CXCL10 as a shared specific marker in rheumatoid arthritis and inflammatory bowel disease and a clue involved in the mechanism of intestinal flora in rheumatoid arthritis.
CXCL10 as a shared specific marker in rheumatoid arthritis and inflammatory bowel disease and a clue involved in the mechanism of intestinal flora in rheumatoid arthritis.
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DOI：
10.1038/s41598-023-36833-7
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发表时间：
2023-06-16
影响因子：
4.6
通讯作者：
Wang, Yue
中科院分区：
文献类型：
--
作者：
Guan, Yin;Zhang, Yue;Zhu, Yifan;Wang, Yue
本研究旨在通过生物信息学分析确定与类风湿性关节炎（RA）和炎症性肠病（IBD）相关的共享特定基因，并研究肠道微生物组在RA中的作用。数据提取自3个RA和1个IBD基因表达数据集和1个RA肠道微生物组宏基因组数据集。进行加权相关网络分析（WGCNA）和机器学习以识别与RA和IBD相关的候选基因。差异分析和两种不同的机器学习算法被用来研究RA的肠道微生物组特征。随后，确定了与RA肠道微生物组相关的共享特异性基因，并利用gutMGene，STITCH和STRING数据库构建了相互作用网络。通过对RA和IBD的WGCNA的联合分析，我们确定了15个候选共享基因。通过WGCNA模块基因与各疾病的互作网络分析，将候选基因CXCL10确定为共享枢纽基因，并通过两种机器学习算法进一步确定CXCL10为共享特异基因。此外，我们确定了3个RA相关的特征性肠道植物群（普雷沃氏菌属，瘤胃球菌属和溴瘤胃球菌属），并建立了微生物组，基因和途径之间的相互作用网络。最后，发现IBD和RA之间共享的基因CXCL10与上述三种肠道微生物组相关。这项研究证明了RA和IBD之间的关系，并为研究肠道微生物组在RA中的作用提供了参考。
This study aimed to identify shared specific genes associated with rheumatoid arthritis (RA) and inflammatory bowel disease (IBD) through bioinformatic analysis and to examine the role of the gut microbiome in RA. The data were extracted from the 3 RA and 1 IBD gene expression datasets and 1 RA gut microbiome metagenomic dataset. Weighted correlation network analysis (WGCNA) and machine learnings was performed to identify candidate genes associated with RA and IBD. Differential analysis and two different machine learning algorithms were used to investigate RA’s gut microbiome characteristics. Subsequently, the shared specific genes related to the gut microbiome in RA were identified, and an interaction network was constructed utilizing the gutMGene, STITCH, and STRING databases. We identified 15 candidates shared genes through a joint analysis of the WGCNA for RA and IBD. The candidate gene CXCL10 was identified as the shared hub gene by the interaction network analysis of the corresponding WGCNA module gene to each disease, and CXCL10 was further identified as the shared specific gene by two machine learning algorithms. Additionally, we identified 3 RA-associated characteristic intestinal flora (Prevotella, Ruminococcus, and Ruminococcus bromii) and built a network of interactions between the microbiomes, genes, and pathways. Finally, it was discovered that the gene CXCL10 shared between IBD and RA was associated with the three gut microbiomes mentioned above. This study demonstrates the relationship between RA and IBD and provides a reference for research into the role of the gut microbiome in RA.
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影响因子：
3
作者：
Bader, GD;Hogue, CW
通讯作者：
Hogue, CW
影响因子：
27.4
作者：
Alpizar-Rodriguez, Deshire;Lesker, Till Robin;Strowig, Till
通讯作者：
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影响因子：
4.1
作者：
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通讯作者：
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影响因子：
19.6
作者：
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通讯作者：
Rovin BH
影响因子：
3.4
作者：
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通讯作者：
Costa, Francesco