| Literature DB >> 28586055 |
Xian-Hu Zhou1, Yi-Ming Ren1, Zhi-Jian Wei1, Wei Lin1, Bao-You Fan1, Shen Liu1, Yan Hao1, Gui-Dong Shi1, Shi-Qing Feng1.
Abstract
Cubital tunnel syndrome (CuTS) is the second most common peripheral nerve compression disease, however, the pathogenesis and pathology of CuTS remain to be fully elucidated. The aim of the present study was to compare the expression pattern of microRNAs (miRNAs) in pachyntic Osborne's ligament with that in control tendinous tissue, and select meaningful miRNAs for further investigation of the clinical pathological mechanism underlying CuTS. A microarray assay was performed to examine the expression profiles of miRNAs in the Osborne's ligament and control tendinous tissues. An online bioinformatics algorithms tool (miRWalk) was used to predict putative target genes for the deregulated miRNAs, and functional annotation was performed by Gene Ontology (GO) enrichment and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis. Finally, the results of microarray were partially validated using reverse transcription‑quantitative polymerase chain reaction analysis. The expression of total of 60 miRNAs were found to be significantly different between the pachyntic Osborne's ligament and control tendinous tissues. MiRWalk2.0 predicted 1,804 target genes for these miRNAs, and the GO functional analysis of the predicted genes suggested cellular mechanisms, including metabolic process, regulation of cell growth, cell cycle processes, cell division regulation, cellular metabolic process and signal transmission, were involved. Furthermore, KEGG pathway analysis revealed important pathways, including adherent junction, focal adhesion, lysine degradation, cell adhesion molecules and mitogen‑activated protein kinase. Compared with the heathy tissue, Osborne's ligament tissue from patients with CuTS showed a markedly different miRNA expression profile, which suggested that miRNAs may be involved in the pathogenesis of CuTS.Entities:
Mesh:
Substances:
Year: 2017 PMID: 28586055 PMCID: PMC5482150 DOI: 10.3892/mmr.2017.6663
Source DB: PubMed Journal: Mol Med Rep ISSN: 1791-2997 Impact factor: 2.952
Characteristics of patients.
| Characteristic | Patient 1 | Patient 2 | Patient 3 | Patient 4 | Patient 5 | Patient 6 |
|---|---|---|---|---|---|---|
| Gender | Male | Female | Male | Male | Female | Male |
| Age (years) | 61 | 76 | 64 | 53 | 31 | 38 |
| Surgical method | ASCT | ASCT | ASCT | ASCT | ASCT | ASCT |
| Side of surgery | Left | Right | Right | Bilateral | Left | Left |
| Surgery on dominant side | No | Yes | Yes | Yes | No | No |
| Electromyography | Positive | Positive | Positive | Positive | Positive | Positive |
| Tinel's sign | Positive | Positive | Positive | Positive | Positive | Positive |
| Sample application | Microarray | Microarray | Microarray | RT-qPCR | RT-qPCR | RT-qPCR |
ASCT, anterior subcutaneous transposition; RT-qPCR, reverse transcription-quantitative polymerase chain reaction.
Primers used for reverse transcription-quantitative polymerase chain reaction analysis.
| miRNA | miRNA sequence (5′-3′) | Primer sequence (5′-3′) | Primer length (bp) | GC content (%) | Tm (°C) |
|---|---|---|---|---|---|
| hsa-miR-21-3p | CAACACCAGUCGAUGGGCUGU | Forward ATT CAA CAC | 21 | 52 | 60.2 |
| CAG TCG ATG GGC | |||||
| Reverse TAG CTT ATC | |||||
| AGA CTG ATG TT | |||||
| hsa-miR-146b-5p | UGAGAACUGAAUUCCAUAGGCU | Forward GTG AGA ACT GAA | 23 | 43 | 59.9 |
| TTC CAT AGG CT | |||||
| Reverse GCA CCA GAA | |||||
| CTG AGT CCA CA | |||||
| hsa-miR-1343-3p | CUCCUGGGGCCCGCACUCUCGC | Forward TTA TTC TCC | 19 | 63 | 60.6 |
| TGG GGC CCG C | |||||
| Reverse ATC CCA CCA | |||||
| CTG CCA CC |
miR/miRNA, microRNA.
