Genomic assessment of quarantine measures to prevent SARS-CoV-2 importation and transmission

Aggarwal, D. et al. (2022) Genomic assessment of quarantine measures to prevent SARS-CoV-2 importation and transmission. Nature Communications, 13, 1012. (doi: 10.1038/s41467-022-28371-z)

Abstract

Mitigation of SARS-CoV-2 transmission from international travel is a priority. We evaluated the effectiveness of travellers being required to quarantine for 14-days on return to England in Summer 2020. We identified 4,207 travel-related SARS-CoV-2 cases and their contacts, and identified 827 associated SARS-CoV-2 genomes. Overall, quarantine was associated with a lower rate of contacts, and the impact of quarantine was greatest in the 16–20 age-group. 186 SARS-CoV-2 genomes were sufficiently unique to identify travel-related clusters. Fewer genomically-linked cases were observed for index cases who returned from countries with quarantine requirement compared to countries with no quarantine requirement. This difference was explained by fewer importation events per identified genome for these cases, as opposed to fewer onward contacts per case. Overall, our study demonstrates that a 14-day quarantine period reduces, but does not completely eliminate, the onward transmission of imported cases, mainly by dissuading travel to countries with a quarantine requirement.

• Item Type: Articles
• 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 Mair, Mr Daniel and Tong, Dr Lily and Orton, Dr Richard and Jesudason, Dr Natasha and Gunson, Dr Rory and Blacow, Dr Rachel and Da Silva Filipe, Dr Ana and Shepherd, Dr James and Hughes, Dr Joseph and Mollett, Mr Guy and Broos, Ms Alice and Vattipally, Dr Sreenu and Carmichael, Dr Stephen and Nichols, Mrs Jenna and Nomikou, Dr Kyriaki and Illingworth, Dr Chris and Thomson, Professor Emma and Bradley-Stewart, Dr Amanda and Johnson, Miss Natasha and Smollett, Dr Katherine and MacLean, Dr Alasdair and Niebel, Dr Marc
• Authors: Aggarwal, D., Page, A. J., Schaefer, U., Savva, G. M., Myers, R., Volz, E., Ellaby, N., Platt, S., Groves, N., Gallagher, E., Tumelty, N. M., Le Viet, T., Hughes, G. J., Chen, C., Turner, C., Logan, S., Harrison, A., Peacock, S. J., Chand, M., Harrison, E. M., Koshy, C., Ash, A., Wise, E., Moore, N., Mori, M., Cortes, N., Lynch, J., Kidd, S., Fairley, D. J., Curran, T., McKenna, J. P., Adams, H., Fraser, C., Golubchik, T., Bonsall, D., Hassan-Ibrahim, M. O., Malone, C. S., Cogger, B. J., Wantoch, M., Reynolds, N., Warne, B., Maksimovic, J., Spellman, K., McCluggage, K., John, M., Beer, R., Afifi, S., Morgan, S., Marchbank, A., Price, A., Kitchen, C., Gulliver, H., Merrick, I., Southgate, J., Guest, M., Munn, R., Workman, T., Connor, T. R., Fuller, W., Bresner, C., Snell, L. B., Patel, A., Charalampous, T., Nebbia, G., Batra, R., Edgeworth, J., Robson, S. C., Beckett, A. H., Aanensen, D. M., Underwood, A. P., Yeats, C. A., Abudahab, K., Taylor, B. E. W., Menegazzo, M., Clark, G., Smith, W., Khakh, M., Fleming, V. M., Lister, M. M., Howson-Wells, H. C., Berry, L., Boswell, T., Joseph, A., Willingham, I., Jones, C., Holmes, C., Bird, P., Helmer, T., Fallon, K., Tang, J., Raviprakash, V., Campbell, S., Sheriff, N., Blakey, V., Williams, L.