Genomic and healthcare dynamics of nosocomial SARS-CoV-2 transmission

被引：28

作者：

Ellingford, Jamie M. ^{[1
,2
]}

George, Ryan ^{[3
]}

McDermott, John H. ^{[1
,2
]}

Ahmad, Shazaad ^{[4
]}

Edgerley, Jonathan J. ^{[1
]}

Gokhale, David ^{[1
]}

Newman, William G. ^{[1
,2
]}

Ball, Stephen ^{[5
,6
]}

Machin, Nicholas ^{[4
,7
,8
]}

Black, Graeme C. M. ^{[1
,2
]}

机构：

[1] Manchester Univ NHS Fdn Trust, St Marys Hosp, Manchester Ctr Genom Med, Manchester, Lancs, England

[2] Univ Manchester, Sch Biol Sci, Div Evolut & Genom Sci, Manchester, Lancs, England

[3] Manchester Univ NHS Fdn Trust, Dept Infect Prevent & Control, Manchester, Lancs, England

[4] Manchester Univ NHS Fdn Trust, Manchester Acad Hlth Sci Ctr, Dept Virol, Manchester Med Microbiol Partnership, Manchester, Lancs, England

[5] Univ Manchester, Sch Med Sci, Div Diabet Endocrinol & Gastroenterol, Manchester, Lancs, England

[6] Manchester Univ NHS Fdn Trust, Manchester Acad Hlth Sci Ctr, Dept Clin Endocrinol, Manchester, Lancs, England

[7] Publ Hlth England, Manchester Med Microbiol Partnership, Manchester, Lancs, England

[8] Manchester Univ NHS Fdn Trust, Manchester, Lancs, England

来源：

ELIFE | 2021年 / 10卷

关键词：

COVID-19;

D O I：

10.7554/eLife.65453

中图分类号：

Q [生物科学];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Understanding the effectiveness of infection control methods in reducing and preventing SARS-CoV-2 transmission in healthcare settings is of high importance. We sequenced SARS-CoV-2 genomes for patients and healthcare workers (HCWs) across multiple geographically distinct UK hospitals, obtaining 173 high-quality SARS-CoV-2 genomes. We integrated patient movement and staff location data into the analysis of viral genome data to understand spatial and temporal dynamics of SARS-CoV-2 transmission. We identified eight patient contact clusters (PCC) with significantly increased similarity in genomic variants compared to non-clustered samples. Incorporation of HCW location further increased the number of individuals within PCCs and identified additional links in SARS-CoV-2 transmission pathways. Patients within PCCs carried viruses more genetically identical to HCWs in the same ward location. SARS-CoV-2 genome sequencing integrated with patient and HCW movement data increases identification of outbreak clusters. This dynamic approach can support infection control management strategies within the healthcare setting.

引用

页数：12

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