Oral microbiome dysbiosis among cigarette smokers and smokeless tobacco users compared to non-users/Experiment 8

From BugSigDB


Needs review

Curated date: 2025/04/30

Curator: Shulamite

Revision editor(s): Shulamite

Subjects

Location of subjects
United States of America
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
Saliva Sailva normalis,Saliva atomaris,Saliva molecularis,Salivary gland secretion,Saliva,saliva
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Smoking behaviour measurement Smoking behaviour measurement,smoking behaviour measurement
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Non-tobacco users (NU)
Group 1 name Corresponds to the case (exposed) group for case-control studies
Cigarette users (CG)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Users who had smoked more than six cigarettes on a typical day for the previous 3 years.
Group 0 sample size Number of subjects in the control (unexposed) group
43
Group 1 sample size Number of subjects in the case (exposed) group
24
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
6 Months

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
Kruskall-Wallis
Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
0.05
Matched on Factors on which subjects have been matched on in a case-control study
age, race, sex

Alpha Diversity

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

Signature 1

Needs review

Curated date: 2025/04/30

Curator: Shulamite

Revision editor(s): Shulamite

Source: Fig. 6A

Description: Relative abundance of bacterial OTUs in saliva samples that was statistically significantly different (α = 0.001) between (a) non-users (NU) and cigarette users (CG) and (b) non-users (NU) and smokeless tobacco users (ST).

Abundance in Group 1: increased abundance in Cigarette users (CG)

NCBI Quality ControlLinks
uncultured Corynebacterium sp.
uncultured Propionibacterium sp.
uncultured Anaerovorax sp.
uncultured Peptostreptococcales bacterium
uncultured Streptococcus sp.
uncultured Actinomyces sp.
Veillonella parvula
Rothia aeria
uncultured Granulicatella sp.
uncultured Lachnospiraceae bacterium
Streptococcus infantis
Rothia mucilaginosa
Veillonella dispar
uncultured Oribacterium sp.

Revision editor(s): Shulamite

Signature 2

Needs review

Curated date: 2025/04/30

Curator: Shulamite

Revision editor(s): Shulamite

Source: Fig. 6B

Description: Relative abundance of bacterial OTUs in saliva samples that was statistically significantly different (α = 0.001) between (a) non-users (NU) and cigarette users (CG) and (b) non-users (NU) and smokeless tobacco users (ST).

Abundance in Group 1: decreased abundance in Cigarette users (CG)

NCBI Quality ControlLinks
Haemophilus parainfluenzae
uncultured Capnocytophaga sp.
uncultured Pasteurellaceae bacterium
uncultured Lautropia sp.
Neisseria subflava
uncultured Prevotella sp.
uncultured Porphyromonas sp.
uncultured Vibrionaceae bacterium
Prevotella melaninogenica
uncultured Leptotrichia sp.
uncultured Neisseriaceae bacterium
Haemophilus parahaemolyticus
uncultured Fusobacterium sp.
uncultured Ochrobactrum sp.
uncultured Weeksellaceae bacterium
uncultured Pseudomonas sp.
uncultured Aggregatibacter sp.
uncultured Rhizobiales bacterium HF4000_32B18
uncultured Haemophilus sp.
uncultured Neisseria sp.

Revision editor(s): Shulamite