Registration for in-person attendance at our Final Conference is now closed.
📢 Final AQUA-FAANG Conference
🗓️ 11-13 October 2023
📌 John McIntyre Conference Centre, Edinburgh, UK
We are happy to announce that the final AQUA-FAANG conference will take place 11th-13th October 2023 in Edinburgh, UK. This event will bring together the AQUA-FAANG consortium and stakeholders for the final time, providing a platform to showcase the results achieved over the past four and a half years.
The first two days of the conference will focus on dissemination of the main project results across our various work packages. The final day will centre on stakeholders and provide an overview of the major tools and applications that will impact the aquaculture industry in the short- and long-term future, with talks and perspectives from partners and collaborators in industry. You can find the draft program below or download it here.
Final AQUA-FAANG Conference: 11-13 October 2023, Edinburgh, UK
This is a draft program subject to modifications ahead of the conference
Day 1: Wednesday 11th October
9:00-9:10 Welcome and introduction: A short history of AQUA-FAANG
Sigbjørn Lien/Dan Macqueen
Session 1: Improving the functional annotation of farmed fish genomes, 9:10-12:10
9:10-9:30 Development of functional annotation assays
Matthew Peter Kent, NMBU
9:30-9:50 Ensembl regulation's annotation pipeline
Gabriela Merino, EMBL-EBI
9:50-10:10 Using Ensembl's regulatory annotation
Garth Ilsley, EMBL-EBI
Coffee break 10:10-10:40
10:40-11:00 Functional miRNA annotation in teleost fish
Julien Bobe, INRAe
11:00-11:10 Preliminary analyses of lncRNAs and muscle related ohnologues between AQUAFAANG species
Daniel Garcia de la serrana, University of Barcelona
11:10-11:30 An Atlas of regulatory elements and structural variants in Turbot: potential implications for improving farming
Paulino Martinez, USC
11:30-12:20 Celebrating 10 years of FAANG - From FAANG to Fork: Highly annotated genomes as resources to improve farmed animal production
Guest speaker: Emily Clark, University of Edinburgh - the EuroFAANG Research Infrastructure Project
Lunch 12:20-13:20
Session 2: The dynamic functional regulation of farmed fish genomes 13:00-17:00
13:20-13:40 Evolution of duplicated genome regulation in salmonids
Marie-Odile Baudement, NMBU
13:40-14:00 Gene expression and regulation across salmonid ontogeny
Diego Perojil Morata, Uni Edinburgh
14:00-14:20 Comparative regulomics gives insights into the conservation and evolution of regulatory elements following whole genome duplication in salmonids
Manu Kumar Gundappa, Uni Edinburgh
14:20-14:40 Linking divergence of salmonid gene expression to regulation
Gareth Gillard, NMBU
14:40-15:00 Differences in transcription initiation in early embryogenesis between Cyprinid species
Damir Baranasic, Imperial College London
Coffee break 15:00-15:30
15:30-16:00 Exploring the mechanisms behind allotetraploid genome regulation using carp as a model
Ada Jimenez-Gonzalez, Uni Birmingham
16:00-16:20 Genomic and cellular insights into antiviral responses and viral disease resistance in salmonid fishes
Thomas Clark, INRAe/Uni Aberdeen
16:20-16:40 Comparative regulomics in flatfish: from turbot to the main farmed Pleuronectiformes
Juan Rubiolo, USC
16:40-17:00 Dynamic gene expression and regulation during gilthead sea bream development
Elena Sarropoulou, HCMR
Drinks reception 18:00-19:00
Playfair Library, Old College, South Bridge, Edinburgh
Dinner 19:00
Playfair Library, Old College, South Bridge, Edinburgh
Day 2: Thursday 12th October
Session 3: Functional genomic basis for immune responses and disease resistance in farmed fish, 9:00-13:00
9:00-9:20 Genome functional annotation of host defense response in gilthead sea bream (Sparus aurata) through chromatin accessibility and differential gene expression assays
Costas Tsigenopoulos, HCMR
9:20-9:40 Transcriptome and chromatin landscape of European seabass immune response to viral-like stimulation
Serena Ferraresso, UNIPD
9:40-10:00 Functional genomic architecture of viral nervous necrosis disease resistance in farmed European seabass
Robert Mukiibi, University of Edinburgh
10:00-10:45 Guest Speaker, Decoding enhancer function: from the nucleosome to the nucleus
Guest Speaker: Wendy Bickmore, University of Edinburgh
Coffee break 10:45-11:20
11:20-11:40 Transcriptional differences in CyHV-3 response between resistant and susceptible common carp (Cyprinus carpio) crossings
Lukasz Napora-Rutkowski, ZIGR
11:40-12:00 Symmetric expression of ohnologs encoding conserved antiviral responses in tetraploid common carp suggest absence of subgenome dominance after whole genome duplication
Hendrik-Jan Megens, Wageningen University
12:00-12:20 Multiomics reveals the genomic regulatory landscape underlying the antiviral response in Atlantic salmon
Shahmir Naseer, University of Aberdeen
12:20-12:40 In vitro mutant models for functional characterization of genes of the type I IFN pathway in salmonids
Pierre Boudinot, INRAe
12:40-13:00: A turbot immune map: comparative response to bacteria and virus stimulation regarding previous genomics data on industrial pathogens
Oscar Aramburu, USC
Lunch 13:00-14:00
14:00-15:15 AQUA-FAANG 2.0: what’s next? Group discussion
Please note: this will involve simultaneous discussions among 5-6 breakout groups. We will therefore not stream this session for the online audience. The stream for day 2 ends at lunch time, 13:00 CET.
