AQUAculture infrastructures for EXCELlence in EUropean fish research 3.0

Project Information

AQUAEXCEL3.0

Grant agreement ID: 871108

DOI

10.3030/871108

EC signature date 2 March 2020

Start date 1 November 2020

End date 31 October 2025

Funded under

• EXCELLENT SCIENCE - Research Infrastructures

Total cost

€ 9 981 122,34

EU contribution

€ 9 981 113,75

Coordinated by

INSTITUT NATIONAL DE RECHERCHE POUR L'AGRICULTURE, L'ALIMENTATION ET L'ENVIRONNEMENT
France

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Deliverables

Documents, reports (8)

Portfolio of communication and dissemination resources and tools

Standard operating procedures (SOPs) for new cellular pre-screening tools

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Template for Impact Plan to collect project outputs

Review of biotelemetry in aquaculture research

Existing and emerging technologies available for welfare indicators monitoring

Preparation of specific recipients for GSC transfer

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Initial evaluation of the Access given

Survey of TNA users hosts reviewers and SP Members

Dissemination and Exploitation Plan

Other (3)

TNA Application Package including online application & review system

Full set of materials to promote TNA provide guidance on the RIs and means of access terms and conditions and expected outputs

TNA Monitoring & Reporting online System

ARIAbased system including a repository for project documents and publications

Standardized protocol for real-time microbiome monitoring in fish experimental facilities

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Publications

Peer reviewed articles (37)

Isolation and Characterization of Highly Pure Type A Spermatogonia From Sterlet (Acipenser ruthenus) Using Flow-Cytometric Cell Sorting

Author(s): Xuan Xie, Tomáš Tichopád, Galina Kislik, Lucie Langerová, Pavel Abaffy, Radek Šindelka, Roman Franěk, Michaela Fučíková, Christoph Steinbach, Mujahid Ali Shah, Ivo Šauman, Fan Chen and Martin Pšenička
Published in: Frontiers in Cell and Developmental Biology, 2021, ISSN 2296-634X
Publisher: Frontiers Media
DOI: 10.3389/fcell.2021.772625

Production of common carp donor-derived offspring from goldfish surrogate broodstock

Author(s): Roman Franěk, Vojtěch Kašpar, Mujahid Ali Shah, David Gela, Martin Pšenička
Published in: Aquaculture, Issue 534, 15 March 2021, 736252, 2021, ISSN 0044-8486
Publisher: Elsevier BV
DOI: 10.1016/j.aquaculture.2020.736252

Understanding how high stocking densities and concurrent limited oxygen availability drive social cohesion and adaptive features in regulatory growth, antioxidant defense and lipid metabolism in farmed gilthead sea bream (Sparus aurata)

Author(s): Holhorea PG, Naya-Català F, Belenguer Á, Calduch-Giner JA, Pérez-Sánchez J
Published in: Frontiers in Physiology, Issue 14, 2023, Page(s) 1272267, ISSN 1664-042X
Publisher: Frontiers Research Foundation
DOI: 10.3389/fphys.2023.1272267

Microhomology-mediated end-joining Knock-In approaches to delete the allergenic domain of trout parvalbumin beta-1. Preliminary results in F0 animals and feedback

Author(s): Veronique Lebret, Cecile Duret, Amaury Herpin, Pierre-yves Rescan
Published in: Open Research Europe, Issue 4, 2025, Page(s) 235, ISSN 2732-5121
Publisher: F1000 Research Ltd
DOI: 10.12688/openreseurope.18223.1

Growth performance, swimming capacity, and fillet quality in rainbow trout fed a transgene-derived omega-3 and carotenoid-enriched oil

Author(s): Pauline Wischhusen, Angelico Madaro, Malthe Hvas, Richard Broughton, Lihua Han, Karla Fernandez Quiroz, Kasidis Chaiyasut, Akhil Gupta, Rolf Erik Olsen, Stéphanie Fontagné-Dicharry, Johnathan A. Napier, Mónica B. Betancor
Published in: Aquaculture, Issue 604, 2025, Page(s) 742453, ISSN 0044-8486
Publisher: Elsevier BV
DOI: 10.1016/j.aquaculture.2025.742453

Fish microbiomics: Strengths and limitations of MinION sequencing of gilthead sea bream (Sparus aurata) intestinal microbiota

Author(s): Toxqui-Rodríguez S, Naya-Català F, Sitjà-Bobadilla A, Piazzon MA, Pérez-Sánchez J
Published in: Aquaculture, Issue 569, 2023, Page(s) 739388, ISSN 0044-8486
Publisher: Elsevier BV
DOI: 10.1016/j.aquaculture.2023.739388

Who is the best surrogate for germ stem cell transplantation in fish?

