Colonic Mucosal Transcriptomic Changes in Patients with Long-Duration Ulcerative Colitis Revealed Colitis-Associated Cancer Pathways

Autor:	Norfilza Mohd Mokhtar, Zhiqin Wong, Raja Affendi Raja Ali, Eden Ngah Den Low
Rok vydání:	2019
Předmět:	Adult Male 0301 basic medicine Time Factors MMP1 Colon Polymerase Chain Reaction Inflammatory bowel disease Transcriptome Young Adult 03 medical and health sciences 0302 clinical medicine Humans Medicine Intestinal Mucosa KEGG Aged ulcerative colitis long duration business.industry Microarray analysis techniques Gene Expression Profiling Alternative splicing Gastroenterology Original Articles General Medicine Middle Aged medicine.disease Fold change Gene expression profiling Cell Transformation Neoplastic 030104 developmental biology Tissue Array Analysis 030220 oncology & carcinogenesis Colonic Neoplasms Cancer research Colitis Ulcerative Female microarray analysis business
Zdroj:	Journal of Crohn's & Colitis
ISSN:	1876-4479 1873-9946
DOI:	10.1093/ecco-jcc/jjz002
Popis:	Background and aims Patients with ulcerative colitis [UC] with long disease duration have a higher risk of developing colitis-associated cancer [CAC] compared with patients with short-duration UC. The aim of this study was to identify transcriptomic differences associated with the duration of UC disease. Methods We conducted transcriptome profiling on 32 colonic biopsies [11 long-duration UC, ≥20 years; and 21 short-duration UC, ≤5 years] using Affymetrix Human Transcriptome Array 2.0. Differentially expressed genes [fold change > 1.5, p < 0.05] and alternative splicing events [splicing index > 1.5, p < 0.05] were determined using the Transcriptome Analysis Console. KOBAS 3.0 and DAVID 6.8 were used for KEGG and GO analysis. Selected genes from microarray analysis were validated using qPCR. Results There were 640 differentially expressed genes between both groups. The top ten upregulated genes were HMGCS2, UGT2A3 isoforms, B4GALNT2, MEP1B, GUCA2B, ADH1C, OTOP2, SLC9A3, and LYPD8; the top ten downregulated genes were PI3, DUOX2, VNN1, SLC6A14, GREM1, MMP1, CXCL1, TNIP3, TFF1, and LCN2. Among the 123 altered KEGG pathways, the most significant were metabolic pathways; fatty acid degradation; valine, leucine, and isoleucine degradation; the peroxisome proliferator–activated receptor signalling pathway; and bile secretion, which were previously linked with CAC. Analysis showed that 3560 genes exhibited differential alternative splicing between long- and short-duration UC. Among them, 374 were differentially expressed, underscoring the intrinsic relationship between altered gene expression and alternative splicing. Conclusions Long-duration UC patients have altered gene expressions, pathways, and alternative splicing events as compared with short-duration UC patients, and these could be further validated to improve our understanding of the pathogenesis of CAC.
Databáze:	OpenAIRE
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