中国组织工程研究 ›› 2025, Vol. 29 ›› Issue (19): 4172-4180.doi: 10.12307/2025.036

• 干细胞相关大数据分析 Stem cell-related big data analysis • 上一篇    

阿尔茨海默病NK细胞与铜死亡的相关基因分析

陈桂琳,汤其强   

  1. 安徽医科大学附属省立医院神经内科,安徽省合肥市   230001
  • 收稿日期:2024-01-02 接受日期:2024-03-01 出版日期:2025-07-08 发布日期:2024-09-13
  • 通讯作者: 汤其强,博士,博士后,教授,主任医师,安徽医科大学附属省立医院神经内科,安徽省合肥市 230001
  • 作者简介:陈桂琳,女,1999年生,安徽省合肥市人,汉族,安徽医科大学在读硕士,主要从事阿尔茨海默病等神经退行性疾病的机制研究。
  • 基金资助:
    中国科学院战略性先导科技专项(B类)子课题(XDB39040400),项目负责人:汤其强

Cuproptosis-related genes in natural killer cells of Alzheimer’s disease

Chen Guilin, Tang Qiqiang   

  1. Department of Neurology, Provincial Hospital Affiliated to Anhui Medical University, Hefei 230001, Anhui Province, China
  • Received:2024-01-02 Accepted:2024-03-01 Online:2025-07-08 Published:2024-09-13
  • Contact: Tang Qiqiang, MD, Professor, Chief physician, Department of Neurology, Provincial Hospital Affiliated to Anhui Medical University, Hefei 230001, Anhui Province, China
  • About author:Chen Guilin, Master candidate, Department of Neurology, Provincial Hospital Affiliated to Anhui Medical University, Hefei 230001, Anhui Province, China
  • Supported by:
    Strategic Leading Science and Technology Project of Chinese Academy of Sciences (Class B), No. XDB39040400 (to TQQ)

摘要:

文题释义:

阿尔茨海默病:是目前最常见的神经退行性疾病之一,多表现为认知功能减退,严重时影响日常生活能力,最终可导致基本生活能力丧失。
生信分析:利用生物信息学工具、方法和技术对生命科学数据进行分析和研究的一个领域,是对大量生物信息数据进行有效处理、挖掘和分析的重要手段。

摘要
背景:阿尔茨海默病的免疫相关致病机制尚不明确,通过生物信息学探讨阿尔茨海默病患者NK细胞与铜死亡机制的相关性,可为研究阿尔茨海默病的发生发展提供新方向。
目的:使用生物信息学分析方法筛选阿尔茨海默病患者外周血中NK细胞与铜死亡相关的关键基因,并在临床标本水平加以验证。
方法:利用GEO在线数据库筛选阿尔茨海默病患者外周血转录组差异表达基因和NK细胞相关基因,与已报告的铜死亡因子取交集,获取差异表达的铜死亡相关基因;接着采用RT-qPCR技术对基因相对表达量进行实验验证,实验样本来自于安徽省立医院神经内科2021-2023年住院患者的外周血,按照纳排标准纳入疾病组30例及对照组20例。后续进一步使用在线GeneMANIA网站构建蛋白质-蛋白质互作网络;利用R语言进行免疫浸润分析;基于ENCODE数据库进行转录因子预测。
结果与结论:①利用GSE63060数据集中阿尔茨海默病患者外周血转录组差异表达基因、GSE168522数据集中NK细胞相关基因、已报告的铜死亡基因,应用在线韦恩图工具、LASSO算法及随机森林机器学习方法筛选获取4个差异表达的铜死亡相关基因:铁氧还原蛋白1(ferredoxin 1,FDX1)、铜离子转运ATP酶a肽(ATPase Cu2+ transporting alpha polypeptide,ATP7A)、丙酮酸脱氢酶β(pyruvate dehydrogenase El subunit beta,PDHB)和二氢硫辛酰胺琥珀酰转移酶(dihydrolipoamide succinyltransferase,DLST)。②临床样本实验验证,FDX1和ATP7A在阿尔茨海默病患者外周血中表达上调(P < 0.001),且在载脂蛋白E4不同基因型中呈差异性表达(P < 0.01,P < 0.001);PDHB和DLST在阿尔茨海默病患者外周血中表达下调(P < 0.001),在载脂蛋白E4不同基因型中表达无显著性意义(P > 0.05)。③蛋白质-蛋白质互作网络发现20种功能蛋白与关键基因相关联,免疫浸润分析结果验证了关键基因与12个免疫细胞具有显著相关性(以P < 0.05为具有相关性)。④生物信息学分析与实验验证结果提示,FDX1,ATP7A,PDHB和DLST基因在阿尔茨海默病中存在差异性表达,这4个基因在阿尔茨海默病外周血的NK细胞中可能通过铜死亡机制参与了疾病的发生发展,文章结果为阿尔茨海默病的诊断及治疗提供了潜在的靶点。

