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Original Research

Autophagy Induced by BCL2-Related ceRNA Network Participates in the Occurrence of COPD

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Pages 791-808 | Published online: 08 Apr 2022

References

  • Global Initiative for Chronic Obstructive Lung Disease. The global strategy for diagnosis, management and prevention of COPD (updated 2020), the pocket guide (updated 2020) and the complete list of references examined by the committee is available on the GOLD website. Available from: www.goldcopd.org. Accessed April 02, 2022.
  • European Respiratory Society on behalf of the Forum of International Respiratory Societies (FIRS). The global impact of respiratory disease, second edition; 2017. Available from: https://www.who.int/gard/publications/The_Global_Impact_of_Respiratory_Disease.pdf. Accessed 14 October 2019.
  • Guarascio AJ, Ray SM, Finch CK, Self TH. The clinical and economic burden of chronic obstructive pulmonary disease in the USA. Clinicoecon Outcomes Res. 2013;5:235–245. doi:10.2147/CEOR.S34321
  • Murray CJL, Barber RM, Foreman KJ, et al. Global, regional, and national disability-adjusted life years (DALYs) for 306 diseases and injuries and healthy life expectancy (HALE) for 188 countries, 1990–2013: quantifying the epidemiological transition. Lancet. 2015;386(10009):2145–2191. doi:10.1016/S0140-6736(15)61340-X
  • Murray CJ, Atkinson C, Bhalla K, et al. The state of US health, 1990–2010: burden of diseases, injuries, and risk factors. JAMA. 2013;310(6):591–608. doi:10.1001/jama.2013.13805
  • Zheng M, Hong W, Gao M, et al. Long noncoding RNA COPDA1 promotes airway smooth muscle cell proliferation in chronic obstructive pulmonary disease. Am J Respir Cell Mol Biol. 2019;61(5):584–596. doi:10.1165/rcmb.2018-0269OC
  • Zong D, Li J, Cai S, et al. Notch1 regulates endothelial apoptosis via the ERK pathway in chronic obstructive pulmonary disease. Am J Physiol Cell Physiol. 2018;315(3):C330–C340. doi:10.1152/ajpcell.00182.2017
  • Gouzi F, Blaquiere M, Catteau M, et al. Oxidative stress regulates autophagy in cultured muscle cells of patients with chronic obstructive pulmonary disease. J Cell Physiol. 2018;233(12):9629–9639. doi:10.1002/jcp.26868
  • Mebratu YA, Schwalm K, Smith KR, Schuyler M, Tesfaigzi Y. Cigarette smoke suppresses Bik to cause epithelial cell hyperplasia and mucous cell metaplasia. Am J Respir Crit Care Med. 2011;183(11):1531–1538. doi:10.1164/rccm.201011-1930OC
  • Hussain SS, George S, Singh S, et al. A small molecule BH3-mimetic suppresses cigarette smoke-induced mucous expression in airway epithelial cells. Sci Rep. 2018;8(1):13796. doi:10.1038/s41598-018-32114-w
  • Racanelli AC, Kikkers SA, Choi AMK, Cloonan SM. Autophagy and inflammation in chronic respiratory disease. Autophagy. 2018;14(2):221–232. doi:10.1080/15548627.2017.1389823
  • Ueno T, Komatsu M. Autophagy in the liver: functions in health and disease. Nat Rev Gastroenterol Hepatol. 2017;14(3):170–184. doi:10.1038/nrgastro.2016.185
  • Shirakabe A, Ikeda Y, Sciarretta S, Zablocki DK, Sadoshima J. Aging and autophagy in the heart. Circ Res. 2016;118(10):1563–1576. doi:10.1161/CIRCRESAHA.116.307474
