Circular RNA regulation of fat deposition and muscle development in cattle

Gao, Yuhong; Wang, Shuzhe; Ma, Yanfen; Lei, Zhaoxiong; Ma, Yun

doi:10.1002/vms3.857

Cited by 6 publications

(3 citation statements)

References 72 publications

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“…IMF deposition is dependent on the proliferation and differentiation of intramuscular preadipocytes, which is complex and orchestrated by synergistic induction of genetic factors, endocrine hormones, environmental effects, etc. [11][12][13][14][15]. With the continuous development and improvement of sequencing technology, new advances have been made in the molecular mechanisms regulating IMF deposition using different genomic approaches.…”

Section: Introductionmentioning

confidence: 99%

Genomic Insights into Molecular Regulation Mechanisms of Intramuscular Fat Deposition in Chicken

Cao,

Xing,

Guan

et al. 2023

Genes

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Intramuscular fat (IMF) plays an important role in the tenderness, water-holding capacity, and flavor of chicken meat, which directly affect meat quality. In recent years, regulatory mechanisms underlying IMF deposition and the development of effective molecular markers have been hot topics in poultry genetic breeding. Therefore, this review focuses on the current understanding of regulatory mechanisms underlying IMF deposition in chickens, which were identified by multiple genomic approaches, including genome-wide association studies, whole transcriptome sequencing, proteome sequencing, single-cell RNA sequencing (scRNA-seq), high-throughput chromosome conformation capture (HiC), DNA methylation sequencing, and m6A methylation sequencing. This review comprehensively and systematically describes genetic and epigenetic factors associated with IMF deposition, which provides a fundamental resource for biomarkers of IMF deposition and provides promising applications for genetic improvement of meat quality in chicken.

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Section: Introductionmentioning

confidence: 99%

Genomic Insights into Molecular Regulation Mechanisms of Intramuscular Fat Deposition in Chicken

Cao,

Xing,

Guan

et al. 2023

Genes

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“…circRNAs, as a kind of competitive endogenous RNAs (ceRNAs), have the ability to adsorb miRNAs, thereby preventing miRNA inhibition on target genes. − For example, circSAMD4A was found to affect preadipocyte differentiation by sponging miR-138-5p to regulate the expression of EZH2 ; circPTK2 eliminates inhibition of miR-182-5p on the JAZF1 gene, ultimately promoting lipolysis . In cattle, circFUT10 regulated PPARGC1B expression via absorption of let-7c, thus promoting the proliferation and inhibition of the differentiation of preadipocytes .…”

Section: Introductionmentioning

confidence: 99%

CircRNA Profiling Reveals an Abundant circBDP1 that Regulates Bovine Fat Development by Sponging miR-181b/miR-204 Targeting Sirt1/TRARG1

Zhang

Jiang

Kang

et al. 2022

J. Agric. Food Chem.

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The proliferation and differentiation of preadipocytes is an important factor determining bovine fat development, which is closely related to the feed conversion ratio, carcass traits, and beef quality. The purpose of this study was to identify the effects of candidate circRNA and miRNA on the proliferation and differentiation of bovine preadipocytes in order to provide basic materials for molecular breeding in cattle. circRNA sequencing was performed on bovine adipocyte samples at different differentiation time points, and a total of 1830 differentially expressed circRNAs were identified. Among them, circBDP1, derived from the bovine BDP1 gene, has potential binding sites for miR-204 (known as a regulator of bovine fat development) and miR-181b, which gives us a hint that circBDP1 may regulate bovine fat development by adsorbing miR-204 and miR-181b. Here, our results revealed that circBDP1 overexpression promoted the proliferation and differentiation of bovine preadipocytes. The miRNA profile of bovine adipocytes at different differentiation time points was also analyzed using the small RNA sequencing method, and a total of 89 differentially expressed miRNAs were identified, including miR-204 and miR-181b. As expected, dual-luciferase reporter results showed that circBDP1 competitively adsorbed miR-181b and miR-204. Overexpression and interference of miR-181b in bovine preadipocytes and 3T3-L1 showed that miR-181b promoted the proliferation and differentiation of preadipocytes. Further results displayed that miR-181b and miR-204 simultaneously targeted the SIRT1 gene, and miR-204 also targeted the 3' UTR region of the TRARG1 gene. In summary, this study found that miR-181b and miR-204 were involved in fat development by targeting SIRT1 and TRARG1. The results of this study will lay a foundation for the research of fat development and beef cattle industry.