Figure 1.Heat map and unsupervised hierarchical cluster analysis of the differentially expressed miRNAs in pachyntic Osborne's ligament groups and control tendinous tissue groups. Columns and rows represent samples and specific miRNAs. The samples were grouped together into the pachyntic Osborne's ligament group and control tendinous tissue group, according to their expression pattern. The miRNA clustering tree is shown on the left. The color scale shows the relative expression level of miRNAs as the log (P-value) -transformed values. Red indicates that the miRNA shows markedly different expression in the pachyntic Osborne's ligament group, compared with that in the control; yellow indicates less difference in the expression of miRNA between the pachyntic Osborne's ligament and control groups. miRNA/miR, microRNA.
Summary of the significantly differentially expressed miRNAs.
| miRNA | logFC (fold change) | P-value | Sequence (5′-3′) |
|---|---|---|---|
| Upregulated | |||
| hsa-miR-7855-5p | 1.045103351 | 0.000425931 | UUGGUGAGGACCCCAAGCUCGG |
| hsa-miR-422a | 1.377981007 | 0.000219629 | ACUGGACUUAGGGUCAGAAGGC |
| hsa-miR-1343-3p | 0.934668054 | 0.000311621 | CUCCUGGGGCCCGCACUCUCGC |
| Downregulated | |||
| hsa-miR-196a-5p | −6.520640993 | 0.000000057 | UAGGUAGUUUCAUGUUGUUGGG |
| hsa-miR-1290 | −3.225990914 | 0.000000895 | UGGAUUUUUGGAUCAGGGA |
| hsa-miR-595 | −3.859379525 | 0.000001060 | GAAGUGUGCCGUGGUGUGUCU |
| hsa-miR-7110-5p | −3.949821874 | 0.000006230 | UGGGGGUGUGGGGAGAGAGAG |
| hsa-miR-3148 | −2.477794005 | 0.000006770 | UGGAAAAAACUGGUGUGUGCUU |
| hsa-miR-4532 | −3.334823954 | 0.000008990 | CCCCGGGGAGCCCGGCG |
| hsa-miR-3064-5p | −3.049176967 | 0.000009880 | UCUGGCUGUUGUGGUGUGCAA |
| hsa-miR-6792-5p | −1.989451562 | 0.000010600 | GUAAGCAGGGGCUCUGGGUGA |
| hsa-miR-7844-5p | −2.838409598 | 0.000017300 | AAAACUAGGACUGUGUGGUGUA |
| hsa-miR-4535 | −2.017418576 | 0.000018300 | GUGGACCUGGCUGGGAC |
| hsa-miR-146b-5p | −5.085472937 | 0.000020700 | UGAGAACUGAAUUCCAUAGGCU |
| hsa-miR-3178 | −2.277544498 | 0.000022100 | GGGGCGCGGCCGGAUCG |
| hsa-miR-297 | −4.106551942 | 0.000028200 | AUGUAUGUGUGCAUGUGCAUG |
| hsa-miR-21-3p | −3.565524376 | 0.000037100 | CAACACCAGUCGAUGGGCUGU |
| hsa-miR-4525 | −3.485981804 | 0.000052800 | GGGGGGAUGUGCAUGCUGGUU |
| hsa-miR-6789-5p | −1.746637528 | 0.000054700 | GUAGGGGCGUCCCGGGCGCGCGGG |
| hsa-miR-6883-5p | −2.808853491 | 0.000061600 | AGGGAGGGUGUGGUAUGGAUGU |
| hsa-miR-3149 | −1.879048778 | 0.000066500 | UUUGUAUGGAUAUGUGUGUGUAU |
