Metagenomics applied to surveillance of pathogens and antimicrobial resistance

Course Overview

What does this course tell?
(Please note that the following overview content is from the original platform)
The field of metagenomics and whole community sequencing is a promising area to unravel the content of microbial communities and their relationship to disease and antimicrobial resistance in the human population. Bioinformatic tools are extremely important for making sense out of metagenomics data, by estimating the presence of pathogens and antimicrobial resistance determinants in complex samples. Combined with relevant explanatory data, metagenomics is a powerful tool for surveillance. In this course, we teach about the potential of metagenomics for surveillance and give the learners an overview of the steps and considerations in a metagenomics study. After this course, the learners will know: - the difference between the concepts of metagenomics and other microbial genomics - the need to use controls in different steps of a metagenomics study - the advantages of metagenomics for the surveillance of antimicrobial resistance - how sampling design, sample size, sample material and sample handling influence the outcome of a metagenomics study - sample processing for bacterial and viral metagenomics - different sequencing platforms and their possibilities regarding metagenomics - the steps involved in a general metagenomics study, including quality control, mapping to different databases, and read count analysis - the principles behind various tools available for analysis of metagenomics data - how to interpret read classification results - the need for epidemiology in surveillance - the concept of global and integrated surveillance - the challenges for the use of metagenomics in surveillance - the potential of metagenomics for surveillance We look forward to welcoming you !

We considered the value of this course from many aspects, and finally summarized it for you from two aspects: skills and knowledge, and the people who benefit from it:
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What skills and knowledge will you acquire during this course?
During this course, learners will acquire the following skills and knowledge:
1. Understanding the difference between metagenomics and other microbial genomics concepts.
2. Recognizing the importance of using controls at different stages of a metagenomics study.
3. Understanding the advantages of metagenomics for surveillance of antimicrobial resistance.
4. Understanding how sampling design, sample size, sample material, and sample handling can influence the outcome of a metagenomics study.
5. Learning about sample processing techniques for bacterial and viral metagenomics.
6. Familiarizing with different sequencing platforms and their applications in metagenomics.
7. Understanding the steps involved in a general metagenomics study, including quality control, mapping to different databases, and read count analysis.
8. Gaining knowledge about various tools available for the analysis of metagenomics data.
9. Learning how to interpret read classification results.
10. Recognizing the importance of epidemiology in surveillance.
11. Understanding the concept of global and integrated surveillance.
12. Identifying the challenges associated with the use of metagenomics in surveillance.
13. Recognizing the potential of metagenomics for surveillance purposes.
Who will benefit from this course?
This course will benefit individuals in the field of microbiology, epidemiology, and public health who are interested in using metagenomics for surveillance of pathogens and antimicrobial resistance. Specifically, professionals such as microbiologists, epidemiologists, infectious disease specialists, and public health officials will find this course valuable.
By taking this course, learners will gain a comprehensive understanding of metagenomics and its applications in surveillance. They will learn about the differences between metagenomics and other microbial genomics approaches, and the importance of using controls in metagenomics studies. Learners will also understand the advantages of metagenomics for surveillance of antimicrobial resistance.
The course will cover various aspects of metagenomics study design, including sampling considerations, sample processing for bacterial and viral metagenomics, and different sequencing platforms suitable for metagenomics. Learners will also learn about the steps involved in a general metagenomics study, such as quality control, mapping to different databases, and read count analysis.
Furthermore, the course will introduce learners to bioinformatic tools used for analysis of metagenomics data, and teach them how to interpret read classification results. Learners will also gain an understanding of the importance of epidemiology in surveillance and the concept of global and integrated surveillance.