Subgingival microbiota dysbiosis in systemic lupus erythematosus: association with periodontal status/Experiment 4

From BugSigDB


Reviewed Marked as Reviewed by Svetlana up on 2025-2-24

Curated date: 2025/02/20

Curator: Taofeecoh

Revision editor(s): Taofeecoh

Subjects

Location of subjects
Brazil
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
Subgingival dental plaque Subgingival plaque,Subgingival dental plaque,subgingival dental plaque
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Systemic lupus erythematosus Disease, Libman-Sacks,disseminated lupus erythematosus,excess LMW-DNA,excess lymphocyte low molecular weight DNA,LIBMAN SACKS DIS,Libman Sacks Disease,Libman-Sacks Disease,lupus,Lupus Erythematosus Disseminatus,Lupus Erythematosus, Systemic,lupus erythematosus, systemic,SLE,SLE - lupus erythematosus, systemic,systemic lupus erythematosus,systemic lupus erythematosus (disease),Systemic lupus erythematosus
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Control with Chronic periodontitis (C-CP)
Group 1 name Corresponds to the case (exposed) group for case-control studies
Systemic Lupus Erythematosus Chronic periodontitis (SLE-CP)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Systemic Lupus Erythematosus (SLE) patients with Chronic periodontitis (CP)
Group 0 sample size Number of subjects in the control (unexposed) group
28
Group 1 sample size Number of subjects in the case (exposed) group
35
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
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
LEfSe
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
LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
2
Matched on Factors on which subjects have been matched on in a case-control study
age, sex

Alpha Diversity

Chao1 Abundance-based estimator of species richness
unchanged
Richness Number of species
unchanged

Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2025-2-24

Curated date: 2025/02/20

Curator: Taofeecoh

Revision editor(s): Taofeecoh

Source: Figure 6b

Description: OTUs with different relative abundance in control subjects and SLE samples in Chronic periodontitis.

Abundance in Group 1: increased abundance in Systemic Lupus Erythematosus Chronic periodontitis (SLE-CP)

NCBI Quality ControlLinks
Segatella oulorum
Fretibacterium oral taxon 360 453Fretibacterium oral taxon 360 453
TM7 oral taxon 437TM7 oral taxon 437
Hallella multisaccharivorax
Fretibacterium fastidiosum
Sphingomonas
Anaeroglobus geminatus

Revision editor(s): Taofeecoh

Signature 2

Reviewed Marked as Reviewed by Svetlana up on 2025-2-24

Curated date: 2025/02/20

Curator: Taofeecoh

Revision editor(s): Taofeecoh

Source: Figure 6b

Description: OTUs with different relative abundance in control subjects and SLE samples in Chronic periodontitis.

Abundance in Group 1: decreased abundance in Systemic Lupus Erythematosus Chronic periodontitis (SLE-CP)

NCBI Quality ControlLinks
Prevotella intermedia
Rothia aeria
Bergeyella 602D02Bergeyella 602D02
Brevundimonas nbw914f05c1Brevundimonas nbw914f05c1
Peptococcus BU014Peptococcus BU014

Revision editor(s): Taofeecoh