circRNA regulation of skeletal muslcle growth and development: Comparison
Please note this is a comparison between Version 1 by Pengpeng Zhang and Version 3 by Jessie Wu.

Circular RNA (circRNA) is a novel class of non-coding RNA generated by pre-mRNA back splicing, which is characterized by a closed-loop structure. The skeletal muscle is the largest organ in animals, which constitutes 30~–50% of the body mass. Skeletal muscle plays an important role in locomotion and metabolism. Therefore, proper muscle growth and homeostasis are the critical determinants of human motor performance. Recent studies showed that circRNAs are abundant in skeletal muscle tissue, and their expression levels are regulated during muscle development and aging. 

  • circular RNA
  • skeletal muscle
  • myogenesis

1. CircRNA Expression in Skeletal Muscle

CircRNAs have been identified in numerous tissues, including brain, testis, lung, liver, heart and skeletal muscle. Numerous experiments have established that skeletal muscle is one of the tissues that are enriched in circRNAs. Many genes can generate circRNAs—for example, rwesearchers  previously found that approximately 36% of genes could generate circRNAs. In addition, most of the genes gave rise to more one circRNAs, while 15% of the genes generated more than 10 distinct circRNAs [1][15]. So far, several studies reported that the number of circRNAs in skeletal muscles or myoblast, ranges between 2000 and 37,000 [1][2][3][4][5][6][15,44,45,46,47,48]. The variation in circRNAs number might be due to the method for circRNAs enrichment, the depth of RNA sequencing, or the methods for circRNA identification. Furthermore, circRNAs are conserved between species. Liang et al. calculated that 20.20% of pig circRNAs have human orthologs, whereas 16.96% of pig circRNAs have mouse orthologs [7][38]. In murine and human myoblasts, about 25% of human circRNAs were overlapped with mouse circRNAs [8][34].
CircRNAs have also been proved to be tissue-specific, in porcine tissue, the testis shows the largest number of tissue-specific circRNAs (1, 155), followed by the heart (205 circRNAs), muscle (174 circRNAs), and fat (147 circRNAs) [7][38]. These tissue-specific circRNAs are valuable regulators and worth studying further. CircRNAs have also been proved to be developmental stage-specific—for instance, 57.2–63.9% of porcine skeletal muscle circRNAs were observed at only one developmental stage [4][46]. Consistent with this, circRNAs expression during myoblasts differentiation progress was also noted to be dynamically changed. A further Gene Ontology analysis of the circRNA’s parental genes demonstrated that most circRNAs expressed in myoblast growth stage were related with the cell cycle, while the circRNAs expressed in the differentiation stage are enriched in development category [1][15]. In addition, the circRNA expression profile also altered in Duchenne muscular dystrophy and aging skeletal muscle [2][44].
In summary, recent studies suggest circRNAs are abundant in skeletal muscle, conserved between species and regulated in myogenesis and muscular disease.

2. The Functions of CircRNAs in Myogenesis

Research in recent years has established that circRNAs are key regulators of gene expression and protein functions. As previously mentioned, skeletal muscle development is a highly controlled process, which is regulated by both proteins and non-coding RNAs. Recent research suggests circRNA is the new player of the process [9][10][49,50]. Here, rwesearchers s summarize the current progress of circRNA in skeletal muscle growth and development.

21.1. Circ-ZNF609

The human circ-ZNF609 is derived from ZNF609. Circ-ZNF609 showed higher expression in myotubes than in myoblasts and knockdown it by siRNA reduced myoblast proliferation [11][14]. In addition, the mouse orthologue circ-zfp-609 interacted with miR-194-5p. It is known that miR-194-5p represses BCLAF1 expression and promotes myoblasts differentiation [12][51]. Interestingly, circ-ZNF609 contains a 753-nucleotide open reading frame, and it is the first protein-coding circRNA identified in skeletal muscle, but so far, the function of the protein is totally unknown. Together, circ-zfp-609 inhibits myoblasts differentiation by sponging miR-194-5p and upregulation of BCLAF1.

