order>130</order></author><author><firstname>Sophie</firstname><surname>Hannan</surname><order>131</order></author><author><firstname>Aleksandra</firstname><surname>Hosaja</surname><order>132</order></author><author><firstname>Clare</firstname><surname>Leong</surname><order>133</order></author><author><firstname>Jo</firstname><surname>Wright</surname><order>134</order></author><author><firstname>Natalie</firstname><surname>Quinnell</surname><order>135</order></author><author><firstname>Chris</firstname><surname>Workman</surname><order>136</order></author><author><firstname>Mark</firstname><surname>Ferris</surname><order>137</order></author><author><firstname>Giles</firstname><surname>Wright</surname><order>138</order></author><author><firstname>Elizabeth</firstname><surname>Wright</surname><orcid>0000-0002-8378-9072</orcid><order>139</order></author><author><firstname>Dinesh</firstname><surname>Aggarwal</surname><orcid>0000-0002-5938-8172</orcid><order>140</order></author><author><firstname>Ellena</firstname><surname>Brooks</surname><order>141</order></author><author><firstname>Alessandro M.</firstname><surname>Carabelli</surname><order>142</order></author><author><firstname>Carol M.</firstname><surname>Churcher</surname><order>143</order></author><author><firstname>Katerina</firstname><surname>Galai</surname><order>144</order></author><author><firstname>Sophia T.</firstname><surname>Girgis</surname><order>145</order></author><author><firstname>Ravi K.</firstname><surname>Gupta</surname><order>146</order></author><author><firstname>Catherine</firstname><surname>Ludden</surname><order>147</order></author><author><firstname>Georgina M.</firstname><surname>McManus</surname><order>148</order></author><author><firstname>Sophie</firstname><surname>Palmer</surname><order>149</order></author><author><firstname>Sharon J.</firstname><surname>Peacock</surname><orcid>0000-0002-1718-2782</orcid><order>150</order></author><author><firstname>Kim S.</firstname><surname>Smith</surname><order>151</order></author><author><firstname>Elias</firstname><surname>Allara</surname><order>152</order></author><author><firstname>David</firstname><surname>Bibby</surname><order>153</order></author><author><firstname>Chloe</firstname><surname>Bishop</surname><order>154</order></author><author><firstname>Andrew</firstname><surname>Bosworth</surname><order>155</order></author><author><firstname>Daniel</firstname><surname>Bradshaw</surname><order>156</order></author><author><firstname>Vicki</firstname><surname>Chalker</surname><order>157</order></author><author><firstname>Meera</firstname><surname>Chand</surname><order>158</order></author><author><firstname>Gavin</firstname><surname>Dabrera</surname><order>159</order></author><author><firstname>Nicholas</firstname><surname>Ellaby</surname><order>160</order></author><author><firstname>Eileen</firstname><surname>Gallagher</surname><order>161</order></author><author><firstname>Natalie</firstname><surname>Groves</surname><order>162</order></author><author><firstname>Ian</firstname><surname>Harrison</surname><order>163</order></author><author><firstname>Hassan</firstname><surname>Hartman</surname><order>164</order></author><author><firstname>Richard</firstname><surname>Hopes</surname><order>165</order></author><author><firstname>Jonathan</firstname><surname>Hubb</surname><order>166</order></author><author><firstname>Stephanie</firstname><surname>Hutchings</surname><order>167</order></author><author><firstname>Angie</firstname><surname>Lackenby</surname><order>168</order></author><author><firstname>Juan</firstname><surname>Ledesma</surname><order>169</order></author><author><firstname>David</firstname><surname>Lee</surname><order>170</order></author><author><firstname>Nikos</firstname><surname>Manesis</surname><order>171</order></author><author><firstname>Carmen</firstname><surname>Manso</surname><order>172</order></author><author><firstname>Tamyo</firstname><surname>Mbisa</surname><order>173</order></author><author><firstname>Shahjahan</firstname><surname>Miah</surname><order>174</order></author><author><firstname>Peter</firstname><surname>Muir</surname><order>175</order></author><author><firstname>Husam</firstname><surname>Osman</surname><order>176</order></author><author><firstname>Vineet</firstname><surname>Patel</surname><order>177</order></author><author><firstname>Clare</firstname><surname>Pearson</surname><order>178</order></author><author><firstname>Steven</firstname><surname>Platt</surname><order>179</order></author><author><firstname>Hannah M.