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ORIGINAL RESEARCH

Identification of Ferroptosis-Related Biomarkers for Diagnosis and Molecular Classification of Staphylococcus aureus-Induced Osteomyelitis

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Pages 1805-1823 | Received 31 Jan 2023, Accepted 21 Apr 2023, Published online: 26 Apr 2023

References

  • Momodu II, Savaliya V. Osteomyelitis. Treasure Island (FL): StatPearls Publishing Copyright © 2022, StatPearls Publishing LLC; 2022.
  • Schmitt SK. Osteomyelitis. Infect Dis Clin North Am. 2017;31(2):325–338. doi:10.1016/j.idc.2017.01.010
  • Hogan A, Heppert VG, Suda AJ. Osteomyelitis. Arch Orthop Trauma Surg. 2013;133(9):1183–1196. doi:10.1007/s00402-013-1785-7
  • Cobb LH, McCabe EM, Priddy LB. Therapeutics and delivery vehicles for local treatment of osteomyelitis. J Orthop Res. 2020;38(10):2091–2103. doi:10.1002/jor.24689
  • Fraimow HS. Systemic antimicrobial therapy in osteomyelitis. Semin Plast Surg. 2009;23(2):90–99. doi:10.1055/s-0029-1214161
  • Rao N, Ziran BH, Lipsky BA. Treating osteomyelitis: antibiotics and surgery. Plast Reconstr Surg. 2011;127:177s–87s. doi:10.1097/PRS.0b013e3182001f0f
  • Peng JJ, Song WT, Yao F, et al. Involvement of regulated necrosis in blinding diseases: focus on necroptosis and ferroptosis. Exp Eye Res. 2020;191:107922. doi:10.1016/j.exer.2020.107922
  • Nirmala JG, Lopus M. Cell death mechanisms in eukaryotes. Cell Biol Toxicol. 2020;36(2):145–164. doi:10.1007/s10565-019-09496-2
  • Dixon SJ, Lemberg KM, Lamprecht MR, et al. Ferroptosis: an iron-dependent form of nonapoptotic cell death. Cell. 2012;149(5):1060–1072. doi:10.1016/j.cell.2012.03.042
  • Stockwell BR, Friedmann Angeli JP, Bayir H, et al. Ferroptosis: a Regulated Cell Death Nexus Linking Metabolism, Redox Biology, and Disease. Cell. 2017;171(2):273–285. doi:10.1016/j.cell.2017.09.021
  • Cao JY, Dixon SJ. Mechanisms of ferroptosis. Cell Mol Life Sci. 2016;73(11–12):2195–2209. doi:10.1007/s00018-016-2194-1
  • Galluzzi L, Vitale I, Aaronson SA, et al. Molecular mechanisms of cell death: recommendations of the Nomenclature Committee on Cell Death 2018. Cell Death Differ. 2018;25(3):486–541.
  • Gao B, Ahmad MF, Nagy LE, Tsukamoto H. Inflammatory pathways in alcoholic steatohepatitis. J Hepatol. 2019;70(2):249–259. doi:10.1016/j.jhep.2018.10.023
  • Tsurusaki S, Tsuchiya Y, Koumura T, et al. Hepatic ferroptosis plays an important role as the trigger for initiating inflammation in nonalcoholic steatohepatitis. Cell Death Dis. 2019;10(6):449. doi:10.1038/s41419-019-1678-y
  • Terasaki Y, Ohsawa I, Terasaki M, et al. Hydrogen therapy attenuates irradiation-induced lung damage by reducing oxidative stress. Am J Physiol Lung Cell Mol Physiol. 2011;301(4):L415–26. doi:10.1152/ajplung.00008.2011
  • Li W, Feng G, Gauthier JM, et al. Ferroptotic cell death and TLR4/Trif signaling initiate neutrophil recruitment after heart transplantation. J Clin Invest. 2019;129(6):2293–2304. doi:10.1172/JCI126428
  • Wu MY, Yiang GT, Liao WT, et al. Current Mechanistic Concepts in Ischemia and Reperfusion Injury. Cell Physiol Biochem. 2018;46(4):1650–1667. doi:10.1159/000489241
  • Kim EH, Wong SW, Martinez J. Programmed Necrosis and Disease: We interrupt your regular programming to bring you necroinflammation. Cell Death Differ. 2019;26(1):25–40. doi:10.1038/s41418-018-0179-3
  • Proneth B, Conrad M. Ferroptosis and necroinflammation, a yet poorly explored link. Cell Death Differ. 2019;26(1):14–24. doi:10.1038/s41418-018-0173-9
  • Johnson WE, Li C, Rabinovic A. Adjusting batch effects in microarray expression data using empirical Bayes methods. Biostatistics. 2007;8(1):118–127. doi:10.1093/biostatistics/kxj037
