SARS-CoV-2 genome sequencing

The current COVID-19 pandemic represents a global threat. To help fight this pandemic, the NFDI4Microbiota consortium wants to make high-quality SARS-CoV-2 genome sequence data and metadata openly available according to the FAIR principles. To achieve this, NFDI4Microbiota offers help with sample preparation, genome sequencing and assembly, and data deposition.

If you would like to use this service contact us: contact-covid19-seq@ndfi4microbiota.de

Please note the following requirements when using these NFDI4Microbiota services:

  • An order sheet with metadata (available soon) has to be filled in.
  • NFDI4Microbiota will immediately deposit the sequenced genomes and underlying sequencing reads under a Creative Common 0 license (i.e. public domain dedication) in a public repository such as the European Nucleotide Archive (ENA) or the Sequence Read Archive (SRA).

Sample preparation

NFDI4Microbiota has a growing number of partner laboratories across all Germany that can assist you with sample preparation to avoid sending viral samples via mail. Following are examples of RNA extraction protocols and sample preparation methods used by these laboratories:

Shipment will be made according to the RKI recommendations.

If you wish to support this initiative by acting as a laboratory preparing or sequencing samples, please contact us at covid-19-seq@nfdi4microbiota.de.

Genome sequencing and assembly

NFDI4Microbiota members offer sequencing and assembly of the SARS-CoV-2 genomes at net costs. Following are the examples of sequencing protocols, sequencing technologies and analysis workflows used/developed by the NFDI4Microbiota members:

Data deposition

NFDI4Microbiota will deposit the sequenced genomes and underlying sequencing reads in commonly used public repositories such as ENA or SRA.

Ordering and price

To order sample preparation and/or genome sequencing, please send us a filled order sheet (available soon) at: email address available soon. The price will be below € 100/sample (details available soon).

Laboratories involved

European Virus Bionformatics Center (EVBC) and
Jena University Hospital (UKJ)

German Collection of Microorganisms and Cell Cultures GmbH (DSMZ)

  • Contact details: Prof. Dr. Jörg Overmann – joerg.overmann@dsmz.de
  • Address: Leibniz-Institute DSMZ, Inhoffenstr. 7B, 38124 Braunschweig, Germany

German Research Centre for Geosciences (GFZ)

  • Contact details: Dr. Alexander Bartholomäus – abartho@gfz-potsdam.de
  • Address: Telegrafenberg, 14473 Potsdam, Germany

Helmholtz Centre for Environmental Research (UFZ)

Justus Liebig University Giessen (JLU Giessen)

University Hospital of Düsseldorf (UKD)

Worm~Lab, University of Cologne (Uni Koeln)

  • Contact details: Dr. Philipp Schiffer – a200302@uni-koeln.de
  • Address: Zülpicher Straße 47b, 50674 Köln, Germany