Microbiomic differences at cancer-prone oral mucosa sites with marijuana usage

From BugSigDB
Needs review
study design
case-control
Citation
PMID
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


Needs review

Curated date: 2021/01/10

Curator: WikiWorks743

Revision editor(s): WikiWorks753, WikiWorks743

Subjects

Location of subjects Country from which study subjects were recruited
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 Experimental technique used for quantifying microbial abundance
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 Statistical test or computational tool used for differential abundance testing
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

Needs review

Curated date: 2019-12-03

Curator: Utsav Patel

Revision editor(s): WikiWorks743

Source: Figure 1, Figure 3, Text

Description: Microbiomic differences at cancerprone oral mucosa sites with marijuana usage

Abundance in Group 1: increased abundance in marijuana usage group

NCBI Links
Comamonadaceae
Delftia acidovorans
Delftia
Rothia
Micrococcaceae
Rothia mucilaginosa
Veillonella atypica
Bosea vestrisii
Bosea
Actinomyces graevenitzii
Leptothrix
Mogibacterium

Revision editor(s): WikiWorks743

Signature 2

Needs review

Curated date: 2019-12-03

Curator: Utsav Patel

Revision editor(s): WikiWorks743

Source: Figure 1, Figure 3, Text

Description: Microbiomic differences at cancerprone oral mucosa sites with marijuana usage

Abundance in Group 1: decreased abundance in marijuana usage group

NCBI Links
Bergeyella sp.
Prevotella nanceiensis
Capnocytophaga
Fusobacteriaceae
Fusobacterium
Bergeyella
Fusobacteria
Fusobacteriia
Fusobacteriales
Flavobacteriia
Flavobacteriaceae
Flavobacteriales
Porphyromonas
Porphyromonadaceae
Bacteroidetes

Revision editor(s): WikiWorks743

Experiment 2


Needs review

Curated date: 2021/01/10

Curator: WikiWorks743

Revision editor(s): WikiWorks753, WikiWorks743

Subjects

Location of subjects Country from which study subjects were recruited
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 (oral pharynx)
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 oral pharynx.
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 Experimental technique used for quantifying microbial abundance
16S
Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
Illumina

Statistical Analysis

Statistical test Statistical test or computational tool used for differential abundance testing
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

Needs review

Curated date: 2019-12-03

Curator: Utsav Patel

Revision editor(s): WikiWorks743

Source: Figure 1, Figure 3, Text

Description: Microbiomic differences at cancerprone oral mucosa sites with marijuana usage

Abundance in Group 1: increased abundance in marijuana usage group

NCBI Links
Negativicutes
Veillonellales
Veillonella
Veillonellaceae
Selenomonas
Selenomonadaceae
Selenomonadales
Mogibacterium
Oscillospiraceae

Revision editor(s): WikiWorks743

Signature 2

Needs review

Curated date: 2019-12-03

Curator: Utsav Patel

Revision editor(s): WikiWorks743

Source: Figure 1, Figure 3, Text

Description: Microbiomic differences at cancerprone oral mucosa sites with marijuana usage

Abundance in Group 1: decreased abundance in marijuana usage group

NCBI Links
Bergeyella
Streptococcus
Streptococcaceae
Lactobacillales

Revision editor(s): WikiWorks743

Experiment 3


Needs review

Curated date: 2021/01/10

Curator: WikiWorks743

Revision editor(s): WikiWorks753, WikiWorks743

Subjects

Location of subjects Country from which study subjects were recruited
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 oral pharynx.
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)
2 month

Lab analysis

Sequencing type Experimental technique used for quantifying microbial abundance
16S
Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
Illumina

Statistical Analysis

Statistical test Statistical test or computational tool used for differential abundance testing
DESeq2
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
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

Needs review

Curated date: 2019-12-03

Curator: Utsav Patel

Revision editor(s): WikiWorks743

Source: Figure 1, Figure 3, Table 1, Text

Description: Microbiomic differences at cancerprone oral mucosa sites with marijuana usage

Abundance in Group 1: increased abundance in marijuana usage group

NCBI Links
Delftia
Leptothrix
Pseudomonas
Bosea
Lautropia
Rothia

Revision editor(s): WikiWorks743

Signature 2

Needs review

Curated date: 2019-12-03

Curator: Utsav Patel

Revision editor(s): WikiWorks743

Source: Figure 1, Figure 3, Table 1, Text

Description: Microbiomic differences at cancerprone oral mucosa sites with marijuana usage

Abundance in Group 1: decreased abundance in marijuana usage group

NCBI Links
Bergeyella

Revision editor(s): WikiWorks743