Author(s): Roman Franěk, Yu Cheng, Michaela Fučíková, Vojtěch Kašpar, Xuan Xie, Mujahid Ali Shah, Otomar Linhart, Ivo Šauman, Martin Pšenička
Published in: Aquaculture, Issue 549, 2022, ISSN 0044-8486
Publisher: Elsevier BV
DOI: 10.1016/j.aquaculture.2021.737759

Cutting-Edge Methods in Teleost and Chondrichthyan Reproductive Biology

Author(s): Alejandro S. Mechaly, Cynthia Awruch, Elsa Cabrita, Benjamín Costas, Jorge M.O. Fernandes, Victor Gallego, Jorge Hirt-Chabbert, Ioannis Konstantinidis, Catarina Olivera, Sandra Ramos-Júdez, Lourenço Ramos-Pinto, Elvira Fatsini
Published in: Reviews in Fisheries Science & Aquaculture, Issue 33, 2024, Page(s) 77-112, ISSN 2330-8249
Publisher: Taylor and Francis Ltd.
DOI: 10.1080/23308249.2024.2377999

Moving Beyond Oxford Nanopore Standard Procedures: New Insights from Water and Multiple Fish Microbiomes

Author(s): Ricardo Domingo-Bretón, Federico Moroni, Socorro Toxqui-Rodríguez, Álvaro Belenguer, M. Carla Piazzon, Jaume Pérez-Sánchez, Fernando Naya-Català
Published in: International Journal of Molecular Sciences, Issue 25, 2024, Page(s) 12603, ISSN 1422-0067
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms252312603

Cold-shock androgenesis in common carp (Cyprinus carpio)

Author(s): Vojtěch Kašpar; Martin Hubálek; Martin Pšenička; Katsutoshi Arai; John B. Taggart; Roman Franěk
Published in: Aquaculture, Issue 548, 2022, ISSN 0044-8486
Publisher: Elsevier BV
DOI: 10.1016/j.aquaculture.2021.737610

Salmonid Double-stranded RNA–Dependent Protein Kinase Activates Apoptosis and Inhibits Protein Synthesis

Author(s): Lise Chaumont, Mathilde Peruzzi, François Huetz, Claudine Raffy, Jérôme Le Hir, Jules Minke, Pierre Boudinot, Bertrand Collet
Published in: The Journal of Immunology, Issue 213, 2025, Page(s) 700-717, ISSN 0022-1767
Publisher: American Association of Immunologists
DOI: 10.4049/jimmunol.2400076

Are bold-shy personalities of European perch (Perca fluviatilis) linked to stress tolerance and immunity? A scope of harnessing fish behavior in aquaculture

Author(s): Tatyana Gebauer, Radek Gebauer, Petr Císař, Jan Černý, Deepali Rahi Roy, Mahyar Zare, Marieke Verleih, Vlastimil Stejskal, Alexander Rebl
Published in: Fish & Shellfish Immunology, Issue online on 27th October 2023, 2023, Page(s) 109190, ISSN 1050-4648
Publisher: Academic Press
DOI: 10.1016/j.fsi.2023.109190

Production of donor-derived Atlantic salmon progeny using allogeneic surrogate broodstock technology

Author(s): Lene Kleppe, Diego Crespo, Hilal K. Güralp, Jean-Jacques Lareyre, Kai Ove Skaftnesmo, Fernando Ayllon, Thomas W.K. Fraser, Per Gunnar Fjelldal, Tom J. Hansen
Published in: Aquaculture, Issue 608, 2025, Page(s) 742752, ISSN 0044-8486
Publisher: Elsevier BV
DOI: 10.1016/j.aquaculture.2025.742752

