The workshop is intended to introduce the emerging role of next-generation sequencing in clinical and public health microbiology and support the building of national and regional capacity in this area. Special focus will be placed on available sequencing technologies, their implementation in the microbiology laboratory settings, the use of various bioinformatics tools for analysing NGS outputs and clinical interpretation. Capacity building will take place using relevant exemplars such as surveillance of infection, outbreak investigation and control, antimicrobial resistance and food and water microbiology. Moreover, the course aims to create new networks between microbiologists, infectious disease specialists, bioinformaticians and other allied professions in the region in order to facilitate the application of NGS in the European neighbourhood.
60 – 100 microbiologists, epidemiologists, infectious disease specialists and bioinformaticians from hospital and public health settings from Middle Eastern, European, Balkan and African countries.
Joao Andre Carrico, Lisboa, Portugal
Alexander W. Friedrich, Groningen, Netherlands
Hajo Grundmann, Freiburg, Germany
Jacob Moran-Gilad, Beit Kama, Israel
John W. A. Rossen, Groningen, Netherlands
ESCMID Study Group for Epidemiological Markers - ESGEM
ESCMID Study Group for Genomic and Molecular Diagnostics - ESGMD
The organizer(s) of the course will apply for European CME accreditation through EACCME.

Speakers


Joao Andre Carrico, Lisboa, Portugal
Eric Claas, Leiden, Netherlands
Eddie Cytryn, Beit Dagan, Israel
Amparo Fernández-Rodríguez, Las Rozas de Madrid, Madrid, Spain
Alexander W. Friedrich, Groningen, Netherlands
Dag Harmsen, Münster, Germany
Colin R. MacKenzie, Düsseldorf, Germany
Jacob Moran-Gilad, Beit Kama, Israel
Maria Luisa Ricci, Rome, Italy
John W. A. Rossen, Groningen, Netherlands
Paul Savelkoul, Maastricht, Netherlands
Ines Steffens, Solna, Sweden

Contact Person (Scientific Programme)

Jacob Moran-Gilad
Ben-Gurion University of the Negev
Faculty of Health Sciences
Rager Blvd
84101 Beer-Sheva
Israel
+972 50-624-3900
giladko@post.bgu.ac.il

Administrative Secretariat

Reut Assor Zonens
Paragon Israel
Project Manager
15 Aba Even st
46851 Herzliya
Israel
+972 3-576-7708
rassor@paragong.com

Venue Info

Event Map
Venue Details
Daniel Herzliya Hotel
60 Ramat Yam, 46851 Herzliya
Israel
Phone: +972 9-952-8282
Fax: +972 9-952-8282
Email: res@tamareshotels.co.il

Course Programme



  1. 08:00 - 09:00
    Presentation
    Registration


  2. 09:00 - 09:30
    Presentation
    Welcome and Introduction of the Study Groups (ESGMD and ESGEM representatives)


  3. 09:30 - 10:15
    Presentation
    Overview of next-generation sequencing and new technologies in medical microbiology
    Speaker(s): Alexander W. Friedrich



  4. 10:15 - 11:00
    Presentation
    The basics of NGS I – overview of sequencing platforms and related equipment
    Speaker(s): Eric Claas



  5. 11:00 - 11:30
    Coffee Break
    Coffee break


  6. 11:30 - 12:15
    Presentation
    The basics of NGS II – nucleic acid extraction and library preparation for microbial NGS
    Speaker(s): John W. A. Rossen



  7. 12:15 - 13:00
    Presentation
    Interactive discussion I – how to set up wet NGS in the hospital microlab? (Panel of faculty members)
    Chairperson(s): Alexander W. Friedrich



  8. 13:00 - 14:00
    Lunch
    Lunch


  9. 14:00 - 14:45
    Presentation
    Overview of molecular typing approaches for bacterial pathogens
    Speaker(s): Joao Andre Carrico



  10. 14:45 - 15:30
    Presentation
    Advanced NGS I – how to infer clinically relevant information from bacterial whole-genome sequences?
    Speaker(s): Jacob Moran-Gilad



  11. 15:30 - 16:00
    Coffee Break
    Coffee break


  12. 16:00 - 17:30
    Presentation
    Advanced NGS II – bacterial typing applications using NGS
    Speaker(s): Dag Harmsen



  1. 08:30 - 08:45
    Presentation
    Summary of day 1


  2. 08:45 - 09:15
    Presentation
    Case presentation I – NGS application for multi-resistant Gram-negative rods
    Speaker(s): Colin R. MacKenzie



  3. 09:15 - 09:45
    Presentation
    Case presentation II – NGS application for hospital outbreaks
    Speaker(s): John W. A. Rossen



  4. 09:45 - 10:30
    Presentation
    Metagenomics I – NGS application for microbiome analysis
    Speaker(s): Paul Savelkoul



  5. 10:30 - 11:00
    Coffee Break
    Coffee break


  6. 11:00 - 11:45
    Presentation
    Metagenomics II – applications in water systems
    Speaker(s): Maria Luisa Ricci



  7. 11:45 - 12:30
    Presentation
    Metagenomics III – applications in environmental surveillance of resistance
    Speaker(s): Eddie Cytryn



  8. 12:30 - 13:30
    Lunch
    Lunch


  9. 13:30 - 14:15
    Presentation
    Metagenomics IV – application for forensic microbiology
    Speaker(s): Amparo Fernández-Rodríguez



  10. 14:15 - 15:00
    Presentation
    Industry talks


  11. 15:00 - 15:30
    Presentation
    Case presentation III – NGS applications for One Health challenges
    Speaker(s): Jacob Moran-Gilad



  12. 15:30 - 16:15
    Presentation
    Interactive discussion II – interpretation of NGS findings – the clinical point of view (Panel of faculty members)
    Chairperson(s): Dag Harmsen



  13. 16:15 - 17:00
    Presentation
    Interactive discussion III – quality issues in implementing new technology in the microlab (Panel of faculty members)
    Chairperson(s): Eric Claas



  14. 18:00 - 22:00
    Social Activity
    Social event and dinner


  1. 08:30 - 08:45
    Presentation
    Summary of day 2


  2. 08:45 - 09:30
    Presentation
    Bioinformatics I – international databases of genomes and genes, quality issues of bacterial genomes
    Speaker(s): Joao Andre Carrico



  3. 09:30 - 10:30
    Presentation
    Interactive discussion IV – I have sequenced a bacterial genome – what is next? (Panel of faculty members)
    Chairperson(s): Joao Andre Carrico



  4. 10:30 - 11:00
    Coffee Break
    Coffee break


  5. 11:00 - 11:45
    Presentation
    Bioinformatics II – graphical representation of WGS analysis
    Speaker(s): Joao Andre Carrico



  6. 11:45 - 12:30
    Presentation
    Considerations in publication of NGS-based studies – reflections from Eurosurveillance
    Speaker(s): Ines Steffens



  7. 12:30 - 13:00
    Presentation
    Concluding remarks & farewell

29-Sep-2017
500
650
The fee includes the full scientific programme, coffee breaks, lunches, social activity and the conference dinner. Travel and accommodation are not included.
16-Aug-2017
30-Aug-2017