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Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England
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Abstract
The SARS-CoV-2 lineage B.1.1.7, designated variant of concern (VOC) 202012/01 by Public Health England 1, was first identified in the UK in late summer to early autumn 2020 2. Whole-genome SARS-CoV-2 sequence data collected from community-based diagnostic testing for COVID-19 show an extremely rapid expansion of the B.1.1.7 lineage during autumn 2020, suggesting that it has a selective advantage. Here we show that changes in VOC frequency inferred from genetic data correspond closely to changes inferred by S gene target failures (SGTF) in community-based diagnostic PCR testing. Analysis of trends in SGTF and non-SGTF case numbers in local areas across England shows that B.1.1.7 has higher transmissibility than non-VOC lineages, even if it has a different latent period or generation time. The SGTF data indicate a transient shift in the age composition of reported cases, with cases of B.1.1.7 including a larger share of under 20-year-olds than non-VOC cases. We estimated time-varying reproduction numbers for B.1.1.7 and co-circulating lineages using SGTF and genomic data. The best-supported models did not indicate a substantial difference in VOC transmissibility among different age groups, but all analyses agreed that B.1.1.7 has a substantial transmission advantage over other lineages, with a 50% to 100% higher reproduction number.
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“Epidemiological studies suggest that it was approximately 50% more transmissible than previously circulating UK variants 191,197,198 .”
From The biological and clinical significance of emerging SARS-CoV-2 variants (2021) · cites this paper as [191]
In the citing paper
“Volz and colleagues have shown that the B.1.1.7 variant increases the effective reproduction number, Rt, by a factor of 1·5–2·0.5”
From Changes in symptomatology, reinfection, and transmissibility associated with the SARS-CoV-2 variant B.1.1.7: an ecological study (2021) · cites this paper as [5]
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“Preliminary evidence from epidemiological studies suggests that the B.1.1.7 variant is more transmissible than pre-existing variants.”
From Changes in symptomatology, reinfection, and transmissibility associated with the SARS-CoV-2 variant B.1.1.7: an ecological study (2021) · cites this paper as [5]
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“In addition, the emergence of new variants with increased transmissibility 8 and reduced sensitivity to vaccine-elicited antibodies 9 , and for which vaccines are less able to prevent infection 10 , has raised fears for vulnerable groups in whom the magnitude and quality of immune responses may be suboptimal.”
From Age-related immune response heterogeneity to SARS-CoV-2 vaccine BNT162b2 (2021) · cites this paper as [8]
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Cites
The Elements of Statistical Learning
Hastie, T., Tibshirani, R., & Friedman, J. (2009) · Springer Series in Statistics · doi:10.1007/978-0-387-84858-7 · Cited by 25,970
IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era
Minh, B. Q., Schmidt, H. A., Chernomor, O., Schrempf, D., Woodhams, M. D., von Haeseler, A., & Lanfear, R. (2020) · Molecular Biology and Evolution · doi:10.1093/molbev/msaa015 · Cited by 16,873
Hastie, T., & Tibshirani, R. (1986) · Statistical Science · doi:10.1214/ss/1177013604 · Cited by 12,575
Posterior summarization in Bayesian phylogenetics using tracer 1.7
Rambaut, A., Drummond, A. J., Xie, D., Baele, G., & Suchard, M. A. (2018) · Systematic Biology · doi:10.1093/sysbio/syy032 · Cited by 11,159