SAMBA: Structure-Learning of Aquaculture Microbiomes using a Bayesian Approach

Author(s): Beatriz Soriano, Ahmed Ibrahem Hafez, Fernando Naya-Català, Federico Moroni, Roxana Andreea Moldovan, Socorro Toxqui-Rodríguez, M. Carla Piazzon, Vicente Arnau, Carlos Llorens, Jaume Pérez-Sánchez
Published in: Genes, Issue 14, 2024, Page(s) 1650, ISSN 2073-4425
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.1101/2022.12.30.522281

Mitochondria as indispensable yet replaceable components of germ plasm: insights into PGCs specification in sturgeons

Author(s): Linan Gao, Roman Franěk, Tomáš Tichopád, Marek Rodina, David Gela, Radek Šindelka, Taiju Saito, Martin Pšenička
Published in: Reproduction, Issue 169, 2025, ISSN 1470-1626
Publisher: Society for Reproduction and Fertility
DOI: 10.1530/rep-24-0441

A Web-Based Platform for Efficient and Robust Simulation of Aquaculture Systems using Integrated Intelligent Agents

Author(s): Aya Saad, Biao Su, Finn Olav Bjørnson
Published in: Procedia Computer Science, Issue 225 (2023), 2023, Page(s) 4560-4569, ISSN 1877-0509
Publisher: Elsevier
DOI: 10.1016/j.procs.2023.10.454

Unexpected regulatory functions of cyprinid Viperin on inflammation and metabolism

Author(s): Lise Chaumont, Luc Jouneau, François Huetz, Doret R. van Muilekom, Mathilde Peruzzi, Claudine Raffy, Jérôme Le Hir, Jules Minke, Pierre Boudinot, Bertrand Collet
Published in: BMC Genomics, Issue 25, 2024, ISSN 1471-2164
Publisher: BioMed Central
DOI: 10.1186/s12864-024-10566-x

Enhancement of zebrafish sperm production via a large body-sized surrogate with germ cell transplantation

Author(s): Rigolin Nayak, Roman Franěk, Radek Šindelka, Martin Pšenička
Published in: Communication biology, Issue Volume 6, 14th April 2023, 2023, ISSN 2399-3642
Publisher: Nature
DOI: 10.1038/s42003-023-04800-7

Effect of a loss of the mda5/ifih1 gene on the antiviral resistance in a Chinook salmon Oncorhynchus tshawytscha cell line

Author(s): Catherine Collins, Lise Chaumont, Mathilde Peruzzi, Nedim Jamak, Pierre Boudinot, Julia Béjar, Patricia Moreno, Daniel Álvarez Torres, Bertrand Collet
Published in: PLOS ONE, Issue 19, 2024, Page(s) e0311283, ISSN 1932-6203
Publisher: Public Library of Science
DOI: 10.1371/journal.pone.0311283

Effects of dietary co-exposure to fungal and herbal functional feed additives on immune parameters and microbial intestinal diversity in rainbow trout (Oncorhynchus mykiss)

Author(s): Julia Mougin, Victor P. Lobanov, M. Danion, R. Roquigny, L. Goardon, T. Grard, T. Morin, L. Labbe, Alyssa Joyce
Published in: Fish & Shellfish Immunology, Issue Volume 137, June 2023, 108773, 2023, ISSN 1050-4648
Publisher: Academic Press
DOI: 10.1016/j.fsi.2023.108773

Optimization of in vitro culture conditions of common carp germ cells for purpose of surrogate production

Author(s): Xuan Xie; Roman Franěk; Martin Pšenička; Fan Chen; Vojtech Kašpar
Published in: Frontiers in Veterinary Science, Issue 9-2022, 2022, ISSN 2297-1769
Publisher: Front.Vet.Sci.
DOI: 10.3389/fvets.2022.1036495

Effects of a plant-based diet from first feeding on the intestinal expression of nutrient sensors in rainbow trout (Oncorhynchus mykiss)

