Abstract
Abstract The search is still on for the molecular processes associated with the development and metabolism of skeletal muscles. Selection conducted in farm animals is focused on high muscle mass because it delivers higher economic profit. The present study aimed to shed light on mRNA degradome signals that could be characteristic for molecular processes associated with an abundance of muscle mass and to identify miRNA regulatory networks controlling these processes in pigs applying next-generation-sequencing (NGS). In the study, over 10,000 degraded transcripts were identified per sample, with the highest abundance for genes encoding mitochondrial proteins (COXs, NDs, CYTB, ATP6 and ATP8). Moreover, only 26% of the miRNA targets were found within this degraded transcript pool, which suggested for miRNAs other molecular mechanism at different level of gene expression than mRNA degradation. On the other hand, a small share of the identified degraded transcripts associated with miRNA regulation suggests a different mechanism of mRNA degradation for identified degraded transcropts. Subsequently, most of the miRNA gene degraded targets, such as ENO3, CKM, CRYAB and ADAM19 encode proteins involved in the muscle mass control. The present study showed an interesting dependence between miRNAs and their targets. Nevertheless, the complete view of the miRNA regulatory network could be a subject of further advanced research, which would employ a miRNA transfection procedure in skeletal muscle cell cultures.
Highlights
Over recent years, next-generation sequencing methods have been used to identify proteins/genes engaged in molecular processes associated with skeletal muscle (SM) development
There were identified over 10,000 degraded transcripts per sample, with the highest abundance for genes encoding mitochondrial proteins involved in cell respiration, such as COXs, NDs, CYTB, ATP6 and ATP8, and non-mtDNA proteins involved in development of skeletal muscle such as ACTA1, MYH2, MYL1 and PYGM
The present study showed an interesting dependence between miRNAs and their targets
Summary
Next-generation sequencing methods have been used to identify proteins/genes engaged in molecular processes associated with SM development. MRNA degradation is a fundamental process in living cells that is associated with maturation, mRNA quality control and gene expression regulation. The complexity of transcripts regulation involving RNA degradation and the role of miRNA in this process remains not exactly clear (Gebert and MacRae, 2019). The muscle mRNA degradome was analysed in Sus scrofa in the context of miRNA regulation. The present study used next-generation sequencing (NGS) technology to identify the mRNA degradome signals that could be characteristic for molecular processes associated with muscle mass control in pigs. The present investigation focused on miRNA regulation and identification of the other degraded transcripts under a different unknown kind of control
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