Abstract
BackgroundAlthough 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.MethodsThe 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.ResultsThree 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.ConclusionOur 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.Electronic supplementary materialThe online version of this article (doi:10.1186/s12920-015-0159-0) contains supplementary material, which is available to authorized users.
Highlights
Helicobacter pylori (H.pylori) is the dominant gastrointestinal pathogen, the genetic and molecular mechanisms underlying H.pylori-related diseases have not been fully elucidated
Analysis of aberrantly expressed Long non-coding RNAs (lncRNAs) and mRNAs To explore the potential lncRNAs involved in H.pylori– induced gastric mucosa disorders, we examined the lncRNA and mRNA expression profiles in gastric epithelia cell models through microarray analysis (Fig. 1)
The qRT-polymerase chain reaction (PCR) validation of LINC00152 expression pattern in H.pylori–infected cells was confirmed to be consistent with microarray data (2.11-fold change). When it came to the gastric mucosa tissues, we found reversed expression pattern (P < 0.001) out of expectation. In this preliminary study, we identified a subset of aberrantly expressed lncRNAs in H.pylori-infected models and gastric mucosa tissues
Summary
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. This study aimed to identify the dysregulated lncRNAs in human gastric epithelial cells and tissues infected with H.pylori. Helicobacter pylori (H.pylori) is a human-specific gastric bacterium that colonizes more than half of the world’s population. The infection of this pathogen is thought to be persisted for lifetime without treatment. Considering the wide range of roles that lncRNAs play in cellular and molecular regulatory processes, we do believe that it is possible that the aberrant expression of some lncRNAs might contribute to the H.pylori-infection associated disorders and diseases
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