Author(s): Cristina Fernández-Maestú, Jessica Calo, Maud Martinat, José L. Soengas, Jerome Roy, Ayelén M. Blanco
Published in: Aquaculture, Issue 599, 2025, Page(s) 742093, ISSN 0044-8486
Publisher: Elsevier BV
DOI: 10.1016/j.aquaculture.2024.742093

Genome-wide comparative methylation analysis reveals the fate of germ stem cells after surrogate production in teleost

Author(s): Rigolin Nayak, Roman Franěk, Audrey Laurent, Martin Pšenička
Published in: BMC Biology, Issue 22, 2024, ISSN 1741-7007
Publisher: BioMed Central
DOI: 10.1186/s12915-024-01842-z

Xenotransplantation of European Eel (Anguilla anguilla) Spermatogonia in Zebrafish (Danio rerio) and European Sea Bass (Dicentrarchus labrax)

Author(s): Marta Blanes-García, Zoran Marinović, Marina Morini, Alain Vergnet, Ákos Horváth, Juan F. Asturiano
Published in: Fishes, Issue 9, 2025, Page(s) 290, ISSN 2410-3888
Publisher: MDPI AG
DOI: 10.3390/fishes9070290

Nanopore‐Enabled Microbiome Analysis: Investigating Environmental and Host‐Associated Samples in Rainbow Trout Aquaculture

Author(s): Giulia Zarantonello, Argelia Cuenca
Published in: Current Protocols, Issue 4, 2024, ISSN 2691-1299
Publisher: Wiley
DOI: 10.1002/cpz1.1069

Quantifying dominant bacterial genera detected in metagenomic data from fish eggs and larvae using genus-specific primers

Author(s): Babak Najafpour, Patricia I.S. Pinto, A.V.M. Canario, Deborah M. Power
Published in: Microbiology Open, Issue 11, 2022, Page(s) e1274, ISSN 2045-8827
Publisher: John Wiley and Sons Inc.
DOI: 10.1002/mbo3.1274

Behavioural Monitoring Underlines Habituation to Repeated Stressor Stimuli in Farmed Gilthead Sea Bream (Sparus aurata) Reared at a High Stocking Density

Author(s): Paul G. Holhorea, Fernando Naya-Català, Ricardo Domingo-Bretón, Federico Moroni, Álvaro Belenguer, Josep À. Calduch-Giner, Jaume Pérez-Sánchez
Published in: Biology, Issue 13, 2024, Page(s) 879, ISSN 2079-7737
Publisher: MDPI
DOI: 10.3390/biology13110879

Early-life environmental enrichment promotes positive animal welfare for juvenile Atlantic salmon (Salmo salar) in aquaculture research

Author(s): Pamela M. Prentice, Mauro Chivite Alcalde, Petr Císař, Sonia Rey Planellas
Published in: Scientific Reports, Issue 15, 2025, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-025-88780-0

Fulvic acid modulates mucosal immunity in fish skin: Sustainable aquaculture solution or environmental risk factor?

Author(s): Thora Lieke, Vlastimil Stejskal, Sascha Behrens, Christian E.W. Steinberg, Thomas Meinelt
Published in: Journal of Hazardous Materials, Issue 467, 2024, Page(s) 133737, ISSN 0304-3894
Publisher: Elsevier BV
DOI: 10.1016/j.jhazmat.2024.133737

Effects of Hydrostatic Pressure Treatment of Newly Fertilized Eggs on the Ploidy Level and Karyotype of Pikeperch Sander lucioperca (Linnaeus, 1758)

Author(s): Jenő Káldy; Eszter Patakiné Várkonyi; Georgina Fazekas; Zoltán Nagy; Zsuzsanna Jakabné Sándor; Katalin Bogár; Gyula Kovács; Mariann Molnár; Bence Lázár; Katalin Goda; Zsuzsanna Gyöngy; Zsuzsanna Ritter; Péter Nánási; Ákos Horváth; Uroš Ljubobratović
Published in: Life; Volume 11; Issue 12; Pages: 1296, Issue 1, 2021, ISSN 2075-1729
Publisher: MDPI
DOI: 10.3390/life11121296

