D. Hermier, G. Guy, S. Guillaumin, S. Davail, J. M. André et al., Differential channelling of liver lipids in relation to susceptibility to hepatic steatosis in two species of ducks, Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular Biology, vol.135, issue.4, pp.663-675, 2003.
URL : https://hal.archives-ouvertes.fr/hal-01702602

E. Fournier, R. Peresson, G. Guy, and D. Hermier, Relationships between storage and secretion of hepatic lipids in two breeds of geese with different susceptibility to liver steatosis, Poultry Science, vol.76, issue.4, pp.599-607, 1997.
URL : https://hal.archives-ouvertes.fr/hal-02691050

D. Hermier, M. R. Salichon, G. Guy, and R. Peresson, Differential channelling of liver lipids in relation to susceptibility to hepatic steatosis in the goose, Poultry Science, vol.78, issue.10, pp.1398-1406, 1999.
URL : https://hal.archives-ouvertes.fr/hal-02688967

S. Davail, N. Rideau, G. Guy, J. André, D. Hermier et al., Hormonal and metabolic responses to overfeeding in three genotypes of ducks, Comparative Biochemistry and Physiology Part A: Molecular & Integrative Physiology, vol.134, issue.4, pp.707-715, 2003.
URL : https://hal.archives-ouvertes.fr/hal-01702605

P. Chartrin, M. D. Bernadet, G. Guy, J. Mourot, J. F. Hocquette et al., Does overfeeding enhance genotype effects on liver ability for lipogenesis and lipid secretion in ducks?, Comparative Biochemistry and Physiology Part A: Molecular & Integrative Physiology, vol.145, issue.3, pp.390-396, 2006.
URL : https://hal.archives-ouvertes.fr/hal-02659542

F. Hã©rault, G. Saez, E. Robert, A. Al-mohammad, S. Davail et al., Liver gene expression in relation to hepatic steatosis and lipid secretion in two duck species, Animal Genetics, vol.41, issue.1, pp.12-20, 2010.

A. Tavernier, S. Davail, K. Ricaud, M. D. Bernadet, and K. Gontier, Genes involved in the establishment of hepatic steatosis in Muscovy, Pekin and mule ducks, Molecular and Cellular Biochemistry, vol.424, issue.1-2, pp.147-161, 2016.
URL : https://hal.archives-ouvertes.fr/hal-01606275

F. Hérault, C. Duby, E. Baéza, and C. Diot, Adipogenic genes expression in relation to hepatic steatosis in the liver of two duck species, animal, vol.12, issue.12, pp.2571-2577, 2018.

L. H. Zhu, H. Meng, X. J. Duan, G. Q. Xu, J. Zhang et al., Gene expression profile in the liver tissue of geese after overfeeding, Poultry Science, vol.90, issue.1, pp.107-117, 2011.

Z. Wang, M. Gerstein, and M. Snyder, RNA-Seq: a revolutionary tool for transcriptomics, Nature Reviews Genetics, vol.10, issue.1, pp.57-63, 2009.

F. Ozsolak and P. M. Milos, RNA sequencing: advances, challenges and opportunities, Nature Reviews Genetics, vol.12, issue.2, pp.87-98, 2010.

J. P. Hekman, J. L. Johnson, and A. V. Kukekova, Transcriptome Analysis in Domesticated Species: Challenges and Strategies, Bioinformatics and Biology Insights, vol.9S4, issue.4, p.BBI.S29334, 2015.

N. Vijay, J. W. Poelstra, A. Künstner, and J. B. Wolf, Challenges and strategies in transcriptome assembly and differential gene expression quantification. A comprehensivein silicoassessment of RNA-seq experiments, Molecular Ecology, vol.22, issue.3, pp.620-634, 2012.

J. Moreton, A. Izquierdo, and R. D. Emes, Assembly, Assessment, and Availability of De novo Generated Eukaryotic Transcriptomes, Frontiers in Genetics, vol.6, p.361, 2016.

J. A. Martin and Z. Wang, Next-generation transcriptome assembly, Nature Reviews Genetics, vol.12, issue.10, pp.671-682, 2011.

H. Li and R. Durbin, Fast and accurate short read alignment with Burrows-Wheeler transform, Bioinformatics, vol.25, issue.14, pp.1754-1760, 2009.

C. Trapnell, A. Roberts, L. Goff, G. Pertea, D. Kim et al., Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks, Nature Protocols, vol.7, issue.3, pp.562-578, 2012.

X. Wang, D. C. Miller, R. Harman, D. F. Antczak, and A. G. Clark, Paternally expressed genes predominate in the placenta, Proceedings of the National Academy of Sciences, vol.110, issue.26, pp.10705-10710, 2013.

C. N. Balakrishnan, M. Mukai, R. A. Gonser, J. C. Wingfield, S. E. London et al., Brain transcriptome sequencing and assembly of three songbird model systems for the study of social behavior, PeerJ, vol.2, p.396, 2014.

B. J. Marfell, R. O?brien, and J. F. Griffin, Global gene expression profiling of monocyte-derived macrophages from red deer (Cervus elaphus) genotypically resistant or susceptible to Mycobacterium avium subspecies paratuberculosis infection, Developmental & Comparative Immunology, vol.40, issue.2, pp.210-217, 2013.

F. Hérault, M. Houée-bigot, E. Baéza, O. Bouchez, D. Esquerré et al., RNA-seq analysis of hepatic gene expression of common Pekin, Muscovy, mule and hinny ducks fed ad libitum or overfed, BMC Genomics, vol.20, issue.1, p.13, 2019.

