Introductory Genome Engineering Workshop
Introductory Genome Engineering Workshop
22 January, 26 February, 4 & 29 March 2024, each time from 10h - 14h
General context
The session of 22 January in Leuven will be postponed, because the trainer is ill.
After organizing several successful symposia on genome engineering and CRISPR in the last years, VIB Training now offers a hands-on genome engineering workshop. After an introduction to CRISPR (history, biology and applications), we will focus on two experiments:
- NHEJ experiment in maize
- HDR editing experiment in yeast
NHEJ experiment:
- Designing amplicons before conducting experiment and general QC
- gRNA design (design rules, efficiency, predicting indel outcomes...)
- Performing and analyzing genotyping results with Sanger-based approaches
- Off-target analysis
HDR editing experiment:
- gRNA design, choice and rationale, importance of PAM distance in HR editing
- donor design
- predictions don’t always reflect reality , understand different reasons for variable efficiencies between gRNAs
- learn about challenges of HDR editing and different ways to surmount them
The training will be a combination of lectures by internal experts, practicals and discussion on the obtained results. The introduction will be covered by video material that will be available on the VIB e-learning platform. There will be four half day hands-on sessions that will take place in Leuven and in Ghent (alternating), and in between there will be some assignments for the participants (genotyping, summarize results, reading assigned articles and preparing short presentations in groups). Please note that you will need a lab at your disposal for the assignments. We estimate that the additional amount of work outside of the course will be 8 hours.
Note that if you register, we expect you to participate in all 4 sessions.
PhD students, technicians and postdocs interested in learning more on the practical aspects of genome engineering. Preferably those with little or no experience in CRISPR.
Introduction to Benchling and Geneious.
- This course is free for VIB participants
- Registration fee for non-VIB academics is 300 euro including VAT.
- This course is not open for industry.
- Lunch will be provided.
- Note that upon no show without valid justification you will be blacklisted for the VIB training program for 1 year. Click here for more information.
The mix between theory and practical sessions was very good. It helps if you can apply the theory immediately to see if you really understand/can apply the knowledge. Also positive that the course was on-site and not in a too large group.
Participant edition 2022
Trainers
Sibylle Vonesch
Sibylle Vonesch obtained her PhD from ETH Zurich, Switzerland, in 2015. During her doctoral studies with Ernst Hafen, she employed genome-wide approaches to study how intra-species genome variation shapes hereditary traits. In 2015, she joined Lars Steinmetz’s group in Heidelberg, Germany, as a postdoctoral researcher, where her work focused on genomics and the development of multiplexed genome editing technologies in the yeast S. cerevisiae. In 2021, she established the Laboratory for Genome Editing and Systems Genetics at KU Leuven and the VIB-KU Leuven Center for Microbiology. Her team develops CRISPR-based high-throughput genome editing tools for microbes and applies them in large-scale genetic screens to study fundamental principles in molecular and complex trait genetics.
Thomas Jacobs
Program
Perform a NHEJ experiment – part 1 (22 January 2024, 10h - 14h, Leuven)
Design a gRNA and target site for knock-out of maize genes.
Assignment:
- Test genotyping primers and propose gRNAs for KO
- Genotype supplied sample DNA and bring results to class
Perform a NHEJ experiment – part 2 (26 February 2024, 10h - 14h, Ghent)
Evaluation of sequencing results.
Assignment: Summarize results and prepare a report on indel efficiency and off-target effects.
HDR editing experiment – part 1 (4 March 2024, 10h -14h, Leuven)
Insertion of PTCs and missense alleles via single nucleotide changes in the yeast ADE2 gene:
- gRNA design for HDR mediated precision editing, efficiency and off-target potential
- importance of PAM distance for HR editing, alternative Cas nucleases
- donor design
Assignment: Read assigned HDR boosting article and prepare short presentation in groups.
HDR editing experiment – part 2 (29 March 2024, 10h - 14h, Ghent)
Determine efficiency (visual read-outs and sequencing results) with different guides/target sites and compare.
Comparison predicted/obtained efficiencies, reasons for variable efficiencies between guides.
Discussion on strategies to boost HDR
Practical info
22 January 2024 - 04 March 2024
Leuven - Park Inn by Radisson
Martelarenlaan 36
3010 Leuven
Belgium
26 February 2024 - 29 March 2024
Ghent - Clemenspoort
Overwale 3
9000 Ghent
Belgium
22 January 2024 - 04 March 2024
Leuven - Park Inn by Radisson
The hotel is located 300m from Leuven Central Station, just a short 5 minute walk.
26 February 2024 - 29 March 2024
Ghent - Clemenspoort
The Clemenspoort, the Clemenshuis, and the Clemenshof are integrated into a network of other buildings on the grounds of the former Redemptorist monastery, now the Overwale street.
Located just 250 meters from Ghent St. Pieters Station.
22 January 2024 - 04 March 2024
Leuven - Park Inn by Radisson
Using your bike for longer distances? Check Cycle Highways.
26 February 2024 - 29 March 2024
Ghent - Clemenspoort
40 bike parking lots available.
22 January 2024 - 04 March 2024
Leuven - Park Inn by Radisson
Underground P1-Parking Station Leuven, Martelarenlaan 4, 3010 Leuven or parking De Bond, Martelarenlaan 18, 3010 Leuven.
26 February 2024 - 29 March 2024
Ghent - Clemenspoort
Parking facilities available (€ 1.80 per hour). GPS address: Sint-Denijslaan 251. Take the driveway of the HoGent Sports Hall (not the HoGent Campus) and drive all the way to the end - past the HoGent parking areas. If you are registered in the 411 app, activate your license plate under the option 'Garage parking via license plate'. The barrier will open automatically, and payment will be processed via 4411.
22 January 2024 - 04 March 2024
Leuven - Park Inn by Radisson
+32 16 61 66 02
sales.leuven@parkinn.com
26 February 2024 - 29 March 2024
Ghent - Clemenspoort
+32 476 46 10 40