Favorable subgingival plaque microbiome shifts are associated with clinical treatment for peri-implant diseases/Experiment 1

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Reviewed Marked as Reviewed by Folakunmi on 2024-3-28

Curated date: 2024/03/23

Curator: Folakunmi

Revision editor(s): Folakunmi

Subjects

Location of subjects

Italy

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

Peri-Implantitis Peri-Implantitis,peri-Implantitis

Group 0 name Corresponds to the control (unexposed) group for case-control studies

Healthy group (case samples)

Group 1 name Corresponds to the case (exposed) group for case-control studies

Mucositis group (case samples)

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group

Healthy species/ biomarkers enriched or significant in mucositis patients compared with healthy group patients who underwent surgical (n=9) or non-surgical treatment (n=22) as decided by clinical practitioners

Group 0 sample size Number of subjects in the control (unexposed) group

32

Group 1 sample size Number of subjects in the case (exposed) group

28

Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)

intake of systemic antibiotics within the past 6 months

Lab analysis

Sequencing type

WMS

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

Not specified

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)?

Yes

LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool

2