21.2. CircRBFOX2

During chicken muscle development, RBFOX2 generated 11 isoforms of circRNAs, in which circRBFOX2.2-3 and circRBFOX2.2-4 were derived from exon2-3 and exon 2-4 respectively. Both of the circRNAs were expressed differentially during chicken muscle development. It was determined that circRBFOX2 contained mir-206 binding sites [6][48]. Previous research has proved that mir-206 involved in the cell cycle by repressing CCND2 (cyclin D2), which is an indispensable factor in cell cycle progression [13][14][52,53]. In addition, circRBFOX2 negatively regulated miR-206 expression by an unknown mechanism [6][48]. In summary, circRBFOX2 can sponge miR-206 and negatively regulate miR-206 expression, thus increasing CCND2 expression and promoting myoblasts proliferation.

21.3. CircSVIL

CircSVIL is implicated as a positive regulator of myogenesis. It is generated from exon 6 to 14 of supervillin (SVIL). The abundance of circSVIL in skeletal muscles sharply increased from E10 to E15 during chicken embryonic development and maintained at high abundance in the later stage. Four binding sites for miR-203 in circSVIL were predicted using miRanda and RNAhybrid. Further, luciferase reporter assay and Ago2 RNA immunoprecipitation showed circSVIL and miR-203 interacted with each other. It is well known that miR-203 targets c-JUN, which is an essential factor for cell proliferation [15][54]. miR-203 can also inhibit the expression of MEF2C, which is an important regulator of muscle development [16][55]. Together, miR-203 has been implicated as a negative regulator of myoblast proliferation and differentiation. CircSVIL acts as a decoy of miR-203, thus playing a positive role in myogenesis.

21.4. CircLMO7

CircLMO7, derived from LMO7, was highly expressed in skeletal muscle tissue. Overexpression of circLMO7 significantly decreased the expression of MyoD and myogenin (MyoG), suggesting that circLMO7 inhibited myoblast differentiation. Further analysis revealed that circLMO7 overexpression increased myoblasts proliferation and protected them from apoptosis. By performing luciferase reporter assay, it was found that circLMO7 interacted with miR-378a-3p. It is well known that miR-378a-3p inhibits HDAC4 expression [17][56]. HDAC4 can decrease the transcription of MEF2A and act as a repressor of myoblast differentiation [18][57]. In summary, circLMO7 can serve as a decoy for miR-378a-3p, results in higher expression of HDAC4 and decreases expression of MEF2A, thus promoting myoblasts differentiation.

21.5. CircFUT10

CircFUT10, generated by FU10, predominantly expressed in bovine skeletal muscle tissue. It showed higher expression levels in embryonic skeletal muscles than adult skeletal muscles. Overexpression of circFUT10 inhibited cell proliferation, induced myoblasts apoptosis and enhanced myoblast differentiation. RNAhybrid and TargetScan analysis revealed that circFUT10 contained three miR-133a binding sites. Further luciferase assay confirmed that circFUT10 interacted with miR-133a [19][58]. MiR-133a has been shown to be important in myogenesis and targets serum response factor (SRF), which is an inhibitor of myoblast proliferation [20][59]. In summary, circFUT10 sponges miR-133a, leading to the enhancement of SRF expression. Thus, inhibiting myoblast proliferation and promoting differentiation.

21.6. CircSNX29

It was noted that the expression level of circSNX29 was much higher in embryonic skeletal muscle than adult skeletal muscle. In addition, nucleoplasmic separation assay showed that it is enriched in the cytoplasm. Overexpression of circSNX29 inhibited myoblasts proliferation and facilitated differentiation. RNA hybrid showed that circSNX29 contained nine potential miR-744 binding sites. Then luciferase screening assay proved that circSNX29 directly interacted with miR-744 [21][60]. Next, it was found that Wnt5a and CaMKIId were the targets of miR-744. MiR-744 dramatically inhibited their expression levels and led to the activation of the non-canonical Wnt pathways, which are essential for myoblast self-renewal and muscle fibers growth [22][61]. Together, circSNX29 acts as a miR-744 sponge and increases Wnt5a and CaMKIId expression results in the activation of non-canonical Wnt pathways and myoblasts differentiation.

