Inter-EURLs Working Group on Next Generation Sequencing

The Inter-European Union Reference Laboratories (EURLs) Working Group (WG) has been established by the European Commission with the aim to promote the use of Next Generation Sequencing (NGS) across the EURLs' networks, build NGS capacity within the EU and ensure liaison with the work of the EURLs and the work of EFSA and ECDC European Centre for Disease Prevention and Control on the NGS mandate sent by the Commission. The WG includes all the EURLs operating in the field of the microbiological contamination of food and feed and is coordinated by the EURL European Union Reference Laboratory for E. coli.

Membership of the Inter EURL WG on NGS: 

EURL-E. coli (coordinator)
EURL-Listeria monocytogenes 
EURL-Coagulase Positive Staphylococci 
EURL-Salmonella 
EURL-Campylobacter 
EURL-Parasites 
EURL-Antimicrobial Resistance 
EURL-Food borne viruses 
Observers: SANTE G4, EFSA, ECDC 

The documents are meant to provide guidance to the laboratories in the area of application of NGS and have been produced by the working group with the aim of being diffused to all the networks of NRLs National Reference Laboratories.

These documents can be found in the Zenodo community Inter Biorisks-EURLs WG on NGS.

They are also listed below.

Overview of conducted and planned PTs – curated by EURL-Antimicrobial Resistance

Reference Whole Genome Sequencing collection – curated by EURL Salmonella

NGS laboratory procedures – curated by EURL-Parasites

Bioinformatics tools for basic analysis of Next Generation Sequencing data

Guidance document for cluster analysis of whole genome sequence data – curated by EURL-Campylobacter

Guidance document for NGS-Benchmarking – curated by EURL-Listeria monocytogenes

Inventory training supports for NGS - curated by EURL-Coagulase Positive Staphylococci 

Survey on the use of NGS across the NRLs networks – curated by EURL-E. coli

Supporting document for preparing high quality DNA for Whole Genome Sequencing – curated by EURL-E. coli