Genetic structure of SARS-CoV-2 reflects clonal superspreading and multiple independent introduction events, North-Rhine Westphalia, Germany, February and March 2020
Open Access
- 3 June 2020
- journal article
- research article
- Published by European Centre for Disease Control and Prevention (ECDC) in Eurosurveillance
- Vol. 25 (22), 19-23
- https://doi.org/10.2807/1560-7917.ES.2020.25.22.2000746
Abstract
We whole-genome sequenced 55 SARS-CoV-2 isolates from Germany to investigate SARS-CoV-2 outbreaks in 2020 in the Heinsberg district and Dusseldorf. While the genetic structure of the Heinsberg outbreak indicates a clonal origin, reflecting superspreading dynamics from mid-February during the carnival season, distinct viral strains were circulating in Dusseldorf in March, reflecting the citys international links. Limited detection of Heinsberg strains in the Dusseldorf area despite geographical proximity may reflect efficient containment and contact-tracing efforts.Keywords
This publication has 13 references indexed in Scilit:
- A new coronavirus associated with human respiratory disease in ChinaNature, 2020
- Strain-level metagenomic assignment and compositional estimation for long reads with MetaMapsNature Communications, 2019
- A pan-genotypic Hepatitis C Virus NS5A amplification method for reliable genotyping and resistance testingJournal of Clinical Virology, 2019
- An amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVarGenome Biology, 2019
- Tracking virus outbreaks in the twenty-first centuryNature Microbiology, 2019
- Nextstrain: real-time tracking of pathogen evolutionBioinformatics, 2018
- Nanopore sequencing and assembly of a human genome with ultra-long readsNature Biotechnology, 2018
- APPLICATIONS OF NEXT-GENERATION SEQUENCING Towards a genomics-informed, real-time, global pathogen surveillance systemNature Reviews Genetics, 2017
- Multiplex PCR method for MinION and Illumina sequencing of Zika and other virus genomes directly from clinical samplesNature Protocols, 2017
- GISAID: Global initiative on sharing all influenza data – from vision to realityEurosurveillance, 2017