Aggarwal, D. et al. (2022) Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission. Nature Communications, 13, 751. (doi: 10.1038/s41467-021-27942-w) (PMID:35136068) (PMCID:PMC8826310)
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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.
Item Type: | Articles |
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Status: | Published |
Refereed: | Yes |
Glasgow Author(s) Enlighten ID: | Shah, Dr Rajiv and Li, Dr Kathy and Aranday-Cortes, Dr Elihu and Robertson, Professor David and Singer, Dr Josh and Asamaphan, Dr Patawee and Nickbakhsh, Dr Sema and Tong, Dr Lily and Mair, Mr Daniel and Orton, Dr Richard and Jesudason, Dr Natasha and Gunson, Dr Rory and Blacow, Dr Rachel and Shepherd, Dr James and Da Silva Filipe, Dr Ana and Hughes, Dr Joseph and Mollett, Mr Guy and Broos, Ms Alice and Vattipally, Dr Sreenu and Nichols, Mrs Jenna and Carmichael, Dr Stephen and Nomikou, Dr Kyriaki and Illingworth, Dr Chris and Thomson, Professor Emma and Bradley-Stewart, Dr Amanda and Johnson, Miss Natasha and Enright, Dr Jessica and Smollett, Dr Katherine and MacLean, Dr Alasdair and Niebel, Dr Marc |
Authors: | Aggarwal, D., Warne, B., Jahun, A. S., Hamilton, W. L., Fieldman, T., du Plessis, L., Hill, V., Blane, B., Watkins, E., Wright, E., Hall, G., Ludden, C., Myers, R., Hosmillo, M., Chaudhry, Y., Pinckert, M. L., Georgana, I., Izuagbe, R., Leek, D., Nsonwu, O., Hughes, G. J., Packer, S., Page, A. J., Metaxaki, M., Fuller, S., Weale, G., Holgate, J., Brown, C. A., Howes, R., McFarlane, D., Dougan, G., Pybus, O. G., Angelis, D. D., Maxwell, P. H., Peacock, S. J., Weekes, M. P., Illingworth, C., Harrison, E. M., Matheson, N. J., Goodfellow, I. G., Orton, A., Douthwaite, J., Rees, S., Brown, C., Clark, R., Jones, D. R., Kuenzi, F., Rankin, J., Waddell, I., Maxwell, P., Matheson, N., Abell, C., Braithwaite, V., Brierley, C., Crowcroft, J., Dahal, A., Faulkner, K., Glover, M., Goodfellow, I., Greatorex, J., James, L., Lehner, P., Leslie, I., Liddell, K., Margolis, B., Morgan, S., Sheridan, L., Valletta, S., Vignoles, A., Vinnell, M., Wills, M., Hilborne, S., Berry, S., Kahkeshi, M. B., Hancock, D., Winster, J., Enright, J., Samworth, R., Samtani, V., Ahmadi-Assalemi, G., Feather, T., Goodall, R., Hoensch, S., Johnson, D., Hunt, M., Mathieson, N., Nikitina, K., Sheldrake, Z., Keen, M., Sato, A., Connor, D., Tolhurst, J., Williman, J., Hollamby, V., Jordan, S., Fatseas, T., Taylor, P., Georgiou, C., Caspersz, M., McNulty, C., Davies, R., Clarke, R., Danaei, D., Dyer, R., Glew, R., Lambson, O., Gibbs, K., Mozdzen, B., Raub, G., Radecki, A., White, P., Hughes, R., Gransden, L., Ceaser, M., Sing, R., Wilson, K., Parlikad, A., Dhada, M., Ridgman, T., Mungovan, D., Matthews, S., Searle, P., Mills, J., Neely, A., Henderson, R., Murphy, E., Russell, M., Freeling, A., Poppitt, S., Tynan, J., Knapton, J., Marchetti, F., Angelis, D. D., Feltwell, T., Hadjirin, N. F., Hamilton, W. L., Jahun, A., Pinckert, M., Shaw, A., Chaudhry, A., Brown, N. M., Mactavous, L., Hannan, S., Hosaja, A., Leong, C., Wright, J., Quinnell, N., Workman, C., Ferris, M., Wright, G., Aggarwal, D., Brooks, E., Carabelli, A. M., Churcher, C. M., Galai, K., Girgis, S. T., Gupta, R. K., McManus, G. M., Palmer, S., Peacock, S. J., Smith, K. S., Allara, E., Bibby, D., Bishop, C., Bosworth, A., Bradshaw, D., Chalker, V., Chand, M., Dabrera, G., Ellaby, N., Gallagher, E., Groves, N., Harrison, I., Hartman, H., Hopes, R., Hubb, J., Hutchings, S., Lackenby, A., Ledesma, J., Lee, D., Manesis, N., Manso, C., Mbisa, T., Miah, S., Muir, P., Osman, H., Patel, V., Pearson, C., Platt, S., Pymont, H. M., Ramsay, M., Robinson, E., Schaefer, U., Thornton, A., Twohig, K. A., Vipond, I. B., Williams, D., Aigrain, L., Alderton, A., Amato, R., Ariani, C. V., Barrett, J., Bassett, A. R., Beale, M. A., Beaver, C., Bellis, K. L., Betteridge, E., Bonfield, J., Bronner, I. F., Chapman, M. H. S., Danesh, J., Davies, R., Dorman, M. J., Drury, E., Durham, J., Farr, B. W., Foulser, L., Goncalves, S., Goodwin, S., Gourtovaia, M., Jackson, D. K., James, K., Jamrozy, D., Johnston, I., Kane, L., Kay, S., Keatley, J.-P., Kwiatkowski, D., Langford, C. F., Lawniczak, M., Lensing, S. V., Leonard, S., Letchford, L., Lewis, K., Liddle, J., Livett, R., Lo, S., Makunin, A., Martincorena, I., McCarthy, S., McGuigan, S., Moll, R. J., Nelson, R., Oliver, K., Palmer, S., Park, N. R., Patel, M., Prestwood, L., Puethe, C., Quail, M. A., Rajan, D., Rajatileka, S., Redshaw, N. M., Scott, C., Shirley, L., Sillitoe, J., Thurston, S. A. J., Tonkin-Hill, G., Tovar-Corona, J. M., Weldon, D., Whitwham, A., Attwood, S. W., Zamudio, M. E., Francois, S., Gutierrez, B., Kraemer, M. U. G., Raghwani, J., Vasylyeva, T. I., Zarebski, A. E., Alikhan, N.-F., Aydin, A., Baker, D. J., de Oliveira Martins, L., Kay, G. L., Le-Viet, T., Mather, A. E., Meadows, L., O’Grady, J., Rudder, S., Trotter, A. J., Illingworth, C. J., Jackson, C., Aranday-Cortes, E., Asamaphan, P., Broos, A., Carmichael, S. N., da Silva Filipe, A., Hughes, J., Jesudason, N. G., Johnson, N., Li, K. K., Mair, D., Nichols, J., Nickbakhsh, S., Niebel, M. O., Nomikou, K., Orton, R. J., Robertson, D. L., Shah, R. N., Shepherd, J. G., Singer, J. B., Starinskij, I., Thomson, E. C., Tong, L., Vattipally, S., Ash, A., Koshy, C., Cortes, N., Kidd, S., Lynch, J., Moore, N., Mori, M., Wise, E., Curran, T., Fairley, D. J., McKenna, J. P., Adams, H., Bonsall, D., Fraser, C., Golubchik, T., Cogger, B. J., Hassan-Ibrahim, M. O., Malone, C. S., Reynolds, N., Wantoch, M., Afifi, S., Beer, R., John, M., Maksimovic, J., McCluggage, K., Morgan, S., Spellman, K., Bresner, C., Connor, T. R., Fuller, W., Guest, M., Gulliver, H., Kitchen, C., Marchbank, A., Merrick, I., Munn, R., Price, A., Southgate, J., Workman, T., Patel, A., Snell, L. B., Batra, R., Charalampous, T., Edgeworth, J., Nebbia, G., Beckett, A. H., Robson, S. C., Aanensen, D. M., Abudahab, K., Menegazzo, M., Taylor, B. E. W., Underwood, A. P., Yeats, C. A., Berry, L., Boswell, T., Clark, G., Fleming, V. M., Howson-Wells, H. C., Jones, C., Joseph, A., Khakh, M., Lister, M. M., Smith, W., Willingham, I., Bird, P., Fallon, K., Helmer, T., Holmes, C., Tang, J., Blakey, V., Campbell, S., Raviprakash, V., Sheriff, N., Williams, L.-A., Carlile, M., Debebe, J., Holmes, N., Loose, M. W., Moore, C., Sang, F., Wright, V., Coll, F., Betancor, G., Signell, A. W., Wilson, H. D., Davis, T., Eldirdiri, S., Kenyon, A., Torok, M. E., Lowe, H., Moses, S., Bedford, L., Moore, J., Stonehouse, S., Awan, A. R., Fisher, C. L., BoYes, J., Atkinson, L., Breuer, J., Brown, J. R., Harris, K. A., Lee, J. C. D., Shah, D., Storey, N., Flaviani, F., Alcolea-Medina, A., Vernet, G., Williams, R., Chapman, M. R., Chatterton, W., Heaney, J., Levett, L. J., Pusok, M., Xu-McCrae, L., Bashton, M., Smith, D. L., Young, G. R., Bolt, F., Cox, A., Holmes, A., Madona, P., Mookerjee, S., Price, J., Randell, P. A., Boyd, O., Nascimento, F. F., Geidelberg, L., Johnson, R., Jorgensen, D., Ragonnet-Cronin, M., Rowan, A., Siveroni, I., Taylor, G. P., Volz, E. M., Smollett, K. L., Loman, N. J., McMurray, C., McNally, A., Nicholls, S., Poplawski, R., Quick, J., Rowe, W., Stockton, J., Nunez, R. T. M., Breen, C., Cowell, A., Mason, J., O’Toole, E., Robinson, T. I., Watts, J., Sluga, G., Ahmad, S. S. Y., George, R. P., Machin, N. W., Halstead, F., Hogsden, W., Sivaprakasam, V., Carden, H., Hale, A. D., Harper, K. L., Macfarlane-Smith, L. R., Burton-Fanning, S., Collins, J., Eltringham, G., Payne, B. A., Taha, Y., Waugh, S., O’Brien, S., Rushton, S., Blacow, R., Bradley, A., Maclean, A., Mollett, G., Dewar, R., McHugh, M. P., Templeton, K. E., Wastenge, E., Coupland, L., Dervisevic, S., Meader, E. J., Stanley, R., Smith, L., Barton, E., Graham, C., Padgett, D., Scott, G., Greenaway, J., Swindells, E., McCann, C. M., Nelson, A., Yew, W. C., Andersson, M., Crook, D., Eyre, D., Justice, A., Peto, T., Duckworth, N., Sloan, T. J., Walsh, S., Bicknell, K., Chauhan, A. J., Elliott, S., Glaysher, S., Impey, R., Lloyd, A., Wyllie, S., Levene, N., Monaghan, L., Bradley, D. T., Wyatt, T., Curran, M. D., Parmar, S., Holden, M. T. G., Shaaban, S., Adams, A., Asad, H., Birchley, A., Bull, M., Coombes, J., Corden, S., Cottrell, S., Craine, N., Cronin, M., Davies, A., Lacy, E. D., Downing, F., Edwards, S., Evans, J. M., Fina, L., Gaskin, A., Gatica-Wilcox, B., Gifford, L., Gilbert, L., Graham, L., Heyburn, D., Hilvers, E., Howe, R., Jones, H., Jones, R., Jones, S., Kumziene-SummerhaYes, S., McKerr, C., Moore, C., Morgan, M., Pacchiarini, N., Perry, M., Plimmer, A., Rey, S., Shankar, G., Taylor, S., Watkins, J., Williams, C., Casey, A., Ratcliffe, L., Acheson, E., Molnar, Z., Simpson, D. A., Thompson, T., Auckland, C., Ellard, S., Jones, C. R., Knight, B. A., Masoli, J. A. H., Haque, T., Hart, J., Irish-Tavares, D., Mahungu, T. W., Witele, E., Dadrah, A., Fenton, M. L., Saluja, T., Symmonds, A., Bourgeois, Y., Scarlett, G. P., Cook, K., Dent, H., Fearn, C., Goudarzi, S., Loveson, K. F., Paul, H., Evans, C., Johnson, K., Partridge, D. G., Raza, M., Baker, P., Bonner, S., Essex, S., Liggett, S., Lyons, R. A., Mahanama, A. I. K., Saeed, K., Samaraweera, B., Silveira, S., Wilson-Davies, E., Emanuela, P., Bayzid, N., Cotic, M., Ensell, L., Hartley, J. A., Jannoo, R., Karamani, A., Kristiansen, M., Lowe, H. L., Roy, S., Westhorpe, A. P., Williams, R. J., Williams, C. A., Jeremiah, S., Prieto, J. A., Berry, L., Grammatopoulos, D., Jones, K., Pandey, S., Beggs, A., Richter, A., Ashcroft, F., Best, A., Crawford, L., Cumley, N., Mayhew, M., Megram, O., Mirza, J., Moles-Garcia, E., Percival, B., Bucca, G., Hesketh, A. R., Smith, C. P., Davidson, R. K., Balcazar, C. E., Gallagher, M. D., O’Toole, Á., Rambaut, A., Rooke, S., Stanton, T. D., Williams, T., Williamson, K. A., Bewshea, C. M., Farbos, A., Harrison, J. W., Jeffries, A. R., Manley, R., Michell, S. L., Michelsen, M. L., Sambles, C. M., Studholme, D. J., Temperton, B., Warwick-Dugdale, J., Darby, A. C., Eccles, R., Gemmell, M., Gregory, R., Haldenby, S. T., Hiscox, J. A., Hughes, M., Iturriza-Gomara, M., Jackson, K. A., Lucaci, A. O., Nelson, C., Paterson, S., Rainbow, L., Turtle, L., Vamos, E. E., Webster, H. J., Whitehead, M., Wierzbicki, C., Angyal, A., Brown, R., de Silva, T. I., Freeman, T. M., Gallis, M., Green, L. R., Groves, D. C., Keeley, A. J., Lindsey, B. B., Louka, S. F., Parker, M. D., Parsons, P. J., Smith, N., Tucker, R. M., Wang, D., Whiteley, M., Wyles, M., Zhang, P., Alam, M. T., Baxter, L., Bridgewater, H. E., Brown, P. E., Cheng, J. K. J., Constantinidou, C., Frost, L. R., Ott, S., Stark, R., Taylor-Joyce, G., Unnikrishnan, M., Cerda, A. C., Merrill, T. V., Wilson, R. E., Ball, J., Chappell, J. G., McClure, P. C., Tsoleridis, T., Buck, D., de Cesare, M., Green, A., MacIntyre-Cockett, G., Todd, J. A., Trebes, A., Gunson, R. N., Cormie, C., Dias, J., Forrest, S., Gill, H. K., Higginson, E. E., Kermack, L. M., Maes, M., Ruis, C., Sridhar, S., and Young, J. |
College/School: | College of Medical Veterinary and Life Sciences > School of Infection & Immunity College of Science and Engineering > School of Computing Science College of Medical Veterinary and Life Sciences > School of Infection & Immunity > Centre for Virus Research |
Journal Name: | Nature Communications |
Publisher: | Nature Research |
ISSN: | 2041-1723 |
ISSN (Online): | 2041-1723 |
Copyright Holders: | Copyright © 2022 The Authors |
First Published: | First published in Nature Communications 13: 751 |
Publisher Policy: | Reproduced under a Creative Commons License |
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