Types of tobacco consumption and the oral microbiome in the United Arab Emirates Healthy Future (UAEHFS) Pilot Study

From BugSigDB
Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-4
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
URI Uniform resource identifier for web resources.
Authors
Vallès Y, Inman CK, Peters BA, Ali R, Wareth LA, Abdulle A, Alsafar H, Anouti FA, Dhaheri AA, Galani D, Haji M, Hamiz AA, Hosani AA, Houqani MA, Junaibi AA, Kazim M, Kirchhoff T, Mahmeed WA, Maskari FA, Alnaeemi A, Oumeziane N, Ramasamy R, Schmidt AM, Weitzman M, Zaabi EA, Sherman S, Hayes RB, Ahn J
Journal
Scientific reports
Year
2018
Cigarette smoking alters the oral microbiome; however, the effect of alternative tobacco products remains unclear. Middle Eastern tobacco products like dokha and shisha, are becoming globally widespread. We tested for the first time in a Middle Eastern population the hypothesis that different tobacco products impact the oral microbiome. The oral microbiome of 330 subjects from the United Arab Emirates Healthy Future Study was assessed by amplifying the bacterial 16S rRNA gene from mouthwash samples. Tobacco consumption was assessed using a structured questionnaire and further validated by urine cotinine levels. Oral microbiome overall structure and specific taxon abundances were compared, using PERMANOVA and DESeq analyses respectively. Our results show that overall microbial composition differs between smokers and nonsmokers (p = 0.0001). Use of cigarettes (p = 0.001) and dokha (p = 0.042) were associated with overall microbiome structure, while shisha use was not (p = 0.62). The abundance of multiple genera were significantly altered (enriched/depleted) in cigarette smokers; however, only Actinobacillus, Porphyromonas, Lautropia and Bifidobacterium abundances were significantly changed in dokha users whereas no genera were significantly altered in shisha smokers. For the first time, we show that smoking dokha is associated to oral microbiome dysbiosis, suggesting that it could have similar effects as smoking cigarettes on oral health.

Experiment 1


Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-4

Curated date: 2023/03/17

Curator: Adi13

Revision editor(s): Adi13, Claregrieve1

Subjects

Location of subjects
United Arab Emirates
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
smoking behavior smoking,smoking behavior
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Nonsmokers
Group 1 name Corresponds to the case (exposed) group for case-control studies
Cigarette Smokers
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
People consuming tobacco in the form of cigarettes (CS)
Group 0 sample size Number of subjects in the control (unexposed) group
225
Group 1 sample size Number of subjects in the case (exposed) group
33
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
None

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
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
DESeq2
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

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged

Signature 1

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-4

Curated date: 2023/03/17

Curator: Adi13

Revision editor(s): Adi13

Source: Table 2

Description: Differentially abundant taxa at selected taxonomical levels by type of tobacco use, compared to nonsmokers

Abundance in Group 1: increased abundance in Cigarette Smokers

NCBI Links
Atopobium
Bifidobacterium
Campylobacter
Dialister
Enhydrobacter
Megasphaera
Mycoplasma
Paludibacter
Prevotella
Treponema

Revision editor(s): Adi13

Signature 2

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-4

Curated date: 2023/03/17

Curator: Adi13

Revision editor(s): Adi13

Source: Table 2

Description: Differentially abundant taxa at selected taxonomical levels by type of tobacco use, compared to nonsmokers

Abundance in Group 1: decreased abundance in Cigarette Smokers

NCBI Links
Porphyromonas
Capnocytophaga
Gemella
Vagococcus
Peptostreptococcus
Fusobacterium
Leptotrichia
Lautropia
Eikenella
Neisseria
Cardiobacterium
Actinobacillus
Aggregatibacter
Haemophilus

Revision editor(s): Adi13

Experiment 2


Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-4

Curated date: 2023/03/17

Curator: Adi13

Revision editor(s): Adi13, Claregrieve1

Differences from previous experiment shown

Subjects

Group 1 name Corresponds to the case (exposed) group for case-control studies
Dokha Smokers
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
People consuming tobacco in the form of dokha (DS)
Group 1 sample size Number of subjects in the case (exposed) group
16

