- Course overview
- Search within this course
- What is antimicrobial resistance?
- How do we study pathogens?
- Public pathogen data
- A guide to the Pathogens Portal
- Identification and investigation of antimicrobial resistance genes
- Looking for antimicrobial resistance genes in different environments
- Data sharing
- The future of AMR
- Crossword: Test your knowledge
- Your feedback
- Further resources
- Help and support
- Glossary
- References
All materials are free cultural works licensed under a Creative Commons Attribution 4.0 International (CC BY 4.0) license, except where further licensing details are provided.
Test your knowledge
Now you have learnt all about the different steps involved in genome assembly let’s put your knowledge into practice. In this exercise, you will work through questions that simulate a sequence analysis workflow, with each question representing a crucial step in the process.
Before you begin, take a moment to read through the scenario below, which outlines the premise of the activity and your objectives.
| You are a bioinformatician in the clinical microbiology team at your local hospital. Recently, several patients have presented with infections that are not responding to standard antibiotic treatments, and the outbreak is spreading quickly. The hospital’s infectious disease unit suspects that a bacterial pathogen with antibiotic resistance is behind this outbreak. Quick and accurate identification of the pathogen is crucial to inform treatment decisions and prevent further transmission. The microbiology lab has successfully cultured the organism from one of the patients, and the sequencing team has just delivered the raw whole-genome sequencing data. Now, it’s up to you and your team to analyse the data to identify the pathogen and uncover any antibiotic resistance genes it might carry. |
Continue onto the next page to begin the questions. Make sure to choose your answers carefully – the accuracy of your analysis could make all the difference!