Self-citationBayesian phylogenetic and phylodynamic data integration using BEAST 1.10
Suchard, M. A., Lemey, P., Baele, G., Ayres, D. L., Drummond, A. J., & Rambaut, A. (2018) · Virus Evolution · doi:10.1093/ve/vey016 · Cited by 3,749
Self-citationEstimating the effects of non-pharmaceutical interventions on COVID-19 in Europe
Flaxman, S. R., Mishra, S., Gandy, A., Unwin, H. J. T., Mellan, T. A., Coupland, H., Whittaker, C., Zhu, H., Berah, T., Eaton, J. W., et al. (2020) · Nature · doi:10.1038/s41586-020-2405-7 · Cited by 3,398
Self-citationEstimated transmissibility and impact of SARS-CoV-2 lineage B.1.1.7 in England
Davies, N. G., Abbott, S., Barnard, R. C., Jarvis, C. I., Kucharski, A. J., Munday, J. D., Pearson, C. A. B., Russell, T. W., Tully, D. C., Washburne, A. D., et al. (2021) · Science · doi:10.1126/science.abg3055 · Cited by 2,581
Estimated transmissibility and impact of SARS-CoV-2 lineage B.1.1.7 in England
Davies, N. G., Abbott, S., Barnard, R. C., Jarvis, C. I., Kucharski, A. J., Munday, J. D., Pearson, C. A. B., Russell, T. W., Tully, D. C., Washburne, A. D., et al. (2020) · doi:10.1101/2020.12.24.20248822 · Cited by 2,557
Detection of a SARS-CoV-2 variant of concern in South Africa
Tegally, H., Wilkinson, E., Giovanetti, M., Iranzadeh, A., Fonseca, V., Giandhari, J., Doolabh, D., Pillay, S., San, E. J., Msomi, N., et al. (2021) · Nature · doi:10.1038/s41586-021-03402-9 · Cited by 2,510
Bi, Q., Wu, Y., Mei, S., Ye, C., Zou, X., Zhang, Z., Liu, X., Wei, L., Truelove, S., Zhang, T., et al. (2020) · The Lancet Infectious Diseases · doi:10.1016/s1473-3099(20)30287-5 · Cited by 1,960
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Hastert, F. D., Hein, S., von Rhein, C., Benz, N. I., Husria, Y., Oberle, D., Maier, T. J., Hildt, E., & Schnierle, B. S. (2022) · Vaccines · doi:10.3390/vaccines10050794 · Cited by 10
Katowa, B., Kalonda, A., Mubemba, B., Matoba, J., Shempela, D. M., Sikalima, J., Kabungo, B., Changula, K., Chitanga, S., Kasonde, M., et al. (2022) · Viruses · doi:10.3390/v14091865 · Cited by 8
Jessop, Z. M., Gibson, J. A. G., Lim, J. Y., Jovic, T. H., Combellack, E. J., Dobbs, T. D., Carter, K., Hiles, S., Islam, S., Healy, B., et al. (2022) · Trials · doi:10.1186/s13063-022-06685-z · Cited by 9
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Goike, J., Hsieh, C., Horton, A. P., Gardner, E. C., Zhou, L., Bartzoka, F., Wang, N., Javanmardi, K., Herbert, A. S., Abbasi, S. A., et al. (2023) · Communications Biology · doi:10.1038/s42003-023-05649-6 · Cited by 8
Lopes, R., Pham, K., Klaassen, F., Chitwood, M. H., Hahn, A. M., Redmond, S. N., Swartwood, N. A., Salomon, J. A., Menzies, N. A., Cohen, T., et al. (2024) · Cell Reports · doi:10.1016/j.celrep.2024.114451 · Cited by 8
Reeves, D. B., Bracis, C., Swan, D. A., Burns, E., Moore, M., Dimitrov, D., & Schiffer, J. T. (2021) · Med · doi:10.1016/j.medj.2021.04.012 · Cited by 7
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Zhao, S., Ran, J., & Han, L. (2021) · American Journal of Tropical Medicine and Hygiene · doi:10.4269/ajtmh.21-0412 · Cited by 7
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Zhao, S., Musa, S. S., Chong, K. C., Ran, J., Javanbakht, M., Han, L., Wang, K., Hussaini, N., Habib, A. G., Wang, M. H., et al. (2021) · Journal of Global Health · doi:10.7189/jogh.11.05028 · Cited by 7
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Lagerborg, K. A., Normandin, E., Bauer, M. R., Adams, G. C., Figueroa, K., Loreth, C., Gladden, A. D., Shaw, B. M., Pearlman, L. R., Shenoy, E. S., et al. (2021) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2021.03.16.435654 · Cited by 7
Guerra‐Assunção, J. A., Randell, P. A., Boshier, F. A. T., Crone, M. A., Pang, J., Mahungu, T. W., Freemont, P. S., & Breuer, J. (2021) · medRxiv · doi:10.1101/2021.04.12.21255084 · Cited by 8
