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Additional file 4. Cell component Gene Ontologies enrichment (p-value ≤ 0.01) within the genes that were up-expressed (p-value ≤ 0.01) by OA.

Additional file 15. Cell Component Gene Ontologies enriched (p-value ≤ 0.01) within the genes that were down-expressed (p-value ≤ 0.01) by OA.

Additional file 16. Expanded version of Table 2 showing some significantly (p ≤ 0.01) differentially expressed genes related with innate antiviral immunity (not rigorous list) of the first generation (F1) of European Sea Bass (Dicentrarchus labrax) exposed for 2 years to intergenerational ocean acidification (OA; F0: 4-year OA-exposure). PRR: germline-encoded Pattern Recognition Receptors; ISG: Interferon-Stimulated Genes. FC: fold change expressed as Log2 FC. ↑: upregulated genes; ↓: downregulated genes. P-adjusted are p-values corrected for FDR with the Benjamini-Hochberg method. In the colum GO (Gene Ontology) term, F: molecular function, P: biological process; C: cellular component. Note: not every gene sequence possess an annotated Gene symbol.

Additional file 14. Genes involved in oxidation reduction process, organic substance catabolic process, mRNA catabolic pathway, cell division and viral process that were down-expressed (p-value ≤ 0.01) by OA.

Additional file 17. List of the first 20 genes showing the highest OA-induced up-expression levels (p-value ≤ 0.01).

Additional file 11. Biological processes Gene Ontologies enrichment (p-value ≤ 0.01) within the genes that were down-expressed (p-value ≤ 0.01) by OA.

Additional file 9. Genes involved in the regulation of action potential that were up-expressed (p-value ≤ 0.01) by OA.

Additional file 3. Genes involved in chloride homeostasis, bicarbonate transport and regulation of pH that are regulated (p value ≤ 0.01) by OA exposure.

Additional file 5. Genes involved in neuron projection (including axon guidance and extension) up-expressed (p-value ≤ 0.01) in OA group.

Additional file 13. Genes involved in tricarboxylic acid cycle, gluconeogenesis and ATP biosynthetic process that were down-expressed (p-value ≤ 0.01) by OA.

Additional file 8. Genes involved in the regulation of synaptic plasticity that were up-expressed (p-value ≤ 0.01) by OA.

Additional file 6. Biological processes Gene Ontologies enrichment (p-value ≤ 0.01) within the genes that were up-expressed (p-value ≤ 0.01) by OA.

Additional file 12. Genes involved in peptide biosynthesis and regulation of translation that were down-expressed (p-value ≤ 0.01) by OA.

Additional file 1. Matrix of normalized read counts for the 14 libraries from either the acidified treatment (A) or the control treatment (C). Eight samples of each treatment were taken but only seven were used for further analysis.

Additional file 7. Genes involved in the neurotrophin TRK receptor signalling pathway, glutamate signalling pathway and ephrin signalling pathway that were up-expressed (p-value ≤ 0.01) by OA.

Additional file 2. Full list of differentially expressed genes (p-adj ≤ 0.01) of the first generation (F1) of European Sea Bass (Dicentrarchus labrax) exposed for 2 years to intergenerational ocean acidification (OA; F0: 4-year OA-exposure). In the Gene symbol column, the * represent excel errors due to conversion into dates (Abeysooriya et al., 2021) while - indicates the absence of an annotated Gene symbol. FC: fold change expressed as Log2 FC. ↑: upregulated genes; ↓: downregulated genes. P-adjusted are p-values corrected for FDR with the Benjamini-Hochberg method. ns: not significant. In the colum GO (Gene Ontology) term, F: molecular function, P: biological process; C: cellular component.

Additional file 10. Genes involved in the regulation of the neurotransmitter levels that were up-expressed (p-value ≤ 0.01) by OA.