</firstname><surname>Pymont</surname><order>180</order></author><author><firstname>Mary</firstname><surname>Ramsay</surname><order>181</order></author><author><firstname>Esther</firstname><surname>Robinson</surname><order>182</order></author><author><firstname>Ulf</firstname><surname>Schaefer</surname><order>183</order></author><author><firstname>Alicia</firstname><surname>Thornton</surname><order>184</order></author><author><firstname>Katherine A.</firstname><surname>Twohig</surname><order>185</order></author><author><firstname>Ian B.</firstname><surname>Vipond</surname><order>186</order></author><author><firstname>David</firstname><surname>Williams</surname><order>187</order></author><author><firstname>William L.</firstname><surname>Hamilton</surname><orcid>0000-0002-3330-353x</orcid><order>188</order></author><author><firstname>Louise</firstname><surname>Aigrain</surname><order>189</order></author><author><firstname>Alex</firstname><surname>Alderton</surname><order>190</order></author><author><firstname>Roberto</firstname><surname>Amato</surname><order>191</order></author><author><firstname>Cristina V.</firstname><surname>Ariani</surname><order>192</order></author><author><firstname>Jeff</firstname><surname>Barrett</surname><order>193</order></author><author><firstname>Andrew R.</firstname><surname>Bassett</surname><order>194</order></author><author><firstname>Mathew A.</firstname><surname>Beale</surname><order>195</order></author><author><firstname>Charlotte</firstname><surname>Beaver</surname><order>196</order></author><author><firstname>Katherine L.</firstname><surname>Bellis</surname><order>197</order></author><author><firstname>Emma</firstname><surname>Betteridge</surname><order>198</order></author><author><firstname>James</firstname><surname>Bonfield</surname><order>199</order></author><author><firstname>Iraad F.</firstname><surname>Bronner</surname><order>200</order></author><author><firstname>Michael H. S.</firstname><surname>Chapman</surname><order>201</order></author><author><firstname>John</firstname><surname>Danesh</surname><order>202</order></author><author><firstname>Robert</firstname><surname>Davies</surname><order>203</order></author><author><firstname>Matthew J.</firstname><surname>Dorman</surname><order>204</order></author><author><firstname>Eleanor</firstname><surname>Drury</surname><order>205</order></author><author><firstname>Jillian</firstname><surname>Durham</surname><order>206</order></author><author><firstname>Ben W.</firstname><surname>Farr</surname><order>207</order></author><author><firstname>Luke</firstname><surname>Foulser</surname><order>208</order></author><author><firstname>Sonia</firstname><surname>Goncalves</surname><order>209</order></author><author><firstname>Scott</firstname><surname>Goodwin</surname><order>210</order></author><author><firstname>Marina</firstname><surname>Gourtovaia</surname><order>211</order></author><author><firstname>David K.</firstname><surname>Jackson</surname><order>212</order></author><author><firstname>Keith</firstname><surname>James</surname><order>213</order></author><author><firstname>Dorota</firstname><surname>Jamrozy</surname><order>214</order></author><author><firstname>Ian</firstname><surname>Johnston</surname><order>215</order></author><author><firstname>Leanne</firstname><surname>Kane</surname><order>216</order></author><author><firstname>Sally</firstname><surname>Kay</surname><order>217</order></author><author><firstname>Jon-Paul</firstname><surname>Keatley</surname><order>218</order></author><author><firstname>Dominic</firstname><surname>Kwiatkowski</surname><order>219</order></author><author><firstname>Cordelia F.</firstname><surname>Langford</surname><order>220</order></author><author><firstname>Mara</firstname><surname>Lawniczak</surname><order>221</order></author><author><firstname>Stefanie V.