| hsa-miR-4502 | −2.622259256 | 0.000070000 | GCUGAUGAUGAUGGUGCUGAAG |
| hsa-miR-933 | −1.918951061 | 0.000081100 | UGUGCGCAGGGAGACCUCUCCC |
| hsa-miR-4793-3p | −3.351094169 | 0.000084600 | UCUGCACUGUGAGUUGGCUGGCU |
| hsa-miR-6085 | −1.483750019 | 0.000085000 | AAGGGGCUGGGGGAGCACA |
| hsa-miR-760 | −1.736503688 | 0.000086000 | CGGCUCUGGGUCUGUGGGGA |
| hsa-miR-6075 | −2.645791301 | 0.000090600 | ACGGCCCAGGCGGCAUUGGUG |
| hsa-miR-4741 | −1.682786276 | 0.000096200 | CGGGCUGUCCGGAGGGGUCGGCU |
| hsa-miR-6875-5p | −3.198242537 | 0.000102689 | UGAGGGACCCAGGACAGGAGA |
| hsa-miR-6845-5p | −2.537516128 | 0.000110628 | CGGGGCCAGAGCAGAGAGC |
| hsa-miR-1180-3p | −3.290772167 | 0.000120042 | UUUCCGGCUCGCGUGGGUGUGU |
| hsa-miR-3620-5p | −1.269433220 | 0.000125189 | GUGGGCUGGGCUGGGCUGGGCC |
| hsa-miR-663a | −1.826255642 | 0.000153410 | AGGCGGGGCGCCGCGGGACCGC |
| hsa-miR-663b | −3.478527017 | 0.000155267 | GGUGGCCCGGCCGUGCCUGAGG |
| hsa-miR-3621 | −1.444956668 | 0.000161666 | CGCGGGUCGGGGUCUGCAGG |
| hsa-miR-4721 | −3.187701938 | 0.000188641 | UGAGGGCUCCAGGUGACGGUGG |
| hsa-miR-6791-5p | −1.769619706 | 0.000205615 | CCCCUGGGGCUGGGCAGGCGGA |
| hsa-miR-1973 | −1.699316842 | 0.000233469 | ACCGUGCAAAGGUAGCAUA |
| hsa-miR-659-3p | −1.301640751 | 0.000244329 | CUUGGUUCAGGGAGGGUCCCCA |
| hsa-miR-4507 | −1.921339340 | 0.000257577 | CUGGGUUGGGCUGGGCUGGG |
| hsa-miR-6740-5p | −2.050797179 | 0.000259650 | AGUUUGGGAUGGAGAGAGGAGA |
| hsa-miR-6816-5p | −1.940639258 | 0.000282808 | UGGGGCGGGGCAGGUCCCUGC |
| hsa-miR-6836-5p | −3.707920585 | 0.000310829 | CGCAGGGCCCUGGCGCAGGCAU |
| hsa-miR-185-3p | −2.848826390 | 0.000322188 | AGGGGCUGGCUUUCCUCUGGUC |
| hsa-miR-4763-3p | −1.844484822 | 0.000334158 | AGGCAGGGGCUGGUGCUGGGCGGG |
| hsa-miR-30e-3p | −1.602759453 | 0.000335463 | CUUUCAGUCGGAUGUUUACAGC |
| hsa-miR-1237-5p | −1.676336572 | 0.000348059 | CGGGGGCGGGGCCGAAGCGCG |
| hsa-miR-6084 | −1.326538904 | 0.000356453 | UUCCGCCAGUCGGUGGCCGG |
| hsa-miR-4488 | −1.219288223 | 0.000357825 | AGGGGGCGGGCUCCGGCG |
| hsa-miR-4450 | −2.075168762 | 0.000360412 | UGGGGAUUUGGAGAAGUGGUGA |
| hsa-miR-3651 | −4.214617171 | 0.000361525 | CAUAGCCCGGUCGCUGGUACAUGA |
| hsa-miR-4449 | −4.741198585 | 0.000393060 | CGUCCCGGGGCUGCGCGAGGCA |
| hsa-miR-762 | −1.666761846 | 0.000444374 | GGGGCUGGGGCCGGGGCCGAGC |
| hsa-miR-6765-5p | −1.765624284 | 0.000463632 | GUGAGGCGGGGCCAGGAGGGUGUGU |
| hsa-miR-2277-5p | −0.827734961 | 0.000465336 | AGCGCGGGCUGAGCGCUGCCAGUC |
| hsa-miR-3197 | −5.698464480 | 0.000488920 | GGAGGCGCAGGCUCGGAAAGGCG |
