Bioinformatics-based discovery of intervertebral disc degeneration biomarkers and immune-inflammatory infiltrates

IF 3.4 3区 医学 Q1 ORTHOPEDICS JOR Spine Pub Date : 2023-12-22 DOI:10.1002/jsp2.1311
Chao Song, Daqian Zhou, Kang Cheng, Fei Liu, Weiye Cai, Yongliang Mei, Jingwen Chen, Chenyi Huang, Zongchao Liu
{"title":"Bioinformatics-based discovery of intervertebral disc degeneration biomarkers and immune-inflammatory infiltrates","authors":"Chao Song,&nbsp;Daqian Zhou,&nbsp;Kang Cheng,&nbsp;Fei Liu,&nbsp;Weiye Cai,&nbsp;Yongliang Mei,&nbsp;Jingwen Chen,&nbsp;Chenyi Huang,&nbsp;Zongchao Liu","doi":"10.1002/jsp2.1311","DOIUrl":null,"url":null,"abstract":"<div>\n \n \n <section>\n \n <h3> Background</h3>\n \n <p>Intervertebral disc degeneration (IVDD) is a common chronic disease in orthopedics, and its molecular mechanisms are still not well explained.</p>\n </section>\n \n <section>\n \n <h3> Aim</h3>\n \n <p>This study's objective was to bioinformatics-based discovery of IVDD biomarkers and immune-inflammatory infiltrates.</p>\n </section>\n \n <section>\n \n <h3> Materials and Methods</h3>\n \n <p>The IVDD illness gene collection was gathered from GeneCards, DisGeNet, and gene expression profiles were chosen from the extensive Gene Expression Omnibus database (GSE124272, GSE150408, and GSE153761). The STRING database was used to create a network of protein–protein interactions, while the Kyoto Encyclopedia of Genes and Genomes (KEGG) and Gene Ontology (GO) databases were used for functional enrichment analysis. Using hub genes, the immune cell infiltration between IVDD patient samples and control tissues was examined. Finally, quantitative polymerase chain reaction and Western blot experiments were used to verify the expression of hub genes.</p>\n </section>\n \n <section>\n \n <h3> Results</h3>\n \n <p>A total of 27 differentially expressed hub genes were identified by bioinformatics. According to GO and KEGG analyses, hub genes were prominent in immunological responses, chemokine-mediated signaling pathways, and inflammatory responses, with the key signaling pathways engaged in cellular senescence, apoptosis, Th1 and Th2 cell differentiation, and Th17 cell differentiation. Immune cell infiltration research revealed that T cells, lymphocytes, B cells, and NK cells were decreased in IVDD patients while monocytes, neutrophils, and CD8 T cells were increased. The expression levels of the senescence hub genes SP1, VEGFA, IL-6, and the apoptosis key gene CASP3 were considerably greater in the IVDD model group than in the control group, according to in vitro validation.</p>\n </section>\n \n <section>\n \n <h3> Conclusion</h3>\n \n <p>In conclusion, the cellular senescence signaling pathway, the apoptosis signaling pathway, and associated hub genes play significant roles in the development and progression of IVDD, this finding may help direct future research on the senescence signaling route in IVDD.</p>\n </section>\n </div>","PeriodicalId":14876,"journal":{"name":"JOR Spine","volume":null,"pages":null},"PeriodicalIF":3.4000,"publicationDate":"2023-12-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/jsp2.1311","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"JOR Spine","FirstCategoryId":"3","ListUrlMain":"https://onlinelibrary.wiley.com/doi/10.1002/jsp2.1311","RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"ORTHOPEDICS","Score":null,"Total":0}
引用次数: 0

Abstract

Background

Intervertebral disc degeneration (IVDD) is a common chronic disease in orthopedics, and its molecular mechanisms are still not well explained.

Aim

This study's objective was to bioinformatics-based discovery of IVDD biomarkers and immune-inflammatory infiltrates.