-A., Loose, M. W., Holmes, N., Moore, C., Carlile, M., Wright, V., Sang, F., Debebe, J., Coll, F., Signell, A. W., Betancor, G., Wilson, H. D., Eldirdiri, S., Kenyon, A., Davis, T., Pybus, O. G., du Plessis, L., Zarebski, A. E., Raghwani, J., Kraemer, M. U. G., Francois, S., Attwood, S. W., Vasylyeva, T. I., Zamudio, M. E., Gutierrez, B., Torok, M. E., Hamilton, W. L., Goodfellow, I. G., Hall, G., Jahun, A. S., Chaudhry, Y., Hosmillo, M., Pinckert, M. L., Georgana, I., Moses, S., Lowe, H., Bedford, L., Moore, J., Stonehouse, S., Fisher, C. L., Awan, A. R., BoYes, J., Breuer, J., Harris, K. A., Brown, J. R., Shah, D., Atkinson, L., Lee, J. C. D., Storey, N., Flaviani, F., Alcolea-Medina, A., Williams, R., Vernet, G., Chapman, M. R., Levett, L. J., Heaney, J., Chatterton, W., Pusok, M., Xu-McCrae, L., Smith, D. L., Bashton, M., Young, G. R., Holmes, A., Randell, P. A., Cox, A., Madona, P., Bolt, F., Price, J., Mookerjee, S., Ragonnet-Cronin, M., Nascimento, F. F., Jorgensen, D., Siveroni, I., Johnson, R., Boyd, O., Geidelberg, L., Volz, E. M., Rowan, A., Taylor, G. P., Smollett, K. L., Loman, N. J., Quick, J., McMurray, C., Stockton, J., Nicholls, S., Rowe, W., Poplawski, R., McNally, A., Nunez, R. T. M., Mason, J., Robinson, T. I., O’Toole, E., Watts, J., Breen, C., Cowell, A., Sluga, G., Machin, N. W., Ahmad, S. S. Y., George, R. P., Halstead, F., Sivaprakasam, V., Hogsden, W., Illingworth, C. J., Jackson, C., Thomson, E. C., Shepherd, J. G., Asamaphan, P., Niebel, M. O., Li, K. K., Shah, R. N., Jesudason, N. G., Tong, L., Broos, A., Mair, D., Nichols, J., Carmichael, S. N., Nomikou, K., Aranday-Cortes, E., Johnson, N., Starinskij, I., da Silva Filipe, A., Robertson, D. L., Orton, R. J., Hughes, J., Vattipally, S., Singer, J. B., Nickbakhsh, S., Hale, A. D., Macfarlane-Smith, L. R., Harper, K. L., Carden, H., Taha, Y., Payne, B. A. I., Burton-Fanning, S., Waugh, S., Collins, J., Eltringham, G., Rushton, S., O’Brien, S., Bradley, A., Maclean, A., Mollett, G., Blacow, R., Templeton, K. E., McHugh, M. P., Dewar, R., Wastenge, E., Dervisevic, S., Stanley, R., Meader, E. J., Coupland, L., Smith, L., Graham, C., Barton, E., Padgett, D., Scott, G., Swindells, E., Greenaway, J., Nelson, A., McCann, C. M., Yew, W. C., Andersson, M., Peto, T., Justice, A., Eyre, D., Crook, D., Sloan, T. J., Duckworth, N., Walsh, S., Chauhan, A. J., Glaysher, S., Bicknell, K., Wyllie, S., Elliott, S., Lloyd, A., Impey, R., Levene, N., Monaghan, L., Bradley, D. T., Wyatt, T., Allara, E., Pearson, C., Osman, H., Bosworth, A., Robinson, E., Muir, P., Vipond, I. B., Hopes, R., Pymont, H. M., Hutchings, S., Curran, M. D., Parmar, S., Lackenby, A., Mbisa, T., Miah, S., Bibby, D., Manso, C., Hubb, J., Dabrera, G., Ramsay, M., Bradshaw, D., Thornton, A., Lee, D., Williams, D., Harrison, I., Hartman, H., Manesis, N., Patel, V., Bishop, C., Chalker, V., Ledesma, J., Twohig, K. A., Holden, M. T. G., Shaaban, S., Birchley, A., Adams, A., Davies, A., Gaskin, A., Plimmer, A., Gatica-Wilcox, B., McKerr, C., Moore, C., Williams, C., Heyburn, D., De Lacy, E., Hilvers, E., Downing, F., Shankar, G., Jones, H., Asad, H., Coombes, J., Watkins, J., Evans, J. M., Fina, L., Gifford, L., Gilbert, L., Graham, L., Perry, M., Morgan, M., Bull, M., Cronin, M., Pacchiarini, N., Craine, N., Jones, R., Howe, R., Corden, S., Rey, S., Kumziene-SummerhaYes, S., Taylor, S., Cottrell, S., Jones, S., Edwards, S., O’Grady, J., Mather, A. E., Baker, D. J., Rudder, S., Aydin, A., Kay, G. L., Trotter, A. J., Alikhan, N.