| hsa-miR-615-5p | −3.033691421 | 0.000502284 | GGGGGUCCCCGGUGCUCGGAUC |
| hsa-miR-4783-3p | −2.084261251 | 0.000519843 | CCCCGGUGUUGGGGCGCGUCUGC |
| hsa-miR-1343-5p | −1.042812782 | 0.000541584 | UGGGGAGCGGCCCCCGGGUGGG |
| hsa-miR-6815-5p | −2.100053152 | 0.000542802 | UAGGUGGCGCCGGAGGAGUCAUU |
miR, microRNA.
Figure 2.Venn diagram of five miRNAs, including the majority of the predicted target genes. The Venn diagram shows the potential common significant GO terms among five miRNAs (hsa-miR-146b-5p, hsa-miR-21-3p, hsa-miR-185-3p, hsa-miR-615-5p and hsa-miR-663a), which include the majority of the predicted target genes. Different colors represent different miRNAs. The number in the intersection represents the number of common GO terms among the miRNAs. GO, Gene Ontology; miRNA/miR, microRNA.
KEGG pathway analysis for the predicted miRNA targets.
| KEGG pathway | P-value | Genes (n) | miRNAs (n) |
|---|---|---|---|
| Prion diseases | 0.000000 | 3 | 2 |
| Systemic lupus erythematosus | 0.000000 | 31 | 3 |
| Alcoholism | 0.000000 | 39 | 4 |
| Adherens junction | 0.000000 | 30 | 9 |
| Axon guidance | 0.000000 | 51 | 9 |
| Other glycan degradation | 0.000003 | 3 | 2 |
| Lysine degradation | 0.000111 | 19 | 9 |
| Transcriptional misregulation in cancer | 0.000165 | 65 | 9 |
| Cell adhesion molecules | 0.000215 | 23 | 8 |
| Mitogen-activated protein kinase signaling pathway | 0.000567 | 86 | 8 |
| ErbB signaling pathway | 0.005328 | 29 | 8 |
| Circadian entrainment | 0.007704 | 35 | 6 |
| Neurotrophin signaling pathway | 0.017656 | 47 | 7 |
| Prostate cancer | 0.01956 | 32 | 5 |
| Focal adhesion | 0.025566 | 67 | 7 |
| Long-term potentiation | 0.032181 | 25 | 6 |
| Retrograde endocannabinoid signaling | 0.032885 | 33 | 4 |
| Glycosaminoglycan biosynthesis-heparan sulfate/heparin | 0.041110 | 8 | 6 |
miRNA, microRNA; KEGG, Kyoto Encyclopedia of Genes and Genomes.
Figure 3.Validation of the differential expression of the three miRNAs identified in the microarray using RT-qPCR. RT-qPCR was used to analyze the expression of miR-1343-3p, miR-21-3p and miR-146b-5p in Osborne's ligaments from patients with CuTS. Data indicate the relative expression following normalization and values are presented as the mean ± standard error of the mean. *P<0.05, vs. control. miRNA/miR, microRNA; CuTS group, pachyntic Osborne's ligament tissues from patients with cubital tunnel syndrome; control group, control tendinous tissues from patients with cubital tunnel syndrome; RT-qPCR, reverse transcription-quantitative polymerase chain reaction.