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Research progress of immune response regulated by epigenetic modification in pneumonia
Received date: 2023-02-03
Accepted date: 2023-05-25
Online published: 2023-07-28
Supported by
Shanghai “Science and Technology Innovation Action Plan” 2022: Artificial Intelligence Science and Technology Support Program(22511106001);Natural Science Foundation of Shanghai(20ZR1408300);Shanghai Rising-Star Program(22QA1401500)
Pneumonia is one of the most common infectious diseases, and although considerable progress has been made in the diagnosis and treatment of pneumonia, it is still associated with high mortality, prolonged hospitalization, and significant medical expenditures. Epigenetic modifications are heritable changes in gene expression without altering the DNA sequence, including DNA methylation, histone modification, non-coding RNA and RNA modification, which are involved in regulating gene expression at multiple levels, including DNA, histone, and transcriptional and post-transcriptional levels. A growing number of studies have suggested that epigenetic regulation may play a central role in the initiation and progression of pneumonia by regulating the immune function. Following the infection with pathogens in the lungs, epigenetic modification can affect the occurrence and progression of pneumonia in different individuals by regulating the inflammatory and immune response, including the development and differentiation of various immune cells, the recognition and transduction of infection signals, and the production of cytokines and anti-pathogen effector molecules. By summarizing recent studies on epigenetic modification of immunity in pneumonia, this review elucidates the key role that epigenetic modification of immunology plays in the initiation and progression of pneumonia, as well as its potential application to clinical diagnosis and therapeutic targets in the treatment of pneumonia, providing a sound theoretical basis for further research.
Key words: pneumonia; epigenetic modification; immune cell; therapy target
Qing WANG , Xiao HAN , Xiaobo ZHANG . Research progress of immune response regulated by epigenetic modification in pneumonia[J]. Journal of Shanghai Jiao Tong University (Medical Science), 2023 , 43(7) : 931 -938 . DOI: 10.3969/j.issn.1674-8115.2023.07.016
1 | GBD 2019 LRI Collaborators. Age-sex differences in the global burden of lower respiratory infections and risk factors, 1990-2019: results from the Global Burden of Disease Study 2019[J]. Lancet Infect Dis, 2022, 22(11): 1626-1647. |
2 | Word Health Organization. Pneumonia[EB/OL]. [2023-01-10]. https://data.unicef.org/topic/child-health/pneumonia/. |
3 | PERIN J, MULICK A, YEUNG D, et al. Global, regional, and national causes of under-5 mortality in 2000-19: an updated systematic analysis with implications for the Sustainable Development Goals[J]. Lancet Child Adolesc Health, 2022, 6(2): 106-115. |
4 | SANGLA F, LEGOUIS D, MARTI P E, et al. One year after ICU admission for severe community-acquired pneumonia of bacterial, viral or unidentified etiology. What are the outcomes?[J]. PLoS One, 2020, 15(12): e0243762. |
5 | FERREIRA-COIMBRA J, SARDA C, RELLO J. Burden of community-acquired pneumonia and unmet clinical needs[J]. Adv Ther, 2020, 37(4): 1302-1318. |