Materials and Methods

The IVDD illness gene collection was gathered from GeneCards, DisGeNet, and gene expression profiles were chosen from the extensive Gene Expression Omnibus database (GSE124272, GSE150408, and GSE153761). The STRING database was used to create a network of protein–protein interactions, while the Kyoto Encyclopedia of Genes and Genomes (KEGG) and Gene Ontology (GO) databases were used for functional enrichment analysis. Using hub genes, the immune cell infiltration between IVDD patient samples and control tissues was examined. Finally, quantitative polymerase chain reaction and Western blot experiments were used to verify the expression of hub genes.

Results

A total of 27 differentially expressed hub genes were identified by bioinformatics. According to GO and KEGG analyses, hub genes were prominent in immunological responses, chemokine-mediated signaling pathways, and inflammatory responses, with the key signaling pathways engaged in cellular senescence, apoptosis, Th1 and Th2 cell differentiation, and Th17 cell differentiation. Immune cell infiltration research revealed that T cells, lymphocytes, B cells, and NK cells were decreased in IVDD patients while monocytes, neutrophils, and CD8 T cells were increased. The expression levels of the senescence hub genes SP1, VEGFA, IL-6, and the apoptosis key gene CASP3 were considerably greater in the IVDD model group than in the control group, according to in vitro validation.

Conclusion

In conclusion, the cellular senescence signaling pathway, the apoptosis signaling pathway, and associated hub genes play significant roles in the development and progression of IVDD, this finding may help direct future research on the senescence signaling route in IVDD.

Abstract Image

查看原文
分享 分享
微信好友 朋友圈 QQ好友 复制链接
本刊更多论文
基于生物信息学的椎间盘退变生物标记物和免疫炎症浸润的发现
IVDD疾病基因收集自GeneCards和DisGeNet,基因表达谱则选自庞大的基因表达总库数据库(GSE124272、GSE150408和GSE153761)。STRING 数据库用于创建蛋白质-蛋白质相互作用网络,而京都基因和基因组百科全书(KEGG)和基因本体(GO)数据库则用于功能富集分析。利用中枢基因,研究了IVDD患者样本与对照组织之间的免疫细胞浸润情况。最后,利用定量聚合酶链反应和 Western 印迹实验验证了中枢基因的表达情况。根据GO和KEGG分析,中心基因在免疫反应、趋化因子介导的信号通路和炎症反应中表现突出,其关键信号通路参与了细胞衰老、细胞凋亡、Th1和Th2细胞分化以及Th17细胞分化。免疫细胞浸润研究显示,IVDD 患者的 T 细胞、淋巴细胞、B 细胞和 NK 细胞减少,而单核细胞、中性粒细胞和 CD8 T 细胞增加。总之,细胞衰老信号通路、细胞凋亡信号通路及相关的中枢基因在IVDD的发生和发展中起着重要作用,这一发现可能有助于指导未来对IVDD衰老信号通路的研究。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
求助全文
约1分钟内获得全文 去求助
来源期刊
JOR Spine
JOR Spine ORTHOPEDICS-
CiteScore
6.40
自引率
18.90%
发文量
42
审稿时长
10 weeks
期刊最新文献
The proteomic landscape of extracellular vesicles derived from human intervertebral disc cells Finite element analysis of two-level discontinuous cervical hybrid revision surgery strategy to reduce biomechanical responses of adjacent segments A novel spine tester TO GO Identifying critical modules and biomarkers of intervertebral disc degeneration by using weighted gene co-expression network Gut microbiome dysbiosis is associated with lumbar degenerative spondylolisthesis in symptomatic patients
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
现在去查看 取消
×
提示
确定
0
微信
客服QQ
Book学术公众号 扫码关注我们
反馈
×
意见反馈
请填写您的意见或建议
请填写您的手机或邮箱
已复制链接
已复制链接
快去分享给好友吧!
我知道了
×
扫码分享
扫码分享
Book学术官方微信
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术
文献互助 智能选刊 最新文献 互助须知 联系我们:info@booksci.cn
Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。
Copyright © 2023 Book学术 All rights reserved.
ghs 京公网安备 11010802042870号 京ICP备2023020795号-1