</firstname><surname>Lensing</surname><order>222</order></author><author><firstname>Steven</firstname><surname>Leonard</surname><order>223</order></author><author><firstname>Laura</firstname><surname>Letchford</surname><order>224</order></author><author><firstname>Kevin</firstname><surname>Lewis</surname><order>225</order></author><author><firstname>Jennifier</firstname><surname>Liddle</surname><order>226</order></author><author><firstname>Rich</firstname><surname>Livett</surname><order>227</order></author><author><firstname>Stephanie</firstname><surname>Lo</surname><order>228</order></author><author><firstname>Alex</firstname><surname>Makunin</surname><order>229</order></author><author><firstname>Inigo</firstname><surname>Martincorena</surname><order>230</order></author><author><firstname>Shane</firstname><surname>McCarthy</surname><order>231</order></author><author><firstname>Samantha</firstname><surname>McGuigan</surname><order>232</order></author><author><firstname>Robin J.</firstname><surname>Moll</surname><order>233</order></author><author><firstname>Rachel</firstname><surname>Nelson</surname><order>234</order></author><author><firstname>Karen</firstname><surname>Oliver</surname><order>235</order></author><author><firstname>Steve</firstname><surname>Palmer</surname><order>236</order></author><author><firstname>Naomi R.</firstname><surname>Park</surname><order>237</order></author><author><firstname>Minal</firstname><surname>Patel</surname><order>238</order></author><author><firstname>Liam</firstname><surname>Prestwood</surname><order>239</order></author><author><firstname>Christoph</firstname><surname>Puethe</surname><order>240</order></author><author><firstname>Michael A.</firstname><surname>Quail</surname><order>241</order></author><author><firstname>Diana</firstname><surname>Rajan</surname><order>242</order></author><author><firstname>Shavanthi</firstname><surname>Rajatileka</surname><order>243</order></author><author><firstname>Nicholas M.</firstname><surname>Redshaw</surname><order>244</order></author><author><firstname>Carol</firstname><surname>Scott</surname><order>245</order></author><author><firstname>Lesley</firstname><surname>Shirley</surname><order>246</order></author><author><firstname>John</firstname><surname>Sillitoe</surname><order>247</order></author><author><firstname>Scott A. J.</firstname><surname>Thurston</surname><order>248</order></author><author><firstname>Gerry</firstname><surname>Tonkin-Hill</surname><order>249</order></author><author><firstname>Jaime M.</firstname><surname>Tovar-Corona</surname><order>250</order></author><author><firstname>Danni</firstname><surname>Weldon</surname><order>251</order></author><author><firstname>Andrew</firstname><surname>Whitwham</surname><order>252</order></author><author><firstname>Myra</firstname><surname>Hosmillo</surname><order>253</order></author><author><firstname>Stephen W.</firstname><surname>Attwood</surname><order>254</order></author><author><firstname>Louis du</firstname><surname>Plessis</surname><orcid>0000-0003-0352-6289</orcid><order>255</order></author><author><firstname>Marina Escalera</firstname><surname>Zamudio</surname><order>256</order></author><author><firstname>Sarah</firstname><surname>Francois</surname><order>257</order></author><author><firstname>Bernardo</firstname><surname>Gutierrez</surname><order>258</order></author><author><firstname>Moritz U. G.</firstname><surname>Kraemer</surname><order>259</order></author><author><firstname>Jayna</firstname><surname>Raghwani</surname><order>260</order></author><author><firstname>Tetyana I.</firstname><surname>Vasylyeva</surname><order>261</order></author><author><firstname>Alex E.</firstname><surname>Zarebski</surname><order>262</order></author><author><firstname>Nabil-Fareed</firstname><surname>Alikhan</surname><order>263</order></author><author><firstname>Alp</firstname><surname>Aydin</surname><order>264</order></author><author><firstname>David J.</firstname><surname>Baker</surname><order>265</order></author><author><firstname>Leonardo de Oliveira</firstname><surname>Martins</surname><order>266</order></author><author><firstname>Gemma L.</firstname><surname>Kay</surname><order>267</order></author><author><firstname>Thanh</firstname><surname>Le-Viet</surname><order>268</order></author><author><firstname>Alison E.