Regulatory T Cells and Plasmacytoid Dendritic Cells Within the Tumor Microenvironment in Gastric Cancer Are Correlated With Gastric Microbiota Dysbiosis: A Preliminary Study
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Study information
-
Quality control
- Retracted paper
- Contamination issues suspected
- Batch effect issues suspected
- Uncontrolled confounding suspected
- Results are suspect (various reasons)
- Tags applied
study design
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
URI
Authors
Ling Z, Shao L, Liu X, Cheng Y, Yan C, Mei Y, Ji F, Liu X
Journal
Frontiers in immunology
Year
2019
Keywords:
Tregs (Regulatory T cells), gastric cancer, microbiota (microorganism), pDCs, tumor microenvironment
Substantial evidence indicates that gastric microbiota dysbiosis, immune system dysfunction especially immune escape are critical for gastric cancer (GC) occurrence and progression. As two important elements of tumor microenvironment (TME), the relationship between gastric microbiota and tumor-immune microenvironment is still unclear. Our present study aimed to explore the correlation between gastric mucosal microbiota in different microhabitats and its corresponding gastric immunosuppressive cells such as regulatory T cells (Tregs) and plasmacytoid dendritic cells (pDCs) in the TME. A cohort of 64 GC patients without preoperative chemotherapy was enrolled retrospectively, and 60 normal, 61 peritumoral and 59 tumoral tissues were obtained for gastric mucosal microbiota analysis and immunohistochemistry analysis. From different microhabitats, BDCA2+pDCs and Foxp3+Tregs were observed positively correlated, and increased in tumoral and peritumoral tissues compared to normal ones. The diversity, composition and function of gastric mucosal microbiota also changed more significantly in tumoral tissues than those in normal and peritumoral ones. With pearson's correlation analysis, we found that several non-abundant genera such as Stenotrophomonas and Selenomonas were positively correlated with BDCA2+pDCs and Foxp3+Tregs, respectively, while Comamonas and Gaiella were negatively correlated with BDCA2+pDCs and Foxp3+ Tregs, respectively. The increased BDCA2+pDCs and Foxp3+Tregs might be modulated by gastric mucosal microbiota, both participated in the immunosuppression microenvironment of GC, which might provide evidence to establish new strategies in antitumor therapy targeting on gastric microbiota.
Experiment 1
Reviewed Marked as Reviewed by Atrayees on 2023-7-25
Subjects
- Location of subjects
- China
- 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
- normal
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- gastric cancer peritumor group
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- gastric cancer
- Group 0 sample size Number of subjects in the control (unexposed) group
- 60
- Group 1 sample size Number of subjects in the case (exposed) group
- 61
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 1 month
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V3-V4
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Illumina
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- LEfSe
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 2
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- Yes
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
- Richness Number of species
- decreased
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-7-25
Source: Figure 3
Description: LEfSe identifies the taxa with the greatest differences in abundance among the three stomach microhabitats
Abundance in Group 1: increased abundance in gastric cancer peritumor group
| NCBI | Quality Control | Links |
|---|---|---|
| Oceanospirillales | ||
| Halomonas | ||
| Halomonadaceae | ||
| Shewanellaceae | ||
| Shewanella | ||
| Alteromonadales | ||
| Enterococcus | ||
| Enterococcaceae | ||
| Brevundimonas | ||
| Arthrobacter | ||
| Mycobacterium | ||
| Mycobacteriaceae |
Revision editor(s): WikiWorks
Signature 2
Reviewed Marked as Reviewed by Atrayees on 2023-7-25
Source: Figure 3
Description: LEfSe identifies the taxa with the greatest differences in abundance among the three stomach microhabitats
Abundance in Group 1: decreased abundance in gastric cancer peritumor group
| NCBI | Quality Control | Links |
|---|---|---|
| Cupriavidus | ||
| Burkholderiaceae | ||
| Porphyromonadaceae | ||
| Legionellaceae | ||
| Legionella | ||
| Legionellales |
Revision editor(s): WikiWorks
Experiment 2
Reviewed Marked as Reviewed by Atrayees on 2023-7-25
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- peritumor
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- gastric cancer tumor group
- Group 0 sample size Number of subjects in the control (unexposed) group
- 61
- Group 1 sample size Number of subjects in the case (exposed) group
- 59
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-7-25
Source: Figure 3
Description: LEfSe identifies the taxa with the greatest differences in abundance among the three stomach microhabitats
Abundance in Group 1: increased abundance in gastric cancer tumor group
Revision editor(s): WikiWorks
Signature 2
Reviewed Marked as Reviewed by Atrayees on 2023-7-25
Source: Figure 3
Description: LEfSe identifies the taxa with the greatest differences in abundance among the three stomach microhabitats
Abundance in Group 1: decreased abundance in gastric cancer tumor group
| NCBI | Quality Control | Links |
|---|---|---|
| Rhizobium | ||
| Rhizobiaceae | ||
| Bacteroidota | ||
| Megamonas | ||
| Shewanellaceae | ||
| Shewanella | ||
| Alteromonadales | ||
| Mycobacterium | ||
| Mycobacteriaceae | ||
| Lactobacillaceae | ||
| Lactobacillus | ||
| Pseudomonadota |
Revision editor(s): WikiWorks
Experiment 3
Reviewed Marked as Reviewed by Atrayees on 2023-7-25
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- normal
- Group 0 sample size Number of subjects in the control (unexposed) group
- 60
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- decreased
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-7-25
Source: Figure 3
Description: LEfSe identifies the taxa with the greatest differences in abundance among the three stomach microhabitats
Abundance in Group 1: increased abundance in gastric cancer tumor group
Signature 2
Reviewed Marked as Reviewed by Atrayees on 2023-7-25
Source: Figure 3
Description: LEfSe identifies the taxa with the greatest differences in abundance among the three stomach microhabitats
Abundance in Group 1: decreased abundance in gastric cancer tumor group
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroidota | ||
| Porphyromonadaceae | ||
| Corynebacterium | ||
| Corynebacteriaceae | ||
| Burkholderiaceae | ||
| Cupriavidus | ||
| Actinomycetaceae | ||
| Actinomyces | ||
| Staphylococcaceae | ||
| Staphylococcus |
Revision editor(s): WikiWorks
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