Program

The Program (Hybrid sessions in italics) Download here

Day 1, Monday, February 3

8:45 - 9:15: Welcome

G2P research for domesticated animals within the European research landscape – Chair: Tina Hartwig (FBN, Germany)

9:15 - 9:30: Two years into EuroFAANG – Results, Services and Impact – Tina Hartwig (FBN, Germany)

9:30 - 9:45: What’s next? Merging EuroFAANG and PhenoLive to GenoPHEnix - Etienne Labussière (INRAE, France)

9:45 - 10:15: Coffee break

10:15 – 10:40: In vitro G2P "3Rs" research in domesticated species - Elisabetta Giuffra (INRAE, France)

10:40 - 12:30: Program outline, round table introduction of lecturers and trainers, and pitches of individual participant (option recorded videos) - Moderator: Giorgia Egidy (INRAE, France)

12:30 - 13:30: Lunch

Biobanking and in vitro genome editing (theory, research examples and practice) – Chair: Richard Crooijmans (WUR, Netherlands)

13:30 - 13:50: Biobanking in vitro models - Michele Tixier-Boichard (INRAE, France)

13:50 - 14:10: Genome editing in fish cell lines: investigating genes involved in the antiviral response - Bertrand Collet (INRAE, France)

14:10 - 17:00: Practical session - Session 1: Processing animal tissues (move to building 320)

OR

- Session 3b (Light sheet imaging)

OR

 Session 4: Culture, transfection and imaging of fish cell lines  

17:00 - 17:45: Snack / Hanging posters

Day 2, Tuesday, February 4

Genome editing (theory, research examples and practice) – Chair: Giorgia Egidy (INRAE, France)

9:00 - 9:30: Extending whole genome screening to non-model organisms - Victor Boyartchuk (NMBU, Norway)

9:30 – 10:10: High throughput phenotypic screens in livestock species - Finn Grey (Univ. Edinburgh, UK)

10:10 - 10:30: Coffee break

10:30 – 12:30: Practical session

- Session 2: Design of CRISPR/Cas9 experiment (Univ. Edinburgh)

 12:30 - 13:30: Lunch

Metadata and standards for G2P research (theory, research examples and practice) – Chair: Christiaan Henkel (NMBU, Norway)

13:30 - 14:00: Developing metadata and standards for G2P research – examples from the FAANG Consortium (Emily L. Clark, EMBL-EBI, UK)

14:00 - 16:30: Practical session - Session 5: Metadata standards (EMBL-EBI)

16:30-17:00: Organoids: a tool for studying gastrointestinal tract diseases in porcine models - Tatiana Flisikowska (TUM, Germany)

17:00 - 17:45: Snack / exchanges at posters room

Day 3, Wednesday, February 5

G2P in organoids 1 (theory, research examples and practice) – Chair: Remark Temali (EFFAB, Belgium)

9:00 - 12:00: Practical session - Session 3a Culture, transfection and imaging of pig organoids (moving to Building 320)

OR

- Session 1 repeated (moving to Building 320)

OR

- Session 4 repeated

10:10 - 10:30: Coffee break (both at Building 440 and at Building 320)

12:00 - 12:30: From Pluripotent Stem cells to organoids in domestic animals, an overview - Bertrand Pain (INRAE, France)

12:30 - 13:30: Lunch

Analysis of single cell data (theory, research examples and practice) – Chair: Pierre Boudinot (INRAE, France)

13:30 - 14:00: Which cell types do I have in my sample? Using single cell sequencing to assess and compare cell composition in tissue and organoids - Ole Madsen (WUR, Netherlands)

14:00 - 17:00: Practical session - Session 6: Single-cell data analysis: organoids vs. tissues (WUR)

17:00: Departure (by train) for Social Dinner in Paris

22:00: return by bus from Paris to hotels

Day 4, Thursday, February 6

In vitro vs. in vivo G2P research and the links to industry - Chair: Huaijun Zhou (UC-Davis, USA)

9:00 - 9:30: Genome-edited mammals as part of the H2020 RUMIGEN project and as a tool for studying G2P in farm animals - Eric Pailhoux (INRAE, France)

9:30 - 10:00: Advanced intestinal in vitro platform for the functional characterization of feeds in aquaculture - Fulvio Gandolfi (Univ. Milan, Italy)

10:00 - 10:30: In vitro models for comparative embryology - Ramiro Alberio (Univ. Nottingham, UK).

10:30 - 10:50: Coffee break

10:50 - 11:20: Incorporating functional annotation genomics data in animal breeding applications - Derek Bickhart (Hendrix Genetics, Netherlands)

11:20 - 11:50: Facilitating the uptake of in vitro methods in research and testing - Maurice Whelan (European Commission Joint Research Centre – JRC, Italy)

11:50 - 12:30: Round Table 1: Routes to more widespread applications of in vitro G2P - Chair: Emily Clark (EMBL-EBI, UK)

12:30 - 13:30: Lunch

G2P in organoids - 2 (theory, research examples and practice) – Chair: Michele Tixier-Boichard (INRAE, France)

13:30 - 16:30: Practical session - Session 3a repeated (moving to Building 320)

OR

- Session 3b repeated.

16:30 - 17:00: Comparative genomics and cell physiology insights into resilience at the organismal level - Carla Bonetti Madelaire (S. Diego Zoo, USA)

17:00 - 17:45 Snack / exchanges at posters room

Day 5, Friday, February 7

Wrapping up: outcomes of the workshop and future perspectives - Chair: Elisabetta Giuffra (INRAE, France)

9:00 - 10:00: Practical session - Sessions 3a and 4: visualize results in lab

10:00 - 10:20 Coffee break

10:20 - 11:30: Discussion within and between Training Paths.

11:30 - 12:30: Round table 2: In vitro vs. in vivo G2P research - which perspectives? Chair: Huaijun Zhou (UC-Davis, USA)

12:30 - 13:30: Lunch

13:30 - 14:00: Conclusions and Closing

Below, you will find the list of the practical sessions (Table 1). Several sessions are organized in 4 training paths (Table 2). Each pathway requires different skills (see Table 3). See also the  program

IMPORTANT : Arrival on Sunday 2 Feb. evening is highly recommended to be able to reach Jouy-en-Josas in due time on Monday.