Academic Journal
Rapid implementation of SARS-CoV-2 sequencing to investigate cases of health-care associated COVID-19: a prospective genomic surveillance study
| Τίτλος: | Rapid implementation of SARS-CoV-2 sequencing to investigate cases of health-care associated COVID-19: a prospective genomic surveillance study |
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| Συγγραφείς: | Meredith, LW, Hamilton, WL, Warne, B, Houldcroft, CJ, Hosmillo, M, Jahun, AS, Curran, MD, Parmar, S, Caller, LG, Caddy, SL, Khokhar, FA, Yakovleva, A, Hall, G, Feltwell, T, Forrest, S, Sridhar, S, Weekes, MP, Baker, S, Brown, N, Moore, E, Popay, A, Roddick, I, Reacher, M, Gouliouris, T, Peacock, SJ, Dougan, G, Török, ME, Goodfellow, I |
| Στοιχεία εκδότη: | Elsevier |
| Έτος έκδοσης: | 2021 |
| Συλλογή: | Oxford University Research Archive (ORA) |
| Περιγραφή: | Background The burden and influence of health-care associated severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infections is unknown. We aimed to examine the use of rapid SARS-CoV-2 sequencing combined with detailed epidemiological analysis to investigate health-care associated SARS-CoV-2 infections and inform infection control measures. Methods In this prospective surveillance study, we set up rapid SARS-CoV-2 nanopore sequencing from PCR-positive diagnostic samples collected from our hospital (Cambridge, UK) and a random selection from hospitals in the East of England, enabling sample-to-sequence in less than 24 h. We established a weekly review and reporting system with integration of genomic and epidemiological data to investigate suspected health-care associated COVID-19 cases. Findings Between March 13 and April 24, 2020, we collected clinical data and samples from 5613 patients with COVID-19 from across the East of England. We sequenced 1000 samples producing 747 high-quality genomes. We combined epidemiological and genomic analysis of the 299 patients from our hospital and identified 35 clusters of identical viruses involving 159 patients. 92 (58%) of 159 patients had strong epidemiological links and 32 (20%) patients had plausible epidemiological links. These results were fed back to clinical, infection control, and hospital management teams, leading to infection-control interventions and informing patient safety reporting. Interpretation We established real-time genomic surveillance of SARS-CoV-2 in a UK hospital and showed the benefit of combined genomic and epidemiological analysis for the investigation of health-care associated COVID-19. This approach enabled us to detect cryptic transmission events and identify opportunities to target infection-control interventions to further reduce health-care associated infections. Our findings have important implications for national public health policy as they enable rapid tracking and investigation of infections in hospital and community ... |
| Τύπος εγγράφου: | article in journal/newspaper |
| Γλώσσα: | English |
| DOI: | 10.1016/s1473-3099(20)30562-4 |
| Διαθεσιμότητα: | https://doi.org/10.1016/s1473-3099(20)30562-4 https://ora.ox.ac.uk/objects/uuid:1d64d61c-f6e7-412d-96b6-35989e19dc75 |
| Rights: | info:eu-repo/semantics/openAccess ; CC Attribution (CC BY) |
| Αριθμός Καταχώρησης: | edsbas.BDCD6E43 |
| Βάση Δεδομένων: | BASE |
| DOI: | 10.1016/s1473-3099(20)30562-4 |
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