Abstract
Fish myotomes are comprised of anatomically segregated fast and slow muscle fibers that possess different metabolic and contractile properties. Although the expression profile properties in fast and slow muscle fibers had been investigated at the mRNA levels, a comprehensive analysis at proteomic and microRNA transcriptomic levels is limited. In the present study, we first systematically compared the proteomic and microRNA transcriptome of the slow and fast muscles of Chinese perch (Siniperca chuatsi). Total of 2102 proteins were identified in muscle tissues. Among them, 99 proteins were differentially up-regulated and 400 were down-regulated in the fast muscle compared with slow muscle. MiRNA microarrays revealed that 199 miRNAs identified in the two types of muscle fibers. Compared with the fast muscle, the 32 miRNAs was up-regulated and 27 down-regulated in the slow muscle. Specifically, expression of miR-103 and miR-144 was negatively correlated with SmyD1a and SmyD1b expression in fast and slow muscles, respectively. The luciferase reporter assay further verified that the miR-103 and miR-144 directly regulated the SmyD1a and SmyD1b expression by targeting their 3′-UTR. The constructed miRNA-SmyD1 interaction network might play an important role in controlling the development and performance of different muscle fiber types in Chinese perch.
Highlights
The fast-twitch and slow-twitch muscle fibers are the two major types of fish skeletal muscle[1]
We found 99 proteins were differentially up-regulated and 400 were down-regulated (Fold change ≥ 1.2 or ≤0.83) in fast muscle compared with slow muscle by isobaric tag for relative and absolute quantitation (iTRAQ) (Supplementary Table S1)
Fish skeletal muscles are composed of two distinct layers of tissues termed as white muscle and slow muscle
Summary
The fast-twitch and slow-twitch muscle fibers are the two major types of fish skeletal muscle[1]. Recent studies demonstrated that myomiRs may play an important role in the regulation of muscle fiber type specification and maintenance in some vertebrate species[12,13]. Our recent findings revealed that miR143 silencing leads to the up-regulation of MyoD and fast MyHC gene expression in Chinese perch. Identifying miRNAs and their target genes that control muscle development is essential for better understanding the regulatory mechanism of miRNA function in muscle fiber specification and maintenance. The aims of this study were to analyze the proteomic and microRNA transcriptomes of slow and fast muscles of Chinese perch (Siniperca chuatsi) and to identify differentially expressed miRNAs and proteins between these two types of muscle fibers, and to further assay how differentially miRNAs target specific muscle functional genes in regulating muscle development
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