Integrated study of the circRNA, lncRNA and mRNA networks in testicular heat exposure
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ABSTRACT:
PROVIDER: PRJNA695496 | ENA |
REPOSITORIES: ENA
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Project description:The World Health Organization has recognized testicular function with temperature dependence. Testicular heat exposure caused by occupational factors, lifestyle and clinical disease, etc., can lead to different degrees of reproductive obstacles. The aim of this study is to reveal the transcriptional regulatory network and their potential crucial roles in testicular heat exposure. After passing quality control, the high throughput sequencing data of mouse testicular tissue for scrotum heat exposure and control group were carried out various analyses including differentially expressed transcriptome exploration, Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG) and network regulation. Differential transcriptome expression analysis revealed that 172 circRNA (91 upregulation and 81 downregulation), 465 lncRNA (96 upregulation and 369 downregulation) and 2721 mRNA (2003 upregulation and 718 downregulation) were identified as significant differential expression in the mouse testicular tissue of heat exposure compared with control group using the cut-off of log2fold change >= 0.585, p value <= 0.05 and q value <= 1.00. Through GO term analysis, differentially expressed lncRNA and mRNA may play important functions in negative regulation of cellular process [GO:0048523], meiotic cell cycle [GO:0051321], cytoplasm [GO:0005737], membrane raft [GO:0045121], amide binding [GO:0033218], extracellular matrix binding [GO: 0050840]. KEGG pathway analysis of differentially expressed lncRNA and mRNA can be classified into MAPK signaling [mmu04010], purine metabolism [mmu00230], homologous recombination [mmu03440], RNA transport [mmu03013], nod-like receptor signaling pathway [mmu04621]. This research provides high throughput sequencing data of transcriptome in testicular heat exposure model and lays the foundation for further study on the circRNA and lncRNA in male reproductive diseases related to elevated testicular temperature.
2021-01-29 | GSE165696 | GEO
Project description:Integrated study of the circRNA, lncRNA, mRNA and miRNA networks in testicular heat exposure
| PRJNA695494 | ENA
Project description:The World Health Organization has recognized testicular function with temperature dependence. Testicular heat exposure caused by occupational factors, lifestyle and clinical disease, etc., can lead to different degrees of reproductive obstacles. The aim of this study is to reveal the transcriptional regulatory network and their potential crucial roles in testicular heat exposure. After passing quality control, the high throughput sequencing data of mouse testicular tissue for scrotum heat exposure and control group were carried out various analyses including differentially expressed transcriptome exploration, Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG) and network regulation. Differential transcriptome expression analysis revealed that 279 miRNAs (138 upregulation and 141 downregulation) were identified as significant differential expression in the mouse testicular tissue of heat exposure compared with control group using the cut-off of log2fold change >= 0.585, p value <= 0.05 and q value <= 1.00. This research provides high throughput sequencing data of transcriptome in testicular heat exposure model and lays the foundation for further study on the miRNA in male reproductive diseases related to elevated testicular temperature.
2021-01-29 | GSE165697 | GEO
Project description:Integrated study of the miRNA networks in testicular heat exposure
| PRJNA695497 | ENA
Project description:This SuperSeries is composed of the SubSeries listed below.
2021-01-29 | GSE165698 | GEO
Project description:The number of patients with diabetes is increasing worldwide. Diabetic testicular damage can cause spermiogenesis disorders and sexual dysfunction. We thus explored the role of circRNA, lncRNA and mRNA in diabetic testicular damage, and revealed that they could serve as effective prevention and treatment therapeutic targets. Streptozotocin (STZ) was used to generate a rat model of type 2 diabetes. Rat testicular tissues were used for circRNA, lncRNA and mRNA sequencing.
2021-03-17 | GSE169130 | GEO
Project description:Circular RNAs (circRNAs) are natural outputs of eukaryotic transcription and RNA processing and have emerged as critical regulators in physiology and human diseases. Although a series of cis-elements and trans-factors are reported to globally regulate circRNA biogenesis, most of these regulations are unconserved or at most mammalian conserved. Here, using a genome-wide CRISPR knockout screen, we have identified an evolutionarily conserved polyadenosine RNA-binding protein ZC3H14 to regulate circRNA biogenesis in eukaryotes. Mechanistically, ZC3H14 associates with spliceosome to bind to 3' and 5' exon-intron boundaries of circularized exons, and forms a dimer to promote circRNA biogenesis. Zc3h14-/- mice exhibit disrupted spermatogenesis and reduced testicular circRNA levels. Additionally, human ZC3H14 is associated with male infertility. Our findings reveal a conserved requirement for ZC3H14/Nab2 in the modulation of eukaryotic backsplicing and link ZC3H14 along with circRNAs to mammalian testicular disorders.
2024-02-10 | GSE254916 | GEO
Project description:Heme oxygenase(HO-1) has been shown to protect against I/R injury, but its effects on testicular I/R is very limited. Therefore, this study aims to investigate the effects of HO-1 on testicular I/R and the underlying mechanism.Knockout of HO-1 rats by TALEN technique.Immunofluorescence and immunohistochemistry was used to detect HO-1 nuclear translocation. Flow cytometry was used to detect cell apoptosis and cell cycle.High-resolution miRNA,mRNA sequencing, real-time PCR and western blot were performed to select testicular I/R injury related genes with strong conservation in HO-1 knockout rats.Double luciferase reporter assay was used to verify the relationship between c-Jun and miR-221/222.We found that HO-1 improved the pathological damage caused by testicular I/R in vivo. We verified the nuclear translocation of HO-1 and its protective effect on hypoxia/reoxygenation(H/R) damage in GC-1 cells.And our results indicated that HO-1 protein itself rather than heme breakdown metabolites might play a key role in testicular I/R.Gene sequencing was performed to screen out MiR221/222 and its downstream gene-thymocyte selection associated high mobility group box(TOX). In addition, we found that HO-1 increased phosphorylation of c-Jun in H/R group.We knocked down c-Jun in GC-1 cells and observed a decrease in the expression of miR-221/222.And we found by inhibiting HO-1,we observed a decrease in the expression of c-jun and miR-221/222,which could be rescued by adding c-jun. The dual luciferase reporter assay confirmed the interaction between c-Jun and miR-221/222. Collectively, HO-1 possesses a protective effect on testicular I/R via phosphorylated c-Jun-miR-221/222-TOX pathway.
2024-02-14 | GSE237563 | GEO
Project description:Arraystar Human circRNA Microarray is designed for the global profiling of human circRNAs. In this study, we applied a circRNA microarray to screen the potential biomarker for HCC. 20 samples extracted from plasma samples including HCC group before operation, and after operation, CH group and control group. Each group contained five samples.
2021-03-02 | E-MTAB-8799 | biostudies-arrayexpress
Project description:Many studies have demonstrated the importance of circRNA in regulating gene expression through functioning as microRNA sponges. However, the roles of circRNA-protein interaction are not fully understood. Importantly, how circRNA-protein interaction contributes the progression of pancreatic ductal adenocarcinoma is largely unexplored. Therefore, RNA Pull down assay for investigating RNA-protein interaction was performed in PANC-1 cells.
2022-02-15 | PXD015048 | Pride