RNA-Seq identification of lipid metabolism genes associated with intramuscular fat by transcriptome analyses of Longissimus dorsi and liver in pigs feed with avocado meal supplement

• Clemente Lemus-Flores Universidad Autónoma de Nayarit, Posgrado en Ciencias Biológico Agropecuarias, Laboratorio de Fisiología Nutricional y Genética Animal. Tepic, Nayarit, México
• Gilberto Lemus-Ávalos Universidad Autónoma de Nayarit, Posgrado en Ciencias Biológico Agropecuarias, Laboratorio de Fisiología Nutricional y Genética Animal. Tepic, Nayarit, México
• Job Oswaldo Bugarín-Prado Universidad Autónoma de Nayarit, Posgrado en Ciencias Biológico Agropecuarias, Laboratorio de Fisiología Nutricional y Genética Animal. Tepic, Nayarit, México
• Fernando Grageola-Núñez Universidad Autónoma de Nayarit, Posgrado en Ciencias Biológico Agropecuarias, Laboratorio de Fisiología Nutricional y Genética Animal. Tepic, Nayarit, México
• Karina Mejía-Martínez Universidad Autónoma de Nayarit, Posgrado en Ciencias Biológico Agropecuarias, Laboratorio de Fisiología Nutricional y Genética Animal. Tepic, Nayarit, México
• Roberto Valdivia-Bernal Universidad Autónoma de Nayarit, Posgrado en Ciencias Biológico Agropecuarias, Laboratorio de Fisiología Nutricional y Genética Animal. Tepic, Nayarit, México

DOI: https://doi.org/10.52973/rcfcv-e32144

Keywords: RNA-Seq, avocado meal, intramuscular fat, transcriptome

Abstract

The objective of this research was to identify the genes involved in the metabolism of lipids and intramuscular fat (IMF), through transcriptome analysis in Longissimus dorsi and liver, in fattening pigs with a diet supplemented with avocado meal (AM), as well as their effect on the final weight, pH₄₅ and GIM. Eight castrated pigs were fed on each diet, one with 0 % AM (HA0) and another with 10 % (HA10). The transcriptome analysis was performed with massive sequencing (RNA-Seq), with the DESeq2 method, genes were identified from 12 samples, three per diet and tissue, to differentially obtain the gene expression (DEG) of the Log₂ Fold Change (Log₂FC) of HA0 vs HA10, considering values from P<0.10 to P<0.01-E10. Supplementing with HA10 did not affect final weight (107.6 kg), but it did increase pH₄₅ (6.20) and decreased IMF (5.83 %). Comparing the HA0 vs HA10 diets, more genes with high DEG Log₂FC (UP) in HA0 were identified in L. dorsi, which have been related to a greater influence on the increase in IMF. With higher Log₂FC values ​​and P<0.001, UP genes were identified in HA10 more associated with fatty acid metabolism; eleven genes for L. dorsi (ABCG1, ADORA1, BMPR1B, FABP3, FRZB, ITGB6, MYLIP, RGN, RORC, RXRG, SPOCK3) and thirteen genes for liver (CA3, CDKN1A, FADS1, FADS2, GABRB2, PCK2, PLIN4, RETSAT, ROBO2, RORC, SLC27A6, SOCS2, SPOCK3). The correlations between the Log₂ expression values of the genes with IMF identify 19 genes with a positive correlation (0.80-0.97) and 13 with a negative correlation (0.80-0.98) in L.dorsi, and six genes with a positive correlation in liver (0.80-0.92) and nine with negative correlation (0.80-0.94). AM affects IMF and causes changes in the expression of genes associated with lipid metabolism.

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