The tongue microbiome in healthy subjects and patients with intra-oral halitosis/Experiment 1

From BugSigDB


Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): Claregrieve1, WikiWorks, Davvve

Subjects

Location of subjects
Netherlands
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
Superior surface of tongue Dorsal surface of tongue,Superior surface of tongue,superior surface of tongue
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Halitosis oral halitosis,Halitosis,halitosis
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Control
Group 1 name Corresponds to the case (exposed) group for case-control studies
Oral Halitosis
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
IOH patient group was selected based on an organoleptic score of >= 2 from the mouth and nose =< 1, having a VSC level > 160 ppb, and H2S > 4 nmol/ L (96 ppb) and CH3SH > 0.5 nmol/L (12 ppb) and a DPSI of =< 2
Group 0 sample size Number of subjects in the control (unexposed) group
5
Group 1 sample size Number of subjects in the case (exposed) group
10
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
3 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

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
Chao1 Abundance-based estimator of species richness
unchanged

Signature 1

Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

Curated date: 2021/01/10

Curator: Phyu Han

Revision editor(s): WikiWorks

Source: Figure 4

Description: Significant differentially abundant OTU of intr-aoral halitosis and Control

Abundance in Group 1: increased abundance in Oral Halitosis

NCBI Quality ControlLinks
Aggregatibacter segnis
Campylobacter
Tannerella
Dialister
Peptostreptococcus
Selenomonas
Leptotrichia
Peptococcus
Eubacteriales
Parvimonas
Treponema
Capnocytophaga
Aggregatibacter
Prevotella

Revision editor(s): WikiWorks

Signature 2

Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

Curated date: 2021/01/10

Curator: Phyu Han

Revision editor(s): Merit, WikiWorks

Source: Figure 4

Description: Significant differentially abundant OTU of intra-oral halitosis and Control

Abundance in Group 1: decreased abundance in Oral Halitosis

NCBI Quality ControlLinks
Aggregatibacter
Haemophilus
Haemophilus parainfluenzae
Moryella
Oribacterium
Prevotella
Rothia dentocariosa
Streptococcus
Peptococcus
Leptotrichia

Revision editor(s): Merit, WikiWorks