Generic placeholder image

Endocrine, Metabolic & Immune Disorders - Drug Targets

Editor-in-Chief

ISSN (Print): 1871-5303
ISSN (Online): 2212-3873

Research Article

Identification of miRNA-mRNA Regulatory Networks Associated with Diabetic Retinopathy using Bioinformatics Analysis

Author(s): Weihai Xu, Ya Liang, Ying Zhuang and Zhilan Yuan*

Volume 23, Issue 13, 2023

Published on: 15 June, 2023

Page: [1628 - 1636] Pages: 9

DOI: 10.2174/1871530323666230419081351

Price: $65

Abstract

Introduction: Diabetic retinopathy (DR) is a major complication of diabetes and a leading cause of visual loss. This study aimed to explore biomarkers for DR that may provide additional reference to DR pathogenesis and development.

Methods: The differentially expressed genes (DEGs) between the DR and control samples in the GSE53257 dataset were identified. Logistics analyses were performed to identify DR-associated miRNAs and genes, and correlation analysis was performed to determine the correlation between them in GSE160306.

Results: A total of 114 DEGs in DR were identified in GSE53257. Three genes, including ATP5A1 (down), DAUFV2 (down), and OXA1L (down), were differentially expressed between DR and control samples in GSE160306. Univariate logistics analysis identified that ATP5A1 (OR=0.007, p = 1.40E-02), NDUFV2 (OR = 0.003, p = 6.40E-03), and OXA1L (OR = 0.093, p = 3.08E-02) were DR-associated genes. ATP5A1 and OXA1L were regulated by multiple miRNAs, of which hsa-let- 7b-5p (OR = 26.071, p = 4.40E-03) and hsa-miR-31-5p (OR = 4.188, p = 5.09E-02) were related to DR. ATP5A1 and OXA1L were closely correlated with each other in DR.

Conclusion: The hsa-miR-31-5p-ATP5A1 and hsa-let-7b-5p-OXA1L axes might play novel and important roles in the pathogenesis and development of DR.

