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鉴定沙眼衣原体感染的人结膜和生殖道中的差异表达基因和信号通路。

Identification of differentially expressed genes and signaling pathways in human conjunctiva and reproductive tract infected with Chlamydia trachomatis.

机构信息

Departments of Geriatrics and Oncology, Guangzhou First People's Hospital, School of Medicine, South China University of Technology, Guangzhou, 510180, Guangdong, China.

Department of Clinical Laboratory Medicine, The Third Affiliated Hospital of Guangzhou Medical University, Guangzhou, 510150, China.

出版信息

Hum Genomics. 2021 Apr 19;15(1):22. doi: 10.1186/s40246-021-00313-8.

DOI:10.1186/s40246-021-00313-8
PMID:33875006
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC8056519/
Abstract

BACKGROUND

Currently, Chlamydia trachomatis-specific host defense mechanisms in humans remain poorly defined. To study the characteristics of host cells infected early with Chlamydia trachomatis, we used bioinformatics methods to analyze the RNA transcription profiles of the conjunctiva, fallopian tubes, and endometrium in humans infected with Chlamydia trachomatis.

METHOD

The gene expression profiles of GSE20430, GSE20436, GSE26692, and GSE41075 were downloaded from the Gene Expression Synthesis (GEO) database. Then, we obtained the differentially expressed genes (DEGs) through the R 4.0.1 software. STRING was used to construct protein-protein interaction (PPI) networks; then, the Cytoscape 3.7.2 software was used to visualize the PPI and screen hub genes. GraphPad Prism 8.0 software was used to verify the expression of the hub gene. In addition, the gene-miRNA interaction was constructed on the NetworkAnalyst 3.0 platform using the miRTarBase v8.0 database.

RESULTS

A total of 600 and 135 DEGs were screened out in the conjunctival infection group and the reproductive tract infection group, respectively. After constructing a PPI network and verifying the hub genes, CSF2, CD40, and CSF3 in the reproductive tract infection group proved to have considerable statistical significance.

CONCLUSION

In our research, the key genes in the biological process of reproductive tract infection with Chlamydia trachomatis were clarified through bioinformatics analysis. These hub genes may be further used in clinical treatment and clinical diagnosis.

摘要

背景

目前，人类针对沙眼衣原体的特异性宿主防御机制仍未得到充分定义。为了研究沙眼衣原体早期感染宿主细胞的特征，我们采用生物信息学方法分析了沙眼衣原体感染的人结膜、输卵管和子宫内膜的 RNA 转录谱。

方法

从基因表达综合数据库（GEO）中下载 GSE20430、GSE20436、GSE26692 和 GSE41075 的基因表达谱，然后使用 R 4.0.1 软件获取差异表达基因（DEGs）。STRING 用于构建蛋白质-蛋白质相互作用（PPI）网络，然后使用 Cytoscape 3.7.2 软件可视化 PPI 并筛选枢纽基因。GraphPad Prism 8.0 软件用于验证枢纽基因的表达。此外，使用 miRTarBase v8.0 数据库在 NetworkAnalyst 3.0 平台上构建基因-miRNA 相互作用。

结果

在结膜感染组和生殖道感染组中分别筛选出 600 个和 135 个 DEGs。构建 PPI 网络并验证枢纽基因后，生殖道感染组中的 CSF2、CD40 和 CSF3 具有相当的统计学意义。

结论

通过生物信息学分析，本研究阐明了生殖道沙眼衣原体感染的生物学过程中的关键基因，这些枢纽基因可能进一步用于临床治疗和临床诊断。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/63aa/8056519/7d02f06a0f16/40246_2021_313_Fig10_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/63aa/8056519/408bcc21ab0e/40246_2021_313_Fig1_HTML.jpg
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https://cdn.ncbi.nlm.nih.gov/pmc/blobs/63aa/8056519/fbe7057c41e7/40246_2021_313_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/63aa/8056519/b5e6f544bdf2/40246_2021_313_Fig7_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/63aa/8056519/33b89f761149/40246_2021_313_Fig8_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/63aa/8056519/a7b0cc6043c9/40246_2021_313_Fig9_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/63aa/8056519/7d02f06a0f16/40246_2021_313_Fig10_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/63aa/8056519/408bcc21ab0e/40246_2021_313_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/63aa/8056519/4c6290f36b0a/40246_2021_313_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/63aa/8056519/c9edde67964c/40246_2021_313_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/63aa/8056519/43f63b333c83/40246_2021_313_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/63aa/8056519/f0efc48509cb/40246_2021_313_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/63aa/8056519/fbe7057c41e7/40246_2021_313_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/63aa/8056519/b5e6f544bdf2/40246_2021_313_Fig7_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/63aa/8056519/33b89f761149/40246_2021_313_Fig8_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/63aa/8056519/a7b0cc6043c9/40246_2021_313_Fig9_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/63aa/8056519/7d02f06a0f16/40246_2021_313_Fig10_HTML.jpg

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