Detailed information about the course
Metabarcoding Pipeline Building
20. - 24.04. 2020
Ms Rachel Korn, UNIFR
Dr Magdalena Steiner, Agroscope, Wädenswil
Prof. Gerhard Thallinger, Technical University of Graz
Rachel Korn, UNIFR
Dr Magdalena Steiner, Agroscope Wädenswil
Introduction to metabarcoding
· DNA extraction
· Internal controls (positive, negative)
· Primer choice (16S, 18S, ITS…)
· NGS technologies (Illumina, IonTorrent, PacBio)
· Sequencing variants, data formats
· FASTQ format
· Reference databases (SILVA, greengenes, PR2, …)
· Amplicon sequence variants (ASV/ESV) vs. operational taxonomic units (OTU)
Pipeline: OTU construction (mothur)
Pipeline: ASV construction (dada2)
Analysis (R, main packages: phyloseq & vegan)
University of Fribourg, Boulevard de Pérolles 90, building 21/22, rooms G314 & G514 1700 Fribourg
Full attendance and active participation.
Make sure to sign the attendance list each and every day!
University of Fribourg, Boulevard de Pérolles 90, building 21/22, rooms G314 & G514
The course is organized in collaboration with the CUSO Microbiology, CUSO StarOmics and UNINE Organismal Biology Doctoral Programs.
16 places in total (4 for each program)
PhD students of the CUSO Microbiologie are eligible for reimbursement of incurred travel expenses by train (half-fare card, and 2nd class). Please send the original tickets along with the reimbursement form to:
Andrea BsharyCUSO Microbiologie
NO reimbursement of your meal expenses
Regarding reimbursement of accommodation, please contact the coordinator of the doctoral program (ecologie-evolution(at)cuso.ch) BEFORE the beginning of the course. NO reimbursement of accommodation without the coordinator of the doctoral program agreement prior of the course.
Registration will open in January.
To register, please use your MyCUSO account!
|Deadline for registration||20.03.2020|