Riley, S., Haw, D., Walters, C. E., Wang, H., Eales, O. D., Ainslie, K. E. C., Atchison, C. J., Fronterrè, C., Diggle, P. J., Page, A. J., et al. (2021) · medRxiv · doi:10.1101/2021.05.13.21257144 · Cited by 7
Singanayagam, A., Hakki, S., Dunning, J. W., Madon, K. J., Crone, M. A., Koycheva, A., Derqui, N., Barnett, J. L., Whitfield, M. G., Varro, R., et al. (2021) · SSRN Electronic Journal · doi:10.2139/ssrn.3918287 · Cited by 7
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Yang, Y., Dufault‐Thompson, K., Fontenele, R. S., & Jiang, X. (2022) · mSystems · doi:10.1128/msystems.00179-22 · Cited by 6
Mwangi, P. N., Okendo, J., Mogotsi, M. T., Ogunbayo, A. E., Adelabu, O. A., Sondlane, H., Maotoana, M. G., Mahomed, L., Morobadi, M. D., Vawda, S., et al. (2022) · Frontiers in Virology · doi:10.3389/fviro.2022.935131 · Cited by 6
Mudenda, S., Tembo, G., Mfune, R. L., Banda, P., Kasanga, M., Phiri, M., Daka, V., Chabalenge, B., & Hangoma, J. M. (2024) · SAS Journal of Medicine · doi:10.36347/sasjm.2024.v10i01.002 · Cited by 6
Harrington, A., Vo, V., Moshi, M. A., Chang, C.-L., Baker, H., Ghani, N., Itorralba, J. Y., Papp, K., Gerrity, D. W., Moser, D. P., et al. (2024) · Environmental Science & Technology Letters · doi:10.1021/acs.estlett.3c00938 · Cited by 6
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Smith, T., Mishra, S., Dorigatti, I., Dixit, M. K., Tristem, M., & Pearse, W. D. (2024) · Scientific Reports · doi:10.1038/s41598-024-64044-1 · Cited by 6
Self-citationTang, C. C., Todo, Y., Kodera, S., Sun, R., Shimada, A., & Hirata, A. (2024) · Neural Networks · doi:10.1016/j.neunet.2024.106527 · Cited by 6
Carretero, R. G., Ordoñez-Garcia, M., Gil-Prieto, R., & de Miguel, Á. G. (2024) · Journal of Clinical Medicine · doi:10.3390/jcm13185400 · Cited by 6
Norwood, K., Deng, Z.-L., Reimering, S., Robertson, G., Foroughmand-Araabi, M.-H., Goliaei, S., Hölzer, M., Klawonn, F., & McHardy, A. C. (2025) · Nature Communications · doi:10.1038/s41467-025-60231-4 · Cited by 10
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Kaiheng, B. T., Roby, C. A., Wu, J. W., & Tan, D. Y. (2021) · International Journal of Environmental Research and Public Health · doi:10.3390/ijerph18179027 · Cited by 6
Vesper, N., Ortiz, Y. M., Bartels-Burgahn, F., Yang, J., de la Rosa, K., Tenbusch, M., Schulz, S. R., Finzel, S., Jäck, H., Eibel, H., et al. (2021) · Frontiers in Immunology · doi:10.3389/fimmu.2021.730766 · Cited by 6
Genomic monitoring of the SARS-CoV-2 B1.1.7 (WHO VOC Alpha) in the Sao Paulo state, Brazil
Slavov, S. N., Bezerra, R. D. S., Rodrigues, E. S., Santos, E. V., Borges, J. S., de La‐Roque, D. G. L., Patané, J. S. L., Lima, A. R. J., Ribeiro, G. D. C., Viala, V. L., et al. (2021) · Virus Research · doi:10.1016/j.virusres.2021.198643 · Cited by 6
When and How Will the Epidemic of COVID-19 End?
Zhang, S., Yang, Z. L., Chen, Z.-L., Li, Z.-N., Yue, S., Li, J., Yan, F., Xu, D.-Q., & Tang, Y. (2022) · Aging and Disease · doi:10.14336/ad.2021.1120 · Cited by 6
Pageaud, S., Pothier, C., Rigotti, C., Eyraud-Loisel, A., Bertoglio, J. P., Bienvenüe, A., Leboisne, N., Ponthus, N., Gauchon, R., Gueyffier, F., et al. (2021) · Vaccines · doi:10.3390/vaccines9121462 · Cited by 5
Gautam, P., Paul, D., Suroliya, V., Garg, R., Agarwal, R., Das, S., Sardarni, U. K., Pandey, A., Bhugra, A., Tarai, B., et al. (2022) · Microbiology Spectrum · doi:10.1128/spectrum.02729-21 · Cited by 6
Fabiani, M., Margiotti, K., Sabatino, M., Viola, A., Mesoraca, A., & Giorlandino, C. (2022) · Vaccines · doi:10.3390/vaccines10030483 · Cited by 6
Krylova, O., Kazmi, O., Wang, H., Lim, K., Logar‐Henderson, C., & Gapanenko, K. (2022) · International Journal for Population Data Science · doi:10.23889/ijpds.v5i4.1710 · Cited by 6
