2025
Moroni F, Naya-Català F, Ibrahem Hafez A, Domingo-Bretón R, Soriano B, Llorens C, Pérez-Sánchez J.
Beyond microbial variability: Disclosing the functional redundancy of the core gut microbiota of farmed gilthead sea bream from a Bayesian network perspective.
Microorganisms 13, 198 (2025). https://www.mdpi.com/2076-2607/13/1/198
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Domingo-Bretón R, Cools S, Moroni F, Belenguer A, Calduch-Giner JA, Croes E, Holhorea PG, Naya-Català F, Boon H, Pérez-Sánchez J.
Intestinal microbiota shifts by dietary intervention during extreme heat summer episodes in farmed gilthead sea bream (Sparus aurata).
Aquaculture Reports 40:102566 (2025). https://www.sciencedirect.com/science/article/pii/S2352513424006549
2024
2023
Domingo-Bretón R, Moroni F, Toxqui-Rodríguez S, Belenguer A, Piazzon MC, Pérez-Sánchez J, Naya-Català F.
Moving Beyond Oxford Nanopore Standard Procedures: New Insights from Water and Multiple Fish Microbiomes.
International Journal of Molecular Sciences 25, 12603 (2024). https://www.mdpi.com/1422-0067/25/23/12603
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Holhorea P, Naya-Català F, Domingo-Bretón R, Moroni F, Belenguer Á, Calduch-Giner J, Pérez-Sánchez J.
Behavioral monitoring underlines habituation to repeated stressor stimuli in farmed gilthead sea bream (Sparus aurata) reared at a high stocking density.
Biology 13, 879 (2024). https://www.mdpi.com/2079-7737/13/11/879
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Belenguer A, Naya-Català F, Calduch-Giner JA, Pérez-Sánchez J.
Exploring multifunctional markers of biological age in farmed gilthead sea bream (Sparus aurata): A transcriptomic and epigenetic interplay for an improved fish welfare assessment approach.
International Journal of Molecular Sciences 25, 9836 (2024). https://www.mdpi.com/1422-0067/25/18/9836
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Fernandes AM, Calduch-Giner JA, Pereira GV, Gonçalves AT, Dias J, Johansen J, Silva T, Naya-Català F, Piazzon C, Sitjà-Bobadilla A, Costas B, Conceição LEC, Fernandes JMO, Pérez-Sánchez J.
Sustainable fish meal-free diets for gilthead sea bream (Sparus aurata): integrated biomarker response to assess the effects on growth performance, lipid metabolism, antioxidant defense and immunological status.
Animals 14, 2166 (2024). https://www.mdpi.com/2076-2615/14/15/2166
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Toxqui-Rodríguez S, Holhorea PG, Naya-Català F, Calduch-Giner JÀ, Sitjà-Bobadilla A, Piazzon C, Pérez-Sánchez J.
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.
Microorganisms 12:1360 (2024). https://www.mdpi.com/2076-2607/12/7/1360
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Simó-Mirabet P, Naya-Català F, Calduch-Giner JA, Pérez-Sánchez J.
The expansion of sirtuin gene family in gilthead sea bream (Sparus aurata) - Phylogenetic, syntenic, and functional insights across the vertebrate/fish lineage.
International Journal of Molecular Sciences 25, 6273 (2024). https://www.mdpi.com/1422-0067/25/11/6273
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Naya-Català F, Torrecillas S, Piazzon MC, Sarih S, Calduch-Giner J, Fontanillas, R, Hostins B, Sitjà-Bobadilla A, Acosta F, Pérez-Sánchez J, Montero D.
Can the genetic background modulate the effects of feed additives? Answers from gut microbiome and transcriptome interactions in farmed gilthead sea bream (Sparus aurata) fed with a mix of phytogenics, organic acids or probiotics.
