Analysis of longissimus muscle quality characteristics and associations with DNA methylation status in cattle

Chen, Zhi; Chu, Shuangfeng; Jiang, Jingyi; Wang, Wenqiang; Shen, Hongliang; Li, Mingxun; Zhang, Huimin; Mao, Yongjiang

doi:10.1007/s13258-019-00844-4

Cited by 16 publications

(6 citation statements)

References 46 publications

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“…The experiment constructs a miRNA-gene network diagram for differentially expressed miRNAs. The target gene prediction software TargetScan was used to perform cluster analysis on the biological function, molecular function, and cellular function of candidate miRNAs to construct a miRNA-gene network map …”

Section: Methodsmentioning

confidence: 99%

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Circ11103 Interacts with miR-128/PPARGC1A to Regulate Milk Fat Metabolism in Dairy Cows

Chen

Liang

et al. 2021

J. Agric. Food Chem.

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The quality of milk is inseparable from its milk components, and fatty acid content is a key factor affecting the quality of milk. In this study, the miRNA and mRNA profiles of the bovine mammary gland tissue during the dry period and the peak lactation period were determined through high-throughput sequencing. In total, 72 miRNA−mRNA regulatory pathways were screened, including miR-128/PPARGC1A regulatory pathways. miR-128 can directly target PPARGC1A and inhibit its expression. In addition, the study also observed that there was a miR-128 binding site in the sequence of the circular RNA circ11103, and circ11103 significantly reduced the expression of miR-128. circ11103 upregulated the triglyceride levels in bovine mammary epithelial cells (BMECs) and increased the contents of unsaturated fatty acids. However, miR-128 decreased triglyceride and cholesterol levels in BMECs. This study aims to analyze the mechanism governing the regulatory effect of circ11103 on milk fat metabolism, which provides new insights into improving milk quality.

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Section: Methodsmentioning

confidence: 99%

“…The target gene prediction software TargetScan was used to perform cluster analysis on the biological function, molecular function, and cellular function of candidate miRNAs to construct a miRNA-gene network map. 26 circRNA−miRNA Interaction Analysis. circRNA can be used as the target molecule of miRNA and is regulated by miRNA.…”

Section: ■ Introductionmentioning

confidence: 99%

Circ11103 Interacts with miR-128/PPARGC1A to Regulate Milk Fat Metabolism in Dairy Cows

Chen

Liang

et al. 2021

J. Agric. Food Chem.

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“…A further study indicated that the ETFDH expression level was different for high and low tenderness in yak meat [ 38 ] and GADL1 was associated with beef tenderness [ 39 ]. In addition, ACAD11 was found to be associated with meat quality (pH value, water loss rate, fat and protein and fatty acid content) [ 40 ]. PRKG1 was reported to be a candidate gene that was differentially expressed in relation to intramuscular fat in pigs [ 41 ].…”

Section: Discussionmentioning

confidence: 99%

Cis-eQTL Analysis and Functional Validation of Candidate Genes for Carcass Yield Traits in Beef Cattle

Wang

Niu

Zhang

et al. 2022

IJMS

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Carcass yield traits are of considerable economic importance for farm animals, which act as a major contributor to the world’s food supply. Genome-wide association studies (GWASs) have identified many genetic variants associated with carcass yield traits in beef cattle. However, their functions are not effectively illustrated. In this study, we performed an integrative analysis of gene-based GWAS with expression quantitative trait locus (eQTL) analysis to detect candidate genes for carcass yield traits and validate their effects on bovine skeletal muscle satellite cells (BSCs). The gene-based GWAS and cis-eQTL analysis revealed 1780 GWAS and 1538 cis-expression genes. Among them, we identified 153 shared genes that may play important roles in carcass yield traits. Notably, the identified cis-eQTLs of PON3 and PRIM2 were significantly (p < 0.001) enriched in previous GWAS loci for carcass traits. Furthermore, overexpression of PON3 and PRIM2 promoted the BSCs’ proliferation, increased the expression of MYOD and downregulated the expression of MYOG, which indicated that these genes may inhibit myogenic differentiation. In contrast, PON3 and PRIM2 were significantly downregulated during the differentiation of BSCs. These findings suggested that PON3 and PRIM2 may promote the proliferation of BSCs and inhibit them in the pre-differentiation stage. Our results further contribute to the understanding of the molecular mechanisms of carcass yield traits in beef cattle.

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“…For example, genomic selection is used for cultivating high-yielding beef varieties (58), together with epigenomics (i.e. DNA methylation) analysis of the modification of gene expressions, to regulate cattle growth and beef quality (59,60). Metabolomics data are strongly related to the animal cellular processes as the end products, so it could be used to monitor the cattle health and product quality (61,62).…”

Section: Bioinformatics Serves As a Potential Tool In Determining Beementioning

confidence: 99%

Resveratrol stimulates microRNA expression during differentiation of bovine primary myoblasts

Hao

Wang

et al. 2021

Food & Nutrition Research

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Background: Resveratrol (RSV), a phenolic compound, is present in many human dietary sources, such as peanuts, peanut butter, grapes skin, and grape wine. RSV has been widely known for its benefits on human health. Beef from cattle skeletal muscle is one of the main sources of protein for human consumption. Previous studies have also found that pork and chicken qualities are influenced by the feed supplementation with RSV. In addition, our previous study demonstrated the RSV effects on bovine myoblast differentiation using messenger RNA (mRNA) data. In this study, we mainly focused on the influences of RSV on microRNA (miRNA) expression. Method: We used 20 μM RSV to treat primary bovine myoblasts and extracted RNA for miRNA sequencing. After quality control and alignment for clean reads, we conducted quantification and analysis of differentially expressed (DE) miRNAs in the case (RSV-treated) group versus control (non-RSV treated) group. Next, we predicted the target genes for the DE miRNAs and analyzed them for the enrichments of Gene Ontology (GO) terms and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways. Results: Finally, we identified 93 DE miRNAs (adjusted P-value < 0.05), of them 44 were upregulated and 49 were downregulated. Bta-miR-34c was the most significantly upregulated miRNA. In silico, prediction results indicated 1,869 target genes for the 93 DE miRNAs. GO enrichment analysis for the genes targeted by DE miRNAs revealed two significant GO terms (adjusted P-value < 0.05), in which the most significant one was stereocilium (GO:0032420). KEGG enrichment analysis showed five significant pathways, and the top significant KEGG pathway was the insulin signaling pathway (bta04910) (adjusted P-value < 0.05). Conclusions: This study provided an improved understanding of effects of RSV on primary bovine myoblast differentiation through the miRNA modulations. The results suggested that RSV could promote differentiation of primary bovine myoblast by stimulating the miRNA expressions. The target genes of DE miRNAs were significantly enriched in the insulin signaling pathway, thus potentially contributing to improving muscle leanness by increasing the energy metabolism.

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Analysis of longissimus muscle quality characteristics and associations with DNA methylation status in cattle

Cited by 16 publications

References 46 publications

Circ11103 Interacts with miR-128/PPARGC1A to Regulate Milk Fat Metabolism in Dairy Cows

Circ11103 Interacts with miR-128/PPARGC1A to Regulate Milk Fat Metabolism in Dairy Cows

Cis-eQTL Analysis and Functional Validation of Candidate Genes for Carcass Yield Traits in Beef Cattle

Resveratrol stimulates microRNA expression during differentiation of bovine primary myoblasts

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