environmental DNA metabarcoding using Nanopore sequencing
Dates
21st March 2025
To foster international participation, this course will be held online
Course overview
This intensive 1-day course focuses on using Nanopore sequencing technology for environmental DNA (eDNA) metabarcoding. Participants will explore the flexibility and real-time capabilities of
Nanopore sequencing, gaining both theoretical insights and practical bioinformatics skills for analysing sequencing data. By the end of the course, participants will understand the experimental
and computational workflows necessary for conducting eDNA metabarcoding studies, enabling biodiversity monitoring in diverse environments.
Target audience
Designed for researchers, ecologists, and bioinformaticians interested in:
- Leveraging portable sequencing technologies for field studies.
- Conducting biodiversity assessments using eDNA.
- Developing or enhancing bioinformatics pipelines for metabarcoding.
Learning Outcomes
By the end of the course, participants will be able to:
- Understand the principles of Nanopore sequencing and its applications in eDNA metabarcoding.
- Implement bioinformatics workflows for processing and analysing eDNA sequencing data.
- Apply quality control, taxonomic assignment, and community composition analysis to real-world datasets.
Session content
Class from 9.30 to 13.30 CET
Session 1: Introduction to Nanopore Sequencing Technology
- Overview of Nanopore Sequencing
Principles and technology of Nanopore sequencing.
Advantages of portability and real-time analysis for field-based studies.
- Applications in Environmental Monitoring
Examples of eDNA metabarcoding in biodiversity and conservation studies.
- Library Preparation for eDNA Studies
Overview of library preparation workflows for Nanopore sequencing.
Session 2: Nanopore Data Handling and Bioinformatics Analysis
- Data Processing Workflow
Basecalling and Quality Control
Sequence Clustering and Consensus Generation
Alignment and Error Correction
Taxonomic Assignment and MOTU Analysis
- Hands-On Demonstration
Processing a real-world eDNA dataset
Workflow from raw FASTQ files to a final taxonomic classification table
Basic statistics and visualisation in R
COst overview
Cancellation Policy:
> 30 days before the start date = 30% cancellation fee
< 30 days before the start date= No Refund.
Physalia-courses cannot be held responsible for any travel fees, accommodation or other expenses incurred to you as a result of the cancellation.