Collection and analysis of whole genome sequencing data from food-borne pathogens and other relevant microorganisms isolated from human, animal, food, feed and food/feed environmental samples in the joint ECDC–EFSA molecular typing database
This report identifies and compares potential platforms/solutions for the set-up and running of a joint ECDC–EFSA database to collect and analyse whole genome sequencing (WGS) data for Listeria monocytogenes, Salmonella and Escherichia coli. In particular, WGS introduces the need for specific components for storage and analysis of these data.
Proficiency test for Listeria monocytogenes whole genome assembly 2018
This report presents the results of a proficiency test to evaluate the inter-laboratory reproducibility and portability of Listeria monocytogenes (Lm) genome assemblies in the EU/EEA.
ECDC strategic framework for the integration of molecular and genomic typing into European surveillance and multi-country outbreak investigations
This strategic framework document presents a proposed list of priority pathogens/diseases and outlines technical implementation options for the medium-term integration (2019–2021) of molecular/genomic typing information into EU-level surveillance and multi-country outbreak investigations.
Eighth external quality assessment scheme for typing of Shiga toxin-producing Escherichia coli
This report presents the results of the eighth round of the external quality assessment (EQA-8) scheme for typing of Shiga toxin-producing Escherichia coli (STEC) organised for laboratories providing data to the Food- and Waterborne Diseases and Zoonoses Network (FWD-Net) managed by the European Centre for Disease Prevention and Control (ECDC).
Laboratory manual for carbapenem and colistin resistance detection and characterisation for the survey of carbapenem- and/or colistin-resistant Enterobacteriaceae
This protocol is based partly on the laboratory manual developed for the European survey of carbapenemase-producing Enterobacteriaceae (EuSCAPE)
European external quality assessment programme for influenza virus 2018
Influenza epidemics occur every winter with high impact on disease burden, hospitalisations and excess mortality in countries in the WHO European Region. To understand the characteristics of circulating influenza viruses during seasonal epidemics, virological influenza surveillance is performed and detected viruses are further characterised at national influenza centres (NICs) that are part of the wider network of the WHO Global Influenza Surveillance and Response System (GISRS). External quality assessments (EQAs) are important instruments in assessing the quality of the generated data that are reported nationally and internationally through The European Surveillance System (TESSy).
External quality assessment for the detection of Bordetella pertussis by PCR, 2018
This report presents the results of the second European Pertussis Laboratory Surveillance Network (EUPert-LabNet) EQA scheme for Bordetella pertussis PCR funded by ECDC on behalf of EUPert-LabNet. The EQA study was conducted between February and March 2018.
External quality assessment of laboratory performance – European Antimicrobial Resistance Surveillance Network (EARS-Net), 2017
This report provides an analysis of the external quality assessment (EQA) performance of laboratories participating in the European Antimicrobial Resistance Surveillance Network (EARS-Net) in 2017.
Laboratory procedures for diagnosis and typing of human Clostridium difficile infection
The aim of this document is to support Clostridium difficile infection (CDI) surveillance in Europe with appropriate microbiological standardised procedures, and can be used by microbiologists, infectious diseases specialists and infection prevention control specialists.
Eighth external quality assessment scheme for Salmonella typing
This report presents the results of the eighth round of the external quality assessment (EQA-8) scheme for typing of Salmonella enterica subsp. enterica organised for public health national reference laboratories (PH NRLs) in ECDC’s Food- and Waterborne Diseases and Zoonoses network (FWD-Net).