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Open AccessArticle

Detection of Helicobacter pylori Microevolution and Multiple Infection from Gastric Biopsies by Housekeeping Gene Amplicon Sequencing

1
Secció de Microbiologia, Departament de Biologia, Sanitat i Medi Ambient, Facultat de Farmàcia i Ciències de l’Alimentació, Universitat de Barcelona, Av. Joan XXIII 27-31, 08028 Barcelona, Catalonia, Spain
2
Integrated Microbiome Resource (IMR), Dalhousie University, 5850 College Street, Halifax, NS B3H 4R2, Canada
3
Department of Microbiology & Immunology, Dalhousie University, Halifax, NS B3H 4R2, Canada
4
Digestive Diseases Service, Hospital de Sabadell, Institut Universitari Parc Taulí-UAB, Parc Tauli 1, 08208 Sabadell, Catalonia, Spain
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Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas (CIBERehd), Instituto de Salud Carlos III, Montorte de Lemos 3–5, 28029 Madrid, Spain
6
Department of Pharmacology, Dalhousie University, 5850 College Street, Halifax, NS B3H 4R2, Canada
*
Author to whom correspondence should be addressed.
Pathogens 2020, 9(2), 97; https://doi.org/10.3390/pathogens9020097
Received: 24 December 2019 / Revised: 20 January 2020 / Accepted: 3 February 2020 / Published: 5 February 2020
(This article belongs to the Section Human Pathogens)
Despite the great efforts devoted to research on Helicobacter pylori, the prevalence of single-strain infection or H. pylori mixed infection and its implications in the mode of transmission of this bacterium are still controversial. In this study, we explored the usefulness of housekeeping gene amplicon sequencing in the detection of H. pylori microevolution and multiple infections. DNA was extracted from five gastric biopsies from four patients infected with distinct histopathological diagnoses. PCR amplification of six H. pylori-specific housekeeping genes was then assessed on each sample. Optimal results were obtained for the cgt and luxS genes, which were selected for amplicon sequencing. A total of 11,833 cgt and 403 luxS amplicon sequences were obtained, 2042 and 112 of which were unique sequences, respectively. All cgt and luxS sequences were clustered at 97% to 9 and 13 operational taxonomic units (OTUs), respectively. For each sample from a different patient, a single OTU comprised the majority of sequences in both genes, but more than one OTU was detected in all samples. These results suggest that multiple infections with a predominant strain together with other minority strains are the main way by which H. pylori colonizes the human stomach. View Full-Text
Keywords: Helicobacter pylori; microevolution; multiple infections; housekeeping genes; amplicon sequencing; gastric diseases Helicobacter pylori; microevolution; multiple infections; housekeeping genes; amplicon sequencing; gastric diseases
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Palau, M.; Piqué, N.; Comeau, A.M.; Douglas, G.M.; Ramírez-Lázaro, M.J.; Lario, S.; Calvet, X.; Langille, M.G.I.; Miñana-Galbis, D. Detection of Helicobacter pylori Microevolution and Multiple Infection from Gastric Biopsies by Housekeeping Gene Amplicon Sequencing. Pathogens 2020, 9, 97.

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