Graphical Abstract

[1]
Congdon N, Zheng Y, He M. The worldwide epidemic of diabetic retinopathy. Indian J Ophthalmol 2012; 60(5): 428-31.
[http://dx.doi.org/10.4103/0301-4738.100542] [PMID: 22944754]
[2]
Lee R, Wong TY, Sabanayagam C. Epidemiology of diabetic retinopathy, diabetic macular edema and related vision loss. Eye Vis 2015; 2(1): 17.
[http://dx.doi.org/10.1186/s40662-015-0026-2]
[3]
Wang Y, Lin Z, Zhai G, et al. Prevalence of and risk factors for diabetic retinopathy and diabetic macular edema in patients with early and late onset diabetes mellitus. Ophthalmic Res 2022; 65(3): 293-9.
[http://dx.doi.org/10.1159/000508335] [PMID: 32353847]
[4]
Sabanayagam C, Banu R, Chee ML, et al. Incidence and progression of diabetic retinopathy: a systematic review. Lancet Diabetes Endocrinol 2019; 7(2): 140-9.
[http://dx.doi.org/10.1016/S2213-8587(18)30128-1] [PMID: 30005958]
[5]
Ahmed I, Liu TYA. The impact of COVID-19 on diabetic retinopathy monitoring and treatment. Curr Diab Rep 2021; 21(10): 40.
[http://dx.doi.org/10.1007/s11892-021-01411-6] [PMID: 34495377]
[6]
Galiero R, Pafundi PC, Nevola R, et al. The importance of telemedicine during COVID-19 pandemic: a focus on diabetic retinopathy. J Diabetes Res 2020; 2020: 1-8.
[http://dx.doi.org/10.1155/2020/9036847] [PMID: 33123599]
[7]
Muni RH, Kohly RP, Lee EQ, Manson JE, Semba RD, Schaumberg DA. Prospective study of inflammatory biomarkers and risk of diabetic retinopathy in the diabetes control and complications trial. JAMA Ophthalmol 2013; 131(4): 514-21.
[http://dx.doi.org/10.1001/jamaophthalmol.2013.2299] [PMID: 23392399]
[8]
López-Contreras AK, Martínez-Ruiz MG, Olvera-Montaño C, et al. Importance of the use of oxidative stress biomarkers and inflammatory profile in aqueous and vitreous humor in diabetic retinopathy. Antioxidants 2020; 9(9): 891.
[http://dx.doi.org/10.3390/antiox9090891] [PMID: 32962301]
[9]
Shuaib M, Prajapati KS, Singh AK, Kushwaha PP, Waseem M, Kumar S. Identification of miRNAs and related hub genes associated with the triple negative breast cancer using integrated bioinformatics analysis and in vitro approach. J Biomol Struct Dyn 2022; 40(22): 11676-90.
[http://dx.doi.org/10.1080/07391102.2021.1961869] [PMID: 34387138]
[10]
Li X, Yu J, Zhang Z, et al. Network bioinformatics analysis provides insight into drug repurposing for COVID-19. Medicine in Drug Discovery 2021; 10: 100090.
[http://dx.doi.org/10.1016/j.medidd.2021.100090] [PMID: 33817623]
[11]
Peplow PV, Martinez B. MicroRNAs as biomarkers of diabetic retinopathy and disease progression. Neural Regen Res 2019; 14(11): 1858-69.
[http://dx.doi.org/10.4103/1673-5374.259602] [PMID: 31290435]
[12]
Liu HN, Cao NJ, Li X, Qian W, Chen XL. Serum microRNA-211 as a biomarker for diabetic retinopathy via modulating Sirtuin 1. Biochem Biophys Res Commun 2018; 505(4): 1236-43.
[http://dx.doi.org/10.1016/j.bbrc.2018.10.052] [PMID: 30333091]
[13]
Yu B, Xiao M, Yang F, et al. MicroRNA-431-5p encapsulated in serum extracellular vesicles as a biomarker for proliferative diabetic retinopathy. Int J Biochem Cell Biol 2021; 135: 105975.
[http://dx.doi.org/10.1016/j.biocel.2021.105975] [PMID: 33838342]
[14]
Greco M, Chiefari E, Accattato F, et al. MicroRNA-1281 as a novel circulating biomarker in patients with diabetic retinopathy. Front Endocrinol 2020; 11: 528.
[http://dx.doi.org/10.3389/fendo.2020.00528] [PMID: 32849308]
[15]
Meng W, Shah KP, Pollack S, et al. A genome-wide association study suggests new evidence for an association of the NADPH Oxidase 4 (NOX4) gene with severe diabetic retinopathy in type 2 diabetes. Acta Ophthalmol 2018; 96(7): e811-9.
[http://dx.doi.org/10.1111/aos.13769] [PMID: 30178632]
[16]
Pamplona R, Jové M, Mota-Martorell N, Barja G. Is the NDUFV2 subunit of the hydrophilic complex I domain a key determinant of animal longevity? FEBS J 2021; 288(23): 6652-73.
