Microarray analysis of Long non-coding RNA expression profiles in human gastric cells and tissues with Helicobacter pylori Infection.
Microarray analysis of Long non-coding RNA expression profiles in human gastric cells and tissues with Helicobacter pylori Infection.
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幽门螺杆菌感染的人胃细胞和组织中长非编码RNA表达谱的微阵列分析
DOI：
10.1186/s12920-015-0159-0
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发表时间：
2015-12-21
影响因子：
2.7
通讯作者：
Shao S
中科院分区：
文献类型：
--
作者：
Zhu H;Wang Q;Yao Y;Fang J;Sun F;Ni Y;Shen Y;Wang H;Shao S
虽然幽门螺杆菌(Hp)是主要的胃肠道病原体，但Hp相关疾病的遗传和分子机制尚未完全阐明。长非编码RNA(Long Non-Coding RNAs，LncRNAs)在真核细胞中已被发现，许多LncRNAs在调节生物过程和发病机制中发挥着重要作用。然而，幽门螺杆菌感染后lncRNAs的表达变化却鲜见报道。本研究旨在鉴定幽门螺杆菌感染的人胃上皮细胞和组织中表达异常的lncRNAs。应用基因芯片技术检测幽门螺杆菌感染前后GES-1细胞中lncRNAs和mRNAs的异常表达。以Pearson相关分析为基础构建LncRNA-mRNA共表达网络。对异常表达的mRNAs进行基因本体论(GO)和KEGG通路分析，以确定相关的生物学功能和病理途径。通过qRT-PCR验证靶LncRNAs的表达变化，以证实微阵列数据在细胞和临床标本中的表达。在幽门螺杆菌感染的细胞中，有300个lncRNAs和565mRNAs被鉴定为异常表达的转录本(≥2或≤0.5倍变化，P <； 0.0 5)。LncRNA-mRNAs共表达网络显示了核心的lncRNAs/mRNAs，可能在Hp相关的致病机制中发挥重要作用。GO和KEGG分析表明，Hp感染中异常表达的mRNAs的功能与炎症和癌变密切相关。定量逆转录聚合酶链式反应证实了8个(n345630、xloc_004787、n378726、lINC00473、xloc_005517、lINC00152、xloc_13370和n408024)lncRNA在感染细胞中的表达模式。此外，在幽门螺杆菌阳性的胃标本中还发现了4个下调的lncRNA(n345630、xloc_004787、n378726和LINC00473)。本研究利用基因芯片技术对幽门螺杆菌感染细胞中lncRNAs的表达谱进行了初步探索。这些失调的lncRNAs可能参与了幽门螺杆菌感染的病理过程。本文的在线版本(doi：10.1186/s12920-015-0159-0)包含补充材料，授权用户可以使用。
Although Helicobacter pylori (H.pylori) is the dominant gastrointestinal pathogen, the genetic and molecular mechanisms underlying H.pylori-related diseases have not been fully elucidated. Long non-coding RNAs (lncRNAs) have been identified in eukaryotic cells, many of which play important roles in regulating biological processes and pathogenesis. However, the expression changes of lncRNAs in human infected by H.pylori have been rarely reported. This study aimed to identify the dysregulated lncRNAs in human gastric epithelial cells and tissues infected with H.pylori. The aberrant expression profiles of lncRNAs and mRNAs in GES-1 cells with or without H.pylori infection were explored by microarray analysis. LncRNA-mRNA co-expression network was constructed based on Pearson correlation analysis. Gene Ontology (GO) and KEGG Pathway analyses of aberrantly expressed mRNAs were performed to identify the related biological functions and pathologic pathways. The expression changes of target lncRNAs were validated by qRT-PCR to confirm the microarray data in both cells and clinical specimens. Three hundred three lncRNAs and 565 mRNAs were identified as aberrantly expressed transcripts (≥2 or ≤0.5-fold change, P < 0.05) in cells with H.pylori infection compared to controls. LncRNA-mRNA co-expression network showed the core lncRNAs/mRNAs which might play important roles in H.pylori-related pathogenesis. GO and KEGG analyses have indicated that the functions of aberrantly expressed mRNAs in H.pylori infection were related closely with inflammation and carcinogenesis. QRT-PCR data confirmed the expression pattern of 8 (n345630, XLOC_004787, n378726, LINC00473, XLOC_005517, LINC00152, XLOC_13370, and n408024) lncRNAs in infected cells. Additionally, four down-regulated (n345630, XLOC_004787, n378726, and LINC00473) lncRNAs were verified in H.pylori-positive gastric samples. Our study provided a preliminary exploration of lncRNAs expression profiles in H.pylori-infected cells by microarray. These dysregulated lncRNAs might contribute to the pathological processes during H.pylori infection. The online version of this article (doi:10.1186/s12920-015-0159-0) contains supplementary material, which is available to authorized users.