</firstname><surname>Mather</surname><order>269</order></author><author><firstname>Lizzie</firstname><surname>Meadows</surname><order>270</order></author><author><firstname>Justin</firstname><surname>O’Grady</surname><order>271</order></author><author><firstname>Steven</firstname><surname>Rudder</surname><order>272</order></author><author><firstname>Alexander J.</firstname><surname>Trotter</surname><order>273</order></author><author><firstname>Chris J.</firstname><surname>Illingworth</surname><order>274</order></author><author><firstname>Chris</firstname><surname>Jackson</surname><order>275</order></author><author><firstname>Elihu</firstname><surname>Aranday-Cortes</surname><order>276</order></author><author><firstname>Patawee</firstname><surname>Asamaphan</surname><order>277</order></author><author><firstname>Alice</firstname><surname>Broos</surname><order>278</order></author><author><firstname>Stephen N.</firstname><surname>Carmichael</surname><order>279</order></author><author><firstname>Ana da Silva</firstname><surname>Filipe</surname><order>280</order></author><author><firstname>Joseph</firstname><surname>Hughes</surname><order>281</order></author><author><firstname>Natasha G.</firstname><surname>Jesudason</surname><order>282</order></author><author><firstname>Natasha</firstname><surname>Johnson</surname><order>283</order></author><author><firstname>Kathy K.</firstname><surname>Li</surname><order>284</order></author><author><firstname>Daniel</firstname><surname>Mair</surname><order>285</order></author><author><firstname>Jenna</firstname><surname>Nichols</surname><order>286</order></author><author><firstname>Seema</firstname><surname>Nickbakhsh</surname><order>287</order></author><author><firstname>Marc 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B.</firstname><surname>Snell</surname><order>339</order></author><author><firstname>Rahul</firstname><surname>Batra</surname><order>340</order></author><author><firstname>Themoula</firstname><surname>Charalampous</surname><order>341</order></author><author><firstname>Jonathan</firstname><surname>Edgeworth</surname><order>342</order></author><author><firstname>Gaia</firstname><surname>Nebbia</surname><order>343</order></author><author><firstname>Angela H.</firstname><surname>Beckett</surname><order>344</order></author><author><firstname>Samuel C.</firstname><surname>Robson</surname><order>345</order></author><author><firstname>David M.</firstname><surname>Aanensen</surname><order>346</order></author><author><firstname>Khalil</firstname><surname>Abudahab</surname><order>347</order></author><author><firstname>Mirko</firstname><surname>Menegazzo</surname><order>348</order></author><author><firstname>Ben E. 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J.</firstname><surname>Chauhan</surname><order>499</order></author><author><firstname>Scott</firstname><surname>Elliott</surname><order>500</order></author><author><firstname>Sharon</firstname><surname>Glaysher</surname><order>501</order></author><author><firstname>Robert</firstname><surname>Impey</surname><order>502</order></author><author><firstname>Allyson</firstname><surname>Lloyd</surname><order>503</order></author><author><firstname>Sarah</firstname><surname>Wyllie</surname><order>504</order></author><author><firstname>Nick</firstname><surname>Levene</surname><order>505</order></author><author><firstname>Lynn</firstname><surname>Monaghan</surname><order>506</order></author><author><firstname>Declan T.</firstname><surname>Bradley</surname><order>507</order></author><author><firstname>Tim</firstname><surname>Wyatt</surname><order>508</order></author><author><firstname>Martin 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v2 66417 2024-05-14 Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission 83efcf2a9dfcf8b55586999d3d152ac6 0000-0001-5225-000X Ronan Lyons Ronan Lyons true false 2024-05-14 MEDS 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. Journal Article Nature Communications 13 1 Springer Science and Business Media LLC 2041-1723 8 2 2022 2022-02-08 10.1038/s41467-021-27942-w COLLEGE NANME Medical School COLLEGE CODE MEDS Swansea University 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. 