Microbial Genomics Training in Rome

Microbial genomics and metagenomics integrate sequencing technologies with computational analysis to profile microbial communities, characterize genomes, and identify functional traits such as antimicrobial resistance.

This instructor-led live training, available online or onsite, is designed for beginner to intermediate-level researchers and bioinformaticians seeking to conduct hands-on analysis of microbial genomics and metagenomic sequencing data.

Upon completion of this training, participants will be able to:

• Describe standard sequencing workflows and the key file formats used in microbial genomics.
• Conduct quality control and preprocessing of raw NGS reads.
• Perform taxonomic profiling using marker-based and k-mer approaches.
• Assemble and annotate microbial genomes and plasmids.
• Detect SNPs, construct phylogenies, and interpret population structure.
• Predict antimicrobial resistance genes and summarize functional profiles.
• Implement reproducible workflows using Conda, Docker, and notebook-based reporting.

Course Format

• Lectures covering concepts and tools (20%).
• Hands-on practical sessions using example datasets (60%).
• Open discussions and guided analysis to allow participants to apply methods to their own data (20%).

Course Customization Options

• For a customized workshop focusing on clinical, environmental, or industrial metagenomics, please contact us to arrange.