The 2nd „One Health meets Sequencing“ Symposium presents current and ongoing projects in One Health and Whole Genome Sequencing taking place in Switzerland, complemented by international experts discussing the latest scientific advances in the field. This year’s focus is on antimicrobial resistance, with several talks as well as a high-level panel discussion also relating scientific insights to practice, not least to questions of surveillance and outbreak management.
Expect an exciting day with the opportunity to exchange ideas with the attending scientists as well as national and international representatives from government bodies in the field of One Health and AMR surveillance. Accordingly, this event is aimed at scientists and clinicians as well as public health professionals who are interested in molecular epidemiology and usage of whole genome sequencing for One Health-related aspects.
FAMH credits and FMH credits will be organized
Further information: Email
University Hospital Basel
University Hospital Geneva
University of Zurich
Regular talks will be 15 min in length including 5 minutes for discussion. Keynote talks will be 30 min in length followed by 10 min discussion. Sessions will be moderated by experts in the field.
|08:00 – 08:10|
Adrian Egli (University Hospital Basel)
|08:10 – 08:40|
Joachim Frey (President Steering Committee National Research Programme „Antimicrobial Resistance“ (NRP 72))
Opening talk: Swiss wide perspective of resistance, one health and sequencing
|08:40 – 09:10|
Jean-Yves Madec (French Agency for Food, Environmental and Health Safety (Anses), Lyon, France, Member of the NRP 72 Steering Committee)
Opening talk: Current next-generation sequencing platforms and their potential to serving science and policy making in One Health questions
|09:10 – 09:20|
|09:20 – 09:40|
Valeria Gaia (Legionella reference center, Bellinzona)
Legionella in Switzerland
|09:40 – 10:00|
Helmut Bürgmann (EAWAG)
Antibiotic resistance from waste water treatment facilities in Swiss streams and rivers (NRP72 project)
|10:10 – 10:20|
Pascale Vonäsch (Swiss Tropical Institute)
Microbiome in nutrition
|10:20 – 10:40|
Markus Hilty (University of Bern)
Antibiotic resistance on Swiss pig farms (NRP72 project)
|10:40 – 11:00|
Break-Out / Discussion
|11:00 – 11:40|
Jesse Shapiro, University of Montreal, Canada
Keynote: WGS analysis for multidrug resistance pathogens
|11:40 – 12:20|
Thomas van Boeckel, ETH Zurich
Keynote: Modelling of “One Health” data
|12:20 – 13:50|
Break-out / Discussion / Lunch
|13:50 – 14:10|
Helena Seth-Smith (University Hospital Basel)
Communication of WGS data to public health and clinical experts – challenges and solutions
|14:10 – 14:30|
Maria-Theresia Stergiou-Gekenidis (Agroscope)
Metagenomics: Resistance on lettuce plants (NRP72 project)
|14:30 – 14:50|
Michael Biggel (Institut für Lebensmittelsicherheit und -hygiene der Universität Zürich)
Whole-genome sequencing to uncover bacterial determinants of severe E.coli urinary tract infections
|14:50 – 15:10|
Break-out / Discussion
|15:10 – 15:50|
To be determined
Keynote: SARS-CoV-2 and beyond: viral zoonotic diseases – where do we need to shift our attention in a post-COVID19 area
|15:50 – 16:10|
Break-out / Discussion
|16:10 – 16:30|
Aitana Lebrand (SIB)
Overview Swiss Pathogen Surveillance Platform (NRP72 project)
|16:30 – 16:50|
Diana Coman Schmid (ETH Zurich)
Data exchange in Switzerland for public health, research and beyond
|16:50 – 17:40|
Panel Discussion including Andreas Kronenberg: Head of project ANRESIS and Sophia Johler: President of the Swiss Society for Food Hygiene (SGLH)
|17:40 – 17:50|
Closing of session
Adrian Egli, Jacques Schrenzel and Roger Stephan
The link for participation will be sent out shortly before the event.
University of Zurich
Whole-genome sequencing has become a powerful tool to explore genetic determinants that affect disease outcome. In this talk, Michael presents recent findings from a large-scale genomic analysis of extraintestinal pathogenic Escherichia coli, the major cause of urinary tract and bloodstream infections. He explains how specific evolutionary events led to the emergence of E. coli lineages that frequently cause kidney infections and urosepsis and discusses how these results could improve clinical management.