Aquaculture, 586, 740770 (2024). https://www.sciencedirect.com/science/article/pii/S004484862400231X
Naya‑Català F, Belenguer A, Montero D, Torrecillas S, Soriano B, Calduch‑Giner J, Llorens C, Fontanillas R, Sarih S, Zamorano MJ, Izquierdo M, Pérez‑Sánchez J.
Broodstock nutritional programming differentially affects the hepatic transcriptome and genome‑wide DNA methylome of farmed gilthead sea bream (Sparus aurata) depending on genetic background.
BMC Genomics 24:670 (2023). https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-023-09759-7
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Holhorea PG, Naya-Català F, Belenguer Á, Calduch-Giner JA, Pérez-Sánchez J.
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).
Frontiers in Physiology 14:1272267 (2023). https://www.frontiersin.org/journals/physiology/articles/10.3389/fphys.2023.1272267/full
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Soriano B, Ibrahem Hafez A, Naya-Català F, Moroni F, Andreea Moldovan R, Toxqui-Rodríguez S, Piazzon MC, Arnau V, Llorens C, Pérez-Sánchez J.
SAMBA: Structure-Learning of aquaculture microbiomes using a Bayesian approach.
Genes 14(8), 1650 (2023). https://www.mdpi.com/2073-4425/14/8/1650
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Toxqui-Rodríguez S, Naya-Català F, Sitjà-Bobadilla A, Piazzon MA, Pérez-Sánchez J.
Fish microbiomics: Strengths and limitations of MinION sequencing of gilthead sea bream (Sparus aurata) intestinal microbiota.
Aquaculture 569, 739388 (2023). https://www.sciencedirect.com/science/article/pii/S004484862300162X
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Hafez AI, Soriano B, Elsayed AA, Futami R, Ceprian R, Ramos-Ruiz R, Martinez G, Roig, FJ, Torres-Font MA, Naya-Català F, Calduch-Giner JA, Trilla-Fuertes L, Gamez-Pozo A, Arnau V, Sempere, JM, Pérez-Sánchez J, Gabaldón T, Llorens C.
Client applications and Server-Side docker for management of RNASeq and/or VariantSeq workflows and pipelines of the GPRO Suite.
Genes 14, 267 (2023). https://www.mdpi.com/2073-4425/14/2/267
2022
Naya-Català F, Piazzon MC, Torrecillas S, Toxqui-Rodríguez S, Calduch-Giner JA, Fontanillas R, Sitjà-Bobadilla A, Montero D, Pérez-Sánchez J.
Genetics and nutrition drive the gut microbiota succession and host-transcriptome interactions through the gilthead sea bream (Sparus aurata) production cycle.
Biology 11:1744 (2022). https://www.mdpi.com/2079-7737/11/12/1744
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Piazzon MC, Naya-Català F, Pereira GV, Estensoro I, Del Pozo R, Calduch-Giner JA, Nuez-Ortín WG, Palenzuela O, Sitjà-Bobadilla A, Dias J, Conceiçao LEC, Pérez-Sánchez J.
A novel fish meal-free diet formulation supports proper growth and does not impair intestinal parasite susceptibility in gilthead sea bream (Sparus aurata) with a reshape of gut microbiota and tissue-specific gene expression patterns.
Aquaculture 558: 738362 (2022). https://www.sciencedirect.com/science/article/pii/S0044848622004781
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Naya-Català F, Piazzon MC, Calduch-Giner JÀ, Sitja-Bobadilla A, Pérez-Sánchez J.
Diet and host genetics drive the bacterial and fungal intestinal metatranscriptome of gilthead sea bream.
Frontiers in Microbiology 13:883738 (2022). https://www.frontiersin.org/journals/microbiology/articles/10.3389/fmicb.2022.883738/full
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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.
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.