Amato, L., Candeloro, L., Girolamo, A. D., Savini, L., Puglia, I., Marcacci, M., Caporale, M., Mangone, I., Cammà, C., Conte, A., et al. (2022) · Epidemics · doi:10.1016/j.epidem.2022.100578 · Cited by 6
Fibke, C. D., Joffres, Y., Tyson, J. R., Colijn, C., Janjua, N. Z., Fjell, C. D., Prystajecky, N., Jassem, A. N., & Sbihi, H. (2022) · Frontiers in Public Health · doi:10.3389/fpubh.2022.915363 · Cited by 7
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Krut’, V. G., Chuvpilo, S. A., Astrakhantseva, I. V., Kozlovskaya, L. I., Efimov, G. A., Kruglov, A., Drutskaya, M. S., & Nedospasov, S. A. (2022) · Biochemistry (Moscow) · doi:10.1134/s0006297922070021 · Cited by 7
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Hadizadeh, N., Naderi, M., Khezri, J., Yazdani, M., Shamsara, M., & Hashemi, E. (2022) · Journal of Diabetes & Metabolic Disorders · doi:10.1007/s40200-022-01002-6 · Cited by 7
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Mathema, B., Chen, L., Wang, P., Cunningham, M. H., Mediavilla, J. R., Chow, K. F., Luo, Y., Zhao, Y., Composto, K., Zuckerman, J. M., et al. (2022) · mBio · doi:10.1128/mbio.02141-22 · Cited by 6
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da Fonseca, J. P., Kornobis, É., Turc, É., Enouf, V., Lemée, L., Cokelaer, T., & Monot, M. (2022) · Scientific Reports · doi:10.1038/s41598-022-23422-3 · Cited by 6
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de Menezes, M. T., Moreira, F. R. R., Whittaker, C., Santos, F. M., Queiroz, D. C., Geddes, V. E. V., Fonseca, P. L. C., de Jesus, J. G., Mendes-Oliveira, F., de Souza, V. R., et al. (2023) · Viruses · doi:10.3390/v15020585 · Cited by 6
Temporal dynamics and fatality of SARS‐CoV‐2 variants in Bangladesh
Rahman, M. S., Hoque, M. N., Chowdhury, S. R., Siddique, M. M., Islam, O. K., Galib, S. M., Islam, M. T., & Hossain, M. A. (2023) · Health Science Reports · doi:10.1002/hsr2.1209 · Cited by 6
Mutch, H., Young, J. J., Sadiq, F., Rose, A., & Evans, J. M. M. (2023) · Eurosurveillance · doi:10.2807/1560-7917.es.2023.28.26.2200669 · Cited by 6
Briggs, K., Sweeney, R., Blehert, D. S., Spackman, E., Suarez, D. L., & Kapczynski, D. R. (2023) · Virology · doi:10.1016/j.virol.2023.07.002 · Cited by 5
Phenotypic evolution of SARS-CoV-2: a statistical inference approach
Benhamou, W., Lion, S., Choquet, R., & Gandon, S. (2023) · Evolution · doi:10.1093/evolut/qpad133 · Cited by 5
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Ghazzi, J. J., Fadhil, H. Y., & Aufi, I. M. (2023) · Iraqi Journal of Science · doi:10.24996/ijs.2023.64.7.7 · Cited by 6
Aldali, J. A., Alotaibi, B. A., Aldali, H. J., Alasiri, G. A., Alaseem, A. M., Almuqrin, A., Alshalani, A., & Alotaibi, F. T. (2023) · Biomedicines · doi:10.3390/biomedicines11082203 · Cited by 6
COVID Variants, Villain and Victory: A Bioinformatics Perspective
Shukla, N., Srivastava, N., Gupta, R., Srivastava, P., & Narayan, J. (2023) · Microorganisms · doi:10.3390/microorganisms11082039 · Cited by 6
Metadata
- Authors
- The COVID-19 Genomics UK (COG-UK) consortium, Volz, E., Mishra, S., Chand, M., Barrett, J. C., Johnson, R., Geidelberg, L., Hinsley, W. R., Laydon, D. J., Dabrera, G., O’Toole, Á., Amato, R., Ragonnet-Cronin, M., Harrison, I., Jackson, B., Ariani, C. V., Boyd, O., Loman, N. J., McCrone, J. T., Gonçalves, S., Jorgensen, D., Myers, R., Hill, V., Jackson, D. K., Gaythorpe, K., Groves, N., Sillitoe, J., Kwiatkowski, D. P., Flaxman, S., Ratmann, O., Bhatt, S., Hopkins, S., Gandy, A., Rambaut, A., & Ferguson, N. M.
- Affiliations
- Imperial College London (GB)
- Public Health England (GB)
- Wellcome Sanger Institute (GB)
- University of Edinburgh (GB)
- University of Copenhagen (DK)
- Corresponding author
- Volz, Erik
- Ferguson, Neil M.