2024-06-24T12:18:52.6028317 2024-05-14T15:10:26.3997733 Faculty of Medicine, Health and Life Sciences Swansea University Medical School - Health Data Science Dinesh Aggarwal 0000-0002-5938-8172 1 Ben Warne 0000-0003-1326-0373 2 Aminu S. Jahun 0000-0002-4585-1701 3 William L. Hamilton 0000-0002-3330-353x 4 Thomas Fieldman 5 Louis du Plessis 0000-0003-0352-6289 6 Verity Hill 0000-0002-3509-8146 7 Beth Blane 0000-0002-0996-9091 8 Emmeline Watkins 9 Elizabeth Wright 0000-0002-8378-9072 10 Grant Hall 0000-0003-3928-3979 11 Catherine Ludden 12 Richard Myers 13 Myra Hosmillo 14 Yasmin Chaudhry 0000-0002-2386-3269 15 Malte L. Pinckert 0000-0002-6072-5949 16 Iliana Georgana 17 Rhys Izuagbe 0000-0001-8080-2510 18 Danielle Leek 19 Olisaeloka Nsonwu 0000-0002-3024-700x 20 Gareth J. Hughes 0000-0002-3781-0117 21 Simon Packer 0000-0002-9157-3650 22 Andrew J. Page 0000-0001-6919-6062 23 Marina Metaxaki 0000-0002-4552-1622 24 Stewart Fuller 25 Gillian Weale 0000-0003-4728-5915 26 Jon Holgate 27 Christopher A. Brown 0000-0001-7773-0878 28 Alexandra Orton 29 Julie Douthwaite 30 Steve Rees 31 Christopher Brown 32 Roger Clark 33 Daniel R. Jones 34 Fred Kuenzi 35 Jennifer Rankin 36 Ian Waddell 37 Patrick Maxwell 38 Nicholas Matheson 39 Chris Abell 40 Vickie Braithwaite 41 Craig Brierley 42 Jon Crowcroft 43 Aastha Dahal 44 Kathryn Faulkner 45 Michael Glover 46 Ian Goodfellow 47 Jane Greatorex 48 Laura James 49 Paul Lehner 50 Ian Leslie 51 Kathleen Liddell 52 Ben Margolis 53 Sally Morgan 54 Linda Sheridan 55 Sally Valletta 56 Anna Vignoles 57 Martin Vinnell 58 Mark Wills 59 Sarah Hilborne 60 Sarah Berry 61 Mahin Bagheri Kahkeshi 62 Dawn Hancock 63 Jennifer Winster 64 Jessica Enright 65 Richard Samworth 66 Vijay Samtani 67 Gabriela Ahmadi-Assalemi 68 Tom Feather 69 Robin Goodall 70 Steve Hoensch 71 Dean Johnson 72 Martin Hunt 73 Nick Mathieson 74 Katya Nikitina 75 Zara Sheldrake 76 Martin Keen 77 Aris Sato 78 David Connor 79 Jonathan Tolhurst 80 Jack Williman 81 Victoria Hollamby 82 Sinead Jordan 83 Tania Fatseas 84 Peter Taylor 85 Christine Georgiou 86 Michelle Caspersz 87 Claire McNulty 88 Richard Davies 89 Rebecca Clarke 90 Darius Danaei 91 Rory Dyer 92 Rob Glew 93 Oliver Lambson 94 Karen Gibbs 95 Barbara Mozdzen 96 Gabor Raub 97 Asako Radecki 98 Phil White 99 Robert Hughes 100 Lucie Gransden 101 Matt Ceaser 102 Robert Sing 103 Karl Wilson 104 Ajith Parlikad 105 Maharshi Dhada 106 Tom Ridgman 107 Diane Mungovan 108 Steve Matthews 109 Paul Searle 110 John Mills 111 Andy Neely 112 Robert Henderson 113 Edna Murphy 114 Matthew Russell 115 Anthony Freeling 116 Steve Poppitt 117 Jo Tynan 118 James Knapton 119 Filippo Marchetti 120 Daniela De Angelis 121 Theresa Feltwell 122 Nazreen F. Hadjirin 123 William L. Hamilton 124 Aminu Jahun 125 Malte Pinckert 126 Ashley Shaw 127 Afzal Chaudhry 128 Nicholas M. Brown 129 Lenette Mactavous 130 Sophie Hannan 131 Aleksandra Hosaja 132 Clare Leong 133 Jo Wright 134 Natalie Quinnell 135 Chris Workman 136 Mark Ferris 137 Giles Wright 138 Elizabeth Wright 0000-0002-8378-9072 139 Dinesh Aggarwal 0000-0002-5938-8172 140 Ellena Brooks 141 Alessandro M. Carabelli 142 Carol M. Churcher 143 Katerina Galai 144 Sophia T. Girgis 145 Ravi K. Gupta 146 Catherine Ludden 147 Georgina M. McManus 148 Sophie Palmer 149 Sharon J. Peacock 0000-0002-1718-2782 150 Kim S. Smith 151 Elias Allara 152 David Bibby 153 Chloe Bishop 154 Andrew Bosworth 155 Daniel Bradshaw 156 Vicki Chalker 157 Meera Chand 158 Gavin Dabrera 159 Nicholas Ellaby 160 Eileen Gallagher 161 Natalie Groves 162 Ian Harrison 163 Hassan Hartman 164 Richard Hopes 165 Jonathan Hubb 166 Stephanie Hutchings 167 Angie Lackenby 168 Juan Ledesma 169 David Lee 170 Nikos Manesis 171 Carmen Manso 172 Tamyo Mbisa 173 Shahjahan Miah 174 Peter Muir 175 Husam Osman 176 Vineet Patel 177 Clare Pearson 178 Steven Platt 179 Hannah M. Pymont 180 Mary Ramsay 181 Esther Robinson 182 Ulf Schaefer 183 Alicia Thornton 184 Katherine A. Twohig 185 Ian B. Vipond 186 David Williams 187 William L. Hamilton 0000-0002-3330-353x 188 Louise Aigrain 189 Alex Alderton 190 Roberto Amato 191 Cristina V. Ariani 192 Jeff Barrett 193 Andrew R. Bassett 194 Mathew A. Beale 195 Charlotte Beaver 196 Katherine L. Bellis 197 Emma Betteridge 198 James Bonfield 199 Iraad F. Bronner 200 Michael H. S. Chapman 201 John Danesh 202 Robert Davies 203 Matthew J. Dorman 204 Eleanor Drury 205 Jillian Durham 206 Ben W. Farr 207 Luke Foulser 208 Sonia Goncalves 209 Scott Goodwin 210 Marina Gourtovaia 211 