Effects of black soldier fly larvae oil on lipid metabolism, liver fatty acid composition, and plasma metabolite profiles in gilthead seabream juveniles

Author(s): Sara Moutinho, Óscar Monroig, Helena Peres, Andrea Villena-Rodríguez, Rui Magalhães, Lina Pulido-Rodríguez, Giuliana Parisi, Aires Oliva-Teles
Published in: Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular Biology, Issue 277, 2025, Page(s) 111069, ISSN 1096-4959
Publisher: Elsevier BV
DOI: 10.1016/j.cbpb.2024.111069

Precision formulation, a new concept to improve dietary amino acid absorption based on the study of cationic amino acid transporters

Author(s): Guillaume Morin, Karine Pinel, Cécile Heraud, Soizig Le-Garrec, Chloé Wayman, Karine Dias, Frédéric Terrier, Anthony Lanuque, Stéphanie Fontagné-Dicharry, Iban Seiliez, Florian Beaumatin
Published in: iScience, Issue 27, 2025, Page(s) 108894, ISSN 2589-0042
Publisher: Elsevier BV
DOI: 10.1016/j.isci.2024.108894

Evaluation of Post-Larval Diets for Indoor Weaned Largemouth Bass (Micropterus salmoides)

Author(s): Jovanka Lukić, Gergő Gyalog, Zoltán Horváth, Anita Annamária Szűcs, Tijana Ristović, Amarela Terzić-Vidojević, Zsuzsanna J. Sándor, Uroš Ljubobratović
Published in: Animals, Issue 13, 2023, Page(s) 3179, ISSN 2076-2615
Publisher: MDPI AG
DOI: 10.3390/ani13203179

Differential Reshaping of Skin and Intestinal Microbiota by Stocking Density and Oxygen Availability in Farmed Gilthead Sea Bream (Sparus aurata): A Behavioral and Network-Based Integrative Approach

Author(s): Toxqui-Rodríguez S, Holhorea PG, Naya-Català F, Calduch-Giner JÀ, Sitjà-Bobadilla A, Piazzon C, Pérez-Sánchez J
Published in: Microorganisms, Issue 12, 2024, Page(s) 1360, ISSN 2076-2607
Publisher: MDPI
DOI: 10.3390/microorganisms12071360

Intestinal microbiota shifts by dietary intervention during extreme heat summer episodes in farmed gilthead sea bream (Sparus aurata)

Author(s): R. Domingo-Bretón, S. Cools, F. Moroni, A. Belenguer, J.A. Calduch-Giner, E. Croes, P.G. Holhorea, F. Naya-Català, H. Boon, J. Pérez-Sánchez
Published in: Aquaculture Reports, Issue 40, 2025, Page(s) 102566, ISSN 2352-5134
Publisher: Elsevier BV
DOI: 10.1016/j.aqrep.2024.102566

Revising the Impact and Prospects of Activity and Ventilation Rate Bio-Loggers for Tracking Welfare and Fish-Environment Interactions in Salmonids and Mediterranean Farmed Fish

Author(s): Calduch-Giner J, Holhorea PG, Ferrer MÁ, Naya-Català F, Rosell-Moll E, Vega García C, Prunet P, Espmark ÅM, Leguen I, Kolarevic J, Vega A, Kerneis T, Goardon L, Afonso JM, Pérez-Sánchez J.
Published in: Frontiers in Marine Science, Issue 9, 2022, Page(s) 854888, ISSN 2296-7745
Publisher: Frontiers Media
DOI: 10.3389/fmars.2022.854888

Are the Main Methionine Sources Equivalent? A Focus on DL-Methionine and DL-Methionine Hydroxy Analog Reveals Differences on Rainbow Trout Hepatic Cell Lines Functions

Author(s): Karine Pinel, Cécile Heraud, Guillaume Morin, Karine Dias, Annaëlle Marcé, Linda Beauclair, Stéphanie Fontagné-Dicharry, Karthik   Masagounder, Martina Klünemann, Iban Seiliez and Florian Beaumatin
Published in: International Journal of Molecular Sciences, Issue Semimonthly, 2022, ISSN 1422-0067
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms23062935