6 | DROZ N, HSIA Y, ELLIS S, et al. Bacterial pathogens and resistance causing community acquired paediatric bloodstream infections in low-and middle-income countries: a systematic review and meta-analysis[J]. Antimicrob Resist Infect Control, 2019, 8: 207. |
7 | TORRES A, CILLONIZ C, NIEDERMAN M S, et al. Pneumonia[J]. Nat Rev Dis Primers, 2021, 7(1): 25. |
8 | GROUSD J A, RICH H E, ALCORN J F. Host-pathogen interactions in gram-positive bacterial pneumonia[J]. Clin Microbiol Rev, 2019, 32(3): e00107-e00118. |
9 | CHOUDHURI S. From Waddington′s epigenetic landscape to small noncoding RNA: some important milestones in the history of epigenetics research[J]. Toxicol Mech Methods, 2011, 21(4): 252-274. |
10 | LIU C, XU J H, CHEN Y H, et al. Characterization of genome-wide H3K27ac profiles reveals a distinct PM2.5-associated histone modification signature[J]. Environ Health, 2015, 14: 65. |
11 | ZHAO L F, ZHANG M, BAI L R, et al. Real-world PM2.5 exposure induces pathological injury and DNA damage associated with miRNAs and DNA methylation alteration in rat lungs[J]. Environ Sci Pollut Res Int, 2022, 29(19): 28788-28803. |
12 | ZHANG Q, CAO X T. Epigenetic remodeling in innate immunity and inflammation[J]. Annu Rev Immunol, 2021, 39: 279-311. |
13 | YIN Y M, MORGUNOVA E, JOLMA A, et al. Impact of cytosine methylation on DNA binding specificities of human transcription factors[J]. Science, 2017, 356(6337): eaaj2239. |
14 | ZHONG Z H, FENG S H, DUTTKE S H, et al. DNA methylation-linked chromatin accessibility affects genomic architecture in Arabidopsis[J]. Proc Natl Acad Sci U S A, 2021, 118(5): e2023347118. |
15 | DEKKERS K F, NEELE A E, JUKEMA J W, et al. Human monocyte-to-macrophage differentiation involves highly localized gain and loss of DNA methylation at transcription factor binding sites[J]. Epigenetics Chromatin, 2019, 12(1): 34. |
16 | XIA Y Y, HE F, WU X Y, et al. GABA transporter sustains IL-1β production in macrophages[J]. Sci Adv, 2021, 7(15): eabe9274. |
17 | SINGER B D, MOCK J R, AGGARWAL N R, et al. Regulatory T cell DNA methyltransferase inhibition accelerates resolution of lung inflammation[J]. Am J Respir Cell Mol Biol, 2015, 52(5): 641-652. |
18 | MCGRATH-MORROW S A, NDEH R, HELMIN K A, et al. DNA methylation regulates the neonatal CD4+ T-cell response to pneumonia in mice[J]. J Biol Chem, 2018, 293(30): 11772-11783. |
19 | BANNISTER S, KIM B, DOMíNGUEZ-ANDRéS J, et al. Neonatal BCG vaccination is associated with a long-term DNA methylation signature in circulating monocytes[J]. Sci Adv, 2022, 8(31): eabn4002. |
20 | HEIKKINEN A, BOLLEPALLI S, OLLIKAINEN M. The potential of DNA methylation as a biomarker for obesity and smoking[J]. J Intern Med, 2022, 292(3): 390-408. |
21 | AMPOMAH P B, CAI B S, SUKKA S R, et al. Macrophages use apoptotic cell-derived methionine and DNMT3A during efferocytosis to promote tissue resolution[J]. Nat Metab, 2022, 4(4): 444-457. |
22 | COLE E, BROWN T A, PINKERTON K E, et al. Perinatal exposure to environmental tobacco smoke is associated with changes in DNA methylation that precede the adult onset of lung disease in a mouse model[J]. Inhal Toxicol, 2017, 29(10): 435-442. |
23 | CHEN H, LI G, CHAN Y L, et al. Maternal E-cigarette exposure in mice alters DNA methylation and lung cytokine expression in offspring[J]. Am J Respir Cell Mol Biol, 2018, 58(3): 366-377. |
