Microbiomic differences at cancer-prone oral mucosa sites with marijuana usage
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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
Newman TM, Krishnan LP, Lee J, Adami GR
Journal
Scientific reports
Year
2019
Marijuana smoke contains cannabinoids, immunosuppressants, and a mixture of potentially-mutagenic chemicals. In addition to systemic disease, it is thought to contribute to oral disease, such as tooth loss, tissue changes in the gums and throat, and possibly oral pharyngeal cancer. We used a cross-sectional study of 20 marijuana users and 19 control non-users, to determine if chronic inhalation-based exposure to marijuana was associated with a distinct oral microbiota at the two most common sites of head and neck squamous cell carcinoma (HNSCC), the lateral border of the tongue and the oral pharynx. At the tongue site, genera earlier shown to be enriched on HNSCC mucosa, Capnocytophaga, Fusobacterium, and Porphyromonas, were at low levels in marijuana users, while Rothia, which is found at depressed levels on HNSCC mucosa, was high. At the oral pharynx site, differences in bacteria were distinct, with higher levels of Selenomonas and lower levels of Streptococcus which is what is seen in HNSCC. No evidence was seen for a contribution of marijuana product contaminating bacteria to these differences. This study revealed differences in the surface oral mucosal microbiota with frequent smoking of marijuana.
Experiment 1
Reviewed Marked as Reviewed by Atrayees on 2023-7-24
Subjects
- Location of subjects
- United States of America
- Host species Species from which microbiome was sampled (if applicable)
- Homo sapiens
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Saliva Sailva normalis,Saliva atomaris,Saliva molecularis,Salivary gland secretion,Saliva
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Cannabis use Cannabis consumption,Cannabis use behaviour,Cannabis use
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- controls (lateral border of tongue)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- marijuana usage group
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- using marijuana on 20 or more days in the past month associated with a distinct oral microbiota at the most common sites of HNSCC, the lateral border of the tongue
- Group 0 sample size Number of subjects in the control (unexposed) group
- 19
- 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)
- 1 month
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V1-V3
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Illumina
Statistical Analysis
- Statistical test
- LEfSe
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- No
- Matched on Factors on which subjects have been matched on in a case-control study
- sex, age
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-7-24
Source: Figure 3
Description: Microbiomic differences at cancerprone oral mucosa sites with marijuana usage
Abundance in Group 1: increased abundance in marijuana usage group
Signature 2
Reviewed Marked as Reviewed by Atrayees on 2023-7-24
Source: Figure 3
Description: Microbiomic differences at cancerprone oral mucosa sites with marijuana usage
Abundance in Group 1: decreased abundance in marijuana usage group
Experiment 2
Reviewed Marked as Reviewed by Atrayees on 2023-7-24
Differences from previous experiment shown
Subjects
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Pharynx Anterior part of foregut,Pharyngeal tube,Pharynx
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- controls (oral pharynx)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- using marijuana on 20 or more days in the past month associated with a distinct oral microbiota at the most common sites of HNSCC, the oral pharynx.
Lab analysis
Statistical Analysis
- Matched on Factors on which subjects have been matched on in a case-control study
- age, sex
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-7-24
Source: Figure 3
Description: Microbiomic differences at cancerprone oral mucosa sites with marijuana usage
Abundance in Group 1: increased abundance in marijuana usage group
| NCBI | Quality Control | Links |
|---|---|---|
| Negativicutes | ||
| Veillonellales | ||
| Veillonella | ||
| Veillonellaceae | ||
| Selenomonas | ||
| Selenomonadaceae | ||
| Selenomonadales | ||
| Mogibacterium | ||
| Oscillospiraceae |
Signature 2
Reviewed Marked as Reviewed by Atrayees on 2023-7-24
Source: Figure 3
Description: Microbiomic differences at cancerprone oral mucosa sites with marijuana usage
Abundance in Group 1: decreased abundance in marijuana usage group
| NCBI | Quality Control | Links |
|---|---|---|
| Bergeyella | ||
| Streptococcus | ||
| Streptococcaceae | ||
| Lactobacillales |
Experiment 3
Reviewed Marked as Reviewed by Atrayees on 2023-7-24
Differences from previous experiment shown
Subjects
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Saliva Sailva normalis,Saliva atomaris,Saliva molecularis,Salivary gland secretion,Saliva
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- controls (lateral border of tongue)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- using marijuana on 20 or more days in the past month associated with a distinct oral microbiota at the most common sites of HNSCC, the lateral border of the tongue
Lab analysis
Statistical Analysis
- Statistical test
- DESeq2
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- Yes
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-7-24
Source: table 1
Description: Microbiomic differences at cancerprone oral mucosa sites with marijuana usage
Abundance in Group 1: increased abundance in marijuana usage group
| NCBI | Quality Control | Links |
|---|---|---|
| Delftia | ||
| Leptothrix | ||
| Pseudomonas | ||
| Bosea | ||
| Lautropia | ||
| Rothia |
Experiment 4
Reviewed Marked as Reviewed by Atrayees on 2023-7-24
Differences from previous experiment shown
Subjects
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Pharynx Anterior part of foregut,Pharyngeal tube,Pharynx
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- controls (oral pharynx)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- using marijuana on 20 or more days in the past month associated with a distinct oral microbiota at the most common sites of HNSCC, the oral pharynx.
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-7-24
Source: Table 1
Description: DESeq2 differentiation of taxa on the genus level.
Abundance in Group 1: increased abundance in marijuana usage group
| NCBI | Quality Control | Links |
|---|---|---|
| Veillonella | ||
| Mogibacterium | ||
| Prevotella | ||
| Oscillospiraceae |
Revision editor(s): Atrayees
Signature 2
Reviewed Marked as Reviewed by Atrayees on 2023-7-24
Source: Table 1
Description: DESeq2 differentiation of taxa on the genus level.
Abundance in Group 1: decreased abundance in marijuana usage group
| NCBI | Quality Control | Links |
|---|---|---|
| Lysinibacillus | ||
| Bergeyella |
Revision editor(s): Atrayees
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