The talk will give a perspective on handling sensitive biomedical data in secure computing environments. The special context is setup by the patient data, which has high legal and ethical requirements but also high and challenging computing demands. To offer top class services for Personalized Health Research, secure and powerful IT infrastructures for data storage, computing and sharing are a must. This is instrumental but not sufficient. What we also need in this diverse and dynamic ecosystem are innovative teams with hybrid expertise (for example, medicine, bioinformatics, IT). With the user experience as a central focus, the challenges are on finding the right balance between security and usability.
President Steering Committee National Research Programme „Antimicrobial Resistance“ (NRP 72)
In this talk, Joachim will draw a bridge from the former NRP 49 «Antibiotic Resistance» (2001-2006) to the current NRP 72 «Antimicrobial Resistance» (since 2016), and will, in doing so, review on the technological progress on bacterial genome analysis from PCR test to microchips and finally whole genome sequencing and its potential to improve diagnostics, therapy and prevention of infectious diseases. Based on his experience as head of the National Reference Centre for Anthrax NANT during the global anthrax scare, he demonstrates the value of whole genome sequencing to get detailed knowledge of spread of epidemics to pandemics. He shows that besides new technology, metadata on samples are essential in order to avoid misconception. This evocates the problematic on data management and legal measures to ultimately protect the individuals rather than data themselves.
University of Bern
Markus‘ main research focus is bacterial genomics: Microbiome and resistome. More specifically, his current interest is the investigation of the transmission pathways of resistant bacteria on Swiss pig farms using the ‚One Health‘ approach. The relevance of the composition of the microbiome for transmission is also taken into account.
SIB Swiss Institute of Bioinformatics
Multidrug-resistant (MDR) bacterial pathogens are one of the most important challenges for our society. The spread of highly virulent and resistant pathogens can be described using molecular typing technologies; in particular, whole genome sequencing (WGS) data can be used for molecular typing purposes with high resolution. WGS data analysis can explain the spatiotemporal patterns of pathogen transmission. However, the transmission between compartments (human, animal, food, environment) is very complex. Interoperable and standardized metadata are a key requirement for fully understanding this complexity, and high quality sequencing data is a key element for diagnostic and epidemiological applications. We implemented the Swiss Pathogen Surveillance Platform (SPSP), a molecular surveillance platform allowing integration of high resolution WGS typing and epidemiological data across multiple centers. In the context of the Covid-19 pandemic, this platform is also serving as a hub for Swiss SARS-CoV-2 sequencing data.
French Agency for Food, Environmental and Health Safety (Anses), Lyon, France, Member of the NRP 72 Steering Committee
In his talk, Jean-Yves will give an overview on the landscape of next-generation sequencing platforms and how they contribute to better integration of data between sectors (human, animal, environmental) – and therefore science and policy making. He will discuss overlaps of platforms, missing features, and the potential for integration in a One Health approach. Finally, he goes into greater detail about the new French ABRomics project and explains how it intends to achieve the ambitious goal of making accessible bacterial infectious disease (meta)genomics data and their associated clinical and epidemiological metadata to a broad research community.
University Hospital Basel and University of Basel
Helena has worked for many years in bacterial genomics: human, animal and zoonotic pathogens. Much of her current work has a clinical focus, and she has combined many interests in her current project exploring the sources of Campylobacter using whole genome sequencing.
We are what we eat. Antibiotic resistant bacteria and their resistance determinants can be transferred through foods to the consumer. Fresh produce, often consumed raw or minimally processed, is an ideal vector for such contaminants from the environment to humans. We therefore analyzed the microbiome and resistome of field-grown lettuce and its production environment during a whole growth season. In her talk, Maria-Theresia will shed light on which environment contributes most to shaping the lettuce plant’s bacterial communities and resistome.
University of Lausanne/ Swiss Tropical and Public Health Institute
Bridging experimental and clinical approaches, Pascale Vonaesch’s research interests are in tropical diseases with a focus on infection and nutrition. She is especially fascinated about the human intestinal ecosystem and the contribution of the microbiota to health and disease. Her current research is centered on the role of the microbiome in nutrition and nutrition-related disorders with the aim of developing microbiota-targeted interventions allowing all children a healthy growth.
In the talk she will present recent work on a specific bacterial signature associated with stunted child growth in Africa and discuss the pathophysiological changes induced by these bacteria leading to malabsorption. She will further also discuss the role of lifestyle and diet on the gut microbiota in African children.
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