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Updated: May 18, 2026

Gastric Mucosa Quantitative Polymerase Chain Reaction Analysis for Detecting Helicobacter pylori and Antibiotic Resistance
Published on: March 7, 2025
Multiple infection and microdiversity among Helicobacter pylori isolates in a single host in India
Rajashree Patra1, Santanu Chattopadhyay, Ronita De
1National Institute of Cholera and Enteric Diseases, Kolkata, India.
Abstract:
Helicobacter pylori is one of the most diverse bacterial species that chronically infects more than 70% of Indian population. Interestingly, data showing microdiversity of the H. pylori strains within a particular gastric niche remained scarce. To understand the extent of genetic diversity among H. pylori strains within a given host, 30 patients with gastro-duodenal problems were subjected to endoscopy and from each patient 10 single colonies were isolated. Characterization of each of these 10 single colonies by DNA fingerprinting as well as genotyping of several important genetic markers viz. cagA, vacA, iceA, vapD, cag PAI empty site, IS605, RFLP and two other genetic segments within cag PAI revealed that all of the 30 patients were infected with more than one strain and sometimes strains with 5 to 6 types of genetic variants. Analyses of certain genetic loci showed the microdiversity among the colonies from single patient, which may be due to the recombination events during long-term carriage of the pathogen. These results suggest that most of the patients have acquired H. pylori due to repeated exposure to this pathogen with different genetic make-up, which may increase the possibility of super infections. Genetic exchanges between these unrelated H. pylori strains may support certain H. pylori variant to grow better in a given host than the parental strain and thereby increasing the possibility for the severity of the infection.
Insights
Most Indian patients harbor diverse Helicobacter pylori strains, not just one. This genetic variation within hosts suggests repeated infections and may increase disease severity.
Area of Science:
- Microbiology
- Genetics
- Infectious Diseases
Background:
- Helicobacter pylori is a highly diverse bacterium, chronically infecting over 70% of the Indian population.
- Limited data exists on the microdiversity of H. pylori strains within individual gastric environments.
Purpose of the Study:
- To investigate the extent of genetic diversity among H. pylori strains within a single host.
- To understand the implications of H. pylori microdiversity on chronic infections and disease severity.
Main Methods:
- Endoscopic sampling from 30 patients with gastro-duodenal issues.
- Isolation and characterization of 10 single colonies per patient.
- DNA fingerprinting and genotyping of key genetic markers (cagA, vacA, iceA, etc.) and cag Pathogen Associated Island (PAI) regions.
Main Results:
- All 30 patients were infected with multiple H. pylori strains, some exhibiting 5-6 genetic variants.
- Microdiversity was observed within colonies from single patients, possibly due to recombination during chronic carriage.
- Genetic exchanges between unrelated strains were identified.
Conclusions:
- The high prevalence of H. pylori microdiversity suggests repeated infections with genetically distinct strains.
- This diversity may enhance the potential for superinfections and increase the likelihood of severe gastric disease.
- Understanding H. pylori strain variability is crucial for effective treatment and management strategies.
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