Alteration of salivary microbiome in periodontitis with or without type-2 diabetes mellitus and metformin treatment/Experiment 1

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Reviewed Marked as Reviewed by Claregrieve1 on 2022/06/22

Curated date: 2021/06/17

Curator: Madhubani Dey

Revision editor(s): WikiWorks, Madhubani Dey, Peace Sandy, Davvve

Subjects

Location of subjects
China
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
Periodontitis chronic pericementitis,inflammation of periodontium,Pericementitides,Pericementitis,Periodontitides,periodontitis,Periodontitis (disorder),Periodontitis, NOS,periodontium inflammation,periodontosis,Periodontitis
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Healthy controls group
Group 1 name Corresponds to the case (exposed) group for case-control studies
Individuals diagnosed with Periodontitis group
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Individuals with Peridontitis; Periodontal disease was assessed by determining the PD, CAL, BI, GI, and PLI, which were then measured at six sites (i.e., mesiobuccal, buccal, distobuccal, distolingual, lingual, and mesiolingual) according to the Community Periodontal Index by an experienced dentist. Periodontitis patients had a PD of ≥ 5 mm and CAL of ≥ 3 mm.
Group 0 sample size Number of subjects in the control (unexposed) group
27
Group 1 sample size Number of subjects in the case (exposed) group
31
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
patients treated with antibiotics within 3 months or those that received periodontal treatment within 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
Mann-Whitney (Wilcoxon)
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)?
No

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
increased
Simpson Estimator of species richness and species evenness: more weight on species evenness
increased

Signature 1

Reviewed Marked as Reviewed by Claregrieve1 on 2022/06/22

Curated date: 2021/06/22

Curator: Madhubani Dey

Revision editor(s): Madhubani Dey, Claregrieve1

Source: Figure 3, text

Description: Increased abundance of bacterial species in individuals with Periodontitis as compared to healthy controls

Abundance in Group 1: increased abundance in Individuals diagnosed with Periodontitis group

NCBI Quality ControlLinks
Porphyromonas endodontalis
Segatella copri
Treponema medium
Alloprevotella rava
unclassified Sutterella
Treponema amylovorum
Faecalibacterium prausnitzii

Revision editor(s): Madhubani Dey, Claregrieve1