Integration of sequencing and epidemiological data for surveillance of SARS-CoV-2 infections in a tertiary-care hospital.

ABSTRACT:

Background

The ongoing COVID-19 pandemic significantly burdens hospitals and other healthcare facilities. Therefore, understanding the entry and transmission of SARS-CoV-2 is critical for effective prevention and preparedness measures. We performed surveillance and analysis of testing and transmission of SARS-CoV-2 infections in a tertiary-care hospital in Germany during the second and third pandemic waves in fall/winter 2020.

Methods

Between calendar weeks 41/2020 and 1/2021 40% of all positive patient and staff samples (284 total) were subjected to full-length viral genome sequencing. Clusters were defined based on similar genotypes indicating common sources of infection. We integrated phylogenetic, spatial, and temporal metadata to detect nosocomial infections and outbrea

SUBMITTER: Czech-Sioli M 

PROVIDER: S-EPMC9214157 | biostudies-literature | 2022 Jun

REPOSITORIES: biostudies-literature