Pub quiz 16:30-18:30
Held at the Salisbury Arms, approximately 5 min walk from the conference centre
Free Evening - Self-arranged dinner and time to explore Edinburgh
Industry Day: Friday 13th October
Session 4: AQUA-FAANG relevance to industry, 9:00-11:10AM
9:00-9:15 Basic overview of AQUA-FAANG and its potential applications in industry
Sigbjørn Lien, NMBU
9:15-9:30 Ensembl gene annotation, regulation and variant effect prediction for aquaculture
Peter Harrison, EMBL-EBI
9:30-10:10 Accounting for overlapping annotations as biological priors in genomic prediction models of complex traits
Andrea Rau, INRAe - The GENE-SWitCH Project
10:10-10:50 Functional genomics and selective breeding in aquaculture: implications from the AQUA-FAANG project
Speakers: Diego Robledo, Sara Faggion, Robert Mukiibi
10:50-11:10 Developing a flexible, low cost, multifunctional genotyping solution for selective breeding in aquaculture
Rachael Wilbourn, Xelect
Coffee Break 11:10-11:40
Session 5: Perspectives from industry, 11:40-13:00
11:40-12:00 A way out of black box genomic selection
Antti Kause, LUKE - The AquaIMPACT project
12:00-12:20 Advancing selective breeding in aquaculture through the functional annotation of fish genomes
Mark Looseley, Xelect Ltd.
12:20-12:40 T.B.C
Tim Knutsen, AquaGen
12:40-13:00 Potential use of AQUA-FAANG results to develop different breeding programs in diverse aquaculture companies, increasing their efficiency, profitability and sustainability.Adrian Millan, GeneAqua
Lunch 13:00-14:00
14:00-15:00 Panel Discussion.
Covering the main talking points of day 3 and future perspectives for aquaculture sector
15:00-15:10 Final words and acknowledgements
More information about the conference venue and accommodation options is available here.
We look forward to welcoming you to Edinburgh in October!
📢 Final AQUA-FAANG Conference
🗓️ 11-13 October 2023
📌 John McIntyre Conference Centre, Edinburgh, UK
We are happy to announce that the final AQUA-FAANG conference will take place 11th-13th October 2023 in Edinburgh, UK. This event will bring together the AQUA-FAANG consortium and stakeholders for the final time, providing a platform to showcase the results achieved over the past four and a half years.
The first two days of the conference will focus on dissemination of the main project results across our various work packages. The final day will centre on stakeholders and provide an overview of the major tools and applications that will impact the aquaculture industry in the short- and long-term future, with talks and perspectives from partners and collaborators in industry. You can find the draft program below or download it here.
Final AQUA-FAANG Conference: 11-13 October 2023, Edinburgh, UK
This is a draft program subject to modifications ahead of the conference
Day 1: Wednesday 11th October
9:00-9:10 Welcome and introduction: A short history of AQUA-FAANG
Sigbjørn Lien/Dan Macqueen
Session 1: Improving the functional annotation of farmed fish genomes, 9:10-12:10
9:10-9:30 Development of functional annotation assays
Matthew Peter Kent, NMBU
9:30-9:50 Ensembl regulation's annotation pipeline
Gabriela Merino, EMBL-EBI
9:50-10:10 Using Ensembl's regulatory annotation
Garth Ilsley, EMBL-EBI
Coffee break 10:10-10:40
10:40-11:00 Functional miRNA annotation in teleost fish
Julien Bobe, INRAe
11:00-11:10 Preliminary analyses of lncRNAs and muscle related ohnologues between AQUAFAANG species
Daniel Garcia de la serrana, University of Barcelona
11:10-11:30 An Atlas of regulatory elements and structural variants in Turbot: potential implications for improving farming
Paulino Martinez, USC
11:30-12:20 Celebrating 10 years of FAANG - From FAANG to Fork: Highly annotated genomes as resources to improve farmed animal production
Guest speaker: Emily Clark, University of Edinburgh - the EuroFAANG Research Infrastructure Project
Lunch 12:20-13:20
Session 2: The dynamic functional regulation of farmed fish genomes 13:00-17:00
13:20-13:40 Evolution of duplicated genome regulation in salmonids
Marie-Odile Baudement, NMBU
13:40-14:00 Gene expression and regulation across salmonid ontogeny
Diego Perojil Morata, Uni Edinburgh
14:00-14:20 Comparative regulomics gives insights into the conservation and evolution of regulatory elements following whole genome duplication in salmonids
Manu Kumar Gundappa, Uni Edinburgh
14:20-14:40 Linking divergence of salmonid gene expression to regulation
Gareth Gillard, NMBU
14:40-15:00 Differences in transcription initiation in early embryogenesis between Cyprinid species
