Capacity-building Workshop: Whole Genome Sequencing for ESBL

Capacity‐building Workshop: Whole Genome Sequencing for ESBL‐ and Carbapenemase‐producing Enterobacteriaceae th
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October 8 – 10 , 2014, UMCG Groningen Workshop Programme Wednesday, 8th of October Meeting room: Lokaal 10 (OWC) & 3214.0214 (practicumzaal) Practical day – Wet laboratory Time Subject 08.30 – 08.35 Welcome (John Rossen) 08.35 – 09.05 Next generation epidemiology in hospitals and beyond … (Alex Friedrich) 09.05 – 09.15 Introduction of the day (John Rossen)
09.15 ‐ 10.45 Microbial whole genome sequencing (sample and library preparation, sequencing), Part I 10.45 ‐ 11.15 Coffee Break 11.15 ‐ 12.45 Microbial whole genome sequencing (sample and library preparation, sequencing), Part II 12.45 ‐ 13.30 Lunch 13.30 ‐ 15:00 Microbial whole genome sequencing (sample and library preparation, sequencing), Part III 15.00 ‐ 15.15 Coffee Break 15.15 ‐ 17.00 Microbial whole genome sequencing (sample and library preparation, sequencing), Part IV Thursday, 9th of October Meeting room: 3214.0081 Scientific talks Time Subject 09.00 ‐ 09.30 General overview of bacterial population structures (Hajo Grundmann) 09.30 ‐ 10.00 Sequence analysis of antibiotic resistance plasmids in Gram‐negative bacteria (Willem van Schaik) 10.00 ‐ 10.30 Unravelling the diversity of Klebsiella pneumonia by WGS (Christine Boinett) 10.30 ‐ 11.00 Coffee break 11.00 ‐ 11.30 The genetic population structure of the genus Klebsiella (Sylvain Brisse) 11.30 ‐ 12.00 One disrupting technology fits it all – Towards standardized bacterial whole genome sequencing for global surveillance (Dag Harmsen) 12.00 ‐ 13.30 Lunch 13.30 ‐ 14:15 Reconstructing phylogenies: experience with S. aureus (Matt Holden) 14:15 ‐ 15:00 Web‐applications for WGS data generated through European networks (David Aanensen) 15:00 ‐ 15.30 Coffee break 15.30 ‐ 16:15 Use of WGS in routine clinical microbiology – identification and risk assessment (John Rossen)
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Friday, 10th of October Meeting room: FMW 3215.0117 (Computerzaal 1:1) Practical day – Computer analysis Time Subject 08.30 ‐ 10.15 Computational data analysis and bioinformatic pipelines: SeqSphere+ (Dag Harmsen)
10.15 ‐ 10.45 Coffee break 10.45 ‐ 12.30 Computational data analysis and bioinformatic pipelines: SeqSphere+ and
unique signature tools (ssGeneFinder; Dag Harmsen) 12.30 ‐ 13.30 Lunch 13.30 ‐ 15.00 Web‐based Whole Genome Sequence Analysis for Pathogen Genomics (David Aanensen, Corin Yeats, Artemij Fedosejev) 15.00 ‐ 15.30 Coffee Break 15.30 ‐ 17.00 Computational data analysis and bioinformatic pipelines: Online tools (John Rossen) Faculty Members Name Willem van Schaik Sylvain Brisse Institution University Medical Center Utrecht
Institut Pasteur
David Aanensen Imperial College and Sanger Institute Matt Holden Christine Boinett Dag Harmsen Ana Budimir John Rossen Hajo Grundmann Alex Friedrich University of St. Andrews Sanger Institute University Medical Center Münster University of Zagreb
University Medical Center Groningen
University Medical Center Groningen
University Medical Center Groningen
City, Country Utrecht, the Netherlands Paris, France London/Cambridge, United Kingdom St. Andrews, United Kingdom Cambridge, United Kingdom Münster, Germany Zagreb, Croatia Groningen, the Netherlands
Groningen, the Netherlands
Groningen, the Netherlands
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Instructors Group Name of Instructor Group A Artur Sabat/Vika Akkerboom Group B Karola Prior Group C Kai Zhou Group D Erwin Raangs Group E Ruud Deurenberg Data Analyses Corin Yeats and Artemij Fedosejev Local Organization Ank Vugteveen Corinna Glasner 5
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