Human oral microbiome dysbiosis as a novel non-invasive biomarker in detection of colorectal cancer
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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
Zhang S, Kong C, Yang Y, Cai S, Li X, Cai G, Ma Y
Journal
Theranostics
Year
2020
Keywords:
16S rRNA, colorectal adenomas, colorectal cancers, oral microbiome
Background: The oral microbiome may play an important role in colorectal carcinogenesis. However, few studies have investigated the association between oral microbiome and the development of colorectal cancer (CRC). We aimed to investigate whether oral health-colorectal tumor association has an underlying microbial basis, in the quest for novel non-invasive biomarkers for CRC. Methods: We collected oral swab samples from 161 patients with CRC, 34 patients with colorectal adenoma (CRA), and 58 healthy volunteers. The oral microbiota was assessed using 16S rRNA sequencing. We characterized oral microbiome, identified microbial markers, constructed and validated colorectal tumor (CRA and CRC) classifier. Results: Oral microbial composition and diversity were significantly different among the three groups, and the CRA group had the highest diversity. Analysis of the functional potential of oral microbiota demonstrated that the pathway involving cell motility was overrepresented in the CRA and CRC groups relative to that in the healthy controls. Moreover, a random forest model was constructed based on oral microbial markers, which could distinguish the colorectal tumor groups from the healthy controls and achieve a powerful classification potential in the discovery and validation cohorts. Conclusion: This study suggests a potential association between oral microbiome dysbiosis and colorectal cancer. Oral microbiota-based biomarkers may be helpful in predicting the risks for the development of CRA and CRC.
Experiment 1
Empty strings are not accepted.
Reviewed Marked as Reviewed by Claregrieve1 on 2023/01/6
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
- Oral cavity Bucca,Buccal cavity,Cavity of mouth,Oral cavity,oral cavity
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Colorectal carcinoma
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Healthy Individuals
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- CRC
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients with colorectal cancer
- Group 0 sample size Number of subjects in the control (unexposed) group
- 58
- Group 1 sample size Number of subjects in the case (exposed) group
- 161
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
- Statistical test
- Welch's T-Test
- 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
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- age, body mass index, sex, smoking status, alcohol drinking
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Needs review
Source: Table S9 / Figure S1F
Description: Differential microbial abundance between CRC cohort and controls
Abundance in Group 1: increased abundance in CRC
Revision editor(s): Jeshudy, Claregrieve1, WikiWorks
Signature 2
Needs review
Source: Table S9
Description: Differential microbial abundance between CRC cohort and controls
Abundance in Group 1: decreased abundance in CRC
Revision editor(s): Jeshudy, Claregrieve1, WikiWorks
Experiment 2
Reviewed Marked as Reviewed by Claregrieve1 on 2023/01/7
Curated date: 2022/06/19
Curator:
Revision editor(s):
Differences from previous experiment shown
Subjects
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Colorectal adenoma adenoma of large bowel,adenoma of large intestine,adenoma of the large bowel,adenoma of the large intestine,colorectal adenoma,colorectum adenoma,large bowel adenoma,large intestine adenoma,Colorectal adenoma
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- CRA
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients with colorectal adenoma
- Group 1 sample size Number of subjects in the case (exposed) group
- 34
Lab analysis
Statistical Analysis
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- age, smoking status, alcohol drinking, sex, body mass index
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Needs review
Source: Table S6-7
Description: Differential microbial abundance between CRA cohort and controls
Abundance in Group 1: increased abundance in
Revision editor(s): Jeshudy, Claregrieve1, WikiWorks
Signature 2
Needs review
Source: Table S6-7
Description: Differential microbial abundance between CRA cohort and controls
Abundance in Group 1: decreased abundance in
Revision editor(s): Jeshudy, Claregrieve1, WikiWorks
Experiment 3
Empty strings are not accepted.
Reviewed Marked as Reviewed by Claregrieve1 on 2023/01/7
Curated date: 2022/06/22
Curator:
Revision editor(s):
Differences from previous experiment shown
Subjects
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Colorectal carcinoma
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- CRA
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- CRC
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients with colorectal cancer
- Group 0 sample size Number of subjects in the control (unexposed) group
- 34
- Group 1 sample size Number of subjects in the case (exposed) group
- 161
Lab analysis
Statistical Analysis
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- age, smoking status, alcohol drinking, body mass index, sex
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Reviewed Marked as Reviewed by Claregrieve1 on 2023/01/7
Source: Table S4-5
Description: Differential microbial abundance between CRC and CRA groups
Abundance in Group 1: decreased abundance in
Revision editor(s): Jeshudy, Claregrieve1, WikiWorks
Signature 2
Reviewed Marked as Reviewed by Claregrieve1 on 2023/01/7
Source: Table S4-5
Description: Differential microbial abundance between CRC and CRA groups
Abundance in Group 1: increased abundance in
Revision editor(s): Jeshudy, Claregrieve1, WikiWorks
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