ECDC WGS strategy and Roadmap for molecular and genomic surveillance V2.1

14th National Microbiology Focal Points meeting

Marc Struelens, Chief Microbiologist, Office of the Chief Scientist,

European Centre for Disease Prevention and Control

14th NMFP, Stockholm, 12-13 May 2016

Roadmap - V1.2, 2013 forintegration of molecular andgenomic typing into Europeanlevel surveillance andepidemic preparedness

2013

Concept paper: Surveillance of communicable diseases in Europe – a concept to integrate molecular typing data into EU-level surveillance. Stockholm ECDC; 2013.

2007

2016WGS Strategy and Roadmap - V2.1, 2016-19

• Drafted by ECDC cross-unit working group, October2015

• Peer-reviewed by external experts and the Moleculartyping for Surveillance Task Force (MSTF) and revisedwith minor modifications, November- December 2015

• Approved internally on January 2016

• Expected publication (June 2016)

ECDC strategy to harness whole genome sequencing to strengthen EU outbreak investigations and public health surveillance

ECDC vision on whole genome sequencing

• In five years’ time, ECDC will have contributed toestablish standards and manage systems enabling the EUwide use of whole genome sequencing (WGS) as themethod of choice for typing of microbial pathogens,replacing other methods.

• This will improve the accuracy and effectiveness ofdisease surveillance, outbreak investigation andevaluation of prevention policies by enhanced assessmentof disease and drug resistance transmission dynamics.

Source: ECDC Strategy to harness whole genome sequencing for strengthening EU outbreak investigations and public health surveillance, 2016 – in press.

• To map the WGS-based public health initiatives andengage partnerships;

• To promote integrated analysis of microbiological dataand epidemiological data;

• To provide guidance on and validation of WGS-basedmethods for surveillance;

• To support the Member States in performing thetransition to appropriate use of WGS;

• To develop, run and evaluate selected pilotimplementation studies.

ECDC strategy to harness whole genome sequencing to strengthen EU outbreak investigations and public health surveillance: objectives

Role of the Molecular Typing for Surveillance Task Force (MSTF)

• Composed of multi-disciplinary public heath experts fromthe National Focal Points for Microbiology and forSurveillance

• Support the revision of the ECDC strategy and roadmapfor integration of molecular/WGS typing into EU levelsurveillance:

– Evaluate the added value of molecular typing proposalsprepared by ECDC Disease Programmes

– Participate in Delphi process meeting in the process ofranking the roadmap disease priorities.

– Review the final draft of updated strategy androadmap.

MSTF ranking of public health need and EU-added value of molecular typing integration for surveillance and outbreak investigations

Roadmap V2.1 top priorities 2016-19

• EU wide WGS-based surveillance systems in thenear term:

– Continuous surveillance:

Listeria monocytogenes

Neisseria meningitidis

– Multi-annual pan-EU surveys:

Carbapenemase-producing Enterobacteriaceae

Antibiotic-resistant Neisseria gonorrhoeae

• WGS–based typing for investigation of cross-border foodborne outbreaks (Listeria, Salmonella,VTEC)

ECDC roadmap– version 2.1, 2016-2019

• Operationalisation of WGS-based surveillance systemsdeferred until the required technical capacity across theEU/EEA is met: human influenza virus, Salmonella enterica,Shiga-Toxin producing E. coli (STEC) and multidrug-resistantMycobacterium tuberculosis

• Further evidence of the opportunities and challenges: PCR-ribotyping for Clostridium difficile surveillance, and sequence-based surveillance of anti-viral drug resistance in humanimmunodeficiency virus (HIV) and Hepatitis C virus (HCV)

• Postpone until next roadmap revision in 2018: West Nilevirus (WNV) and meticilin-resistant Staphylococcus aureus (MRSA)

- WGS strategy

- Roadmap 2.1

- Work plan (annual)

- Business cases(multiannual)

- Updated DP proposals- (Post)-pilot indicators- Surveillance system- MS capacity

- Pilot or feasibility studies

- Routine

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Next steps

• Publication of the ECDC WGS strategy and updated roadmap – version 2.1: June 2016

• Infographics on WGS for Public Health

• Mapping Member States’ WGS capacity (Joana Revez presentation)

• Finalisation of three business cases

– Neisseria meningitidis

– Carbapenemase-producing Enterobacteriaceae

– Antibiotic-resistant Neisseria gonorrhoeae

• Evaluation of the roadmap implementation- indicators

Thank you for listening,

ECDC.Microbiology@ecdc.europa.eu