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Effects of the total replacement of fish-based diet with plant-based diet on the hepatic transcriptome of two European sea bass (Dicentrarchus labrax) half-sibfamilies showing different growth rates with the plant-based diet

Florian Geay1, Serena Ferraresso2, Jose L Zambonino-Infante1, Luca Bargelloni2, Claire Quentel3, Marc Vandeputte45, Sachi Kaushik6, Chantal L Cahu1 and David Mazurais1*

Author Affiliations

1 Ifremer, UMR 1067, Departement Physiologie Fonctionnelle des Organismes Marins, Technopôle Brest-Iroise, BP 70, 29280 Plouzané, France

2 Department of Public Health, Comparative Pathology, and Veterinary Hygiene, Faculty of Veterinary Medicine, University of Padova, Vialedell'Università 16, 35020 Legnaro, Italy

3 Anses, Laboratoire de Ploufragan/Plouzané, Agence nationale de sécurité sanitaire de l'aliment, de l'environnement et du travail, Technopôle Brest-Iroise, 29 280 Plouzané, France

4 Ifremer, chemin de Maguelone, 34250 Palavas les Flots, France

5 INRA, UMR 1313 Génétique Animale et Biologie Intégrative, Domaine de Vilvert, 78350 Jouy-en-Josas, France

6 INRA-UMR Nutrition Aquaculture Génomique, Pôle Hydrobiologie, 64310 Saint Pée-sur-Nivelle, France

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BMC Genomics 2011, 12:522  doi:10.1186/1471-2164-12-522

Published: 23 October 2011

Additional files

Additional file 1:

Comparison of Ct values for ef1 gene between the dietary groups. Quantitative PCR did not reveal any significant difference (t-student test, p > 0. 1) between Ct values for Ef1 between the dietary groups (FD: Fish diet; VD: Vegetable diet; G: G-sibfamily; g: g-sibfamily).

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Additional file 2:

Fatty acid composition in muscle of two European sea bass half-sibfamilies fed FD or VD. Composition in terms of the main fatty acids (% of total fatty acids) in neutral lipid and phospholipid fractions in muscle of each of the half-sibfamilies (g and G) of European sea bass fed FD or VD. Effects of diet factor and half-sibfamily factor on fatty acid composition were determined by two-way ANOVA. Results are expressed as mean +/- S.D. (n = 15) and significant differences are indicated by the p value (two-way ANOVA, P < 0.05).

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Additional file 3:

Significantly enriched biological processes associated with genes regulated by diet and half-sibfamily factors (EASE, P < 0.05). The main biological processes enriched out of those associated with genes that were over-expressed in fish fed VD were related to physiological process, metabolism (sterol metabolism, carboxylic metabolism, amino acid metabolism), RNA splicing, protein catabolism, aerobic respiration, blood coagulation and hexose catabolism. In contrast, the main biological processes associated with the genes lower-expressed in fish fed VD were related to cellular process, cell communication and cell proliferation. Regarding half-sibfamily factors, biological process related to Humoral immune response was shown to be over-represented within genes up-expressed in half-sibfamily g while processes related to energy pathways (ATP synthesis, mitochondrial electron transport) were enriched within genes up-expressed in half-sibfamily G.

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