Neutrophil-Related Gene Expression Signatures in Idiopathic Pulmonary Fibrosis: Implications for Disease Characteristic and Identification of Diagnostic Hub Genes

References

• Lederer DJ, Martinez FJ. Idiopathic pulmonary fibrosis. N Engl J Med. 2018;378(19):1811–1823. doi:10.1056/NEJMra1705751
   PubMed Web of Science ®Google Scholar
• Moss BJ, Ryter SW, Rosas IO. Pathogenic mechanisms underlying idiopathic pulmonary fibrosis. Annu Rev Pathol. 2022;17:515–546. doi:10.1146/annurev-pathol-042320-030240
   PubMed Web of Science ®Google Scholar
• Behr J, Kreuter M, Hoeper MM, et al. Management of patients with idiopathic pulmonary fibrosis in clinical practice: the INSIGHTS-IPF registry. Eur Respir J. 2015;46(1):186–196. doi:10.1183/09031936.00217614
   PubMed Web of Science ®Google Scholar
• Olson AL, Gifford AH, Inase N, Fernández Pérez ER, Suda T. The epidemiology of idiopathic pulmonary fibrosis and interstitial lung diseases at risk of a progressive-fibrosing phenotype. Eur Respir Rev. 2018;27(150):180077. doi:10.1183/16000617.0077-2018
   PubMed Web of Science ®Google Scholar
• Duchemann B, Annesi-Maesano I, Jacobe de Naurois C, et al. Prevalence and incidence of interstitial lung diseases in a multi-ethnic county of Greater Paris. Eur Respir J. 2017;50(2):1602419. doi:10.1183/13993003.02419-2016
   PubMed Web of Science ®Google Scholar
• King TE Jr, Pardo A, Selman M. Idiopathic pulmonary fibrosis. Lancet. 2011;378(9807):1949–1961. doi:10.1016/S0140-6736(11)60052-4
   PubMed Web of Science ®Google Scholar
• Raghu G, Chen SY, Hou Q, Yeh WS, Collard HR. Incidence and prevalence of idiopathic pulmonary fibrosis in US adults 18–64 years old. Eur Respir J. 2016;48(1):179–186. doi:10.1183/13993003.01653-2015
   PubMed Web of Science ®Google Scholar
• Raghu G, Collard HR, Egan JJ, et al. An official ATS/ERS/JRS/ALAT statement: idiopathic pulmonary fibrosis: evidence-based guidelines for diagnosis and management. Am J Respir Crit Care Med. 2011;183(6):788–824. doi:10.1164/rccm.2009-040GL
   PubMed Web of Science ®Google Scholar
• American Thoracic Society. Idiopathic pulmonary fibrosis: diagnosis and treatment. International consensus statement. American Thoracic Society (ATS), and the European Respiratory Society (ERS). Am J Respir Crit Care Med. 2000;161(2 Pt 1):646–664. doi:10.1164/ajrccm.161.2.ats3-00
   PubMed Web of Science ®Google Scholar
• Wolters PJ, Collard HR, Jones KD. Pathogenesis of idiopathic pulmonary fibrosis. Annu Rev Pathol. 2014;9:157–179. doi:10.1146/annurev-pathol-012513-104706
   PubMed Web of Science ®Google Scholar
• Tzouvelekis A, Kaminski N. Epigenetics in idiopathic pulmonary fibrosis. Biochem Cell Biol. 2015;93(2):159–170. doi:10.1139/bcb-2014-0126
   PubMed Web of Science ®Google Scholar
• Ruaro B, Matucci Cerinic M, Salton F, Baratella E, Confalonieri M, Hughes M. Editorial: pulmonary fibrosis: one manifestation, various diseases. Front Pharmacol. 2022;13:1027332. doi:10.3389/fphar.2022.1027332
   PubMedGoogle Scholar
• Kropski JA, Blackwell TS, Loyd JE. The genetic basis of idiopathic pulmonary fibrosis. Eur Respir J. 2015;45(6):1717–1727. doi:10.1183/09031936.00163814
   PubMed Web of Science ®Google Scholar
• Shenderov K, Collins SL, Powell JD, Horton MR. Immune dysregulation as a driver of idiopathic pulmonary fibrosis. J Clin Invest. 2021;131(2). doi:10.1172/JCI143226
   PubMed Web of Science ®Google Scholar
• O’Dwyer DN, Armstrong ME, Trujillo G, et al. The Toll-like receptor 3 L412F polymorphism and disease progression in idiopathic pulmonary fibrosis. Am J Respir Crit Care Med. 2013;188(12):1442–1450. doi:10.1164/rccm.201304-0760OC
   PubMed Web of Science ®Google Scholar
• Baratella E, Ruaro B, Giudici F, et al. Evaluation of correlations between genetic variants and high-resolution computed tomography patterns in idiopathic pulmonary fibrosis. Diagnostics. 2021;11(5):762. doi:10.3390/diagnostics11050762
