Rapid SARS-CoV-2 whole-genome sequencing and analysis for informed public health decision-making in the Netherlands

The Dutch-Covid-19 response team, Bas B. Oude Munnink, David F. Nieuwenhuijse, Mart Stein, Áine O’Toole, Manon Haverkate, Madelief Mollers, Sandra K. Kamga, Claudia Schapendonk, Mark Pronk, Pascal Lexmond, Anne van der Linden, Theo Bestebroer, Irina Chestakova, Ronald J. Overmars, Stefan van Nieuwkoop, Richard Molenkamp, Annemiek A. van der Eijk, Corine GeurtsvanKessel, Harry VennemaAdam Meijer, Andrew Rambaut, Jaap van Dissel, Reina S. Sikkema, Aura Timen, Marion Koopmans*

*Corresponding author for this work

Research output: Contribution to journalLetterpeer-review

Abstract / Description of output

In late December 2019, a cluster of cases of pneumonia of unknown etiology were reported linked to a market in Wuhan, China1. The causative agent was identified as the species Severe acute respiratory syndrome-related coronavirus and was named SARS-CoV-2 (ref. 2). By 16 April the virus had spread to 185 different countries, infected over 2,000,000 people and resulted in over 130,000 deaths3. In the Netherlands, the first case of SARS-CoV-2 was notified on 27 February. The outbreak started with several different introductory events from Italy, Austria, Germany and France followed by local amplification in, and later also outside, the south of the Netherlands. The combination of near to real-time whole-genome sequence analysis and epidemiology resulted in reliable assessments of the extent of SARS-CoV-2 transmission in the community, facilitating early decision-making to control local transmission of SARS-CoV-2 in the Netherlands. We demonstrate how these data were generated and analyzed, and how SARS-CoV-2 whole-genome sequencing, in combination with epidemiological data, was used to inform public health decision-making in the Netherlands.

Original languageEnglish
Pages (from-to)1405-1410
Number of pages6
JournalNature Medicine
Issue number9
Early online date16 Jul 2020
Publication statusPublished - 1 Sept 2020


Dive into the research topics of 'Rapid SARS-CoV-2 whole-genome sequencing and analysis for informed public health decision-making in the Netherlands'. Together they form a unique fingerprint.

Cite this