  • Morris JA, Gayther SA, Jacobs IJ, Jones C. A suite of Perl modules for handling microarray data. Bioinformatics. 2008;24(8):1102–1103. doi:10.1093/bioinformatics/btn085
  • Zhou N, Bao J. FerrDb: a manually curated resource for regulators and markers of ferroptosis and ferroptosis-disease associations. Database (Oxford). 2020;2020. doi:10.1093/database/baaa021
  • Ritchie ME, Phipson B, Wu D, et al. limma powers differential expression analyses for RNA-sequencing and microarray studies. Nucleic Acids Res. 2015;43(7):e47. doi:10.1093/nar/gkv007
  • Ito K, Murphy D. Application of ggplot2 to Pharmacometric Graphics. CPT Pharmacometrics Syst Pharmacol. 2013;2(10):e79. doi:10.1038/psp.2013.56
  • Yu G, Wang LG, Han Y, He QY. clusterProfiler: an R package for comparing biological themes among gene clusters. Omics. 2012;16(5):284–287. doi:10.1089/omi.2011.0118
  • Iasonos A, Schrag D, Raj GV, Panageas KS. How to build and interpret a nomogram for cancer prognosis. J Clin Oncol. 2008;26(8):1364–1370. doi:10.1200/JCO.2007.12.9791
  • Hänzelmann S, Castelo R, Guinney J. GSVA: gene set variation analysis for microarray and RNA-seq data. BMC Bioinform. 2013;14:7. doi:10.1186/1471-2105-14-7
  • Newman AM, Liu CL, Green MR, et al. Robust enumeration of cell subsets from tissue expression profiles. Nat Methods. 2015;12(5):453–457. doi:10.1038/nmeth.3337
  • Yu S, Hu C, Cai L, et al. Seven-Gene Signature Based on Glycolysis Is Closely Related to the Prognosis and Tumor Immune Infiltration of Patients With Gastric Cancer. Front Oncol. 2020;10:1778. doi:10.3389/fonc.2020.01778
  • Brière G, Darbo É, Thébault P, Uricaru R. Consensus clustering applied to multi-omics disease subtyping. BMC Bioinform. 2021;22(1):361. doi:10.1186/s12859-021-04279-1
  • Seiler M, Huang CC, Szalma S, Bhanot G. ConsensusCluster: a software tool for unsupervised cluster discovery in numerical data. Omics. 2010;14(1):109–113. doi:10.1089/omi.2009.0083
  • Wilkerson MD, Hayes DN. ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking. Bioinformatics. 2010;26(12):1572–1573. doi:10.1093/bioinformatics/btq170
  • David CC, Jacobs DJ. Principal component analysis: a method for determining the essential dynamics of proteins. Methods Mol Biol. 2014;1084:193–226.
  • Zak O, O’Reilly T. Animal infection models and ethics -- The perfect infection model. J Antimicrob Chemother. 1993;31(Suppl.D):193–205. doi:10.1093/jac/31.suppl_D.193
  • Shi X, Wu Y, Ni H, Li M, Qi B, Xu Y. Macrophage migration inhibitory factor (MIF) inhibitor iSO-1 promotes staphylococcal protein A-induced osteogenic differentiation by inhibiting NF-κB signaling pathway. Int Immunopharmacol. 2023;115:109600. doi:10.1016/j.intimp.2022.109600
  • Masters EA, Ricciardi BF, Bentley KLM, Moriarty TF, Schwarz EM, Muthukrishnan G. Skeletal infections: microbial pathogenesis, immunity and clinical management. Nat Rev Microbiol. 2022;20(7):385–400. doi:10.1038/s41579-022-00686-0
  • Le Saux N. Diagnosis and management of acute osteoarticular infections in children. Paediatr Child Health. 2018;23(5):336–343. doi:10.1093/pch/pxy049
  • Alvares PA, Mimica MJ. Osteoarticular infections in pediatrics. J Pediatr (Rio J). 2020;96(Suppl 1):58–64. doi:10.1016/j.jped.2019.10.005
  • Tran K, Mierzwinski-Urban M. CADTH Rapid Response Reports. Serial X-Ray Radiography for the Diagnosis of Osteomyelitis: A Review of Diagnostic Accuracy, Clinical Utility, Cost-Effectiveness, and Guidelines. Ottawa (ON): Canadian Agency for Drugs and Technologies in Healthe Copyright © 2020 Canadian Agency for Drugs and Technologies in Health; 2020.
