Different gastric microbiota compositions in two human populations with high and low gastric cancer risk in Colombia

Study information

Reviewed Marked as Reviewed by Claregrieve1 on 2022/09/1

study design

cross-sectional observational, not case-control

Citation

PMID PubMed identifier for scientific articles.

26729566

DOI Digital object identifier for electronic documents.

10.1038/srep18594

URI

Authors

Yang I, Woltemate S, Piazuelo MB, Bravo LE, Yepez MC, Romero-Gallo J, Delgado AG, Wilson KT, Peek RM, Correa P, Josenhans C, Fox JG, Suerbaum S

Journal

Scientific reports

Year

2016

Inhabitants of Túquerres in the Colombian Andes have a 25-fold higher risk of gastric cancer than inhabitants of the coastal town Tumaco, despite similar H. pylori prevalences. The gastric microbiota was recently shown in animal models to accelerate the development of H. pylori-induced precancerous lesions. 20 individuals from each town, matched for age and sex, were selected, and gastric microbiota analyses were performed by deep sequencing of amplified 16S rDNA. In parallel, analyses of H. pylori status, carriage of the cag pathogenicity island and assignment of H. pylori to phylogeographic groups were performed to test for correlations between H. pylori strain properties and microbiota composition. The gastric microbiota composition was highly variable between individuals, but showed a significant correlation with the town of origin. Multiple OTUs were detected exclusively in either Tumaco or Túquerres. Two operational taxonomic units (OTUs), Leptotrichia wadei and a Veillonella sp., were significantly more abundant in Túquerres, and 16 OTUs, including a Staphylococcus sp. were significantly more abundant in Tumaco. There was no significant correlation of H. pylori phylogeographic population or carriage of the cagPAI with microbiota composition. From these data, testable hypotheses can be generated and examined in suitable animal models and prospective clinical trials.

Experiment 1

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Reviewed Marked as Reviewed by Claregrieve1 on 2022/09/1

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): Claregrieve1, WikiWorks

Subjects

Location of subjects: Colombia

Host species Species from which microbiome was sampled. Contact us to have more species added.: Homo sapiens

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology: Stomach Anterior intestine,Gaster,Mesenteron,Stomach chamber,Ventriculus,Stomach,stomach

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology: Gastric cancer Ca body - stomach,ca greater curvature of stomach,Ca lesser curvature - stomach,cancer of stomach,gastric cancer,gastric cancer, intestinal,gastric neoplasm,malignant gastric neoplasm,malignant gastric tumor,malignant neoplasm of body of stomach,malignant neoplasm of lesser curve of stomach,malignant neoplasm of stomach,malignant neoplasm of the stomach,malignant stomach neoplasm,malignant tumor of body of stomach,malignant tumor of greater curve of stomach,malignant tumor of lesser curve of stomach,malignant tumor of stomach,malignant tumor of the stomach,stomach cancer,Gastric cancer

Group 0 name Corresponds to the control (unexposed) group for case-control studies: low gastric cancer risk patients (Tumaco residents)

Group 1 name Corresponds to the case (exposed) group for case-control studies: high gastric cancer risk patients (Tuquerres residents)

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: individuals from Tuquerres with high gastric cancer risk

Group 0 sample size Number of subjects in the control (unexposed) group: 20

Group 1 sample size Number of subjects in the case (exposed) group: 20

Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any): 30 days

Lab analysis

Sequencing type: 16S

16S variable region One or more hypervariable region(s) of the bacterial 16S gene: Not specified

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance: Illumina

Statistical Analysis

Statistical test: Metastats

Significance threshold p-value or FDR threshold used for differential abundance testing (if any): 0.05

MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?: Yes

Matched on Factors on which subjects have been matched on in a case-control study: age, sex

Signature 1

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Reviewed Marked as Reviewed by Claregrieve1 on 2022/09/1

Curated date: 2021/01/10

Curator: Valentina Pineda

Revision editor(s): Claregrieve1, WikiWorks

Source: Table 3

Description: Differential microbial abundance between Tuquerres and Tumaco residents

Abundance in Group 1: increased abundance in high gastric cancer risk patients (Tuquerres residents)

NCBI	Quality Control	Links
Leptotrichia wadei
Veillonella sp.

Revision editor(s): Claregrieve1, WikiWorks

Signature 2

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Reviewed Marked as Reviewed by Claregrieve1 on 2022/09/1

Curated date: 2021/01/10

Curator: Valentina Pineda

Revision editor(s): Lwaldron, Claregrieve1, WikiWorks, Merit

Source: Table 3

Description: Differential microbial abundance between Tuquerres and Tumaco residents

Abundance in Group 1: decreased abundance in high gastric cancer risk patients (Tuquerres residents)

NCBI	Quality Control	Links
Actinomyces sp.
Capnocytophaga gingivalis
Flavobacteriaceae
Flavobacterium sp.
Neisseria flavescens
Neisseria sp.
Porphyromonadaceae
Porphyromonas sp.
Segatella oris
Rothia sp. (in: high G+C Gram-positive bacteria)
Sphingomonadaceae
Staphylococcus sp.
Streptococcus oralis
uncultured Haematobacter sp.

Revision editor(s): Lwaldron, Claregrieve1, WikiWorks, Merit