Regulatory networks of circRNA- centred ceRNAs in sepsis-induced acute kidney injury

References

• Guo C, Dong G, Liang X, et al. Epigenetic regulation in AKI and kidney repair: mechanisms and therapeutic implications. Nat Rev Nephrol. 2019;15:220–17. doi: 10.1038/s41581-018-0103-6
   PubMed Web of Science ®Google Scholar
• Ronco C, Bellomo R, Kellum JA. Acute kidney injury. Lancet. 2019;394(10212):1949–1964. doi: 10.1016/S0140-6736(19)32563-2
   PubMed Web of Science ®Google Scholar
• Peerapornratana S, Manrique-Caballero CL, Gómez H, et al. Acute kidney injury from sepsis: current concepts, epidemiology, pathophysiology, prevention and treatment. Kidney Int. 2019;96:1083–1099. doi: 10.1016/j.kint.2019.05.026
   PubMed Web of Science ®Google Scholar
• Fani F, Regolisti G, Delsante M, et al. Recent advances in the pathogenetic mechanisms of sepsis-associated acute kidney injury. J Nephrol. 2018;31(3):351–359. doi: 10.1007/s40620-017-0452-4
   PubMed Web of Science ®Google Scholar
• Poston JT, Koyner JL. Sepsis associated acute kidney injury. BMJ. 2019;364:k4891. doi: 10.1136/bmj.k4891
   PubMed Web of Science ®Google Scholar
• Emlet DR, Shaw AD, Kellum JA. Sepsis-associated AKI: epithelial cell dysfunction. Semin Nephrol. 2015;35:85–95. doi: 10.1016/j.semnephrol.2015.01.009
   PubMed Web of Science ®Google Scholar
• Gómez H, Kellum JA. Sepsis-induced acute kidney injury. Curr Opin Crit Care. 2016;22:546–553. doi: 10.1097/mcc.0000000000000356
   PubMed Web of Science ®Google Scholar
• Wang B, Xu J, Ren Q, et al. Fatty acid-binding protein 4 is a therapeutic target for septic acute kidney injury by regulating inflammatory response and cell apoptosis. Cell Death Dis. 2022;13:333. doi: 10.1038/s41419-022-04794-w
   PubMed Web of Science ®Google Scholar
• Liu Z, Tang C, He L, et al. The negative feedback loop of NF-κB/miR-376b/NFKBIZ in septic acute kidney injury. JCI Insight. 2020;5: doi: 10.1172/jci.insight.142272
   Web of Science ®Google Scholar
• Zhang Y, Song C, Ni W, et al. HSP70 ameliorates septic acute kidney injury via binding with TRAF6 to inhibit of inflammation-Mediated apoptosis. J Inflamm Res. 2022;15:2213–2228. doi: 10.2147/jir.s352717
   PubMed Web of Science ®Google Scholar
• Płóciennikowska A, Hromada-Judycka A, Borzęcka K, et al. Co-operation of TLR4 and raft proteins in LPS-induced pro-inflammatory signaling. Cell Mol Life Sci. 2015;72(3):557–581. doi: 10.1007/s00018-014-1762-5
   PubMed Web of Science ®Google Scholar
• Memczak S, Jens M, Elefsinioti A, et al. Circular RNAs are a large class of animal RNAs with regulatory potency. Nature. 2013;495:333–338. doi: 10.1038/nature11928
   PubMed Web of Science ®Google Scholar
• Ashwal-Fluss R, Meyer M, Pamudurti NR, et al. circRNA biogenesis competes with pre-mRNA splicing. Molecular Cell. 2014;56:55–66. doi: 10.1016/j.molcel.2014.08.019
   PubMed Web of Science ®Google Scholar
• Jeck WR, Sorrentino JA, Wang K, et al. Circular RNAs are abundant, conserved, and associated with ALU repeats. RNA. 2013;19:141–157. doi: 10.1261/rna.035667.112
   PubMed Web of Science ®Google Scholar
