Aberrantly Expressed Genes and MiRNAs in Slow Transit Constipation Based on RNA-Seq Analysis

Overview

Journal Biomed Res Int

Publisher Wiley

Specialties Biomedical Engineering
Biotechnology
General Medicine

Date 2018 Sep 7

PMID 30186855

Citations 10

Authors

Shipeng Zhao

Qiang Chen

Xianwu Kang

Bin Kong

Zhuo Wang

Affiliations

Soon will be listed here.

Abstract

Background: This study aims to identify the key genes and miRNAs in slow transit constipation (STC).

Methods: MRNA and miRNA expression profiling were obtained. Differentially expressed genes (DEGs) and miRNAs were identified followed by the regulatory network construction. Functional annotation analysis and protein-protein interaction (PPI) network were conducted. The electronic validation was performed.

Results: Hsa-miR-2116-3p, hsa-miR-3622a-5p, hsa-miR-424-5p, and hsa-miR-1273-3p covered most DEGs. HLA-DRB1, HLA-DRB5, C3, and ICAM were significantly involved in staphylococcus aureus infection. The PPI network generated several hub proteins including ZBTB16, FBN1, CCNF, and CDK1. Electronic validation of HLA-DRB1, PTGDR, MKI67, BIRC5, CCNF, and CDK1 was consistent with the RNA-sequencing analysis.

Conclusion: Our study might be helpful in understanding the pathology of STC at the molecular level.

Citing Articles

Total Flavonoids of Aurantii Fructus Immaturus Regulate miR-5100 to Improve Constipation by Targeting Fzd2 to Alleviate Calcium Balance and Autophagy in Interstitial Cells of Cajal.

Wen Y, Zhan Y, Chen T, Li J, Long Q, Zheng F Mol Neurobiol. 2024; 61(8):5882-5900.

PMID: 38244148 DOI: 10.1007/s12035-024-03958-3.

In Vitro Evaluation of Probiotic Properties of Two Novel Probiotic Mixtures, Consti-Biome and Sensi-Biome.

Jang Y, Min B, Lim J, Kim B J Microbiol Biotechnol. 2023; 33(9):1149-1161.

PMID: 37386724 PMC: 10580887. DOI: 10.4014/jmb.2303.03011.

Analysis of Key Genes for Slow Transit Constipation Based on RNA Sequencing.

Yu L, Yang X, Guan W, Zhang D, Ren S, Xing Y Int J Gen Med. 2022; 15:7569-7579.

PMID: 36199586 PMC: 9528044. DOI: 10.2147/IJGM.S380208.

Electroacupuncture Improves Intestinal Motility through Exosomal miR-34c-5p Targeting SCF/c-Kit Signaling Pathway in Slow Transit Constipation Model Rats.

Kuang H, Zhang C, Zhang W, Cai H, Yang L, Yuan N Evid Based Complement Alternat Med. 2022; 2022:8043841.

PMID: 36133788 PMC: 9484875. DOI: 10.1155/2022/8043841.

Efficacy and MicroRNA-Gut Microbiota Regulatory Mechanisms of Acupuncture for Severe Chronic Constipation: Study Protocol for a Randomized Controlled Trial.

Yao J, Yan X, Chen L, Li Y, Zhang L, Chen M Front Med (Lausanne). 2022; 9:906403.

PMID: 35836948 PMC: 9273765. DOI: 10.3389/fmed.2022.906403.

References

Goossens-Beumer I, Zeestraten E, Benard A, Christen T, Reimers M, Keijzer R . Clinical prognostic value of combined analysis of Aldh1, Survivin, and EpCAM expression in colorectal cancer. Br J Cancer. 2014; 110(12):2935-44. PMC: 4056050. DOI: 10.1038/bjc.2014.226. View

Altieri D . The case for survivin as a regulator of microtubule dynamics and cell-death decisions. Curr Opin Cell Biol. 2006; 18(6):609-15. DOI: 10.1016/j.ceb.2006.08.015. View

Lind G, Danielsen S, Ahlquist T, Merok M, Andresen K, Skotheim R . Identification of an epigenetic biomarker panel with high sensitivity and specificity for colorectal cancer and adenomas. Mol Cancer. 2011; 10:85. PMC: 3166273. DOI: 10.1186/1476-4598-10-85. View

Han W, Wang Z, Lu X, Guo C . Protease activated receptor 4 status of mast cells in post infectious irritable bowel syndrome. Neurogastroenterol Motil. 2011; 24(2):113-9, e82. DOI: 10.1111/j.1365-2982.2011.01841.x. View

Dubrez-Daloz L, Dupoux A, Cartier J . IAPs: more than just inhibitors of apoptosis proteins. Cell Cycle. 2008; 7(8):1036-46. DOI: 10.4161/cc.7.8.5783. View

