Identification of Key Pyroptosis-Related Genes and Distinct Pyroptosis-Related Clusters in Periodontitis.
immune microenvironment
inflammasome
periodontitis
prognostic
pyroptosis
Journal
Frontiers in immunology
ISSN: 1664-3224
Titre abrégé: Front Immunol
Pays: Switzerland
ID NLM: 101560960
Informations de publication
Date de publication:
2022
2022
Historique:
received:
25
01
2022
accepted:
23
05
2022
entrez:
18
7
2022
pubmed:
19
7
2022
medline:
20
7
2022
Statut:
epublish
Résumé
This study aims to identify pyroptosis-related genes (PRGs), their functional immune characteristics, and distinct pyroptosis-related clusters in periodontitis. Differentially expressed (DE)-PRGs were determined by merging the expression profiles of GSE10334, GSE16134, and PRGs obtained from previous literatures and Molecular Signatures Database (MSigDB). Least absolute shrinkage and selection operator (LASSO) regression was applied to screen the prognostic PRGs and develop a prognostic model. Consensus clustering was applied to determine the pyroptosis-related clusters. Functional analysis and single-sample gene set enrichment analysis (ssGSEA) were performed to explore the biological characteristics and immune activities of the clusters. The hub pyroptosis-related modules were defined using weighted correlation network analysis (WGCNA). Of the 26 periodontitis-related DE-PRGs, the highest positive relevance was for High-Mobility Group Box 1 (HMGB1) and SR-Related CTD Associated Factor 11 (SCAF11). A 14-PRG-based signature was developed through the LASSO model. In addition, three pyroptosis-related clusters were obtained based on the 14 prognostic PRGs. Caspase 3 (CASP3), Granzyme B (GZMB), Interleukin 1 Alpha (IL1A), IL1Beta (B), IL6, Phospholipase C Gamma 1 (PLCG1) and PYD And CARD Domain Containing (PYCARD) were dysregulated in the three clusters. Distinct biological functions and immune activities, including human leukocyte antigen (HLA) gene expression, immune cell infiltration, and immune pathway activities, were identified in the three pyroptosis-related clusters of periodontitis. Furthermore, the pink module associated with endoplasmic stress-related functions was found to be correlated with cluster 2 and was suggested as the hub pyroptosis-related module. The study identified 14 key pyroptosis-related genes, three distinct pyroptosis-related clusters, and one pyroptosis-related gene module describing several molecular aspects of pyroptosis in the pathogenesis and immune micro-environment regulation of periodontitis and also highlighted functional heterogeneity in pyroptosis-related mechanisms.
Identifiants
pubmed: 35844512
doi: 10.3389/fimmu.2022.862049
pmc: PMC9281553
doi:
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
862049Informations de copyright
Copyright © 2022 Ning, Acharya, Li, Schmalz and Huang.
Déclaration de conflit d'intérêts
The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.
Références
Cell Rep. 2020 Nov 17;33(7):108381
pubmed: 33207188
In Vitro Cell Dev Biol Anim. 2021 Apr;57(4):404-414
pubmed: 33905062
Int J Mol Sci. 2021 Dec 29;23(1):
pubmed: 35008798
Innate Immun. 2016 Nov;22(8):598-611
pubmed: 27605548
Theranostics. 2021 Aug 12;11(18):8813-8835
pubmed: 34522213
Oral Dis. 2019 Mar;25(2):596-608
pubmed: 30422379
J Periodontol. 2020 May;91(5):606-616
pubmed: 31557327
Int Immunopharmacol. 2021 May;94:107456
pubmed: 33588175
J Periodontal Res. 2015 Aug;50(4):500-8
pubmed: 25223277
J Thorac Oncol. 2010 Sep;5(9):1315-6
pubmed: 20736804
J Investig Clin Dent. 2016 May;7(2):174-9
pubmed: 25388853
Nat Immunol. 2010 Dec;11(12):1136-42
pubmed: 21057511
Science. 2016 Jun 3;352(6290):1232-6
pubmed: 27103670
Cell Death Differ. 2016 Nov 1;23(11):1862-1872
pubmed: 27447113
J Periodontal Implant Sci. 2022 Feb;52(1):28-38
pubmed: 35187871
Cell Res. 2015 Nov;25(11):1183-4
pubmed: 26482951
Trends Mol Med. 2012 Dec;18(12):732-41
pubmed: 23099058