21.7. CircFGFR4

CircFGFR4 was highly expressed in bovine skeletal muscle. Overexpression of circFGFR4 induced cell apoptosis and promoted myoblasts differentiation. RNAhybrid and TargetScan revealed that circFGFR4 contained 18 putative miR-107 binding sites. Luciferase assay and RNA pull-down assays confirmed the interaction of miR-107 and circFGFR4. Next, wnt3a was identified as the target of miR-107 [23][62]. Inhibition of Wnt3a repressed myotube forming and protected myoblast from apoptosis. However, whether this is a common function of Wnt3a remains to be determined, as it has been reported that the expression of Wnt3a switched muscle stem cells from a myogenic to a fibrogenic lineage and increased connective tissue deposition [24][63]. In summary, circFGFR4 acts as a miR-107 sponge and increases Wnt3a expression, leading to bovine primary myoblasts differentiation.

21.8. CircFGFR2

CircFGFR2, generated by exon 3-6 of FGFR2, was found differentially expressed during chicken embryo skeletal muscle development [25][64]. Flow cytometry analysis of the cell cycle and EdU assays demonstrated that circFGFR2 accelerated myoblast proliferation. Meanwhile, circFGFR2 positively regulated myoblasts differentiation. The results of luciferase reporter assay and biotin-coupled miRNA pull-down assay suggested that circFGFR2 interacted with miR-133a-5p and miR-29b-1-5p. Further investigation discovered that miR-133a-5p and miR-29b-1-5p inhibited chicken myoblast proliferation and differentiation. Despite miR-133a-5p, miR-29 is another important myogenesis regulator, which can reduce proliferation and facilitate differentiation of myoblasts by targeting AKT [26][27][65,66]. Altogether, circFGFR2 acts as miR-133a-5p and miR-29b-1-5p sponge to promote skeletal muscle proliferation and differentiation.

21.9. CircHIPK3

During chicken skeletal muscle development, HIPK3 generated 11 isoforms of circRNAs [28][67]. CircHIPK3 was produced by the third exon of HIPK3 and differentially expressed among chicken myogenesis. CircHIPK3 promoted the proliferation and differentiation of myoblasts. In circHIPK3, three potential binding sites for miR-30a-3p were identified through miRDB and RNAhybrid analyses. Luciferase assay suggested that circHIPK3 could act as a sponge of miR-30a-3p. Further investigation discovered that MiR-30a-3p was differentially expressed during chicken skeletal muscle development and suppressed myoblasts differentiation by targeting MEF2C [16][28][29][55,67,68]. In summary, circHIPK3 sponges miR-30a-3p, thus increasing MEF2C expression and skeletal muscle differentiation. However, the underlying mechanism of circHIPK3 promoting myoblast proliferation needs further study.

21.10. CircDystrophy

The dystrophy gene is among the first genes identified to be able to generate circRNAs in skeletal muscle [30][69]. It is the largest human gene, consisting of 79 exons. Frame-shifting deletions or nonsense mutations of dystrophy lead to Duchenne muscular dystrophy (DMD), which is a severe muscular disease characterized by progressive muscle degeneration and weakness. In contrast to DMD, Becker muscular dystrophy (BMD) patients have milder symptoms, since they can express truncated, but partially functional protein. Mutation ranging from exon 45 to 55 of the gene represents nearly 60% of DMD/BMD cases [31][70]. Transforming a DMD phenotype into a BMD phenotype by 45–55 exon skipping has been proposed a new treatment strategy. Recently, Hitoshi et al. reported that eight distinct patterns of circRNAs derived from 45–55 exons and their biogenesis was related to exons skipping [32][71]. These results suggested that artificial and specific increase the expression levels of these circRNAs by exon skipping might have the possibility to improve or cure DMD patients. Thus, further study for the mechanism of circRNA biogenesis will be a benefit for the treatment of these muscular diseases.
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