  • Liao SX, Sun PP, Gu YH, Rao XM, Zhang LY, Ou-Yang Y. Autophagy and pulmonary disease. Ther Adv Respir Dis. 2019;13:1753466619890538. doi:10.1177/1753466619890538
  • Tominello TR, Oliveira ERA, Hussain SS, et al. Emerging roles of autophagy and inflammasome in ehrlichiosis. Front Immunol. 2019;10:1011. doi:10.3389/fimmu.2019.01011
  • Ghavami S, Yeganeh B, Zeki AA, et al. Autophagy and the unfolded protein response promote profibrotic effects of TGF-beta1 in human lung fibroblasts. Am J Physiol Lung Cell Mol Physiol. 2018;314(3):L493–L504. doi:10.1152/ajplung.00372.2017
  • Farber HW, Loscalzo J. Pulmonary arterial hypertension. N Engl J Med. 2004;351(16):1655–1665. doi:10.1056/NEJMra035488
  • Gao Y, Wang N, Li RH, Xiao YZ. The role of autophagy and the chemokine (C-X-C Motif) ligand 16 during acute lung injury in mice. Med Sci Monit. 2018;24:2404–2412. doi:10.12659/MSM.906016
  • Fujii S, Hara H, Araya J, et al. Insufficient autophagy promotes bronchial epithelial cell senescence in chronic obstructive pulmonary disease. Oncoimmunology. 2012;1(5):630–641. doi:10.4161/onci.20297
  • Ryter SW, Lee SJ, Choi AM. Autophagy in cigarette smoke-induced chronic obstructive pulmonary disease. Expert Rev Respir Med. 2010;4(5):573–584. doi:10.1586/ers.10.61
  • Jacquier A. The complex eukaryotic transcriptome: unexpected pervasive transcription and novel small RNAs. Nat Rev Genet. 2009;10(12):833–844. doi:10.1038/nrg2683
  • Vij N, Chandramani-Shivalingappa P, Van Westphal C, Hole R, Bodas M. Cigarette smoke-induced autophagy impairment accelerates lung aging, COPD-emphysema exacerbations and pathogenesis. Am J Physiol Cell Physiol. 2018;314(1):C73–C87. doi:10.1152/ajpcell.00110.2016
  • Levine B, Kroemer G. Biological functions of autophagy genes: a disease perspective. Cell. 2019;176(1–2):11–42. doi:10.1016/j.cell.2018.09.048
  • Cadwell K, Debnath J. Beyond self-eating: the control of nonautophagic functions and signaling pathways by autophagy-related proteins. J Cell Biol. 2018;217(3):813–822. doi:10.1083/jcb.201706157
  • Heckmann BL, Boada-Romero E, Cunha LD, Magne J, Green DR. LC3-associated phagocytosis and inflammation. J Mol Biol. 2017;429(23):3561–3576. doi:10.1016/j.jmb.2017.08.012
  • DeSelm CJ, Miller BC, Zou W, et al. Autophagy proteins regulate the secretory component of osteoclastic bone resorption. Dev Cell. 2011;21(5):966–974. doi:10.1016/j.devcel.2011.08.016
  • Qin H, Gao F, Wang Y, et al. Nur77 promotes cigarette smoke induced autophagic cell death by increasing the dissociation of Bcl2 from Beclin-1. Int J Mol Med. 2019;44(1):25–36. doi:10.3892/ijmm.2019.4184
  • Siganaki M, Koutsopoulos AV, Neofytou E, et al. Deregulation of apoptosis mediators’ p53 and bcl2 in lung tissue of COPD patients. Respir Res. 2010;11(1):46. doi:10.1186/1465-9921-11-46
  • Jin X, Guan Y, Zhang Z, Wang H. Microarray data analysis on gene and miRNA expression to identify biomarkers in non-small cell lung cancer. BMC Cancer. 2020;20(1):329. doi:10.1186/s12885-020-06829-x
  • Zhang X, Xu X, Ge G, et al. miR498 inhibits the growth and metastasis of liver cancer by targeting ZEB2. Oncol Rep. 2019;41(3):1638–1648. doi:10.3892/or.2018.6948
