单核细胞与未成熟树突细胞的细胞骨架相关的核心差异基因表达的生物信息学分析  

Bioinformatical Analysis of Expression of Cytoskeleton-Associated Core Differential Gene of Monocytes and ImDCs

作　　者：谭诚[1] 胡祖权[1] 龙金华[2] 邱伟[1] 刘丽娜[1] 贾义[1] 曾柱[1] 

机构地区：[1]贵州医科大学生物与工程学院,贵阳550025 [2]贵州医科大学附属肿瘤医院头颈肿瘤科,贵阳550004

出　　处：《基因组学与应用生物学》2017年第1期121-129,共9页Genomics and Applied Biology

基　　金：国家自然科学基金资助项目(31260227和11162003);中国博士后科学基金(2015M582758XB);贵州省树突细胞基础与应用开发科技创新人才团队(黔科合人才团队(2015)4021);贵州省留学回国人员择优资助项目(2013-8);贵州省2011协同创新计划(黔教合协同创新字[2015]04);贵州省科技项目(黔科合J字[2013]2058号和黔科合LH字[2014]7092)共同资助

摘　　要：为进一步深入理解不同分化阶段树突状细胞(dendritic cells,DCs)的生物物理学特性和免疫学功能的差异。从CEO数据库获得CD14^+单核细胞(monocytes,mon)及其诱导而成的未成熟DCs(immature DCs,im DCs)的m RNA表达数据(芯片编号:GSE15076),利用R语言软件(RGui 3.2.3)解析原始数据并筛选差异基因。进一步利用STRING online工具筛选核心差异基因(可信度≥0.4),Cytoscape软件构造蛋白质相互作用网络图。对STRING online工具筛选核心差异基因进行京都基因与基因组百科全书(kyoto encyclopedia of genes and genomes,KEGG)分析。实时荧光定量PCR技术检测mon及im DCs部分核心差异基因CCNB1、CDK5、IL-6和TNF在基因水平上的表达情况。im DCs相对于mon表达的差异的基因共3 371个(im DCs与mon对比,表达变化倍数≥2,p值<0.05),其中上调基因为2 396个,下调基因为975个,通过进一步筛选后获得上调基因655个,下调基因110个,主要涉及m TOR信号通路、细胞代谢、细胞粘附等功能。其中上调基因中CDK5、CCNB1等差异基因与细胞骨架改变密切相关,而下调基因中IL-6、TNF、CXCR4等差异基因与细胞骨架改变密切相关,这对进一步深入理解im DCs独特的生物物理学特性和免疫学功能来说具有重要意义。To further understand the differences in biophysical properties and immunological functions of imDCs （dendritic cells, DCs） at different stages of differentiation, CD14^＋ monocytes （monocytes, mon） and the mRNA expression data of immature DCs （immature DCs, imDCs） which were induced by CD14^＋ monocytes were obtained from CEO data base, of which we analyzed the original data and screened the differential gene through R language software （RGui 3.2.3）. Furthermore, we screened core differential genes （credibility ≥0.4） and constructed protein interaction network through STRING online tool and Cytoscape software. Also, we analyzed the core differential genes screened by STRING online tool through KEGG （kyoto encyclopedia of genes and genomes, KEGG）. The expressions of some core differential gene, including CCNB1, CDKS, IL-6 and TNF, of mon and imDCs at gene level were detected by real-time fluorescent quantification PCR technology. The results showed that there were 3 371 differentially expressed genes including 2 396 up-regulated genes and 975 down-regulated genes when monocytes differentiated into imDCs, among which there were 655 up-regulated genes and 110 down-regulated genes after further screened by STRING online tool whose functions mainly contained mTOR signaling pathway, cell metabolism, and cell adhesion, etc. CDK5 and CCNB1 in up-regulated genes and IL-6 and TNF in down-regulated genes were closely associated with the cytoskeletal changes, which has significant meaning for further understanding of the biophysical characteristics and immunological function of imDCs.

关 键 词：单核细胞 未成熟树突状细胞 基因芯片分析 生物信息学 细胞骨架 

分 类 号：Q811.4[生物学—生物工程]