Microarray analysis of Long non-coding RNA expression profiles in human gastric cells and tissues with Helicobacter pylori Infection. Issue 1 (December 2015)

• Record Type: Journal Article
• Authors: Zhu, Hong; Wang, Qiang; Yao, Yizheng; Fang, Jian; Sun, Fengying; Ni, Ying; Shen, Yixin; Wang, Hua; Shao, Shihe
• Is Part Of: BMC medical genomics. Volume 8:Issue 1(2015)
• Page Start: 1
• Page End: 11
• Publication Date: 2015-12
• Subjects: Long non-coding RNAs -- Helicobacter pylori -- Microarray -- Expression profile; Medical genetics -- Periodicals; Genomics -- Periodicals; 616.042
• DOI: 10.1186/s12920-015-0159-0
• Languages: English
• ISSNs: 1755-8794

Abstract

Abstract Background AlthoughHelicobacter pylori (H.pylori ) is the dominant gastrointestinal pathogen, the genetic and molecular mechanisms underlyingH.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 byH.pylori have been rarely reported. This study aimed to identify the dysregulated lncRNAs in human gastric epithelial cells and tissues infected withH.pylori . Methods The aberrant expression profiles of lncRNAs and mRNAs in GES-1 cells with or withoutH.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. Results Three hundred three lncRNAs and 565 mRNAs were identified as aberrantly expressed transcripts (≥2 or ≤0.5-fold change, P < 0.05) in cells withH.pylori infection compared to controls. LncRNA-mRNA co-expression network showed the core lncRNAs/mRNAs which might play important roles inH.pylori -related pathogenesis. GO and KEGG analyses have indicated that the functions of aberrantly expressed mRNAs inH.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 inH.pylori- positive gastric samples. Conclusion Our study provided a preliminary exploration of lncRNAs expression profiles inH.pylori- infected cells by microarray. These dysregulated lncRNAs might contribute to the pathological processes duringH.pylori infection.