• Salzman J, Chen RE, Olsen MN, et al. Cell-type specific features of circular RNA expression. PLoS Genet. 2013;9(9):e1003777. doi: 10.1371/journal.pgen.1003777
   PubMed Web of Science ®Google Scholar
• Sang Y, Chen B, Song X, et al. circRNA_0025202 regulates tamoxifen sensitivity and tumor progression via regulating the miR-182-5p/FOXO3a axis in breast cancer. Mol Ther. 2021;29:3525–3527. doi: 10.1016/j.ymthe.2021.11.002
   PubMed Web of Science ®Google Scholar
• Li B, Zhu L, Lu C, et al. circNDUFB2 inhibits non-small cell lung cancer progression via destabilizing IGF2BPs and activating anti-tumor immunity. Nat Commun. 2021;12:295. doi: 10.1038/s41467-020-20527-z
   PubMed Web of Science ®Google Scholar
• Ma J, Du WW, Zeng K, et al. An antisense circular RNA circSCRIB enhances cancer progression by suppressing parental gene splicing and translation. Mol Ther. 2021;29:2754–2768. doi: 10.1016/j.ymthe.2021.08.002
   PubMed Web of Science ®Google Scholar
• Wang P, Huang Z, Peng Y, et al. Circular RNA circBNC2 inhibits epithelial cell G2-M arrest to prevent fibrotic maladaptive repair. Nat Commun. 2022;13(1):6502. doi: 10.1038/s41467-022-34287-5
   PubMed Web of Science ®Google Scholar
• Ouyang X, He Z, Fang H, et al. A protein encoded by circular ZNF609 RNA induces acute kidney injury by activating the AKT/mTOR-autophagy pathway. Mol Ther. 2022;30:3500. doi: 10.1016/j.ymthe.2022.09.021
   PubMed Web of Science ®Google Scholar
• Ma X, Zhu G, Jiao T, et al. Effects of circular RNA Ttc3/miR-148a/Rcan2 axis on inflammation and oxidative stress in rats with acute kidney injury induced by sepsis. Life Sci. 2021;272:119233. doi: 10.1016/j.lfs.2021.119233
   PubMed Web of Science ®Google Scholar
• Wu L, Gokden N, Mayeux PR. Evidence for the role of reactive nitrogen species in polymicrobial sepsis-induced renal peritubular capillary dysfunction and tubular injury. J Am Soc Nephrol. 2007;18:1807–1815. doi: 10.1681/asn.2006121402
   PubMed Web of Science ®Google Scholar
• Kong P, Yu Y, Wang L, et al. Circ-Sirt1 controls NF-κB activation via sequence-specific interaction and enhancement of SIRT1 expression by binding to miR-132/212 in vascular smooth muscle cells. Nucleic Acids Res. 2019;47:3580–3593. doi: 10.1093/nar/gkz141
   PubMed Web of Science ®Google Scholar
• Ge J, Wang J, Xiong F, et al. Epstein–barr virus–encoded circular RNA CircBART2.2 promotes immune escape of nasopharyngeal carcinoma by regulating PD-L1. Cancer Res. 2021;81(19):5074–5088. doi: 10.1158/0008-5472.can-20-4321
   PubMed Web of Science ®Google Scholar
• Rittirsch D, Huber-Lang MS, Flierl MA, et al. Immunodesign of experimental sepsis by cecal ligation and puncture. Nat Protoc. 2009;4(1):31–36. doi: 10.1038/nprot.2008.214
   PubMed Web of Science ®Google Scholar
• Wang P, Luo ML, Song E, et al. Long noncoding RNA lnc-TSI inhibits renal fibrogenesis by negatively regulating the TGF-β/Smad3 pathway. Sci Transl Med. 2018;10(462):eaat2039. doi: 10.1126/scitranslmed.aat2039
   PubMed Web of Science ®Google Scholar