Frontiers in marine Science 9:854888 (2022). https://www.frontiersin.org/journals/marine-science/articles/10.3389/fmars.2022.854888/full
2021
Naya-Català F, Wiggers GA, Piazzon MC, López-Martínez MI, Estensoro I, Calduch-Giner JA, Martínez-Cuesta MC, Requena T,Sitjà-Bobadilla A, Miguel M, Pérez-Sánchez J.
Modulation of gilthead sea bream gut microbiota by a bioactive egg white hydrolysate: Interactions between bacteria and host lipid metabolism.
Frontiers in Marine Science. 8:698484 (2021). https://www.frontiersin.org/journals/marine-science/articles/10.3389/fmars.2021.698484/full
Naya-Català F, do Vale Pereira G, Piazzon MC, Fernandes AM, Calduch-Giner JA, Sitjà-Bobadilla A, Conceição LEC, Pérez-Sánchez J.
The Cross-talk Between Intestinal Microbiota and Host Gene Expression in Juveniles of Gilthead Sea Bream (Sparus aurata). Insights in Fish Feeds for Increased Circularity and Resource Utilization.
Frontiers in Physiology 12:748265 (2021). https://www.frontiersin.org/journals/physiology/articles/10.3389/fphys.2021.748265/full
Naya-Català F, Simó Mirabet P, Calduch Giner J, Pérez Sánchez J.
Transcriptomic profling of Gh/Igf system reveals a prompted tissue specifc diferentiation and novel hypoxia responsive genes in gilthead sea bream.
Scientific Reports 11:16466 (2021). https://www.nature.com/articles/s41598-021-95408-6
Varó I, Osorio K, Estensoro I, Naya-Català F, Sitjà-Bobadilla A, Navarro JC, Pérez-Sánchez J, Torreblanca A, Piazzon MC.
Effect of virgin low density polyethylene microplastic ingestion on intestinal histopathology and microbiota of gilthead sea bream.
Aquaculture 545:737245 (2021). https://www.sciencedirect.com/science/article/pii/S004484862100908X
Solé-Jiménez P, Naya-Català F, Piazzon MC, Estensoro I, Calduch-Giner JÀ, Sitjà-Bobadilla A, Van Mullem D, Pérez-Sánchez J.
Reshaping of gut microbiota in gilthead sea bream fed microbial and processed animal proteins as the main dietary protein source.
Frontiers in Marine Science 8: 705041 (2021). https://www.sciencedirect.com/science/article/pii/S004484862100908X
Naya-Català F, Martos-Sitcha JA, de las Heras V, Simó-Mirabet P, Calduch-Giner JÀ, Pérez-Sánchez J.
Targeting the mild-hypoxia driving force for metabolic and muscle transcriptional reprogramming of gilthead sea bream (Sparus aurata) juveniles.
Biology 10:416 (2021). https://www.mdpi.com/2079-7737/10/5/416
Moroni F, Naya-Català F, Piazzon MC, Rimoldi S, Calduch-Giner JÀ, Giardini A, Martínez I, Brambilla F, Pérez-Sánchez J, Terova G.
The effects of nisin-producing Lactococcus lactis strain used as probiotic on gilthead sea bream (Sparus aurata) growth, gut microbiota, and transcriptional response.
Frontiers in Marine Science 8:659519 (2021). https://www.frontiersin.org/journals/marine-science/articles/10.3389/fmars.2021.659519/full
Perera E, Rosell-Moll E, Martos-Sitcha JA, Naya-Català F, Simó-Mirabet P, Calduch-Giner JA, Manchado M, Afonso JM, Pérez-Sánchez J.
Physiological trade-offs associated with fasting weight loss, resistance to exercise and behavioral traits in farmed gilthead sea bream (Sparus aurata) selected by growth.
Aquaculture Reports 20: 100645 (2021). https://www.sciencedirect.com/science/article/pii/S2352513421000612
Perera E, Rosell-Moll E, Naya-Català F, Simó-Mirabet P, Calduch-Giner J, Pérez-Sánchez J.
