Differential expression of genes related with meat tenderness in Nellore cattle

Goncalves, Tassia M.

doi:10.11606/d.11.2015.tde-12052015-165345

Cited by 2 publications

(4 citation statements)

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“…While, only a few genes were differentially expressed among the extreme groups for PA, SA, EPA and DHA and none for LA and SA. Additionally, previous studies reported only a few genes were affected by different levels of intramuscular fat content [22] and tenderness [23] in this same population.…”

Section: Discussionmentioning

confidence: 90%

Differences in the skeletal muscle transcriptome profile associated with extreme values of fatty acids content

et al. 2016

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BackgroundLipids are a class of molecules that play an important role in cellular structure and metabolism in all cell types. In the last few decades, it has been reported that long-chain fatty acids (FAs) are involved in several biological functions from transcriptional regulation to physiological processes. Several fatty acids have been both positively and negatively implicated in different biological processes in skeletal muscle and other tissues. To gain insight into biological processes associated with fatty acid content in skeletal muscle, the aim of the present study was to identify differentially expressed genes (DEGs) and functional pathways related to gene expression regulation associated with FA content in cattle.ResultsSkeletal muscle transcriptome analysis of 164 Nellore steers revealed no differentially expressed genes (DEGs, FDR 10%) for samples with extreme values for linoleic acid (LA) or stearic acid (SA), and only a few DEGs for eicosapentaenoic acid (EPA, 5 DEGs), docosahexaenoic acid (DHA, 4 DEGs) and palmitic acid (PA, 123 DEGs), while large numbers of DEGs were associated with oleic acid (OA, 1134 DEGs) and conjugated linoleic acid cis9 trans11 (CLA-c9t11, 872 DEGs). Functional annotation and functional enrichment from OA DEGs identified important genes, canonical pathways and upstream regulators such as SCD, PLIN5, UCP3, CPT1, CPT1B, oxidative phosphorylation mitochondrial dysfunction, PPARGC1A, and FOXO1. Two important genes associated with lipid metabolism, gene expression and cancer were identified as DEGs between animals with high and low CLA-c9t11, specifically, epidermal growth factor receptor (EGFR) and RNPS.ConclusionOnly two out of seven classes of molecules of FA studied were associated with large changes in the expression profile of skeletal muscle. OA and CLA-c9t11 content had significant effects on the expression level of genes related to important biological processes associated with oxidative phosphorylation, and cell growth, survival, and migration. These results contribute to our understanding of how some FAs modulate metabolism and may have protective health function.Electronic supplementary materialThe online version of this article (doi:10.1186/s12864-016-3306-x) contains supplementary material, which is available to authorized users.

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Section: Discussionmentioning

confidence: 90%

Differences in the skeletal muscle transcriptome profile associated with extreme values of fatty acids content

et al. 2016

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“…The functional roles of many of the transcripts identified in our study are consistent with the biological roles of genes and proteins previously associated with tenderness. DE transcripts identified included the following: components of the ribosome, serine proteases, and regulators of calcium and lipid transport ( Gonçalves, 2015 ).…”

Section: Discussionmentioning

confidence: 99%

“…The average heritability for beef tenderness is about 0.3, corroborating that genetics have a reasonable contribution for this trait ( Koch et al, 1982 ). Unfortunately, tenderness and other phenotypes associated with meat quality such as taste and color, are difficult to measure directly, and can only be determined after an animal is slaughtered ( Gonçalves, 2015 ; Mateescu et al, 2017 ).…”

Section: Introductionmentioning

confidence: 99%

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Gene Co-expression Analysis Indicates Potential Pathways and Regulators of Beef Tenderness in Nellore Cattle

et al. 2018

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Beef tenderness, a complex trait affected by many factors, is economically important to beef quality, industry, and consumer’s palatability. In this study, RNA-Seq was used in network analysis to better understand the biological processes that lead to differences in beef tenderness. Skeletal muscle transcriptional profiles from 24 Nellore steers, selected by extreme estimated breeding values (EBVs) for shear force after 14 days of aging, were analyzed and 22 differentially expressed transcripts were identified. Among these were genes encoding ribosomal proteins, glutathione transporter ATP-binding cassette, sub-family C (CFTR/MRP), member 4 (ABCC4), and synaptotagmin IV (SYT4). Complementary co-expression analyses using Partial Correlation with Information Theory (PCIT), Phenotypic Impact Factor (PIF) and the Regulatory Impact Factor (RIF) methods identified candidate regulators and related pathways. The PCIT analysis identified ubiquitin specific peptidase 2 (USP2), growth factor receptor-bound protein 10 (GBR10), anoctamin 1 (ANO1), and transmembrane BAX inhibitor motif containing 4 (TMBIM4) as the most differentially hubbed (DH) transcripts. The transcripts that had a significant correlation with USP2, GBR10, ANO1, and TMBIM4 enriched for proteasome KEGG pathway. RIF analysis identified microRNAs as candidate regulators of variation in tenderness, including bta-mir-133a-2 and bta-mir-22. Both microRNAs have target genes present in the calcium signaling pathway and apoptosis. PIF analysis identified myoglobin (MB), enolase 3 (ENO3), and carbonic anhydrase 3 (CA3) as potentially having fundamental roles in tenderness. Pathways identified in our study impacted in beef tenderness included: calcium signaling, apoptosis, and proteolysis. These findings underscore some of the complex molecular mechanisms that control beef tenderness in Nellore cattle.

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Differential expression of genes related with meat tenderness in Nellore cattle

Cited by 2 publications

References 21 publications

Differences in the skeletal muscle transcriptome profile associated with extreme values of fatty acids content

Differences in the skeletal muscle transcriptome profile associated with extreme values of fatty acids content

Gene Co-expression Analysis Indicates Potential Pathways and Regulators of Beef Tenderness in Nellore Cattle

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