M. G. Grabherr, B. J. Haas, M. Yassour, J. Z. Levin, D. A. Thompson et al., Full-length transcriptome assembly from RNA-Seq data without a reference genome, Nature Biotechnology, vol.29, issue.7, pp.644-652, 2011.

M. H. Schulz, D. R. Zerbino, M. Vingron, and E. Birney, Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels, Bioinformatics, vol.28, issue.8, pp.1086-1092, 2012.

Y. Zhou, L. Ren, J. Xiao, H. Zhong, J. Wang et al., Global transcriptional and miRNA insights into bases of heterosis in hybridization of Cyprinidae, Scientific Reports, vol.5, issue.1, p.13847, 2015.

P. Chu, H. Liu, Q. Yang, Y. Wang, G. Yan et al., An RNA-seq transcriptome analysis of floral buds of an interspecific Brassica hybrid between B. carinata and B. napus, Plant Reproduction, vol.27, issue.4, pp.225-237, 2014.

J. Moreton, S. P. Dunham, and R. D. Emes, A consensus approach to vertebrate de novo transcriptome assembly from RNA-seq data: assembly of the duck (Anas platyrhynchos) transcriptome, Frontiers in Genetics, vol.5, p.190, 2014.

Y. Huang, Y. Li, D. W. Burt, H. Chen, Y. Zhang et al., The duck genome and transcriptome provide insight into an avian influenza virus reservoir species, Nature Genetics, vol.45, issue.7, pp.776-783, 2013.
URL : https://hal.archives-ouvertes.fr/hal-02652041

C. Cabau, F. Escudie, A. Djari, Y. Guiguen, J. Bobe et al., Compacting and correcting trinity and oases RNA-Seq de novo assemblies, PeerJ, vol.5, p.2988, 2017.
URL : https://hal.archives-ouvertes.fr/hal-01506620

S. B. Hedges, J. Marin, M. Suleski, M. Paymer, and S. Kumar, Tree of life reveals clocklike speciation and diversification, Mol Biol Evol, vol.32, issue.4, pp.835-880, 2015.

F. A. Simão, R. M. Waterhouse, P. Ioannidis, E. V. Kriventseva, and E. M. Zdobnov, BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs, Bioinformatics, vol.31, issue.19, pp.3210-3212, 2015.

B. J. Haas, A. Papanicolaou, M. Yassour, M. Grabherr, P. D. Blood et al., De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis, Nature Protocols, vol.8, issue.8, pp.1494-1512, 2013.

A. M. Bolger, M. Lohse, and B. Usadel, Trimmomatic: a flexible trimmer for Illumina sequence data, Bioinformatics, vol.30, issue.15, pp.2114-2120, 2014.

N. L. Bray, H. Pimentel, P. Melsted, and L. Pachter, Near-optimal probabilistic RNA-seq quantification, Nature Biotechnology, vol.34, issue.5, pp.525-527, 2016.

R. D. Smith-unna, C. Boursnell, R. Patro, J. M. Hibberd, and S. Kelly, TransRate: reference free quality assessment of de-novo transcriptome assemblies, 2015.

, Genome Res, vol.26, issue.8, pp.1134-1178, 2016.

T. N. Petersen, S. Brunak, G. Von-heijne, and H. Nielsen, SignalP 4.0: discriminating signal peptides from transmembrane regions, Nature Methods, vol.8, issue.10, pp.785-786, 2011.

A. Krogh, B. Larsson, G. Von-heijne, and E. L. Sonnhammer, Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes, J Mol Biol, vol.305, issue.3, pp.567-80, 2001.

R. D. Finn, A. Bateman, J. Clements, P. Coggill, R. Y. Eberhardt et al., Pfam: the protein families database, Nucleic Acids Res, vol.42, pp.222-252, 2014.
URL : https://hal.archives-ouvertes.fr/hal-01294685

K. Lagesen, P. Hallin, E. A. Rodland, H. H. Staerfeldt, T. Rognes et al., RNAmmer: consistent and rapid annotation of ribosomal RNA genes, Nucleic Acids Res, vol.35, issue.9, pp.3100-3108, 2007.

D. M. Bryant, K. Johnson, T. Ditommaso, T. Tickle, M. B. Couger et al., A tissue-mapped axolotl de novo transcriptome enables identification of limb regeneration factors, Cell Rep, vol.18, issue.3, pp.762-76, 2017.

M. D. Robinson and A. Oshlack, A scaling normalization method for differential expression analysis of RNA-seq data, Genome Biol, vol.11, issue.3, p.25, 2010.

M. I. Love, W. Huber, and S. Anders, Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2, Genome Biol, vol.15, issue.12, p.550, 2014.

M. D. Robinson, D. J. Mccarthy, and G. K. Smyth, edgeR: a bioconductor package for differential expression analysis of digital gene expression data, Bioinformatics, vol.26, issue.1, pp.139-179, 2010.

G. Yu, L. G. Wang, Y. Han, and Q. Y. He, clusterProfiler: an R package for comparing biological themes among gene clusters, Omics, vol.16, issue.5, pp.284-291, 2012.

J. Wang, S. Vasaikar, Z. Shi, M. Greer, and B. Zhang, WebGestalt 2017: a more comprehensive, powerful, flexible and interactive gene set enrichment analysis toolkit, Nucleic Acids Res, vol.45, issue.W1, pp.130-137, 2017.

Y. Liao, J. Wang, E. J. Jaehnig, Z. Shi, and B. Zhang, WebGestalt 2019: gene set analysis toolkit with revamped UIs and APIs, Nucleic Acids Res, vol.47, issue.W1, pp.199-205, 2019.

, Publisher's Note

, Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations