Graduate School of health and Medical Sciences

Infection Microbiology: Antimicrobial Resistance and Molecular Typing
Provider: Faculty of Health and Medical Sciences

Activity no.: 3125-19-00-01	There are no available seats
	Enrollment deadline: 18/02/2019

Date and time	18.03.2019, at: 00:00 - 29.03.2019, at: 17:00
Regular seats	16
Course fee	14,400.00 kr.
Lecturers	Arshnee Moodley
ECTS credits	6.00

Contact person	Arshnee Moodley E-mail address: asm@sund.ku.dk

Enrolment Handling/Course Organiser	PhD administration E-mail address: phdkursus@sund.ku.dk

Aim and content This course is free of charge for PhD students at Danish universities (except Copenhagen Business School). All other participants must pay the course fee. Anyone can apply for the course, but if you are not a PhD student, you will be placed on the waiting list for the course until enrollment deadline. After the deadline of enrollment, available seats will be allocated to students on the waiting list. Learning objectives The objective of the course is to give the students a thorough understanding of antimicrobial resistance. What it is? How does it develop and spread? And what is the public health impact? By studying transmission of antimicrobial resistant bacteria, we will use traditional and state of the art typing methods including whole genome sequencing. A student who has met the objectives of the course will be able to: Knowledge: Evaluate the different tools used to identify and type antimicrobial resistant in bacteria Describe genes and epidemiology of clinically relevant antimicrobial resistant bacteria Interpretation of whole genome sequencing data and what can one do with such data Gain insight into the peer review process Skills: Hands on experience with different antimicrobial resistance testing methods used in clinical microbiology diagnostic and research labs Hands on experience with different typing methods including next generation sequencing Hands on experience with bioinformatics analysis of whole genome sequencing data How to perform critical peer review of scientific articles How to design an experiment using basic epidemiological concepts e.g. sample size calculations, random sampling, the different study design types Competences: Knowledge gained can be extrapolate to other bacteria species Collaboration with fellow students when performing and evaluating laboratory experiments Critical analysis of results and interpretations Content This course provides an introduction to antimicrobial resistance and how we measure resistance. The significance and impact of antimicrobial resistance in human and veterinary medicine, and the Danish agricultural industry are also covered. We will introduce participants to basic concepts and current methods used for antimicrobial resistance testing and bacterial strain typing. Within the area of antimicrobial resistance, both phenotypic (antimicrobial susceptibility testing and detection of specific resistance phenotypes of clinical importance) and genotypic (identification and typing of resistance genes and their associated mobile genetic elements) analyses will be addressed by lectures and lab practicals. Furthermore, in the lab, we will attempt to evolve antimicrobial resistance in clinically significant bacteria as well as investigating non-antibiotic alternative strategies to fight antibiotic resistant infections e.g. bacteriophages. For bacterial typing, we will cover commonly used molecular techniques we use in our lab, including sequence-based methods e.g, single gene sequencing (S. aureus spa typing) and whole genome sequencing. The theoretical and practical teaching is concentrated in a 2-week period. Lectures and laboratory exercises are integrated and linked to 2-3 real life clinical case stories (problem-based learning) to make the course more interesting, stimulating and relevant. In addition, students will be given a basic introduction to some commonly used bioinformatics tools e.g. QC of NGS data, sequence assembly and alignment, determining MLST types, in silico antibiotic resistance determination, and analysis of bacterial whole genome sequencing data, and have an opportunity to spend an afternoon with an epidemiologist to learn about good epidemiological study designs. Participants PhD students require a basic knowledge of microbiology Relevance to graduate programmes The course is relevant to PhD students from the following graduate programmes at the Graduate School of Health and Medical Sciences, UCPH: Molecular Bacteriology and Infection Pharmaceutical Science Clinical Research Veterinary and Animal Sciences. Language English Form Lectures, laboratory work, group discussions, journal club, poster presentations Course director Arshnee Moodley, asm@sund.ku.dk, Department of Veterinary and Animal Sciences/Section for Veterinary Clinical Microbiology Teachers Staff at the Department of Veterinary and Animal Sciences as well as scientists from other research institutions in Denmark and from other countries Dates 18.03.19-29.03.19 Course location Department of Veterinary and Animal Sciences, Stigbøjlen 4, 1870 Frederiksberg C Registration Please register before 18 February 2019 – contact Arshnee (asm@sund.ku.dk) after deadline for registration if seats are available Note: All applicants are asked to submit invoice details in case of no-show, late cancellation or obligation to pay the course fee (typically non-PhD students). If you are a PhD student, your participation in the course must be in agreement with your principal supervisor.

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