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News

Weekly epidemiological update: Omicron variant of concern (VOC) – week 2 (data as of 20 January 2022) EU/EEA

Epidemiological update - 21 Jan 2022

As of 20 January 2022, the Omicron variant has been identified in all EU/EEA countries. From 20 December 2021 to 9 January 2022, there were 23 EU/EEA countries with adequate sequencing volume that reported an estimated prevalence of Omicron VOC of 69.4%.

  • Coronavirus
  • COVID-19
  • EU/EEA
  • Immunisation
  • Microbiology
  • Public health threat
  • SARS-CoV-2 variants
  • Whole genome sequencing

News

Weekly epidemiological update: Omicron variant of concern (VOC) – week 2 (data as of 13 January 2022) EU/EEA

Epidemiological update - 14 Jan 2022

From 20 December 2021 to 2 January 2022, there were 21 EU/EEA countries with adequate sequencing volume that reported an estimated prevalence of Omicron VOC of 46%.

  • Coronavirus
  • COVID-19
  • EU/EEA
  • Immunisation
  • Microbiology
  • Public health threat
  • SARS-CoV-2 variants
  • Whole genome sequencing

Publication

Methods for the detection and characterisation of SARS-CoV-2 variants - first update

Technical report - 20 Dec 2021

This technical report provides guidance to laboratories, microbiology experts and relevant stakeholders in making decisions on establishing or scaling up capability and capacity to detect and identify circulating SARS-CoV-2 variants. It will also facilitate decision-making on the appropriate technologies to use and for which objective.

Methods for the detection and characterisation of SARS-CoV-2 variants – first update - EN - [PDF-263.18 KB]
  • Coronavirus
  • COVID-19
  • Microbiology
  • Public health threat
  • SARS-CoV-2 variants
  • Scientific advice
  • Whole genome sequencing

Publication

Eleventh external quality assessment scheme for Salmonella typing

External quality assessment - 25 Oct 2021

This report presents the results of the 11th round of the external quality assessment (EQA-11) scheme for typing of Salmonella enterica subsp. enterica organised for the national public health national reference laboratories (NPHRLs) in ECDC’s Food- and Waterborne Diseases and Zoonoses network (FWD-Net) managed by the European Centre for Disease Prevention and Control (ECDC). The EQA-11 scheme was arranged by the Section for Foodborne Infections at the Statens Serum Institut (SSI) in Denmark.

Eleventh external quality assessment scheme for Salmonella typing - EN - [PDF-2.02 MB]
  • EU/EEA
  • Laboratories
  • Microbiology
  • Molecular typing
  • Salmonella Enteritidis
  • Salmonella Typhimurium
  • Salmonellosis
  • Surveillance
  • Whole genome sequencing

Publication

Rapid risk assessment: Increase in OXA-244 -producing Escherichia coli in the European Union/European Economic Area and the UK since 2013, first update

Risk assessment - 20 Jul 2021

Rapid risk/outbreaks assessment aim at supporting the countries and the European Commission in their preparedness and response to a public health threat. They provide a timely summary and risk assessment of a public health threat for EU/EEA countries related to a specific event. They also include potential options for response. As outbreaks or public health events develop, ECDC may issue updated risk assessments.

Rapid risk assessment: Increase in OXA -244 -producing Escherichia coli in the European Union/European Economic Area and the UK since 2013, first update - EN - [PDF-704.3 KB]
  • Antimicrobial resistance
  • Denmark
  • Escherichia coli infection
  • Finland
  • France
  • Germany
  • Healthcare-associated infections
  • Ireland
  • Luxembourg
  • Microbiology
  • Netherlands
  • Norway
  • Sweden
  • United Kingdom
  • Whole genome sequencing

News

ECDC supports EU/EEA Member States in rapid detection of SARS-CoV-2 variants

News story - 16 Jun 2021

ECDC and the European Commission’s Directorate-General for Health and Food Safety (DG SANTE) have launched a number of activities to help strengthen EU/EEA Member States’ capacity for detection of SARS-CoV-2 variants in the shorter and longer term. These activities are one of five action areas of the ‘HERA Incubator’, a new EU bio-defence preparedness plan against SARS-CoV-2 variants launched by the European Commission on 17 February 2021.

  • Coronavirus
  • COVID-19
  • EU/EEA
  • Laboratories
  • Microbiology
  • SARS-CoV-2 variants
  • Whole genome sequencing

Publication

Seventh external quality assessment scheme for Listeria monocytogenes typing

External quality assessment - 10 Jun 2021

This report presents the results of the seventh round of the external quality assessment (EQA-7) scheme for Listeria monocytogenes (L. monocytogenes) typing organised for national public health reference laboratories (NPHRLs) providing data to the Food- and Waterborne Diseases and Zoonoses Network (FWD-Net) managed by ECDC.

Seventh external quality assessment scheme for Listeria monocytogenes typing - EN - [PDF-1.47 MB]
  • Laboratories
  • Listeriosis
  • Microbiology
  • Whole genome sequencing

Publication

Joint ECDC, EFSA and EURL Lm report: European Listeria typing exercise (ELiTE)

Publication - 24 Mar 2021

This report presents the objectives, methods, results, and conclusions of a collaborative study called the 'European Listeria Typing Exercise’ (ELiTE), as well as recommendations for further studies.

European listeria typing exercise ELiTE joint report - EN - [PDF-3.81 MB]
  • Europe
  • Food- and waterborne diseases
  • Foodborne diseases
  • Listeriosis
  • Microbiology
  • Molecular typing
  • Whole genome sequencing

Publication

Multi-country outbreak of Salmonella Enteritidis sequence type (ST)11 infections linked to poultry products in the EU/EEA and the United Kingdom

Risk assessment - 25 Feb 2021

Between May 2018 and December 2020, 193 human cases of Salmonella Enteritidis sequence type (ST)11 were reported in Denmark (2), Finland (4), France (33), Germany (6), Ireland (12), the Netherlands (3), Poland (5), Sweden (6), and the United Kingdom (UK) (122). One in five cases was hospitalised. One death was reported. Fifty percent of the cases were children ≤ 18 years. The most recent case was reported by the UK in December 2020.

Multi-country outbreak of Salmonella Enteritidis sequence type (ST)11 infections linked to poultry products in the EU/EEA and the United Kingdom - EN - [PDF-2.48 MB]
  • EU/EEA
  • Microbiology
  • Public health threat
  • Salmonella Enteritidis
  • Salmonellosis
  • Whole genome sequencing

Publication

Sequencing of SARS-CoV-2 - first update

Technical guidance - 18 Jan 2021

This technical guidance aims to provide guidelines to laboratories and relevant stakeholders in the European Union (EU), European Economic Area (EEA) and other countries in the WHO European region in making decisions on establishing sequencing capacities and capabilities, in making decisions on which technologies to use and/or in deciding on the role of sequencing for SARS-CoV-2 diagnostics, research, outbreak investigations and surveillance.

Sequencing of SARS-CoV-2 - first update, 18 January 2021 - EN - [PDF-592 KB]
  • Coronavirus
  • COVID-19
  • Diagnostic test
  • EU/EEA
  • Laboratories
  • Laboratory based surveillance
  • Microbiology
  • Molecular typing
  • Public health threat
  • Surveillance
  • Whole genome sequencing

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