Camilleri M, Carlson P, Acosta A, Busciglio I, Nair A, Gibbons S . RNA sequencing shows transcriptomic changes in rectosigmoid mucosa in patients with irritable bowel syndrome-diarrhea: a pilot case-control study. Am J Physiol Gastrointest Liver Physiol. 2014; 306(12):G1089-98. PMC: 4059976. DOI: 10.1152/ajpgi.00068.2014. View

Bobowicz M, Skrzypski M, Czapiewski P, Marczyk M, Maciejewska A, Jankowski M . Prognostic value of 5-microRNA based signature in T2-T3N0 colon cancer. Clin Exp Metastasis. 2016; 33(8):765-773. PMC: 5110606. DOI: 10.1007/s10585-016-9810-1. View

Kim J, Park S, Kwak M, Go J, Koh E, Song S . Characterization of Changes in Global Genes Expression in the Distal Colon of Loperamide-Induced Constipation SD Rats in Response to the Laxative Effects of Liriope platyphylla. PLoS One. 2015; 10(7):e0129664. PMC: 4495015. DOI: 10.1371/journal.pone.0129664. View

Chen W, Chen T, Yang T, Hu L, Pan H, Leung C . Co-modulated behavior and effects of differentially expressed miRNA in colorectal cancer. BMC Genomics. 2014; 14 Suppl 5:S12. PMC: 3852113. DOI: 10.1186/1471-2164-14-S5-S12. View

10.

Hamfjord J, Stangeland A, Hughes T, Skrede M, Tveit K, Ikdahl T . Differential expression of miRNAs in colorectal cancer: comparison of paired tumor tissue and adjacent normal mucosa using high-throughput sequencing. PLoS One. 2012; 7(4):e34150. PMC: 3328481. DOI: 10.1371/journal.pone.0034150. View

11.

Yang Y, Zhao L, Lei L, Lau W, Lau B, Yang Q . LncRNAs: the bridge linking RNA and colorectal cancer. Oncotarget. 2016; 8(7):12517-12532. PMC: 5355361. DOI: 10.18632/oncotarget.13573. View

12.

Zhao J, Dong L, Shi H, Wang Z, Shi H, Ding H . The expression of protease-activated receptor 2 and 4 in the colon of irritable bowel syndrome patients. Dig Dis Sci. 2011; 57(1):58-64. DOI: 10.1007/s10620-011-1827-3. View

13.

Mitchell S, Ross J, Drew H, Ho T, Brown G, Saunders N . A panel of genes methylated with high frequency in colorectal cancer. BMC Cancer. 2014; 14:54. PMC: 3924905. DOI: 10.1186/1471-2407-14-54. View

14.

Maxwell E, Colquhoun I, Chau H, Hotchkiss A, Waldron K, Morris V . Rhamnogalacturonan I containing homogalacturonan inhibits colon cancer cell proliferation by decreasing ICAM1 expression. Carbohydr Polym. 2015; 132:546-53. DOI: 10.1016/j.carbpol.2015.06.082. View

15.

Jagadish N, Parashar D, Gupta N, Agarwal S, Purohit S, Kumar V . A-kinase anchor protein 4 (AKAP4) a promising therapeutic target of colorectal cancer. J Exp Clin Cancer Res. 2015; 34:142. PMC: 4654903. DOI: 10.1186/s13046-015-0258-y. View

16.

Sugihara T, Kobori A, Imaeda H, Tsujikawa T, Amagase K, Takeuchi K . The increased mucosal mRNA expressions of complement C3 and interleukin-17 in inflammatory bowel disease. Clin Exp Immunol. 2010; 160(3):386-93. PMC: 2883109. DOI: 10.1111/j.1365-2249.2010.04093.x. View

17.

Walia R, Mahajan L, Steffen R . Recent advances in chronic constipation. Curr Opin Pediatr. 2009; 21(5):661-6. DOI: 10.1097/MOP.0b013e32832ff241. View

18.

Theiss A . Sphingosine-1-phosphate: Driver of NFκB and STAT3 persistent activation in chronic intestinal inflammation and colitis-associated cancer. JAKSTAT. 2013; 2(3):e24150. PMC: 3772105. DOI: 10.4161/jkst.24150. View

19.

Shahid S, Ramzan Z, Maurer A, Parkman H, Fisher R . Chronic idiopathic constipation: more than a simple colonic transit disorder. J Clin Gastroenterol. 2011; 46(2):150-4. DOI: 10.1097/MCG.0b013e318231fc64. View

20.

Bassotti G, Chiarioni G, Vantini I, Betti C, Fusaro C, Pelli M . Anorectal manometric abnormalities and colonic propulsive impairment in patients with severe chronic idiopathic constipation. Dig Dis Sci. 1994; 39(7):1558-64. DOI: 10.1007/BF02088064. View