Lab analysis

Statistical Analysis

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged

Signature 1

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-4

Curated date: 2023/03/18

Curator: Adi13

Revision editor(s): Adi13

Source: Table 2

Description: Differentially abundant taxa at selected taxonomical levels by type of tobacco use, compared to nonsmokers

Abundance in Group 1: increased abundance in Dokha Smokers

NCBI Links
Atopobium
Bifidobacterium
Campylobacter
Dialister
Enhydrobacter
Megasphaera
Mycoplasma
Paludibacter
Prevotella
Treponema

Revision editor(s): Adi13

Signature 2

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-4

Curated date: 2023/03/18

Curator: Adi13

Revision editor(s): Adi13

Source: Table 2

Description: Differentially abundant taxa at selected taxonomical levels by type of tobacco use, compared to nonsmokers

Abundance in Group 1: decreased abundance in Dokha Smokers

NCBI Links
Actinobacillus
Aggregatibacter
Capnocytophaga
Cardiobacterium
Fusobacterium
Gemella
Haemophilus
Lautropia
Neisseria
Peptostreptococcus
Porphyromonas
Vagococcus
Eikenella

Revision editor(s): Adi13

Experiment 3


Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-4

Curated date: 2023/03/17

Curator: Adi13

Revision editor(s): Adi13, Claregrieve1

Differences from previous experiment shown

Subjects

Group 1 name Corresponds to the case (exposed) group for case-control studies
Shisha Smokers
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
People consuming tobacco in the form of shisha (SS)
Group 1 sample size Number of subjects in the case (exposed) group
15

Lab analysis

Statistical Analysis

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged

Signature 1

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-4

Curated date: 2023/03/18

Curator: Adi13

Revision editor(s): Adi13

Source: Table 2

Description: Differentially abundant taxa at selected taxonomical levels by type of tobacco use, compared to nonsmokers

Abundance in Group 1: increased abundance in Shisha Smokers

NCBI Links
Actinobacillus
Aggregatibacter
Atopobium
Bifidobacterium
Campylobacter
Capnocytophaga
Cardiobacterium
Dialister
Eikenella
Enhydrobacter
Gemella
Leptotrichia
Megasphaera
Mycoplasma
Prevotella

Revision editor(s): Adi13

Signature 2

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-4

Curated date: 2023/03/18

Curator: Adi13

Revision editor(s): Adi13

Source: Table 2

Description: Differentially abundant taxa at selected taxonomical levels by type of tobacco use, compared to nonsmokers

Abundance in Group 1: decreased abundance in Shisha Smokers

NCBI Links
Fusobacterium
Haemophilus
Lautropia
Neisseria
Paludibacter
Peptostreptococcus
Porphyromonas
Vagococcus
Treponema

Revision editor(s): Adi13

Experiment 4


Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-4

Curated date: 2023/03/17

Curator: Adi13

Revision editor(s): Adi13, Claregrieve1

Differences from previous experiment shown

Subjects

Group 1 name Corresponds to the case (exposed) group for case-control studies
Mutiple Smokers
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
People consuming tobacco in multiple forms out of cigarettes (CS), dokha (DS) and shisha (SS)
Group 1 sample size Number of subjects in the case (exposed) group
41

Lab analysis

Statistical Analysis

Signature 1

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-4

Curated date: 2023/03/18

Curator: Adi13

Revision editor(s): Adi13

Source: Table 2

Description: Differentially abundant taxa at selected taxonomical levels by type of tobacco use, compared to nonsmokers

Abundance in Group 1: increased abundance in Mutiple Smokers

NCBI Links
Bifidobacterium
Campylobacter
Dialister
Enhydrobacter
Leptotrichia
Mycoplasma
Paludibacter
Treponema

Revision editor(s): Adi13

Signature 2

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-4

Curated date: 2023/03/18

Curator: Adi13

Revision editor(s): Adi13

Source: Table 2

Description: Differentially abundant taxa at selected taxonomical levels by type of tobacco use, compared to nonsmokers

Abundance in Group 1: decreased abundance in Mutiple Smokers

NCBI Links
Actinobacillus
Aggregatibacter
Atopobium
Capnocytophaga
Cardiobacterium
Eikenella
Fusobacterium
Gemella
Haemophilus
Lautropia
Megasphaera
Neisseria
Peptostreptococcus
Porphyromonas
Prevotella
Vagococcus

Revision editor(s): Adi13