David K. Jackson 212 Keith James 213 Dorota Jamrozy 214 Ian Johnston 215 Leanne Kane 216 Sally Kay 217 Jon-Paul Keatley 218 Dominic Kwiatkowski 219 Cordelia F. Langford 220 Mara Lawniczak 221 Stefanie V. Lensing 222 Steven Leonard 223 Laura Letchford 224 Kevin Lewis 225 Jennifier Liddle 226 Rich Livett 227 Stephanie Lo 228 Alex Makunin 229 Inigo Martincorena 230 Shane McCarthy 231 Samantha McGuigan 232 Robin J. Moll 233 Rachel Nelson 234 Karen Oliver 235 Steve Palmer 236 Naomi R. Park 237 Minal Patel 238 Liam Prestwood 239 Christoph Puethe 240 Michael A. Quail 241 Diana Rajan 242 Shavanthi Rajatileka 243 Nicholas M. Redshaw 244 Carol Scott 245 Lesley Shirley 246 John Sillitoe 247 Scott A. J. Thurston 248 Gerry Tonkin-Hill 249 Jaime M. Tovar-Corona 250 Danni Weldon 251 Andrew Whitwham 252 Myra Hosmillo 253 Stephen W. Attwood 254 Louis du Plessis 0000-0003-0352-6289 255 Marina Escalera Zamudio 256 Sarah Francois 257 Bernardo Gutierrez 258 Moritz U. G. Kraemer 259 Jayna Raghwani 260 Tetyana I. Vasylyeva 261 Alex E. Zarebski 262 Nabil-Fareed Alikhan 263 Alp Aydin 264 David J. Baker 265 Leonardo de Oliveira Martins 266 Gemma L. Kay 267 Thanh Le-Viet 268 Alison E. Mather 269 Lizzie Meadows 270 Justin O’Grady 271 Steven Rudder 272 Alexander J. Trotter 273 Chris J. Illingworth 274 Chris Jackson 275 Elihu Aranday-Cortes 276 Patawee Asamaphan 277 Alice Broos 278 Stephen N. Carmichael 279 Ana da Silva Filipe 280 Joseph Hughes 281 Natasha G. Jesudason 282 Natasha Johnson 283 Kathy K. Li 284 Daniel Mair 285 Jenna Nichols 286 Seema Nickbakhsh 287 Marc O. Niebel 288 Kyriaki Nomikou 289 Richard J. Orton 290 David L. Robertson 291 Rajiv N. Shah 292 James G. Shepherd 293 Joshua B. Singer 294 Igor Starinskij 295 Emma C. Thomson 296 Lily Tong 297 Sreenu Vattipally 298 Amy Ash 299 Cherian Koshy 300 Nick Cortes 301 Stephen Kidd 302 Jessica Lynch 303 Nathan Moore 304 Matilde Mori 305 Emma Wise 306 Tanya Curran 307 Derek J. Fairley 308 James P. McKenna 309 Helen Adams 310 David Bonsall 311 Christophe Fraser 312 Tanya Golubchik 313 Benjamin J. Cogger 314 Mohammed O. Hassan-Ibrahim 315 Cassandra S. Malone 316 Nicola Reynolds 317 Michelle Wantoch 318 Safiah Afifi 319 Robert Beer 320 Michaela John 321 Joshua Maksimovic 322 Kathryn McCluggage 323 Sian Morgan 324 Karla Spellman 325 Catherine Bresner 326 Thomas R. Connor 327 William Fuller 328 Martyn Guest 329 Huw Gulliver 330 Christine Kitchen 331 Angela Marchbank 332 Ian Merrick 333 Robert Munn 334 Anna Price 335 Joel Southgate 336 Trudy Workman 337 Amita Patel 338 Luke B. Snell 339 Rahul Batra 340 Themoula Charalampous 341 Jonathan Edgeworth 342 Gaia Nebbia 343 Angela H. Beckett 344 Samuel C. Robson 345 David M. Aanensen 346 Khalil Abudahab 347 Mirko Menegazzo 348 Ben E. W. Taylor 349 Anthony P. Underwood 350 Corin A. Yeats 351 Louise Berry 352 Tim Boswell 353 Gemma Clark 354 Vicki M. Fleming 355 Hannah C. Howson-Wells 356 Carl Jones 357 Amelia Joseph 358 Manjinder Khakh 359 Michelle M. Lister 360 Wendy Smith 361 Iona Willingham 362 Paul Bird 363 Karlie Fallon 364 Thomas Helmer 365 Christopher Holmes 366 Julian Tang 367 Victoria Blakey 368 Sharon Campbell 369 Veena Raviprakash 370 Nicola Sheriff 371 Lesley-Anne Williams 372 Matthew Carlile 373 Johnny Debebe 374 Nadine Holmes 375 Matthew W. Loose 376 Christopher Moore 377 Fei Sang 378 Victoria Wright 379 Francesc Coll 380 Gilberto Betancor 381 Adrian W. Signell 382 Harry D. Wilson 383 Thomas Davis 384 Sahar Eldirdiri 385 Anita Kenyon 386 M. Estee Torok 387 Hannah Lowe 388 Samuel Moses 389 Luke Bedford 390 Jonathan Moore 391 Susanne Stonehouse 392 Ali R. Awan 393 Chloe L. Fisher 394 John BoYes 395 Laura Atkinson 396 Judith Breuer 397 Julianne R. Brown 398 Kathryn A. Harris 399 Jack C. D. Lee 400 Divya Shah 401 Nathaniel Storey 402 Flavia Flaviani 403 Adela Alcolea-Medina 404 Gabrielle Vernet 405 Rebecca Williams 406 Michael R. Chapman 407 Wendy Chatterton 408 Judith Heaney 409 Lisa J. Levett 410 Monika Pusok 411 Li Xu-McCrae 412 Matthew Bashton 413 Darren L. Smith 414 Gregory R. Young 415 Frances Bolt 416 Alison Cox 417 Alison Holmes 418 Pinglawathee Madona 419 Siddharth Mookerjee 420 James Price 421 Paul A. Randell 422 Olivia Boyd 423 Fabricia F. Nascimento 424 Lily Geidelberg 425 Rob Johnson 426 David Jorgensen 427 Manon