Effects of genetics and early-life mild hypoxia on size variation in farmed gilthead sea bream (Sparus aurata).
Fish Physiology and Biochemistry 47, 121-133 (2021). https://link.springer.com/article/10.1007/s10695-020-00899-1
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2020
Piazzon MC, Naya-Català F, Perera E, Palenzuela O, Sitjà-Bobadilla A, Pérez-Sànchez J.
Genetic selection for growth drives differences in intestinal microbiota composition and parasite disease resistance in gilthead sea bream.
Microbiome 8:168 (2020). https://microbiomejournal.biomedcentral.com/articles/10.1186/s40168-020-00922-w
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Perera E, Turkmen S, Simó-Mirabet P, Zamorano MJ, Xu H, Naya-Català F, Izquierdo M, Pérez-Sánchez J.
Stearoyl-CoA desaturase (scd1a) is epigenetically regulated by broodstock nutrition in gilthead sea bream (Sparus aurata).
Epigenetics 15(5):536-553 (2020). https://pubmed.ncbi.nlm.nih.gov/31790638/
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2018-
2019
Pérez-Sánchez J, Naya-Català F, Soriano B, Piazzon MC, Hafez A, Gabaldón T, Llorens C, Sitjà-Bobadilla A, Claduch-Giner JA.
Genome Sequencing and Transcriptome Analysis Reveal Recent Species-specific Gene Duplications in the Plastic Gilthead Sea Bream (Sparus aurata).
Frontiers in Marine Science 6: 760 (2019). https://www.frontiersin.org/journals/marine-science/articles/10.3389/fmars.2019.00760/full
Piazzon MC, Naya-Català F, Simó-Mirabet P, Picard-Sánchez A, Roig F, Calduch-Giner JA Sitjà-Bobadilla A, Pérez-Sánchez J.
Sex, age and bacteria: How the intestinal microbiota is modulated in a protandrous hermaphrodite fish.
Fontiers in Microbiology 10:2512 (2019). https://www.frontiersin.org/journals/microbiology/articles/10.3389/fmicb.2019.02512/full
Perera E, Simó-Mirabet P, SukShin H, Rosell-Moll E, Naya-Català F, De las Heras V, Matos-Sitcha JA, Karalazos V, Armero E, Arizcun M, Chaves E, Berbel C, Manchado M, Afonso JM, Calduch-Giner JA, Pérez-Sánchez J.
Selection for growth is associated in gilthead sea bream (Sparus aurata) with diet flexibility, changes in growth patterns and higher intestine plasticity.
Aquaculture 507:349-360 (2019). https://www.sciencedirect.com/science/article/pii/S0044848619304971
Piazzon MC, Mladineo I, Naya-Català F, Dirks RP, Jong-Raadsen S, Vrbatović A, Hrabar J, Pérez-Sánchez J, Sitjà-Bobadilla A.
Acting locally - affecting globally: RNA sequencing of gilthead sea bream with a mild Sparicotyle chrysophrii infection reveals effects on apoptosis, immune and hypoxia related genes.
BMC genomics 20:200 (2019). https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-019-5581-9
Campos M, Capilla R, Naya F, Futami R, Coque T, Moya A, Fernandez-Lanza V, Cantón R, Sempere JM, Llorens C, Baquero F.
Simulating multilevel dynamics of antimicrobial resistance in a membrane computing model.
mBio 10:e02460-18 (2019). https://journals.asm.org/doi/10.1128/mbio.02460-18
Pérez-Sánchez J, Simó-Mirabet P, Naya-Català F, Martos-Sitcha JA, Perera E, Bermejo-Nogales A, Benedito-Palos L, Calduch-Giner JA.
Somatotropic axis regulation unravels the differential effects of nutritional and environmental factors in growth performance of marine farmed fishes.
Frontiers in Endocrinology 9:687 (2018). https://www.frontiersin.org/journals/endocrinology/articles/10.3389/fendo.2018.00687/full