  • Rodriguez-Martinez A, de Miguel-perez D, Ortega FG, et al. Exosomal miRNA profile as complementary tool in the diagnostic and prediction of treatment response in localized breast cancer under neoadjuvant chemotherapy. Breast Cancer Res. 2019;21(1):21. doi:10.1186/s13058-019-1109-0
  • Zhang K, Zhang L, Mi Y, et al. A ceRNA network and a potential regulatory axis in gastric cancer with different degrees of immune cell infiltration. Cancer Sci. 2020;111(11):4041–4050. doi:10.1111/cas.14634
  • Zhu M, Ye M, Wang J, Ye L, Jin M. Construction of potential miRNA-mRNA regulatory network in COPD plasma by bioinformatics analysis. Int J Chron Obstruct Pulmon Dis. 2020;15:2135–2145. doi:10.2147/COPD.S255262
  • Qi X, Chen H, Fu B, et al. LncRNAs NR-026690 and ENST00000447867 are upregulated in CD4(+) T cells in patients with acute exacerbation of COPD. Int J Chron Obstruct Pulmon Dis. 2019;14:699–711. doi:10.2147/COPD.S191815
  • Zhao J, Pu J, Hao B, et al. LncRNA RP11-86H7.1 promotes airway inflammation induced by TRAPM2.5 by acting as a ceRNA of miRNA-9-5p to regulate NFKB1 in HBECS. Sci Rep. 2020;10(1):11587. doi:10.1038/s41598-020-68327-1
  • Keller A, Leidinger P, Bauer A, et al. Toward the blood-borne miRNome of human diseases. Nat Methods. 2011;8(10):841–843. doi:10.1038/nmeth.1682
  • Keller A, Leidinger P, Vogel B, et al. miRNAs can be generally associated with human pathologies as exemplified for miR-144. BMC Med. 2014;12(1):224. doi:10.1186/s12916-014-0224-0
  • Goodwin JM, Dowdle WE, DeJesus R, et al. Autophagy-independent lysosomal targeting regulated by ULK1/2-FIP200 and ATG9. Cell Rep. 2017;20(10):2341–2356. doi:10.1016/j.celrep.2017.08.034
  • Galluzzi L, Bravo-San Pedro JM, Levine B, Green DR, Kroemer G. Pharmacological modulation of autophagy: therapeutic potential and persisting obstacles. Nat Rev Drug Discov. 2017;16(7):487–511. doi:10.1038/nrd.2017.22
  • Abdul Rahim SA, Dirkse A, Oudin A, et al. Regulation of hypoxia-induced autophagy in glioblastoma involves ATG9A. Br J Cancer. 2017;117(6):813–825. doi:10.1038/bjc.2017.263
  • Obeidat M, Ding X, Fishbane N, et al. The effect of different case definitions of current smoking on the discovery of smoking-related blood gene expression signatures in chronic obstructive pulmonary disease. Nicotine Tob Res. 2016;18(9):1903–1909. doi:10.1093/ntr/ntw129
  • Zhou G, Soufan O, Ewald J, Hancock REW, Basu N, Xia J. NetworkAnalyst 3.0: a visual analytics platform for comprehensive gene expression profiling and meta-analysis. Nucleic Acids Res. 2019;47(W1):W234–W241. doi:10.1093/nar/gkz240
  • Xia J, Gill EE, Hancock RE. NetworkAnalyst for statistical, visual and network-based meta-analysis of gene expression data. Nat Protoc. 2015;10(6):823–844. doi:10.1038/nprot.2015.052
  • Xia J, Benner MJ, Hancock RE. NetworkAnalyst–integrative approaches for protein-protein interaction network analysis and visual exploration. Nucleic Acids Res. 2014;42:W167–174. doi:10.1093/nar/gku443
  • Xia J, Lyle NH, Mayer ML, Pena OM, Hancock RE. INVEX–a web-based tool for integrative visualization of expression data. Bioinformatics. 2013;29(24):3232–3234. doi:10.1093/bioinformatics/btt562
