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©The Author(s) 2022. Published by Baishideng Publishing Group Inc. All rights reserved.
World J Gastrointest Pathophysiol. Jul 22, 2022; 13(4): 114-123
Published online Jul 22, 2022. doi: 10.4291/wjgp.v13.i4.114
Common polymorphisms of protein tyrosine phosphate non-receptor type 2 gene are not associated with risk of Crohn’s disease in Indian
Kaushik Chatterjee, Amit Kumar Dutta, Ashish Goel, Rekha Aaron, Vijayalekshmi Balakrishnan, Ajith Thomas, Anoop John, Rajeeb Jaleel, Deepu David, Reuben Thomas Kurien, SD Chowdhury, Ebby George Simon, AJ Joseph, Prasanna Premkumar, Anna B Pulimood
Kaushik Chatterjee, Amit Kumar Dutta, Ashish Goel, Rekha Aaron, Vijayalekshmi Balakrishnan, Ajith Thomas, Anoop John, Rajeeb Jaleel, SD Chowdhury, Anna B Pulimood, Department of Gastrointestinal Sciences, Christian Medical College and Hospital, Vellore 632004, Tamil Nadu, India
Deepu David, Reuben Thomas Kurien, Ebby George Simon, AJ Joseph, Department of Gastroenterology, Christian Medical College, Vellore 632004, Tamil Nadu, India
Prasanna Premkumar, Departments of Biostatistics, Christian Medical College, Vellore 632004, Tamil Nadu, India
Author contributions: Chatterjee K recruited the patients, collected the samples, and critically revised the manuscript; Dutta AK designed the study, analyzed the data, and wrote the manuscript; Balakrishnan V and Aaron R carried out laboratory analysis and critically revised the manuscript ; Samuel P helped with study design, data analysis, and critical revision; Goel A, Thomas A, John A, Jaleel R, David D, Kurien RT, Chowdhury SD, Simon EG, Joseph AJ, and Pulimood AB helped with data collection and critical revision of the manuscript; all authors have read and approved the final manuscript.
Supported by the CMC Vellore FLUID grant, No. 10360.
Institutional review board statement: The study was approved by the local institute review board and ethics committee (IRB Minute Number 10360, dated 3/11/2016).
Informed consent statement: All study participants provided informed written consent prior to study enrollment.
Conflict-of-interest statement: None of the authors have any conflict of interest to declare.
Data sharing statement: All the data have been presented in the manuscript. There are no additional data.
STROBE statement: The authors have read the STROBE Statement-checklist of items, and the manuscript was prepared and revised according to the STROBE Statement-checklist of items.
Open-Access: This article is an open-access article that was selected by an in-house editor and fully peer-reviewed by external reviewers. It is distributed in accordance with the Creative Commons Attribution NonCommercial (CC BY-NC 4.0) license, which permits others to distribute, remix, adapt, build upon this work non-commercially, and license their derivative works on different terms, provided the original work is properly cited and the use is non-commercial. See:
https://creativecommons.org/Licenses/by-nc/4.0/ Corresponding author: Amit Kumar Dutta, MD, Professor, Department of Gastrointestinal Sciences, Christian Medical College and Hospital, Ground Floor, Williams Building, Vellore 632004, Tamil Nadu, India. akdutta1995@yahoo.co.in
Received: January 17, 2022
Peer-review started: January 17, 2022
First decision: March 9, 2022
Revised: March 18, 2022
Accepted: May 22, 2022
Article in press: May 22, 2022
Published online: July 22, 2022
ARTICLE HIGHLIGHTS
Research background
The frequency of Crohn’s disease (CD) has been increasing in several Asian countries. Although its exact pathogenesis is still being elucidated, host genetic, gut microbiota, and environmental factors are key players involved. Research on genetic factors have provided valuable insight into the pathogenesis of the disease. However, some of the genetic abnormalities identified are not consistently seen across different populations and observations from one region cannot be extrapolated to other regions.
Research motivation
Protein tyrosine phosphate non-receptor type 2 (PTPN2) plays an important role in autophagy, innate and adaptive immune response, and maintaining epithelial barrier function. Single nucleotide polymorphisms (SNP) in the PTPN2 gene have been associated with an increased risk of CD. However, this needs to be confirmed in different populations.
Research objectives
Two SNPs in the PTPN2 gene (rs7234029 and rs2542151) have been associated with risk of CD. The objective of the current study was to assess the association of these two polymorphisms with CD in a large Asian country.
Research methods
A prospective case-control study was conducted where cases were patients with CD. Two SNPs in the PTPN2 gene (rs2542151 and rs7234029) were assessed using restriction fragment length polymorphism. The frequencies of polymorphisms between cases and controls were compared.
Research results
The study included 108 patients with CD and 100 controls. The two SNPs in the PTPN2 gene were not associated with an increased risk of CD. In addition, no association was observed between the two SNPs and disease characteristics.
Research conclusions
The current study did not show an increased risk of CD with polymorphisms in the PTPN2 gene contrary to observations in Western population.
Research perspectives
This study reemphasizes on the heterogeneity of genetic risk factors for CD across different population and the need to evaluate them in different populations.
