Davis College of Agriculture, Natural Resources and Design
Animal and Nutritional Sciences
In fish, protein-coding and noncoding genes involved in muscle atrophy are not fully characterized. In this study, we characterized coding and noncoding genes involved in gonadogenesis-associated muscle atrophy, and investigated the potential functional interplay between these genes. Using RNA- Seq, we compared expression pattern of mRNAs, long noncoding RNAs (lncRNAs) and microRNAs of atrophying skeletal muscle from gravid females and control skeletal muscle from age-matched sterile individuals. A total of 852 mRNAs, 1,160 lncRNAs and 28 microRNAs were differentially expressed (DE) between the two groups. Muscle atrophy appears to be mediated by many genes encoding ubiquitin- proteasome system, autophagy related proteases, lysosomal proteases and transcription factors. Transcripts encoding atrogin-1 and mir-29 showed exceptional high expression in atrophying muscle, suggesting an important role in bulk muscle proteolysis. DE genes were co-localized in the genome with strong expression correlation, and they exhibited extensive ‘lncRNA-mRNA’, ‘lncRNA-microRNA’, ‘mRNA-microRNA’ and ‘lncRNA-protein’ physical interactions. DE genes exhibiting potential functional interactions comprised the highly correlated ‘lncRNA-mRNA-microRNA’ gene network described as ‘degradome’. This study pinpoints extensive coding and noncoding RNA interactions during muscle atrophy in fish, and provides valuable resources for future mechanistic studies.
Digital Commons Citation
Paneru, Bam; Ali, Ali; Al-Tobasei, Rafet; Kenney, Brett; and Salem, Mohamed, "Crosstalk among lncRNAs, microRNAs and mRNAs in the muscle ‘degradome’ of rainbow trout" (2018). Faculty & Staff Scholarship. 1668.
Paneru, B., Ali, A., Al-Tobasei, R., Kenney, B., & Salem, M. (2018). Crosstalk among lncRNAs, microRNAs and mRNAs in the muscle “degradome” of rainbow trout. Scientific Reports, 8(1). https://doi.org/10.1038/s41598-018-26753-2