  • Xia J, Fjell CD, Mayer ML, Pena OM, Wishart DS, Hancock RE. INMEX–a web-based tool for integrative meta-analysis of expression data. Nucleic Acids Res. 2013;41:W63–70. doi:10.1093/nar/gkt338
  • Fonseka P, Pathan M, Chitti SV, Kang T, Mathivanan S. FunRich enables enrichment analysis of OMICs datasets. J Mol Biol. 2021;433(11):166747. doi:10.1016/j.jmb.2020.166747
  • Paraskevopoulou MD, Georgakilas G, Kostoulas N, et al. DIANA-microT web server v5.0: service integration into miRNA functional analysis workflows. Nucleic Acids Res. 2013;41:W169–W173. doi:10.1093/nar/gkt393
  • Reczko M, Maragkakis M, Alexiou P, Grosse I, Hatzigeorgiou AG. Functional microRNA targets in protein coding sequences. Bioinformatics. 2012;28(6):771–776. doi:10.1093/bioinformatics/bts043
  • Liu W, Wang X. Prediction of functional microRNA targets by integrative modeling of microRNA binding and target expression data. Genome Biol. 2019;20(1):18. doi:10.1186/s13059-019-1629-z
  • Chen Y, Wang X. miRDB: an online database for prediction of functional microRNA targets. Nucleic Acids Res. 2020;48(D1):D127–D131. doi:10.1093/nar/gkz757
  • Huang HY, Lin YC, Li J, et al. miRTarBase 2020: updates to the experimentally validated microRNA-target interaction database. Nucleic Acids Res. 2020;48(D1):D148–D154. doi:10.1093/nar/gkz896
  • Agarwal V, Bell GW, Nam JW, Bartel DP. Predicting effective microRNA target sites in mammalian mRNAs. Elife. 2015;4:e05005.
  • Gene Ontology C. Gene Ontology Consortium: going forward. Nucleic Acids Res. 2015;43:D1049–D1056.
  • Ashburner M, Ball CA, Blake JA, et al. Gene ontology: tool for the unification of biology. The gene ontology consortium. Nat Genet. 2000;25(1):25–29. doi:10.1038/75556
  • Zhou Y, Zhou B, Pache L, et al. Metascape provides a biologist-oriented resource for the analysis of systems-level datasets. Nat Commun. 2019;10(1):1523. doi:10.1038/s41467-019-09234-6
  • Szklarczyk D, Gable AL, Nastou KC, et al. The STRING database in 2021: customizable protein-protein networks, and functional characterization of user-uploaded gene/measurement sets. Nucleic Acids Res. 2021;49(D1):D605–D612. doi:10.1093/nar/gkaa1074
  • Li JH, Liu S, Zhou H, Qu LH, Yang JH. starBase v2.0: decoding miRNA-ceRNA, miRNA-ncRNA and protein-RNA interaction networks from large-scale CLIP-Seq data. Nucleic Acids Res. 2014;42:D92–D97. doi:10.1093/nar/gkt1248
  • Paraskevopoulou MD, Vlachos IS, Karagkouni D, et al. DIANA-LncBase v2: indexing microRNA targets on non-coding transcripts. Nucleic Acids Res. 2016;44(D1):D231–D238. doi:10.1093/nar/gkv1270
  • Shannon P, Markiel A, Ozier O, et al. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res. 2003;13(11):2498–2504. doi:10.1101/gr.1239303
  • Barnes PJ. Targeting cytokines to treat asthma and chronic obstructive pulmonary disease. Nat Rev Immunol. 2018;18(7):454–466. doi:10.1038/s41577-018-0006-6
  • Easter M, Bollenbecker S, Barnes JW, Krick S. Targeting aging pathways in chronic obstructive pulmonary disease. Int J Mol Sci. 2020;21(18):18. doi:10.3390/ijms21186924
  • Guilleminault L, Rolland Y, Didier A. [Characteristics of non-pharmacological interventions in the elderly with COPD. Smoking cessation, pulmonary rehabilitation, nutritional management and patient education]. Rev Mal Respir. 2018;35(6):626–641. French. doi:10.1016/j.rmr.2017.12.004