J Mol Histol. 2020 Jun;51(3):221-232
pubmed: 32356234
EMBO J. 2019 May 15;38(10):
pubmed: 30988015
Proc Natl Acad Sci U S A. 2018 Jun 26;115(26):6792-6797
pubmed: 29891674
Bioinformatics. 2010 Jun 15;26(12):1572-3
pubmed: 20427518
OMICS. 2012 May;16(5):284-7
pubmed: 22455463
Iran J Allergy Asthma Immunol. 2021 Dec 08;20(6):764-770
pubmed: 34920659
J Oral Microbiol. 2016 Mar 17;8:30936
pubmed: 26993626
J Clin Periodontol. 2019 Sep;46(9):894-907
pubmed: 31241781
Cancer Gene Ther. 2021 Feb;28(1-2):1-4
pubmed: 32669618
PLoS One. 2012;7(9):e45186
pubmed: 23028835
J Periodontol. 2013 Apr;84(4 Suppl):S8-S19
pubmed: 23631586
Pathog Dis. 2015 Jun;73(4):
pubmed: 25663345
Int Endod J. 2017 Oct;50(10):967-975
pubmed: 27864974
BMC Microbiol. 2009 Oct 18;9:221
pubmed: 19835625
Dis Markers. 2021 Dec 29;2021:5074305
pubmed: 35003389
Front Immunol. 2020 Aug 20;11:1879
pubmed: 32973778
Immunology. 2021 Apr;162(4):405-417
pubmed: 33314069
J Biol Chem. 2012 Sep 21;287(39):32791-9
pubmed: 22843689
Biochim Biophys Acta Mol Basis Dis. 2018 Jan;1864(1):226-237
pubmed: 29066283
Nucleic Acids Res. 2015 Apr 20;43(7):e47
pubmed: 25605792
Nat Rev Immunol. 2017 Mar;17(3):151-164
pubmed: 28138137
Cell Host Microbe. 2018 Jul 11;24(1):97-108.e4
pubmed: 29937272
Cancer Res. 2018 Mar 1;78(5):1293-1307
pubmed: 29282220
Nat Rev Mol Cell Biol. 2020 Nov;21(11):678-695
pubmed: 32873928
Hum Immunol. 2018 Aug;79(8):594-601
pubmed: 29800590
Oral Dis. 2019 Apr;25(3):839-847
pubmed: 30614174
Nat Rev Microbiol. 2009 Feb;7(2):99-109
pubmed: 19148178
J Dent Res. 2019 Aug;98(9):985-993
pubmed: 31226001
Front Cell Infect Microbiol. 2017 Nov 14;7:474
pubmed: 29184853
Pharmacol Res. 2021 Mar;165:105408
pubmed: 33412278
Cell Death Dis. 2015 Sep 10;6:e1879
pubmed: 26355342
Postgrad Med. 2018 Jan;130(1):98-104
pubmed: 29065749
Periodontol 2000. 2000 Jun;23:9-12
pubmed: 11276770
PLoS Pathog. 2018 May 23;14(5):e1007105
pubmed: 29791511
Nat Rev Immunol. 2015 Jan;15(1):30-44
pubmed: 25534621
Front Immunol. 2020 Jul 14;11:1461
pubmed: 32760399
BMC Bioinformatics. 2011 Mar 17;12:77
pubmed: 21414208
J Periodontol. 2017 Dec;88(12):1329-1338
pubmed: 28691886
J Exp Med. 2012 Aug 27;209(9):1519-28
pubmed: 22869893
Nat Rev Immunol. 2010 Mar;10(3):210-5
pubmed: 20168318
Innate Immun. 2013 Feb;19(1):3-9
pubmed: 22522430
Int J Oral Sci. 2020 Jan 2;12(1):2
pubmed: 31900383
Mediators Inflamm. 2018 Jul 29;2018:1967506
pubmed: 30150893
J Clin Periodontol. 2018 Jun;45 Suppl 20:S149-S161
pubmed: 29926495
Hum Genet. 2011 May;129(5):473-85
pubmed: 21210282
Front Genet. 2021 Mar 12;12:648329
pubmed: 33777111
Apoptosis. 2019 Oct;24(9-10):703-717
pubmed: 31175486
BMC Bioinformatics. 2013 Jan 16;14:7
pubmed: 23323831
Oral Dis. 2017 Jul;23(5):609-619
pubmed: 27576069
Mol Cell. 2002 Aug;10(2):417-26
pubmed: 12191486
J Periodontol. 2019 Mar;90(3):288-294
pubmed: 30311940
BMC Bioinformatics. 2008 Dec 29;9:559
pubmed: 19114008
Front Cell Infect Microbiol. 2017 Aug 04;7:351
pubmed: 28824884
Nature. 2020 Mar;579(7799):415-420
pubmed: 32188940
J Clin Periodontol. 2011 Mar;38 Suppl 11:44-8
pubmed: 21323703
J Oral Microbiol. 2016 Feb 04;8:30385
pubmed: 26850450
Cell Death Dis. 2021 Sep 16;12(10):852
pubmed: 34531373
J Periodontol. 2008 Nov;79(11):2112-24
pubmed: 18980520
Int J Mol Sci. 2020 Feb 20;21(4):
pubmed: 32093389
J Am Soc Nephrol. 2016 Aug;27(8):2270-5
pubmed: 26832955
Front Cell Dev Biol. 2021 Apr 01;9:663037
pubmed: 33869229
Aging (Albany NY). 2020 Apr 22;12(8):7534-7548
pubmed: 32320383
Cell Death Discov. 2021 Apr 7;7(1):71
pubmed: 33828074
Oral Dis. 2022 Jan;28(1):216-224
pubmed: 33368813
Nature. 2012 Oct 11;490(7419):288-91
pubmed: 22895188
Cell Death Differ. 2018 Mar;25(3):486-541
pubmed: 29362479
J Clin Periodontol. 2014 Sep;41(9):853-61
pubmed: 24975876
Clin Chim Acta. 2009 Mar;401(1-2):134-40
pubmed: 19109937
Cells. 2021 Feb 24;10(3):
pubmed: 33668191
Nature. 2019 Nov;575(7784):679-682
pubmed: 31723262