• Ma T, Li H, Liu H, et al. Neat1 promotes acute kidney injury to chronic kidney disease by facilitating tubular epithelial cells apoptosis via sequestering miR-129-5p. Mol Ther. 2022;30:3313–3332. doi: 10.1016/j.ymthe.2022.05.019
   PubMed Web of Science ®Google Scholar
• Deng Z, Sun M, Wu J, et al. SIRT1 attenuates sepsis-induced acute kidney injury via Beclin1 deacetylation-mediated autophagy activation. Cell Death Dis. 2021;12:217. doi: 10.1038/s41419-021-03508-y
   PubMed Web of Science ®Google Scholar
• Sun M, Li J, Mao L, et al. p53 deacetylation alleviates sepsis-induced acute kidney injury by promoting autophagy. Front Immunol. 2021;12:685523. doi: 10.3389/fimmu.2021.685523
   PubMed Web of Science ®Google Scholar
• Li CM, Li M, Ye ZC, et al. Circular RNA expression profiles in cisplatin-induced acute kidney injury in mice. Epigenomics. 2019;11:1191–1207. doi: 10.2217/epi-2018-0167
   PubMed Web of Science ®Google Scholar
• Liang WC, Wong CW, Liang PP, et al. Translation of the circular RNA circβ-catenin promotes liver cancer cell growth through activation of the wnt pathway. Genome Bio. 2019;20(1):84. doi: 10.1186/s13059-019-1685-4
   PubMed Web of Science ®Google Scholar
• Hu X, Wu D, He X, et al. circGSK3β promotes metastasis in esophageal squamous cell carcinoma by augmenting β-catenin signaling. Mol Cancer. 2019;18:160. doi: 10.1186/s12943-019-1095-y
   PubMed Web of Science ®Google Scholar
• Huang da W, Sherman BT, Lempicki RA. Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc. 2009;4(1):44–57. doi: 10.1038/nprot.2008.211
   PubMed Web of Science ®Google Scholar
• Huang da W, Sherman BT, Lempicki RA. Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists. Nucleic Acids Res. 2009;37:1–13. doi: 10.1093/nar/gkn923
   PubMed Web of Science ®Google Scholar
• Kanehisa M, Furumichi M, Tanabe M, et al. KEGG: new perspectives on genomes, pathways, diseases and drugs. Nucleic Acids Res. 2017;45:D353–d361. doi: 10.1093/nar/gkw1092
   PubMed Web of Science ®Google Scholar
• Zheng H, Huang S, Wei G, et al. CircRNA Samd4 induces cardiac repair after myocardial infarction by blocking mitochondria-derived ROS output. Mol Ther. 2022;30:3477–3498. doi: 10.1016/j.ymthe.2022.06.016
   PubMed Web of Science ®Google Scholar
• Castro-Mondragon JA, Riudavets-Puig R, Rauluseviciute I, et al. JASPAR 2022: the 9th release of the open-access database of transcription factor binding profiles. Nucleic Acids Res. 2022;50:D165–d173. doi: 10.1093/nar/gkab1113
   PubMed Web of Science ®Google Scholar
• Salmena L, Poliseno L, Tay Y, et al. A ceRNA hypothesis: the Rosetta Stone of a hidden RNA language? Cell. 2011;146:353–358. doi: 10.1016/j.cell.2011.07.014
   PubMed Web of Science ®Google Scholar
• Wang X, El Naqa IM. Prediction of both conserved and nonconserved microRNA targets in animals. Bioinformatics. 2008;24:325–332. doi: 10.1093/bioinformatics/btm595
   PubMed Web of Science ®Google Scholar
• Hu YA, Zhu Y, Liu G, et al. Expression profiles of circular RNAs in colon biopsies from Crohn’s disease patients by microarray analysis. Clinical Laboratory Analysis. 2021;35(6):e23788. doi: 10.1002/jcla.23788
   PubMed Web of Science ®Google Scholar