  • Kennedy BK, Berger SL, Brunet A, et al. Geroscience: linking aging to chronic disease. Cell. 2014;159(4):709–713. doi:10.1016/j.cell.2014.10.039
  • Vaz Fragoso CA, Gill TM. Defining chronic obstructive pulmonary disease in an aging population. J Am Geriatr Soc. 2010;58(11):2224–2226. doi:10.1111/j.1532-5415.2010.03128.x
  • Dall TM, Gallo PD, Chakrabarti R, West T, Semilla AP, Storm MV. An aging population and growing disease burden will require a large and specialized health care workforce by 2025. Health Aff. 2013;32(11):2013–2020. doi:10.1377/hlthaff.2013.0714
  • Chen S, Wang Y, Zhang H, et al. The antioxidant mitoq protects against CSE-induced endothelial barrier injury and inflammation by inhibiting ROS and autophagy in human umbilical vein endothelial cells. Int J Biol Sci. 2019;15(7):1440–1451. doi:10.7150/ijbs.30193
  • Lee YS, Dutta A. MicroRNAs in cancer. Annu Rev Pathol. 2009;4(1):199–227. doi:10.1146/annurev.pathol.4.110807.092222
  • Ma Y, Zhang J, Wen L, Lin A. Membrane-lipid associated lncRNA: a new regulator in cancer signaling. Cancer Lett. 2018;419:27–29. doi:10.1016/j.canlet.2018.01.008
  • Fu LL, Wen X, Bao JK, Liu B. MicroRNA-modulated autophagic signaling networks in cancer. Int J Biochem Cell Biol. 2012;44(5):733–736. doi:10.1016/j.biocel.2012.02.004
  • Gozuacik D, Akkoc Y, Ozturk DG, Kocak M. Autophagy-regulating microRNAs and Cancer. Front Oncol. 2017;7:65. doi:10.3389/fonc.2017.00065
  • Zhai H, Song B, Xu X, Zhu W, Ju J. Inhibition of autophagy and tumor growth in colon cancer by miR-502. Oncogene. 2013;32(12):1570–1579. doi:10.1038/onc.2012.167
  • Mullany LE, Herrick JS, Wolff RK, Stevens JR, Samowitz W, Slattery ML. MicroRNA-transcription factor interactions and their combined effect on target gene expression in colon cancer cases. Genes Chromosomes Cancer. 2018;57(4):192–202. doi:10.1002/gcc.22520
  • Uddin MN, Li M, Wang X. Identification of transcriptional markers and microRNA-mRNA regulatory networks in colon cancer by integrative analysis of mRNA and microRNA expression profiles in colon tumor stroma. Cells. 2019;8(9):9. doi:10.3390/cells8091054
  • Singer JP, Katz PP, Iribarren C, et al. Both pulmonary and extra-pulmonary factors predict the development of disability in chronic obstructive pulmonary disease. Respiration. 2013;85(5):375–383. doi:10.1159/000338110
  • Eisner MD, Blanc PD, Yelin EH, et al. COPD as a systemic disease: impact on physical functional limitations. Am J Med. 2008;121(9):789–796. doi:10.1016/j.amjmed.2008.04.030
  • Stevens JF, Maier CS. Acrolein: sources, metabolism, and biomolecular interactions relevant to human health and disease. Mol Nutr Food Res. 2008;52(1):7–25. doi:10.1002/mnfr.200700412
  • Sievi NA, Senn O, Brack T, et al. Impact of comorbidities on physical activity in COPD. Respirology. 2015;20(3):413–418. doi:10.1111/resp.12456
  • Agusti A, Soriano JB. COPD as a systemic disease. COPD. 2008;5(2):133–138. doi:10.1080/15412550801941349
  • Yasuo M, Droma Y, Kitaguchi Y, et al. The relationship between acrolein and oxidative stress in COPD: in systemic plasma and in local lung tissue. Int J Chron Obstruct Pulmon Dis. 2019;14:1527–1537. doi:10.2147/COPD.S208633
