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Comparison of liver transcriptome from high- and low-intramuscular fat Chaohu ducks provided additional candidate genes for lipid selection

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Abstract

The meat quality of ducks is closely related to the intramuscular fat (IMF) content. This study explored the candidate regulatory genes of IMF formation and lipid deposition in Chaohu ducks. The IMF of breast muscle in 100 ducks was determined and statistically analysed by normal distribution test. Duck liver samples with high IMF (CH, n = 3) and low IMF (CL, n = 3) were selected for transcriptome analysis by RNA sequencing (RNA-Seq). The IMF was in accordance with normal distribution (T = 0.001, P = 0.999). The IMF from two tails of the normal distribution was significantly different with 2.9983% ± 0.3296% in the CH group and 1.1960% ± 0.1481% in the CL group (P < 0.0001). RNA-Seq revealed 147 differentially expressed genes, including 78 up-regulated and 69 down-regulated genes in both groups. Validation by qRT-PCR was in agreement with RNA-Seq (R2 = 0.838). Gene ontology analysis revealed that organophosphate catabolism, oxidation–reduction process, cellular lipid catabolism, lipid transport, lipid localisation, lipid biosynthesis and cellular lipid catabolism were involved in lipid metabolism. Meanwhile, Kyoto Encyclopedia of Genes and Genomes pathway analysis suggested that steroid hormone biosynthesis, ovarian steroidogenesis, alpha-linolenic acid metabolism, glycosylphosphatidylinositol anchor biosynthesis and linoleic acid metabolism were involved in lipid deposition, wherein the genes COMT, NT5E, PDE4D, PLA2G4F, A-FABP, ADRA2A, HSD17B2, PPP1R3C, PPP1R3B and NR0B2 were involved in lipid deposition. This study provided insights into the molecular mechanism for regulating lipid metabolism and identified candidate genes for selecting markers to control IMF formation in Chaohu ducks.

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Acknowledgements

Financial support for this research was granted by the National Science and Technology Support Plan Program of China (2015BAD03B06).

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Authors and Affiliations

  1. Anhui Province Key Laboratory of Local Livestock and Poultry Genetic Resource Conservation and Bio-breeding, College of Animal Science and Technology, Anhui Agricultural University, Hefei, 230036, China

    Kai Ge, Xingyong Chen, Jinlong Kuang, Lei Yang & Zhaoyu Geng

  2. College of Biological and Pharmaceutical Engineering, West Anhui University, Liuan, 237012, China

    Kai Ge

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  1. Kai Ge
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  2. Xingyong Chen
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  4. Lei Yang
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  5. Zhaoyu Geng
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Contributions

KG drafted the manuscript and prepared the figures and tables; ZG, XC and KG conceived and designed the experiments and revised them critically for important content; KG, JK and LY performed the experiments; KG and XC analysed the data; JK and LY contributed reagents and materials. All authors approved the final draft of the manuscript submitted for review and publication.

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Correspondence to Zhaoyu Geng.

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Ethics

All experimental procedures and sample collection were performed according to the Regulations for the Administration of Affairs Concerning Experimental Animals (Ministry of Science and Technology, China; revised in June 2004) and approved by the Institutional Animal Care and Use Committee of Anhui Agricultural University, Hefei, China, under permit no. ZXD-P20140809. This experiment was performed in accordance with approved relevant guidelines and regulations.

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Ge, K., Chen, X., Kuang, J. et al. Comparison of liver transcriptome from high- and low-intramuscular fat Chaohu ducks provided additional candidate genes for lipid selection. 3 Biotech 9, 251 (2019). https://doi.org/10.1007/s13205-019-1780-y

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