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.
Whole genome sequencing: new ECDC framework suggests priority diseases and implementation options
Whole genome sequencing (WGS) is a fast-moving technology, but the pace of change vary between pathogens/diseases and European Union countries. In a new report, ECDC proposes to prioritise the implementation of WGS depending on disease and public health application.
Molecular and genomic typing for tuberculosis surveillance: A survey study in 26 European countries
Andrés, M., Van Der Werf, M.J., Ködmön, C., Albrecht, S., Haas, W., Fiebig, L., Indra, A., Wanlin, M., Bachiyska, E., Jurcev-Savicevic, A., Zemanova, I., Lillebaek, T., Viiklepp, P., Haanperä, M., Sougakoff, W., Bakos, A., Jackson, S., Cirillo, D.M., Norvaisa, I., Vasiliauskiene, E., Reichert, P., Caruana, P., De Vries, G., Rønning, K., Augustynowicz-Kopeć, E., Duarte, R., Homorodean, D., Svetina, P., Sánchez-Cambronero, L., Groenheit, R., Davidson, J.A.
HEVnet: A one health, collaborative, interdisciplinary network and sequence data repository for enhanced hepatitis e virus molecular typing, characterisation and epidemiological investigations
Mulder, A.C., Kroneman, A., Franz, E., Vennema, H., Tulen, A.D., Takkinen, J., Hofhuis, A., Adlhoch, C., Aberle, S., Subissi, L., Suin, V., Midgley, S., Kuznetsova, T., Izopet, J., Pavio, N., Baechlein, C., Baylisa, S.A., Corman, V.M., Fabera, M., Johne, R., Kamp, C., Wenzel, J.J., Coughlan, S., Di Bartolo, I., Bruni, R., Ciccaglionea, A.R., Garbuglia, A.R., Suffredini, E., Boxman, I., Hogema, B., van der Poel, W., Zaaijera, H., Sousaa, R., Velebit, B., Avellóna, A., Buti, M., Girones, R., Quer, J., Widén, F., Norder, H., Nyström, K., Bachofen, C., Sahli, R., Ijaza, S., Treagus, S., Kulka, M., Rizzi, V.
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).
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.
OECD highlights the progress made in laboratory systems in the EU/EEA since the implementation of EULabCap
The OECD report ‘Health at a Glance: Europe 2018’ summarises the EULabCap indicator results in the chapter on public health laboratory capacity to control infectious disease threats.