Join Tania Aires and David Palecek for an interactive workshop on microbiome data analysis, covering the entire pipeline from Illumina amplicon sequencing raw data to statistical analysis and visualization. Learn essential concepts and tools to preprocess data with QIIME2 and analyze microbiome communities using MicrobiomeAnalyst and Phyloseq, in particular bacteria associated with marine organisms.
Short Synopsis:
We will provide an overview of microbiome data analysis starting from raw Illumina amplicon sequences. First processing steps will follow QIIME2 (https://qiime2.org) tutorial. Visualizations and basic statistical analysis will be performed in MicrobiomeAnalyst (https://microbiomeanalyst.ca) and advanced statistical testing will be suggested in PhyloSeq (R studio, https://joey711.github.io/phyloseq). The use case will compare bacterial microbiomes of different species of the same marine organism.
Target audience and Requirements:
This workshop is suitable for researchers (from students to senior scientists) and lab technicians across scientific disciplines (e.g., Biology, Chemistry) who want to learn how to conduct and analyse microbiome taxonomy studies. QIIME2, RStudio access or installation is required. Participants should bring their own laptops. Assistance with setup will be provided as needed.
Workshop Structure (2 Hours):
Introduction Lecture (30 minutes)
- Importance of studying the microbiome?
- Metabarcoding workflow
- Introduction to QIIME2
- Different ways to explore and visualize your data
Hands-on Practice (60 minutes)
- QIIME2 tutorial (building a manifest file, metadata file, import data, quality filter, join read pairs, denoising, abundance table construction, taxonomy assignment)
- Exploratory data analysis (Using Microbiome Analyst – Alpha-diversity, PCA, LefSe, heatmaps)
- PhyloSeq statistics in R studio
Extra Tasks, Q&A, and Wrap-up (30 minutes)
- Next steps
- Open Q&A and mentoring
📅 Date: May 7th, 15:00-17:00.
📍 Location: University of Algarve, Gambelas Campus, Building 7, Room 1.39.
💻 Coverage: QIIME2, MicrobiomeAnalyst, Phyloseq.
Requirements: HPC account (contact David Palecek, dpalecek@ualg.pt) for running QIIME2, R studio for Phyloseq.
Gain the skills to explore and interpret microbiome data effectively!
🏆 Why Join?
✅ Hands-on learning with expert guidance
✅ Practical examples using real-world biological datasets
✅ Interactive Q&A and mentoring opportunities
✅ Build a strong foundation in bioinformatics universe of tools
Don’t miss this chance to boost your data-handling skills!
We look forward to seeing you there! 🚀
NOTE: Members of CIMAR-LA (CCMAR and CIIMAR) have the same access conditions.
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