-F., de Oliveira Martins, L., Le-Viet, T., Meadows, L., Casey, A., Ratcliffe, L., Simpson, D. A., Molnar, Z., Thompson, T., Acheson, E., Masoli, J. A. H., Knight, B. A., Ellard, S., Auckland, C., Jones, C. R., Mahungu, T. W., Irish-Tavares, D., Haque, T., Hart, J., Witele, E., Fenton, M. L., Dadrah, A., Symmonds, A., Saluja, T., Bourgeois, Y., Scarlett, G. P., Loveson, K. F., Goudarzi, S., Fearn, C., Cook, K., Dent, H., Paul, H., Partridge, D. G., Raza, M., Evans, C., Johnson, K., Liggett, S., Baker, P., Bonner, S., Essex, S., Lyons, R. A., Saeed, K., Mahanama, A. I. K., Samaraweera, B., Silveira, S., Pelosi, E., Wilson-Davies, E., Williams, R. J., Kristiansen, M., Roy, S., Williams, C. A., Cotic, M., Bayzid, N., Westhorpe, A. P., Hartley, J. A., Jannoo, R., Lowe, H. L., Karamani, A., Ensell, L., Prieto, J. A., Jeremiah, S., Grammatopoulos, D., Pandey, S., Berry, L., Jones, K., Richter, A., Beggs, A., Best, A., Percival, B., Mirza, J., Megram, O., Mayhew, M., Crawford, L., Ashcroft, F., Moles-Garcia, E., Cumley, N., Smith, C. P., Bucca, G., Hesketh, A. R., Blane, B., Girgis, S. T., Leek, D., Sridhar, S., Forrest, S., Cormie, C., Gill, H. K., Dias, J., Higginson, E. E., Maes, M., Young, J., Kermack, L. M., Gupta, R. K., Ludden, C., Peacock, S. J., Palmer, S., Churcher, C. M., Hadjirin, N. F., Carabelli, A. M., Brooks, E., Smith, K. S., Galai, K., McManus, G. M., Ruis, C., Davidson, R. K., Rambaut, A., Williams, T., Balcazar, C. E., Gallagher, M. D., O’Toole, Á., Rooke, S., Hill, V., Williamson, K. A., Stanton, T. D., Michell, S. L., Bewshea, C. M., Temperton, B., Michelsen, M. L., Warwick-Dugdale, J., Manley, R., Farbos, A., Harrison, J. W., Sambles, C. M., Studholme, D. J., Jeffries, A. R., Darby, A. C., Hiscox, J. A., Paterson, S., Iturriza-Gomara, M., Jackson, K. A., Lucaci, A. O., Vamos, E. E., Hughes, M., Rainbow, L., Eccles, R., Nelson, C., Whitehead, M., Turtle, L., Haldenby, S. T., Gregory, R., Gemmell, M., Wierzbicki, C., Webster, H. J., de Silva, T. I., Smith, N., Angyal, A., Lindsey, B. B., Groves, D. C., Green, L. R., Wang, D., Freeman, T. M., Parker, M. D., Keeley, A. J., Parsons, P. J., Tucker, R. M., Brown, R., Wyles, M., Whiteley, M., Zhang, P., Gallis, M., Louka, S. F., Constantinidou, C., Unnikrishnan, M., Ott, S., Cheng, J. K. J., Bridgewater, H. E., Frost, L. R., Taylor-Joyce, G., Stark, R., Baxter, L., Alam, M. T., Brown, P. E., Aggarwal, D., Cerda, A. C., Merrill, T. V., Wilson, R. E., McClure, P. C., Chappell, J. G., Tsoleridis, T., Ball, J., Buck, D., Todd, J. A., Green, A., Trebes, A., MacIntyre-Cockett, G., de Cesare, M., Alderton, A., Amato, R., Ariani, C. V., Beale, M. A., Beaver, C., Bellis, K. L., Betteridge, E., Bonfield, J., Danesh, J., Dorman, M. J., Drury, E., Farr, B. W., Foulser, L., Goncalves, S., Goodwin, S., Gourtovaia, M., Harrison, E. M., Jackson, D. K., Jamrozy, D., Johnston, I., Kane, L., Kay, S., Keatley, J.-P., Kwiatkowski, D., Langford, C. F., Lawniczak, M., Letchford, L., Livett, R., Lo, S., Martincorena, I., McGuigan, S., Nelson, R., Palmer, S., Park, N. R., Patel, M., Prestwood, L., Puethe, C., Quail, M. A., Rajatileka, S., Scott, C., Shirley, L., Sillitoe, J., Chapman, M. H. S., Thurston, S. A. J., Tonkin-Hill, G., Weldon, D., Rajan, D., Bronner, I. F., Aigrain, L., Redshaw, N. M., Lensing, S. V., Davies, R., Whitwham, A., Liddle, J., Lewis, K., Tovar-Corona, J. M., Leonard, S., Durham, J., Bassett, A. R., McCarthy, S., Moll, R. J., James, K., Oliver, K., Makunin, A., Barrett, J., and Gunson, R. N.
• College/School: College of Medical Veterinary and Life Sciences > School of Infection & Immunity; 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: 1012
• Publisher Policy: Reproduced under a Creative Commons License