Ragonnet-Cronin 428 Aileen Rowan 429 Igor Siveroni 430 Graham P. Taylor 431 Erik M. Volz 432 Katherine L. Smollett 433 Nicholas J. Loman 434 Claire McMurray 435 Alan McNally 436 Sam Nicholls 437 Radoslaw Poplawski 438 Joshua Quick 439 Will Rowe 440 Joanne Stockton 441 Rocio T. Martinez Nunez 442 Cassie Breen 443 Angela Cowell 444 Jenifer Mason 445 Elaine O’Toole 446 Trevor I. Robinson 447 Joanne Watts 448 Graciela Sluga 449 Shazaad S. Y. Ahmad 450 Ryan P. George 451 Nicholas W. Machin 452 Fenella Halstead 453 Wendy Hogsden 454 Venkat Sivaprakasam 455 Holli Carden 456 Antony D. Hale 457 Katherine L. Harper 458 Louissa R. Macfarlane-Smith 459 Shirelle Burton-Fanning 460 Jennifer Collins 461 Gary Eltringham 462 Brendan AI. Payne 463 Yusri Taha 464 Sheila Waugh 465 Sarah O’Brien 466 Steven Rushton 467 Rachel Blacow 468 Amanda Bradley 469 Alasdair Maclean 470 Guy Mollett 471 Rebecca Dewar 472 Martin P. McHugh 473 Kate E. Templeton 474 Elizabeth Wastenge 475 Lindsay Coupland 476 Samir Dervisevic 477 Emma J. Meader 478 Rachael Stanley 479 Louise Smith 480 Edward Barton 481 Clive Graham 482 Debra Padgett 483 Garren Scott 484 Jane Greenaway 485 Emma Swindells 486 Clare M. McCann 487 Andrew Nelson 488 Wen C. Yew 489 Monique Andersson 490 Derrick Crook 491 David Eyre 492 Anita Justice 493 Timothy Peto 494 Nichola Duckworth 495 Tim J. Sloan 496 Sarah Walsh 497 Kelly Bicknell 498 Anoop J. Chauhan 499 Scott Elliott 500 Sharon Glaysher 501 Robert Impey 502 Allyson Lloyd 503 Sarah Wyllie 504 Nick Levene 505 Lynn Monaghan 506 Declan T. Bradley 507 Tim Wyatt 508 Martin D. Curran 509 Surendra Parmar 510 Matthew T. G. Holden 511 Sharif Shaaban 512 Alexander Adams 513 Hibo Asad 514 Alec Birchley 515 Matthew Bull 516 Jason Coombes 517 Sally Corden 518 Simon Cottrell 519 Noel Craine 520 Michelle Cronin 521 Alisha Davies 522 Elen De Lacy 523 Fatima Downing 524 Sue Edwards 525 Johnathan M. Evans 526 Laia Fina 527 Amy Gaskin 528 Bree Gatica-Wilcox 529 Laura Gifford 530 Lauren Gilbert 531 Lee Graham 532 David Heyburn 533 Ember Hilvers 534 Robin Howe 535 Hannah Jones 536 Rachel Jones 537 Sophie Jones 538 Sara Kumziene-SummerhaYes 539 Caoimhe McKerr 540 Catherine Moore 541 Mari Morgan 542 Nicole Pacchiarini 543 Malorie Perry 544 Amy Plimmer 545 Sara Rey 546 Giri Shankar 547 Sarah Taylor 548 Joanne Watkins 549 Chris Williams 550 Anna Casey 551 Liz Ratcliffe 552 Erwan Acheson 553 Zoltan Molnar 554 David A. Simpson 555 Thomas Thompson 556 Cressida Auckland 557 Sian Ellard 558 Christopher R. Jones 559 Bridget A. Knight 560 Jane A. H. Masoli 561 Tanzina Haque 562 Jennifer Hart 563 Dianne Irish-Tavares 564 Tabitha W. Mahungu 565 Eric Witele 566 Ashok Dadrah 567 Melisa L. Fenton 568 Tranprit Saluja 569 Amanda Symmonds 570 Yann Bourgeois 571 Garry P. Scarlett 572 Kate Cook 573 Hannah Dent 574 Christopher Fearn 575 Salman Goudarzi 576 Katie F. Loveson 577 Hannah Paul 578 Cariad Evans 579 Kate Johnson 580 David G. Partridge 581 Mohammad Raza 582 Paul Baker 583 Stephen Bonner 584 Sarah Essex 585 Steven Liggett 586 Ronan A. Lyons 587 Adhyana I. K. Mahanama 588 Kordo Saeed 589 Buddhini Samaraweera 590 Siona Silveira 591 Eleri Wilson-Davies 592 P. Emanuela 593 Nadua Bayzid 594 Marius Cotic 595 Leah Ensell 596 John A. Hartley 597 Riaz Jannoo 598 Angeliki Karamani 599 Mark Kristiansen 600 Helen L. Lowe 601 Sunando Roy 602 Adam P. Westhorpe 603 Rachel J. Williams 604 Charlotte A. Williams 605 Sarah Jeremiah 606 Jacqui A. Prieto 607 Lisa Berry 608 Dimitris Grammatopoulos 609 Katie Jones 610 Sarojini Pandey 611 Andrew Beggs 612 Alex Richter 613 Fiona Ashcroft 614 Angus Best 615 Liam Crawford 616 Nicola Cumley 617 Megan Mayhew 618 Oliver Megram 619 Jeremy Mirza 620 Emma Moles-Garcia 621 Benita Percival 622 Giselda Bucca 623 Andrew R. Hesketh 624 Colin P. Smith 625 Rose K. Davidson 626 Carlos E. Balcazar 627 Michael D. Gallagher 628 Áine O’Toole 629 Andrew Rambaut 630 Stefan Rooke 631 Thomas D. Stanton 632 Thomas Williams 633 Kathleen A. Williamson 634 Claire M. Bewshea 635 Audrey Farbos 636 James W. Harrison 637 Aaron R. Jeffries 638 Robin Manley 639 Stephen L. Michell 640 Michelle L. Michelsen 641 Christine M. Sambles 642 David J. Studholme 643 Ben Temperton 644 Joanna Warwick-Dugdale 645 Alistair C. Darby 646 Richard Eccles 647 Matthew Gemmell 648 Richard