24 | MILLáN-ZAMBRANO G, BURTON A, BANNISTER A J, et al. Histone post-translational modifications - cause and consequence of genome function[J]. Nat Rev Genet, 2022, 23(9): 563-580. |
25 | DILLON S C, ZHANG X, TRIEVEL R C, et al. The SET-domain protein superfamily: protein lysine methyltransferases[J]. Genome Biol, 2005, 6(8): 227. |
26 | LI Y, LI G H, ZHANG L, et al. G9a promotes inflammation in Streptococcus pneumoniae induced pneumonia mice by stimulating M1 macrophage polarization and H3K9me2 methylation in FOXP1 promoter region[J]. Ann Transl Med, 2022, 10(10): 583. |
27 | WU S Q, TIAN X C, MAO Q, et al. Azithromycin attenuates wheezing after pulmonary inflammation through inhibiting histone H3K27me3 hypermethylation mediated by EZH2[J]. Clin Epigenetics, 2023, 15(1): 12. |
28 | NITSCH S, ZORRO SHAHIDIAN L, SCHNEIDER R. Histone acylations and chromatin dynamics: concepts, challenges, and links to metabolism[J]. EMBO Rep, 2021, 22(7): e52774. |
29 | NAGESH P T, HUSSAIN M, GALVIN H D, et al. Histone deacetylase 2 is a component of influenza A virus-induced host antiviral response[J]. Front Microbiol, 2017, 8: 1315. |
30 | MULLICAN S E, GADDIS C A, ALENGHAT T, et al. Histone deacetylase 3 is an epigenomic brake in macrophage alternative activation[J]. Genes Dev, 2011, 25(23): 2480-2488. |
31 | YAO Y, LIU Q P, ADRIANTO I, et al. Histone deacetylase 3 controls lung alveolar macrophage development and homeostasis[J]. Nat Commun, 2020, 11(1): 3822. |
32 | FENG Q Q, SU Z L, SONG S Y, et al. Histone deacetylase inhibitors suppress RSV infection and alleviate virus-induced airway inflammation[J]. Int J Mol Med, 2016, 38(3): 812-822. |
33 | DAI J P, GU L M, SU Y, et al. Inhibition of curcumin on influenza A virus infection and influenzal pneumonia via oxidative stress, TLR2/4, p38/JNK MAPK and NF-κB pathways[J]. Int Immunopharmacol, 2018, 54: 177-187. |
34 | LIU L, ZHOU X M, SHETTY S, et al. HDAC6 inhibition blocks inflammatory signaling and caspase-1 activation in LPS-induced acute lung injury[J]. Toxicol Appl Pharmacol, 2019, 370: 178-183. |
35 | FABIAN M R, SONENBERG N, FILIPOWICZ W. Regulation of mRNA translation and stability by microRNAs[J]. Annu Rev Biochem, 2010, 79: 351-379. |
36 | JIANG K F, YANG J, GUO S, et al. Peripheral circulating exosome-mediated delivery of miR-155 as a novel mechanism for acute lung inflammation[J]. Mol Ther, 2019, 27(10): 1758-1771. |
37 | ZHANG D, LEE H, WANG X Y, et al. A potential role of microvesicle-containing miR-223/142 in lung inflammation[J]. Thorax, 2019, 74(9): 865-874. |
38 | ZHANG X, HUANG F, YANG D Y, et al. Identification of miRNA-mRNA crosstalk in respiratory syncytial virus- (RSV-) associated pediatric pneumonia through integrated miRNAome and transcriptome analysis[J]. Mediators Inflamm, 2020, 2020: 8919534. |
39 | GONZALO-CALVO D D, BENíTEZ I D, PINILLA L, et al. Circulating microRNA profiles predict the severity of COVID-19 in hospitalized patients[J]. Transl Res, 2021, 236: 147-159. |
40 | GARCíA-HIDALGO M C, GONZáLEZ J, BENíTEZ I D, et al. Identification of circulating microRNA profiles associated with pulmonary function and radiologic features in survivors of SARS-CoV-2-induced ARDS[J]. Emerg Microbes Infect, 2022, 11(1): 1537-1549. |
