Genomic diversity of Helicobacter pylori populations from different regions of the human stomach

Wilkinson, DJ ORCID: https://orcid.org/0000-0002-3972-5100, Dickins, B ORCID: https://orcid.org/0000-0002-0866-6232, Robinson, K and Winter, JA ORCID: https://orcid.org/0000-0003-3582-7596, 2022. Genomic diversity of Helicobacter pylori populations from different regions of the human stomach. Gut Microbes, 14 (1): 2152306. ISSN 1949-0976

Preview

Text 1625543_Winter.pdf - Published version Download (4MB) | Preview

Abstract

Individuals infected with Helicobacter pylori harbor unique and diverse populations of quasispecies, but diversity between and within different regions of the human stomach and the process of bacterial adaptation to each location are not yet well understood. We applied whole-genome deep sequencing to characterize the within- and between-stomach region genetic diversity of H. pylori populations from paired antrum and corpus biopsies of 15 patients, along with single biopsies from one region of an additional 3 patients, by scanning allelic diversity. We combined population deep sequencing with more conventional sequencing of multiple H. pylori single colony isolates from individual biopsies to generate a unique dataset. Single colony isolates were used to validate the scanning allelic diversity pipelines. We detected extensive population allelic diversity within the different regions of each patient’s stomach. Diversity was most commonly found within non-coding, hypothetical, outer membrane, restriction modification system, virulence, lipopolysaccharide biosynthesis, efflux systems, and chemotaxis-associated genes. Antrum and corpus populations from the same patient grouped together phylogenetically, indicating that most patients were initially infected with a single strain, which then diversified. Single colonies from the antrum and corpus of the same patients grouped into distinct clades, suggesting mechanisms for within-location adaptation across multiple H. pylori isolates from different patients. The comparisons made available by combined sequencing and analysis of isolates and populations enabled comprehensive analysis of the genetic changes associated with H. pylori diversification and stomach region adaptation.

Item Type:	Journal article
Publication Title:	Gut Microbes
Creators:	Wilkinson, D.J., Dickins, B., Robinson, K. and Winter, J.A.
Publisher:	Informa UK Limited
Date:	2022
Volume:	14
Number:	1
ISSN:	1949-0976
Identifiers:	Number Type 10.1080/19490976.2022.2152306 DOI 1625543 Other
Rights:	© 2022 The Author(s). Published with license by Taylor & Francis Group, LLC. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Divisions:	Schools > School of Science and Technology
Record created by:	Laura Ward
Date Added:	07 Dec 2022 15:04
Last Modified:	07 Dec 2022 15:04
URI:	https://irep.ntu.ac.uk/id/eprint/47599

Actions (login required)

Edit View

Statistics

Views

Downloads