   Web of Science ®Google Scholar
• Michalski JE, Schwartz DA. Genetic risk factors for idiopathic pulmonary fibrosis: insights into immunopathogenesis. J Inflamm Res. 2020;13:1305–1318. doi:10.2147/JIR.S280958
   PubMed Web of Science ®Google Scholar
• Ding L, Yang J, Zhang C, Zhang X, Gao P. Neutrophils modulate fibrogenesis in chronic pulmonary diseases. Front Med. 2021;8:616200. doi:10.3389/fmed.2021.616200
   Web of Science ®Google Scholar
• Jegal Y. The role of neutrophils in the pathogenesis of IPF. Korean J Intern Med. 2022;37(5):945–946. doi:10.3904/kjim.2022.267
   PubMedGoogle Scholar
• Chrysanthopoulou A, Mitroulis I, Apostolidou E, et al. Neutrophil extracellular traps promote differentiation and function of fibroblasts. J Pathol. 2014;233(3):294–307. doi:10.1002/path.4359
   PubMed Web of Science ®Google Scholar
• Zhang S, Jia X, Zhang Q, et al. Neutrophil extracellular traps activate lung fibroblast to induce polymyositis-related interstitial lung diseases via TLR9-miR-7-Smad2 pathway. J Cell Mol Med. 2020;24(2):1658–1669. doi:10.1111/jcmm.14858
   PubMed Web of Science ®Google Scholar
• Gregory AD, Kliment CR, Metz HE, et al. Neutrophil elastase promotes myofibroblast differentiation in lung fibrosis. J Leukoc Biol. 2015;98(2):143–152. doi:10.1189/jlb.3HI1014-493R
   PubMed Web of Science ®Google Scholar
• Kinder BW, Brown KK, Schwarz MI, Ix JH, Kervitsky A, King TE Jr. Baseline BAL neutrophilia predicts early mortality in idiopathic pulmonary fibrosis. Chest. 2008;133(1):226–232. doi:10.1378/chest.07-1948
   PubMed Web of Science ®Google Scholar
• Neudecker V, Brodsky KS, Clambey ET, et al. Neutrophil transfer of miR-223 to lung epithelial cells dampens acute lung injury in mice. Sci Transl Med. 2017;9(408). doi:10.1126/scitranslmed.aah5360
   PubMed Web of Science ®Google Scholar
• Nathan C. Neutrophils and immunity: challenges and opportunities. Nat Rev Immunol. 2006;6(3):173–182. doi:10.1038/nri1785
   PubMed Web of Science ®Google Scholar
• Ishikawa G, Liu A, Herzog EL. Evolving perspectives on innate immune mechanisms of IPF. Front Mol Biosci. 2021;8:676569. doi:10.3389/fmolb.2021.676569
   PubMed Web of Science ®Google Scholar
• Silvestre-Roig C, Fridlender ZG, Glogauer M, Scapini P. Neutrophil diversity in health and disease. Trends Immunol. 2019;40(7):565–583. doi:10.1016/j.it.2019.04.012
   PubMed Web of Science ®Google Scholar
• Metzemaekers M, Gouwy M, Proost P. Neutrophil chemoattractant receptors in health and disease: double-edged swords. Cell Mol Immunol. 2020;17(5):433–450. doi:10.1038/s41423-020-0412-0
   PubMed Web of Science ®Google Scholar
• Kolaczkowska E, Kubes P. Neutrophil recruitment and function in health and inflammation. Nat Rev Immunol. 2013;13(3):159–175. doi:10.1038/nri3399
   PubMed Web of Science ®Google Scholar
• Kolahian S, Fernandez IE, Eickelberg O, Hartl D. Immune mechanisms in pulmonary fibrosis. Am J Respir Cell Mol Biol. 2016;55(3):309–322. doi:10.1165/rcmb.2016-0121TR
   PubMed Web of Science ®Google Scholar
• Parra ER, Kairalla RA, Ribeiro de Carvalho CR, Eher E, Capelozzi VL. Inflammatory cell phenotyping of the pulmonary interstitium in idiopathic interstitial pneumonia. Respiration. 2007;74(2):159–169. doi:10.1159/000097133
   PubMed Web of Science ®Google Scholar
• Carré PC, Mortenson RL, King TE Jr, Noble PW, Sable CL, Riches DW. Increased expression of the interleukin-8 gene by alveolar macrophages in idiopathic pulmonary fibrosis. A potential mechanism for the recruitment and activation of neutrophils in lung fibrosis. J Clin Invest. 1991;88(6):1802–1810. doi:10.1172/JCI115501
   PubMed Web of Science ®Google Scholar
• Raghu G, Anstrom KJ, King TE Jr, Lasky JA, Martinez FJ. Prednisone, azathioprine, and N-acetylcysteine for pulmonary fibrosis. N Engl J Med. 2012;366(21):1968–1977.