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“…The following supporting information can be downloaded at: , Table S1: The gene list from the significantly differentially expressed in longissimus dorsi muscle (LDM) tissue between beef cattle breeds with high- vs. low- Intramuscular fat (IMF); Table S2: The candidate non-coding RNAs (i.e., circRNAs, lncRNAs, and miRNAs) list extracted from transcriptome results using literature mining on intramuscular fat (IMF) content in beef cattle; Table S3: The common differentially expressed RNAs between eight comparative groups of beef cattle breeds from RNA-Seq analysis on intramuscular fat (IMF); Table S4: The main RNAs list extracted from RNA-Seq analysis and literature mining on intramuscular fat (IMF); Table S5: Basic parameters of protein-protein interaction (PPI) network on intramuscular fat content in beef cattle; Table S6: Information about differentially expressed types of RNAs and their interactions in subnets of ceRNA regulatory network between eight pairwise comparative groups associated with IMF in beef cattle breeds. References [ 82 , 83 , 84 , 85 , 86 ] are cited in Supplementary Materials.…”

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confidence: 99%

Integrated Comparative Transcriptome and circRNA-lncRNA-miRNA-mRNA ceRNA Regulatory Network Analyses Identify Molecular Mechanisms Associated with Intramuscular Fat Content in Beef Cattle

Reyhan

Ghafouri

Sadeghi

et al. 2023

Animals

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Intramuscular fat content (IMF), one of the most important carcass traits in beef cattle, is controlled by complex regulatory factors. At present, molecular mechanisms involved in regulating IMF and fat metabolism in beef cattle are not well understood. Our objective was to integrate comparative transcriptomic and competing endogenous RNA (ceRNA) network analyses to identify candidate messenger RNAs (mRNAs) and regulatory RNAs involved in molecular regulation of longissimus dorsi muscle (LDM) tissue for IMF and fat metabolism of 5 beef cattle breeds (Angus, Chinese Simmental, Luxi, Nanyang, and Shandong Black). In total, 34 circRNAs, 57 lncRNAs, 15 miRNAs, and 374 mRNAs were identified by integrating gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses. Furthermore, 7 key subnets with 16 circRNAs, 43 lncRNAs, 7 miRNAs, and 237 mRNAs were detected through clustering analyses, whereas GO enrichment analysis of identified RNAs revealed 48, 13, and 28 significantly enriched GO terms related to IMF in biological process, molecular function, and cellular component categories, respectively. The main metabolic-signaling pathways associated with IMF and fat metabolism that were enriched included metabolic, calcium, cGMP-PKG, thyroid hormone, and oxytocin signaling pathways. Moreover, MCU, CYB5R1, and BAG3 genes were common among the 10 comparative groups defined as important candidate marker genes for fat metabolism in beef cattle. Contributions of transcriptome profiles from various beef breeds and a competing endogenous RNA (ceRNA) regulatory network underlying phenotypic differences in IMF provided novel insights into molecular mechanisms associated with meat quality.

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Circular RNA regulation of fat deposition and muscle development in cattle

Cited by 6 publications

References 72 publications

Genomic Insights into Molecular Regulation Mechanisms of Intramuscular Fat Deposition in Chicken

Genomic Insights into Molecular Regulation Mechanisms of Intramuscular Fat Deposition in Chicken

CircRNA Profiling Reveals an Abundant circBDP1 that Regulates Bovine Fat Development by Sponging miR-181b/miR-204 Targeting Sirt1/TRARG1

Integrated Comparative Transcriptome and circRNA-lncRNA-miRNA-mRNA ceRNA Regulatory Network Analyses Identify Molecular Mechanisms Associated with Intramuscular Fat Content in Beef Cattle

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