Gregory 649 Sam T. Haldenby 650 Julian A. Hiscox 651 Margaret Hughes 652 Miren Iturriza-Gomara 653 Kathryn A. Jackson 654 Anita O. Lucaci 655 Charlotte Nelson 656 Steve Paterson 657 Lucille Rainbow 658 Lance Turtle 659 Edith E. Vamos 660 Hermione J. Webster 661 Mark Whitehead 662 Claudia Wierzbicki 663 Adrienn Angyal 664 Rebecca Brown 665 Thushan I. de Silva 666 Timothy M. Freeman 667 Marta Gallis 668 Luke R. Green 669 Danielle C. Groves 670 Alexander J. Keeley 671 Benjamin B. Lindsey 672 Stavroula F. Louka 673 Matthew D. Parker 674 Paul J. Parsons 675 Nikki Smith 676 Rachel M. Tucker 677 Dennis Wang 678 Max Whiteley 679 Matthew Wyles 680 Peijun Zhang 681 Mohammad T. Alam 682 Laura Baxter 683 Hannah E. Bridgewater 684 Paul E. Brown 685 Jeffrey K. J. Cheng 686 Chrystala Constantinidou 687 Lucy R. Frost 688 Sascha Ott 689 Richard Stark 690 Grace Taylor-Joyce 691 Meera Unnikrishnan 692 Alberto C. Cerda 693 Tammy V. Merrill 694 Rebekah E. Wilson 695 Jonathan Ball 696 Joseph G. Chappell 697 Patrick C. McClure 698 Theocharis Tsoleridis 699 David Buck 700 Mariateresa de Cesare 701 Angie Green 702 George MacIntyre-Cockett 703 John A. Todd 704 Amy Trebes 705 Rory N. Gunson 706 Claire Cormie 707 Joana Dias 708 Sally Forrest 709 Harmeet K. Gill 710 Ellen E. Higginson 711 Leanne M. Kermack 712 Mailis Maes 713 Chris Ruis 714 Sushmita Sridhar 715 Jamie Young 716 Rob Howes 717 Duncan McFarlane 718 Gordon Dougan 719 Oliver G. Pybus 0000-0002-8797-2667 720 Daniela De Angelis 721 Patrick H. Maxwell 722 Sharon J. Peacock 0000-0002-1718-2782 723 Michael P. Weekes 0000-0003-3196-5545 724 Chris Illingworth 725 Ewan M. Harrison 0000-0003-2720-0507 726 Nicholas J. Matheson 0000-0002-3318-1851 727 Ian G. Goodfellow 0000-0002-9483-510x 728 (The Cambridge Covid-19 testing Centre) 729 (University of Cambridge Asymptomatic COVID-19 Screening Programme Consortium) 730 (The COVID-19 Genomics UK (COG-UK) Consortium) 731 Ronan Lyons 0000-0001-5225-000X 732 66417__30363__415084e8480b4d84b4d63ffbc931d442.pdf 66417.pdf 2024-05-14T15:13:24.0426815 Output 2621827 application/pdf Version of Record true This article is licensed under a Creative Commons Attribution 4.0 International License. true eng https://creativecommons.org/licenses/by/4.0/ |
| title |
Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission |
| spellingShingle |
Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission Ronan Lyons |
| title_short |
Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission |
| title_full |
Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission |
| title_fullStr |
Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission |
| title_full_unstemmed |
Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission |
| title_sort |
Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission |
| author_id_str_mv |
83efcf2a9dfcf8b55586999d3d152ac6 |
| author_id_fullname_str_mv |
83efcf2a9dfcf8b55586999d3d152ac6_***_Ronan Lyons |
| author |
Ronan Lyons |
| author2 |
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 |
| format |
Journal article |
| container_title |
Nature Communications |
| container_volume |
13 |
| container_issue |
1 |
| publishDate |
2022 |
| institution |
Swansea University |
| issn |
2041-1723 |
| doi_str_mv |
10.1038/s41467-021-27942-w |
| publisher |
Springer Science and Business Media LLC |
| college_str |
Faculty of Medicine, Health and Life Sciences |
| hierarchytype |
|
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facultyofmedicinehealthandlifesciences |
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Faculty of Medicine, Health and Life Sciences |
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facultyofmedicinehealthandlifesciences |
| hierarchy_parent_title |
Faculty of Medicine, Health and Life Sciences |
| department_str |
Swansea University Medical School - Health Data Science{{{_:::_}}}Faculty of Medicine, Health and Life Sciences{{{_:::_}}}Swansea University Medical School - Health Data Science |
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1 |
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0 |
| description |
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. |
| published_date |
2022-02-08T12:18:55Z |
| _version_ |
1802741151782928384 |
| score |
11.017016 |