   PubMed Web of Science ®Google Scholar
• Travis WD, Costabel U, Hansell DM, et al. An official American Thoracic Society/European Respiratory Society statement: update of the international multidisciplinary classification of the idiopathic interstitial pneumonias. Am J Respir Crit Care Med. 2013;188(6):733–748. doi:10.1164/rccm.201308-1483ST
   PubMed Web of Science ®Google Scholar
• Molyneaux PL, Cox MJ, Willis-Owen SA, et al. The role of bacteria in the pathogenesis and progression of idiopathic pulmonary fibrosis. Am J Respir Crit Care Med. 2014;190(8):906–913. doi:10.1164/rccm.201403-0541OC
   PubMed Web of Science ®Google Scholar
• Spagnolo P, Molyneaux PL, Bernardinello N, et al. The role of the lung’s microbiome in the pathogenesis and progression of idiopathic pulmonary fibrosis. Int J Mol Sci. 2019;20(22):5618. doi:10.3390/ijms20225618
   PubMed Web of Science ®Google Scholar
• Han MK, Zhou Y, Murray S, et al. Lung microbiome and disease progression in idiopathic pulmonary fibrosis: an analysis of the COMET study. Lancet Respir Med. 2014;2(7):548–556. doi:10.1016/S2213-2600(14)70069-4
   PubMed Web of Science ®Google Scholar
• Kadioglu A, Weiser JN, Paton JC, Andrew PW. The role of Streptococcus pneumoniae virulence factors in host respiratory colonization and disease. Nat Rev Microbiol. 2008;6(4):288–301. doi:10.1038/nrmicro1871
   PubMed Web of Science ®Google Scholar
• Amulic B, Cazalet C, Hayes GL, Metzler KD, Zychlinsky A. Neutrophil function: from mechanisms to disease. Annu Rev Immunol. 2012;30:459–489. doi:10.1146/annurev-immunol-020711-074942
   PubMed Web of Science ®Google Scholar
• Chua F, Dunsmore SE, Clingen PH, et al. Mice lacking neutrophil elastase are resistant to bleomycin-induced pulmonary fibrosis. Am J Pathol. 2007;170(1):65–74. doi:10.2353/ajpath.2007.060352
   PubMed Web of Science ®Google Scholar
• Takemasa A, Ishii Y, Fukuda T. A neutrophil elastase inhibitor prevents bleomycin-induced pulmonary fibrosis in mice. Eur Respir J. 2012;40(6):1475–1482. doi:10.1183/09031936.00127011
   PubMed Web of Science ®Google Scholar
• Mócsai A. Diverse novel functions of neutrophils in immunity, inflammation, and beyond. J Exp Med. 2013;210(7):1283–1299. doi:10.1084/jem.20122220
   PubMed Web of Science ®Google Scholar
• Scapini P, Cassatella MA. Social networking of human neutrophils within the immune system. Blood. 2014;124(5):710–719. doi:10.1182/blood-2014-03-453217
   PubMed Web of Science ®Google Scholar
• Kruger P, Saffarzadeh M, Weber AN, et al. Neutrophils: between host defence, immune modulation, and tissue injury. PLoS Pathog. 2015;11(3):e1004651. doi:10.1371/journal.ppat.1004651
   PubMed Web of Science ®Google Scholar
• Tabuena RP, Nagai S, Tsutsumi T, et al. Cell profiles of bronchoalveolar lavage fluid as prognosticators of idiopathic pulmonary fibrosis/usual interstitial pneumonia among Japanese Patients. Respiration. 2005;72(5):490–498. doi:10.1159/000087673
   PubMed Web of Science ®Google Scholar
• Thrall RS, Phan SH, McCormick JR, Ward PA. The development of bleomycin-induced pulmonary fibrosis in neutrophil-depleted and complement-depleted rats. Am J Pathol. 1981;105(1):76–81.
   PubMed Web of Science ®Google Scholar
• Manoury B, Nénan S, Guénon I, Lagente V, Boichot E. Influence of early neutrophil depletion on MMPs/TIMP-1 balance in bleomycin-induced lung fibrosis. Int Immunopharmacol. 2007;7(7):900–911. doi:10.1016/j.intimp.2007.02.009
   PubMed Web of Science ®Google Scholar
• Calvente CJ, Tameda M, Johnson CD, et al. Neutrophils contribute to spontaneous resolution of liver inflammation and fibrosis via microRNA-223. J Clin Invest. 2019;129(10):4091–4109. doi:10.1172/JCI122258
   PubMed Web of Science ®Google Scholar