Single-Course English 5 ECTS

The threat from antimicrobial resistance

Overall Course Objectives

The course provides a multi-disciplinary approach combining the disciplines of conventional microbiology, whole genome sequencing and bioinformatics to determine antimicrobial resistance in bacteria. Antibiotic resistance will be evaluated both pheno- and geno-typically, and bioinformatics software will be applied to further characterize bacterial genomes in relation to development and transmission of antimicrobial resistance.

The student will upon completion of the course i) be able to perform phenotypically antimicrobial susceptibility testing, ii) be able to perform whole genome sequencing of DNA from bacteria, iii) be able to conduct bioinformatics analyses to determine the taxonomic identity, as well as presence of antimicrobial resistance and virulence genes, and iv) be able to interpret the analytic results with the purpose to explain concerns and actions.

Learning Objectives

  • Describe the history and classification of antimicrobials
  • Describe the mode of actions of antimicrobials and the biological mechanisms of resistance
  • Explain the emerging threat of antimicrobial resistance to critical important drugs including drug usage in a One Health context
  • Outline different surveillance and monitoring systems for antimicrobial resistance
  • Perform qualitative and quantitative antimicrobial susceptibility testing including quality control measurements
  • Perform library preparation and whole genome sequencing of bacterial isolates
  • Perform bioinformatics analysis and characterization of single genomes including taxonomic and type identification, prediction of plasmid and antimicrobial resistance genes, and cluster analysis
  • Identification of clusters and possible transmission routes of analyzed bacterial pathogens
  • Utilize the knowledge acquired to elucidate the level and spread of antimicrobial resistance
  • Evaluate possibilities and actions to hamper or limit further transmission of antimicrobial resistance

Course Content

The course provides a multi-disciplinary approach to assess the antimicrobial resistance in bacterial pathogens to understand the emerging global threat.

The course will focus on the theoretical background of development of antimicrobials, as well as the, modes of action, mechanisms, classification, epidemiology, treatment, usage, mobile elements, bacterial physiology and acquisition of resistance, methodologies in antimicrobial susceptibility testing and interpretation of phenotypic susceptibility data.

The course will give hands-on laboratory experience in both conventional antimicrobial susceptibility testing and whole genome sequencing technology of single bacterial isolates. Further, introduce bioinformatics analysis to determine antimicrobial resistance in bacteria and to characterize bacterial genomes in a One Health context.

Recommended prerequisites

27002/27008/27051/36626/23205/23258, Requires basic knowledge in microbiology, microbial physiology and biochemistry. Basic skills/experience related to microbial cultivation, PCR and molecular microbiology will be a benefit.

Teaching Method

Approx. 40% lectures (both traditional lecturing and e-learning), 30% hands on laboratory work (antimicrobial susceptibility testing and sequencing), 30% project based bioinformatic group work on case studies



It is mandatory to participate in the laboratory activities.

Limited number of seats

Minimum: 10, Maximum: 30.

Please be aware that this course has a minimum requirement for the number of participants needed, in order for it to be held. If these requirements are not met, then the course will not be held. Furthermore, there is a limited number of seats available. If there are too many applicants, a pool will be created for the remainder of the qualified applicants, and they will be selected at random. You will be informed 8 days before the start of the course, whether you have been allocated a spot.

See course in the course database.





3 weeks




DTU Lyngby Campus

Course code 23255
Course type Candidate
Semester start Week 32
Semester end Week 34
Days Mon-fri 8:00-17:00

7.500,00 DKK

Please note that this course has participants limitation. Read more