  • Tawfik GM, Dibas M, Dung NM, et al. Concordance of bone and non-bone specimens in microbiological diagnosis of osteomyelitis: a systematic review and meta-analysis. J Infect Public Health. 2020;13(11):1682–1693. doi:10.1016/j.jiph.2020.08.010
  • Chiappini E, Camposampiero C, Lazzeri S, Indolfi G, De Martino M, Galli L. Epidemiology and Management of Acute Haematogenous Osteomyelitis in a Tertiary Paediatric Center. Int J Environ Res Public Health. 2017;14(5). doi:10.3390/ijerph14050477
  • Mackenzie B, Erickson JD. Sodium-coupled neutral amino acid (System N/A) transporters of the SLC38 gene family. Pflugers Arch. 2004;447(5):784–795. doi:10.1007/s00424-003-1117-9
  • King N, Lin H, Suleiman MS. Oxidative stress increases SNAT1 expression and stimulates cysteine uptake in freshly isolated rat cardiomyocytes. Amino Acids. 2011;40(2):517–526. doi:10.1007/s00726-010-0664-6
  • Zhou FF, Xie W, Chen SQ, et al. SLC38A1 promotes proliferation and migration of human colorectal cancer cells. J Huazhong Univ Sci Technolog Med Sci. 2017;37(1):30–36. doi:10.1007/s11596-017-1690-3
  • Liu Y, Yang Y, Jiang L, Xu H, Wei J. High Expression Levels of SLC38A1 Are Correlated with Poor Prognosis and Defective Immune Infiltration in Hepatocellular Carcinoma. J Oncol. 2021;2021:5680968. doi:10.1155/2021/5680968
  • Xie J, Li P, Gao HF, Qian JX, Yuan LY, Wang JJ. Overexpression of SLC38A1 is associated with poorer prognosis in Chinese patients with gastric cancer. BMC Gastroenterol. 2014;14:70. doi:10.1186/1471-230X-14-70
  • Wang M, Liu Y, Fang W, et al. Increased SNAT1 is a marker of human osteosarcoma and potential therapeutic target. Oncotarget. 2017;8(45):78930–78939. doi:10.18632/oncotarget.20693
  • Giresi PG, Stevenson EJ, Theilhaber J, et al. Identification of a molecular signature of sarcopenia. Physiol Genomics. 2005;21(2):253–263. doi:10.1152/physiolgenomics.00249.2004
  • Hou Z, Wang Z, Tao Y, et al. KLF2 regulates osteoblast differentiation by targeting of Runx2. Lab Invest. 2019;99(2):271–280. doi:10.1038/s41374-018-0149-x
  • Laha D, Deb M, Das H. KLF2 (kruppel-like factor 2 [lung]) regulates osteoclastogenesis by modulating autophagy. Autophagy. 2019;15(12):2063–2075. doi:10.1080/15548627.2019.1596491
  • Das M, Lu J, Joseph M, et al. Kruppel-like factor 2 (KLF2) regulates monocyte differentiation and functions in mBSA and IL-1β-induced arthritis. Curr Mol Med. 2012;12(2):113–125. doi:10.2174/156652412798889090
  • Manoharan P, Song T, Radzyukevich TL, Sadayappan S, Lingrel JB, Heiny JA. KLF2 in Myeloid Lineage Cells Regulates the Innate Immune Response during Skeletal Muscle Injury and Regeneration. iScience. 2019;17:334–346. doi:10.1016/j.isci.2019.07.009
  • Trizzino M, Zucco A, Deliard S, et al. EGR1 is a gatekeeper of inflammatory enhancers in human macrophages. Sci Adv. 2021;7:3. doi:10.1126/sciadv.aaz8836
  • Sun X, Huang H, Pan X, et al. EGR1 promotes the cartilage degeneration and hypertrophy by activating the Krüppel-like factor 5 and β-catenin signaling. Biochim Biophys Acta Mol Basis Dis. 2019;1865(9):2490–2503. doi:10.1016/j.bbadis.2019.06.010
  • Eberlé D, Hegarty B, Bossard P, Ferré P, Foufelle F. SREBP transcription factors: master regulators of lipid homeostasis. Biochimie. 2004;86(11):839–848. doi:10.1016/j.biochi.2004.09.018
  • Duan Y, Yu C, Yan M, Ouyang Y, Ni S. m6A Regulator-Mediated RNA Methylation Modification Patterns Regulate the Immune Microenvironment in Osteoarthritis. Front Genet. 2022;13:921256. doi:10.3389/fgene.2022.921256