| Experiment Id | GSE140199 | Name | The miRNAs expression in liver of Clockdelta19 mutant mouse |
| Experiment Type | transcription profiling by array | Study Type | WT vs. Mutant |
| Source | GEO | Curation Date | 2022-03-17 |
| description | Circadian clock controls the physiological functions of a lot of tissues including liver by an autoregulatory transcription-translational feedback loop, of which CLOCK is a core positive component. And, many studies have indicated that microRNAs (miRNAs) regulate liver function. However, little is known about the molecular interpretation of how CLOCK-regulated miRNAs are link to liver function. To better understand this, we performed the expression profiles of miRNAs in the liver of Clockâ³19 mutant mice to obtain the putative CLOCK-regulated miRNAs. A total of 61 miRNAs were differentially expressed (FCA>=) in the liver of Clock mutant mice at zeitgeber time 2 (ZT2) and 57 miRNAs at zeitgeber time 14 (ZT14) as compared with control mice. Then, we analyzed the pathways of differentially expressed miRNAs to evaluate the roles of these miRNAs. According to the pathway analysis, the circadian rhythms and circadian entrainment pathway were found, and the target genes of differentially expressed miRNAs were mainly involved in pathways in cancer, PI3K-Akt signaling pathway and MAPK signaling pathway. The protein-protein interaction (PPI) analysis indicated that the hub genes were mostly associated with the pathway in cancer and circadian rhythms. Moreover, we verified the expression level of five miRNAs across the circadian cycle. Although the expression levels of miR-195 and miR-340 were up-regulated, the rhythms of these two miRNAs were always remained. The results identify a number of miRNAs that may be regulated by CLOCK, and these miRNAs play a role in the various physiological processes of the liver, which will provide a reference to better understanding the potential regulatory mechanisms in the liver. All male Clock mutant mice (Clockâ³19) mice at 6-8 weeks of age were individually caged and maintained under IVC conditions with 12h light/dark cycle, lights-on at 0700hr and free access to food and water for two weeks before using. At 0900h (ZT2), 2100h (ZT14) on the first day after two weeks adaptation period, three animals of each group were sacrificed by dry ice. The liver was isolated, quickly frozen and stored in liquid nitrogen. The three RNA samples at each time point were mixed and isolated using the mirVana miRNA extraction Kit (Ambion, Austin, TX). RNA labeling, microarray hybridization and data processing were analyzed by Shanghai OE Biotech. Co., Ltd. Briefly, RNA labeled and hybridized using the Agilent mouse 4*44K microRNA microarray. Hybridization signals were detected with an Agilent DNA microarray scanner G2565BA, and scan images were analyzed using Agilent feature extraction software. Data is analyzed using Agi4x44PreProcess (Agilent Technologies). |