Damir Baranasic, Imperial College London
Coffee break 15:00-15:30
15:30-16:00 Exploring the mechanisms behind allotetraploid genome regulation using carp as a model
Ada Jimenez-Gonzalez, Uni Birmingham
16:00-16:20 Genomic and cellular insights into antiviral responses and viral disease resistance in salmonid fishes
Thomas Clark, INRAe/Uni Aberdeen
16:20-16:40 Comparative regulomics in flatfish: from turbot to the main farmed Pleuronectiformes
Juan Rubiolo, USC
16:40-17:00 Dynamic gene expression and regulation during gilthead sea bream development
Elena Sarropoulou, HCMR
Drinks reception 18:00-19:00
Playfair Library, Old College, South Bridge, Edinburgh
Dinner 19:00
Playfair Library, Old College, South Bridge, Edinburgh
Day 2: Thursday 12th October
Session 3: Functional genomic basis for immune responses and disease resistance in farmed fish, 9:00-13:00
9:00-9:20 Genome functional annotation of host defense response in gilthead sea bream (Sparus aurata) through chromatin accessibility and differential gene expression assays
Costas Tsigenopoulos, HCMR
9:20-9:40 Transcriptome and chromatin landscape of European seabass immune response to viral-like stimulation
Serena Ferraresso, UNIPD
9:40-10:00 Functional genomic architecture of viral nervous necrosis disease resistance in farmed European seabass
Robert Mukiibi, University of Edinburgh
10:00-10:45 Guest Speaker, Decoding enhancer function: from the nucleosome to the nucleus
Guest Speaker: Wendy Bickmore, University of Edinburgh
Coffee break 10:45-11:20
11:20-11:40 Transcriptional differences in CyHV-3 response between resistant and susceptible common carp (Cyprinus carpio) crossings
Lukasz Napora-Rutkowski, ZIGR
11:40-12:00 Symmetric expression of ohnologs encoding conserved antiviral responses in tetraploid common carp suggest absence of subgenome dominance after whole genome duplication
Hendrik-Jan Megens, Wageningen University
12:00-12:20 Multiomics reveals the genomic regulatory landscape underlying the antiviral response in Atlantic salmon
Shahmir Naseer, University of Aberdeen
12:20-12:40 In vitro mutant models for functional characterization of genes of the type I IFN pathway in salmonids
Pierre Boudinot, INRAe
12:40-13:00: A turbot immune map: comparative response to bacteria and virus stimulation regarding previous genomics data on industrial pathogens
Oscar Aramburu, USC
Lunch 13:00-14:00
14:00-15:15 AQUA-FAANG 2.0: what’s next? Group discussion
Please note: this will involve simultaneous discussions among 5-6 breakout groups. We will therefore not stream this session for the online audience. The stream for day 2 ends at lunch time, 13:00 CET.
Pub quiz 16:30-18:30
Held at the Salisbury Arms, approximately 5 min walk from the conference centre
Free Evening - Self-arranged dinner and time to explore Edinburgh
Industry Day: Friday 13th October
Session 4: AQUA-FAANG relevance to industry, 9:00-11:10AM
9:00-9:15 Basic overview of AQUA-FAANG and its potential applications in industry
Sigbjørn Lien, NMBU
9:15-9:30 Ensembl gene annotation, regulation and variant effect prediction for aquaculture
Peter Harrison, EMBL-EBI
9:30-10:10 Accounting for overlapping annotations as biological priors in genomic prediction models of complex traits
Andrea Rau, INRAe - The GENE-SWitCH Project
10:10-10:50 Functional genomics and selective breeding in aquaculture: implications from the AQUA-FAANG project
Speakers: Diego Robledo, Sara Faggion, Robert Mukiibi
10:50-11:10 Developing a flexible, low cost, multifunctional genotyping solution for selective breeding in aquaculture
Rachael Wilbourn, Xelect
Coffee Break 11:10-11:40
Session 5: Perspectives from industry, 11:40-13:00
11:40-12:00 A way out of black box genomic selection
Antti Kause, LUKE - The AquaIMPACT project
12:00-12:20 Advancing selective breeding in aquaculture through the functional annotation of fish genomes
Mark Looseley, Xelect Ltd.
12:20-12:40 T.B.C
Tim Knutsen, AquaGen
12:40-13:00 Potential use of AQUA-FAANG results to develop different breeding programs in diverse aquaculture companies, increasing their efficiency, profitability and sustainability.Adrian Millan, GeneAqua
Lunch 13:00-14:00
14:00-15:00 Panel Discussion.
Covering the main talking points of day 3 and future perspectives for aquaculture sector
15:00-15:10 Final words and acknowledgements
More information about the conference venue and accommodation options is available here.
We look forward to welcoming you to Edinburgh in October!