- ORCID
- Volz, Erik
- Mishra, Swapnil
- Chand, Meera
- Barrett, Jeffrey C.
- Geidelberg, Lily
- Hinsley, Wes R.
- Laydon, Daniel J.
- Dabrera, Gavin
- Harrison, Ian
- Jackson, Ben
- Ariani, Cristina V.
- Boyd, Olivia
- Loman, Nicholas J.
- McCrone, John T.
- Gonçalves, Sónia
- Jorgensen, David
- Myers, Richard
- Hill, Verity
- Jackson, David K.
- Gaythorpe, Katy
- Groves, Natalie
- Kwiatkowski, Dominic P.
- Flaxman, Seth
- Ratmann, Oliver
- Bhatt, Samir
- Hopkins, Susan
- Gandy, Axel
- Rambaut, Andrew
- Ferguson, Neil M.
- Venue
- Nature
- Published
- 2021-03-25
- Volume
- 593
- Issue
- 7858
- Pages
- 266-269
- ISSN
- 0028-0836 (ISSN-L)
- 1476-4687
- OpenAlex
- W3136588845
- Cited by
- 1,611
- References
- 32
- Citations by year
- 2026: 38 · 2025: 86 · 2024: 116 · 2023: 216 · 2022: 464 · 2021: 685
- FWCI
- 116.92
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- Nature (publishedVersion)
- medRxiv (acceptedVersion, cc-by)
- PubMed (publishedVersion)
- Research at the University of Copenhagen (University of Copenhagen) (publishedVersion, other-oa)
- White Rose Research Online (University of Leeds, The University of Sheffield, University of York) (acceptedVersion)
- UEA Digital Repository (University of East Anglia) (submittedVersion)
- RePEc: Research Papers in Economics (submittedVersion)
- ePrints Soton (University of Southampton) (submittedVersion)
- UCL Discovery (University College London) (submittedVersion)
- Figshare (submittedVersion)
- Research Portal (King's College London) (submittedVersion, other-oa)
- Northumbria Research Link (Northumbria University) (submittedVersion)
- University of Birmingham Research Portal (University of Birmingham) (submittedVersion, other-oa)
- Edinburgh Research Explorer (University of Edinburgh) (submittedVersion, other-oa)
- Spiral (Imperial College London) (submittedVersion, cc-by)
- Spiral (Imperial College London) (submittedVersion)
- Apollo (University of Cambridge) (submittedVersion)
- Apollo
- Funders
- Bill and Melinda Gates Foundation (OPP 1175094, 206194, OPP1197730, MR/R015600/1, OPP1084362)
- Wellcome Trust (MR/R015600/1, 204911/Z/16/Z, Z/17/Z, 206298/Z/17/Z, RDA02, 206298, 206194)
- UK Research and Innovation (MR/V038109/1, MR/R015600/1, MC_PC_19027)
- National Institute for Health Research Health Protection Research Unit
- Cancer Research UK (23923)
- National Institute for Health and Care Research (PR-OD-1017–20002, MR/R015600/1, RDA02, NIHR301445, OPP1175094, ACF-2018-04-014)
- Academy of Medical Sciences (AMS-CSF4-Torok, SBF004\1080)
- Imperial College London (MR/R015600/1)
- European Commission (725422, MR/R015600/1, 101003653, COVID-19, 206298/Z/17/Z)
- Rural Development Administration
- Novo Nordisk (NNF20OC0059309)
- Novo Nordisk Fonden (NNF20OC0059309)
- Medical Research Council (MR/R015600/1, MR/M006212/1, MC_PC_19026, MR/V038109/1, MR/S00291X/1, MC_PC_19012, COVID-19)
- Engineering and Physical Sciences Research Council (EP/V002910/1, EP/V002910/2)
- Topics
- Health Sciences › Medicine › Infectious Diseases › SARS-CoV-2 and COVID-19 Research
- Physical Sciences › Mathematics › Modeling and Simulation › COVID-19 epidemiological studies
- Health Sciences › Medicine › Infectious Diseases › SARS-CoV-2 detection and testing
- Keywords
- SARS-CoV-2, B.1.1.7 lineage, variants of concern, transmissibility, S-gene target failure, time-varying reproduction number, viral genomic surveillance, COVID-19 pandemic, England
- MeSH terms
- COVID-19, SARS-CoV-2, Adolescent, Adult, Aged, Aged, 80 and over, Child, Child, Preschool, England, Humans, Infant, Infant, Newborn, Middle Aged, Phylogeny, Time Factors, Genome, Viral, Age Distribution, Evolution, Molecular, Basic Reproduction Number, Young Adult, Spike Glycoprotein, Coronavirus
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