Josefa Antón Botella
University of Alicante
Spain
Overview
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Course overview
This course will provide a global overview of the different metagenomic approaches to study microbial communities, covering methods for the functional search of genes, sequencing of metagenomes using the most recent technologies and in silico methods for sequence analysis.
During the course, participants will receive an overview of state-of-the-art genomic technologies and bioinformatic tools. A balanced approach of lectures and practical sessions will provide a general background and the latest advancements in the field as well as its relationship with other disciplines.
The course will begin with experimental training in functional metagenomics by preparing metagenomic libraries for gene searching. Metagenomic DNA will be isolated from soil samples to analyze bacterial diversity in situ by third generation
sequencing (Nanopore). Cutting-edge single-cell microbial genomics using microfluidics will be addressed.
Additionally, students will learn bioinformatics analysis of metagenomic data
sets, from raw sequences to the application of algorithms. Follow-up practical exercises and sessions to discuss experimental design will allow students to learn and test their knowledge.
In summary, this course will allow participants to work through the entire workflow, from sample preparation to in silico data analysis.
Audience
This course is aimed at advanced PhD students and post-doctoral researchers who are doing or planning to start research in the field of metagenomics.
Modules/resources
- Experimental design
- Extraction of metagenomic DNA
- Construction of metagenomic libraries
- Single-cell microbial genomics
- 3rd generation sequencing (Nanopore)
- Bioinformatic analysis of metagenomic data: data standards and submission, processing of raw data, assembly, functional annotation, overview of databases, retrieval and analysis tools.
Learning outcomes
- Construct your own metagenomic library
- Analyse and organise your data
- Interpret results, explore different databases, use different retrieval and analysis tools
- Sequence analysis
What past participants say about the course
“This course gave me the opportunity to learn from my coursemates and understand the software used in metagenomics. The speakers were friendly and are always ready to answer our research questions, and provide us with valuable advice and comments.” – Lee Hwei Huih, The University of Hong Kong
This event has been granted the following EMBO sustainability badge:
Speakers, trainers, and staff
Vladimir Benes
EMBL Heidelberg
Germany
Karine Clément
National Institute for Health and Medical Research (Inserm)
France
Giuseppe D’Auria
FISABIO Sequencing and Bioinformatics
Spain
José Eduardo González-Pastor
Centro de Astrobiología (CSIC-INTA)
Spain
Daniel Huson
Tübingen University
Germany
Varsha Kale
EMBL-EBI Hinxton
UK
Kostas Konstantinidis
Georgia Institute of Technology
USA
Arantxa López López
Hospital Can Misses
Spain
Mireia Osuna Lopez
EMBL Heidelberg
Germany
Hilal Ozgur
EMBL Heidelberg
Germany
Gabrielle Potocki-Veronese
French National Institute for Agricultural Research (INRA)
France
Jan Provaznik
EMBL Heidelberg
Germnay
Mariana Reyes Prieto
FISABIO Sequencing and Bioinformatics
Spain
Luis-Miguel Rodriguez-R
University of Innsbruck
Austria
Laura Villacorta
EMBL Heidelberg
Germany
Kristian Vlahovicek
University of Zagreb
Croatia
Tobias Wenzel
Pontificia Universidad Católica de Chile
Chile
Scientific organisers
Vladimir Benes
EMBL Heidelberg
Germany
Giuseppe D’Auria
FISABIO Sequencing and Bioinformatics
Spain
José Eduardo González-Pastor
Centro de Astrobiología (CSIC-INTA)
Spain
Elisabeth Zielonka
EMBL Heidelberg
Germany
Course organisers
Maria Bacadare
Course and Conference Team Lead
EMBL Heidelberg
Germany
Swetlana Krez
Scientific Training Officer
Swetlana Krez
EMBL Heidelberg
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Media kit
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Date: 7 - 14 Apr 2025
Location: EMBL Heidelberg
Venue: EMBL Advanced Training Centre
Organisers:
-
Vladimir Benes
EMBL Heidelberg, Germany -
Giuseppe D´Auria
FISABIO Sequencing and Bioinformatics Service, Spain -
José Eduardo González-Pastor
Center of Astrobiology (CSIC/INTA), Spain -
Elisabeth Zielonka
EMBL Heidelberg, Germany
Contact: Maria Bacadare
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