Reference laboratories

European Union Reference Laboratory for Escherichia coli

Inter-European Union Reference Laboratories 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 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 for E. coli.  

Membership of the Inter EURL WG on NGS: 
EURL E. coli (coordinator) 

EURL Listeria monocytogenes 


EURL Salmonella 

EURL Campylobacter 

EURL Parasites 


EURL Food borne viruses 

Observers: SANTE G4, EFSA, ECDC 


The documents linked in this section 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.  The documents curated by EURL-VTEC are attached below.


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

Reference Whole Genome Sequencing collection – curated by EURL Salmonella  

Guidance document for WGS-laboratory procedures – curated by EURL Parasites 

Bioinformatics tools for basic analysis of Next Generation Sequencing data – curated by EURL VTEC 

Guidance document for Whole Genome Sequencing - cluster analysis – curated by EURL Campylobacter 

Guidance document for NGS-Benchmarking – curated by EURL Listeria 

Inventory of training supports – curated by EURL Coagulase Positive Staphylococci 

Survey on the use of NGS across the NRLs networks – curated by EURL VTEC