  • Lam HC, Cloonan SM, Bhashyam AR, et al. Histone deacetylase 6-mediated selective autophagy regulates COPD-associated cilia dysfunction. J Clin Invest. 2013;123(12):5212–5230. doi:10.1172/JCI69636
  • An CH, Wang XM, Lam HC, et al. TLR4 deficiency promotes autophagy during cigarette smoke-induced pulmonary emphysema. Am J Physiol Lung Cell Mol Physiol. 2012;303(9):L748–L757. doi:10.1152/ajplung.00102.2012
  • Chen ZH, Kim HP, Sciurba FC, et al. Egr-1 regulates autophagy in cigarette smoke-induced chronic obstructive pulmonary disease. PLoS One. 2008;3(10):e3316. doi:10.1371/journal.pone.0003316
  • Chen ZH, Lam HC, Jin Y, et al. Autophagy protein microtubule-associated protein 1 light chain-3B (LC3B) activates extrinsic apoptosis during cigarette smoke-induced emphysema. Proc Natl Acad Sci U S A. 2010;107(44):18880–18885. doi:10.1073/pnas.1005574107
  • Mizumura K, Cloonan SM, Nakahira K, et al. Mitophagy-dependent necroptosis contributes to the pathogenesis of COPD. J Clin Invest. 2014;124(9):3987–4003. doi:10.1172/JCI74985
  • Li D, Hu J, Wang T, et al. Silymarin attenuates cigarette smoke extract-induced inflammation via simultaneous inhibition of autophagy and ERK/p38 MAPK pathway in human bronchial epithelial cells. Sci Rep. 2016;6(1):37751. doi:10.1038/srep37751
  • Zhou JS, Zhao Y, Zhou HB, et al. Autophagy plays an essential role in cigarette smoke-induced expression of MUC5AC in airway epithelium. Am J Physiol Lung Cell Mol Physiol. 2016;310(11):L1042–L1052. doi:10.1152/ajplung.00418.2015
  • Cory S, Adams JM. The Bcl2 family: regulators of the cellular life-or-death switch. Nat Rev Cancer. 2002;2(9):647–656. doi:10.1038/nrc883
  • Siddiqui WA, Ahad A, Ahsan H. The mystery of BCL2 family: bcl-2 proteins and apoptosis: an update. Arch Toxicol. 2015;89(3):289–317. doi:10.1007/s00204-014-1448-7
  • Sata M, Takabatake N, Inoue S, et al. Intronic single-nucleotide polymorphisms in Bcl-2 are associated with chronic obstructive pulmonary disease severity. Respirology. 2007;12(1):34–41. doi:10.1111/j.1440-1843.2006.00959.x
  • Weaver CV, Liu SP. Differentially expressed pro- and anti-apoptogenic genes in response to benzene exposure: immunohistochemical localization of p53, Bag, Bad, Bax, Bcl-2, and Bcl-w in lung epithelia. Exp Toxicol Pathol. 2008;59(5):265–272. doi:10.1016/j.etp.2007.02.012
  • Zeng H, Kong X, Peng H, et al. Apoptosis and Bcl-2 family proteins, taken to chronic obstructive pulmonary disease. Eur Rev Med Pharmacol Sci. 2012;16(6):711–727.
  • Li R, Yang YE, Jin J, et al. Identification of lncRNA biomarkers in lung squamous cell carcinoma using comprehensive analysis of lncRNA mediated ceRNA network. Artif Cells Nanomed Biotechnol. 2019;47(1):3246–3258. doi:10.1080/21691401.2019.1647225
  • Huo C, Zhang MY, Li R, et al. Comprehensive analysis of TPX2-related ceRNA network as prognostic biomarkers in lung adenocarcinoma. Int J Med Sci. 2020;17(16):2427–2439. doi:10.7150/ijms.49053
  • Kong X, Duan Y, Sang Y, et al. LncRNA-CDC6 promotes breast cancer progression and function as ceRNA to target CDC6 by sponging microRNA-215. J Cell Physiol. 2019;234(6):9105–9117. doi:10.1002/jcp.27587