41 | SUN Q Y, HAO Q Y, PRASANTH K V. Nuclear long noncoding RNAs: key regulators of gene expression[J]. Trends Genet, 2018, 34(2): 142-157. |
42 | RINN J L, CHANG H Y. Long noncoding RNAs: molecular modalities to organismal functions[J]. Annu Rev Biochem, 2020, 89: 283-308. |
43 | LIU S, LIU J Q, YANG X, et al. Cis-acting lnc-Cxcl2 restrains neutrophil-mediated lung inflammation by inhibiting epithelial cell CXCL2 expression in virus infection[J]. Proc Natl Acad Sci U S A, 2021, 118(41): e2108276118. |
44 | CHI X W, DING B C, ZHANG L J, et al. lncRNA GAS5 promotes M1 macrophage polarization via miR-455-5p/SOCS3 pathway in childhood pneumonia[J]. J Cell Physiol, 2019, 234(8): 13242-13251. |
45 | GU H Y, ZHU Y F, ZHOU Y, et al. LncRNA MALAT1 affects Mycoplasma pneumoniae pneumonia via NF-κB regulation[J]. Front Cell Dev Biol, 2020, 8: 563693. |
46 | MEMCZAK S, JENS M, ELEFSINIOTI A, et al. Circular RNAs are a large class of animal RNAs with regulatory potency[J]. Nature, 2013, 495(7441): 333-338. |
47 | ZHAO T, ZHENG Y L, HAO D Z, et al. Blood circRNAs as biomarkers for the diagnosis of community-acquired pneumonia[J]. J Cell Biochem, 2019, 120(10): 16483-16494. |
48 | KHAN H N, BRANDS X, AUFIERO S, et al. The circular RNA landscape in specific peripheral blood mononuclear cells of critically ill patients with sepsis[J]. Crit Care, 2020, 24(1): 423. |
49 | HANSEN T B, JENSEN T I, CLAUSEN B H, et al. Natural RNA circles function as efficient microRNA sponges[J]. Nature, 2013, 495(7441): 384-388. |
50 | ARORA S, SINGH P, DOHARE R, et al. Unravelling host-pathogen interactions: ceRNA network in SARS-CoV-2 infection (COVID-19)[J]. Gene, 2020, 762: 145057. |
51 | QU Z Y, MENG F, SHI J Z, et al. A novel intronic circular RNA antagonizes influenza virus by absorbing a microRNA that degrades CREBBP and accelerating IFN-β production[J]. mBio, 2021, 12(4): e0101721. |
52 | BARBAGALLO D, PALERMO C I, BARBAGALLO C, et al. Competing endogenous RNA network mediated by circ_3205 in SARS-CoV-2 infected cells[J]. Cell Mol Life Sci, 2022, 79(2): 75. |
53 | ROUNDTREE I A, EVANS M E, PAN T, et al. Dynamic RNA modifications in gene expression regulation[J]. Cell, 2017, 169(7): 1187-1200. |
54 | AN Y Y, DUAN H. The role of m6A RNA methylation in cancer metabolism[J]. Mol Cancer, 2022, 21(1): 14. |
55 | TONG J Y, WANG X F, LIU Y B, et al. Pooled CRISPR screening identifies m6A as a positive regulator of macrophage activation[J]. Sci Adv, 2021, 7(18): eabd4742. |
56 | LIU Y H, LIU Z J, TANG H, et al. The N 6-methyladenosine (m6A)-forming enzyme METTL3 facilitates M1 macrophage polarization through the methylation of STAT1 mRNA[J]. Am J Physiol Cell Physiol, 2019, 317(4): C762-C775. |
57 | YU R Q, LI Q M, FENG Z H, et al. m6A reader YTHDF2 regulates LPS-induced inflammatory response[J]. Int J Mol Sci, 2019, 20(6): 1323. |
58 | LU M J, ZHANG Z J, XUE M G, et al. N 6-methyladenosine modification enables viral RNA to escape recognition by RNA sensor RIG-I[J]. Nat Microbiol, 2020, 5(4): 584-598. |
59 | LU M J, XUE M G, WANG H T, et al. Nonsegmented negative-sense RNA viruses utilize N 6-methyladenosine (m6A) as a common strategy to evade host innate immunity[J]. J Virol, 2021, 95(9): e01939-e01920. |
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