https://orcid.org/0009-0006-7829-1655 (汤其强) 



中国组织工程研究杂志出版内容重点:干细胞;骨髓干细胞;造血干细胞;脂肪干细胞;肿瘤干细胞;胚胎干细胞;脐带脐血干细胞;干细胞诱导;干细胞分化;组织工程

关键词: 阿尔茨海默病, 生物信息学, NK细胞, 铜死亡, FDX1, ATP7A, PDHB, DLST

Abstract: BACKGROUND: The immune-related pathogenesis of Alzheimer’s disease is still unclear. Exploring the correlation between natural killer cells and cuproptosis mechanism in Alzheimer’s disease patients through bioinformatics can provide a new direction for the study of the occurrence and development of Alzheimer’s disease.
OBJECTIVE: To screen the key genes related to cuproptosis of natural killer cells in peripheral blood of patients with Alzheimer’s disease by bioinformatics analysis and verify them in clinical specimens.
METHODS: The GEO online database was used to screen the transcriptome differentially expressed genes and natural killer cell related genes in the peripheral blood of patients with Alzheimer’s disease, and intersected with the reported cuproptosis factors. Differentially expressed cuproptosis-related genes were obtained. Then RT-qPCR technology was used to verify the relative gene expression levels. The experimental samples were all from peripheral blood of hospitalized patients in the Department of Neurology of Anhui Provincial Hospital from 2021 to 2023, and 30 patients in the disease group and 20 in the control group were included according to the inclusion and exclusion criteria. The protein-protein interaction network was further constructed using the online GeneMANIA website. R language was used for immune infiltration analysis. Transcription factor prediction was conducted based on ENCODE database.
RESULTS AND CONCLUSION: (1) The differential expression genes of peripheral blood transcriptome of Alzheimer’s disease patients in GSE63060 data set, natural killer cell related genes in GSE168522 data set, and reported cuproptosis genes were used to screen and obtain four differentially expressed cuproptosis-related genes by using online Venn diagram tool, LASSO algorithm, and random forest machine learning methods: ferredoxin 1 (FDX1), ATPase Cu2+ transporting alpha polypeptide (ATP7A), pyruvate dehydrogenase El subunit beta (PDHB), and dihydrolipoamide succinyltransferase (DLST). (2) Clinical sample experiments showed that FDX1 and ATP7A were up-regulated in peripheral blood of patients with Alzheimer’s disease (P < 0.001), and were differentially expressed in different genotypes of apolipoprotein E4 (P < 0.01, P < 0.001). The expression of PDHB and DLST in peripheral blood of patients with Alzheimer’s disease was down-regulated (P < 0.001), and there was no difference in apolipoprotein E4 genotypes (P > 0.05). (3) Protein-protein interaction network found that 20 functional proteins were associated with key genes, and immunoinfiltration analysis showed that key genes were significantly associated with 12 immune cells (P < 0.05 was considered to be relevant). (4) Bioinformatics analysis and experimental verification results suggest that FDX1, ATP7A, PDHB, and DLST are differentially expressed in Alzheimer’s disease, may participate in the occurrence and development of Alzheimer’s disease through the cuproptosis mechanism in peripheral blood natural killer cells, and also provide potential targets for the diagnosis and treatment of Alzheimer’s disease. 

Key words: Alzheimer’s disease, bioinformatics, natural killer cell, cuproptosis, FDX1, ATP7A, PDHB, DLST 

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