• Chung H, Vilaysane A, Lau A, et al. NLRP3 regulates a non-canonical platform for caspase-8 activation during epithelial cell apoptosis. Cell Death Diff. 2016;23:1331–1346. doi: 10.1038/cdd.2016.14
   PubMed Web of Science ®Google Scholar
• Kapranov P, Cheng J, Dike S, et al. RNA maps reveal new RNA classes and a possible function for pervasive transcription. Science. 2007;316(5830):1484–1488. doi: 10.1126/science.1138341
   PubMed Web of Science ®Google Scholar
• He AT, Liu J, Li F, et al. Targeting circular RNAs as a therapeutic approach: current strategies and challenges. Signal Transduct Target Ther. 2021;6(1):185. doi: 10.1038/s41392-021-00569-5
   PubMed Web of Science ®Google Scholar
• Miyaji T, Hu X, Yuen PS, et al. Ethyl pyruvate decreases sepsis-induced acute renal failure and multiple organ damage in aged mice. Kidney Int. 2003;64(5):1620–1631. doi: 10.1046/j.1523-1755.2003.00268.x
   PubMed Web of Science ®Google Scholar
• Wang P, Ba ZF, Chaudry IH. Increase in hepatic blood flow during early sepsis is due to increased portal blood flow. Am J Physiol. 1991;261(6):R1507–1512. doi: 10.1152/ajpregu.1991.261.6.R1507
   PubMedGoogle Scholar
• Tsuji N, Tsuji T, Yamashita T, et al. BAM15 treats mouse sepsis and kidney injury, linking mortality, mitochondrial DNA, tubule damage, and neutrophils. J Clin Investig. 2023;133(7). doi: 10.1172/jci152401
   PubMed Web of Science ®Google Scholar
• Privratsky JR, Ide S, Chen Y, et al. A macrophage-endothelial immunoregulatory axis ameliorates septic acute kidney injury. Kidney Int. 2023;103:514–528. doi: 10.1016/j.kint.2022.10.008
   PubMed Web of Science ®Google Scholar
• Ding Y, Wan S, Liu W, et al. Regulation networks of non-Coding RNA-Associated ceRnas in cisplatin-induced acute kidney injury. Cells. 2022;11(19):2971. doi: 10.3390/cells11192971
   PubMed Web of Science ®Google Scholar
• Cao Y, Mi X, Zhang D, et al. Transcriptome sequencing of circular RNA reveals a novel circular RNA-has_circ_0114427 in the regulation of inflammation in acute kidney injury. Clin Sci (Lond). 2020;134:139–154. doi: 10.1042/cs20190990
   PubMed Web of Science ®Google Scholar
• Fang M, Liu S, Zhou Y, et al. Circular RNA involved in the protective effect of losartan on ischemia and reperfusion induced acute kidney injury in rat model. Am J Transl Res. 2019;11:1129–1144.
   PubMed Web of Science ®Google Scholar
• Aslan A, van den Heuvel MC, Stegeman CA, et al. Kidney histopathology in lethal human sepsis. Crit Care. 2018;22(1):359. doi: 10.1186/s13054-018-2287-3
   PubMedGoogle Scholar
• Wang Y, Zhu J, Liu Z, et al. The PINK1/PARK2/optineurin pathway of mitophagy is activated for protection in septic acute kidney injury. Redox Biol. 2021;38:101767. doi: 10.1016/j.redox.2020.101767
   PubMed Web of Science ®Google Scholar
• Gomez H, Ince C, De Backer D, et al. A unified theory of sepsis-induced acute kidney injury: inflammation, microcirculatory dysfunction, bioenergetics, and the tubular cell adaptation to injury. Shock. 2014;41:3–11. doi: 10.1097/shk.0000000000000052
   PubMed Web of Science ®Google Scholar