[http://dx.doi.org/10.1111/febs.15714] [PMID: 33455045]
[17]
Washizuka S, Iwamoto K, Kakiuchi C, Bundo M, Kato T. Expression of mitochondrial complex I subunit gene NDUFV2 in the lymphoblastoid cells derived from patients with bipolar disorder and schizophrenia. Neurosci Res 2009; 63(3): 199-204.
[http://dx.doi.org/10.1016/j.neures.2008.12.004] [PMID: 19135101]
[18]
Jonckheere AI, Renkema GH, Bras M, et al. A complex V ATP5A1 defect causes fatal neonatal mitochondrial encephalopathy. Brain 2013; 136(5): 1544-54.
[http://dx.doi.org/10.1093/brain/awt086] [PMID: 23599390]
[19]
Yuan L, Chen L, Qian K, et al. A novel correlation between ATP5A1 gene expression and progression of human clear cell renal cell carcinoma identified by co expression analysis. Oncol Rep 2018; 39(2): 525-36.
[PMID: 29207195]
[20]
Song Ba. Y.; Wang Ma, F.; Wei Ma, Y.; Chen Ba, D.; Deng Ba, G. ATP5A1 Participates in Transcriptional and Posttranscriptional Regulation of Cancer-Associated Genes by Modulating Their Expression and Alternative Splicing Profiles in HeLa Cells. Technol Cancer Res Treat 2021; 20: 15330338211039126.
[http://dx.doi.org/10.1177/15330338211039126] [PMID: 34520292]
[21]
Brüggemann M, Gromes A, Poss M, et al. Systematic analysis of the expression of the mitochondrial ATP synthase (complex V) subunits in clear cell renal cell carcinoma. Transl Oncol 2017; 10(4): 661-8.
[http://dx.doi.org/10.1016/j.tranon.2017.06.002] [PMID: 28672194]
[22]
Xu G, Li JY. ATP5A1 and ATP5B are highly expressed in glioblastoma tumor cells and endothelial cells of microvascular proliferation. J Neurooncol 2016; 126(3): 405-13.
[http://dx.doi.org/10.1007/s11060-015-1984-x] [PMID: 26526033]
[23]
Rötig A, Parfait B, Heidet L, Dujardin G, Rustin P, Munnich A. Sequence and structure of the human OXA1L gene and its upstream elements. Biochim Biophys Acta Mol Basis Dis 1997; 1361(1): 6-10.
[http://dx.doi.org/10.1016/S0925-4439(97)00031-8] [PMID: 9247084]
[24]
Mai N. The role of MRPL45 and OXA1L in human mitochondrial protein synthesis Newcastle University, PhD Thesis 2017.
[25]
Pires AO, Queiroz GA, de Jesus Silva M, et al. Polymorphisms in the DAD1 and OXA1L genes are associated with asthma and atopy in a South American population. Mol Immunol 2018; 101: 294-302.
[http://dx.doi.org/10.1016/j.molimm.2018.07.014] [PMID: 30032071]
[26]
Mlcochova J, Faltejskova-Vychytilova P, Ferracin M, et al. MicroRNA expression profiling identifies miR-31-5p/3p as associated with time to progression in wild-type RAS metastatic colorectal cancer treated with cetuximab. Oncotarget 2015; 6(36): 38695-704.
[http://dx.doi.org/10.18632/oncotarget.5735] [PMID: 26497852]
[27]
Zhao G, Han C, Zhang Z, Wang L, Xu J. Increased expression of microRNA-31-5p inhibits cell proliferation, migration, and invasion via regulating Sp1 transcription factor in HepG2 hepatocellular carcinoma cell line. Biochem Biophys Res Commun 2017; 490(2): 371-7.
[http://dx.doi.org/10.1016/j.bbrc.2017.06.050] [PMID: 28623129]
[28]
Hsu HH, Kuo WW, Shih HN, et al. FOXC1 regulation of miR-31-5p confers oxaliplatin resistance by targeting LATS2 in colorectal cancer. Cancers 2019; 11(10): 1576.
[http://dx.doi.org/10.3390/cancers11101576] [PMID: 31623173]
[29]
Xu H, Liu C, Zhang Y, et al. Let-7b-5p regulates proliferation and apoptosis in multiple myeloma by targeting IGF1R. Acta Biochim Biophys Sin 2014; 46(11): 965-72.
[http://dx.doi.org/10.1093/abbs/gmu089] [PMID: 25274331]
[30]
Li H, Dai B, Fan J, et al. The Different Roles of miRNA-92a-2-5p and let-7b-5p in Mitochondrial Translation in db/db Mice. Mol Ther Nucleic Acids 2019; 17: 424-35.
[http://dx.doi.org/10.1016/j.omtn.2019.06.013] [PMID: 31319246]

Rights & Permissions Print Cite
© 2024 Bentham Science Publishers | Privacy Policy