Variations in oral microbiome profiles in rheumatoid arthritis and osteoarthritis with potential biomarkers for arthritis screening

Study information

Reviewed Marked as Reviewed by Chloe on 2022/03/22

study design

case-control

Citation

PMID PubMed identifier for scientific articles.

30459400

DOI Digital object identifier for electronic documents.

10.1038/s41598-018-35473-6

URI Uniform resource identifier for web resources.

Authors

Chen B, Zhao Y, Li S, Yang L, Wang H, Wang T, Bin Shi Z, Gai X, Heng C, Zhang J, Yang L, Zhang

Journal

Scientific reports

Year

2018

The key to arthritis management is early diagnosis and treatment to prevent further joint destruction and maximize functional ability. Osteoarthritis (OA) and rheumatoid arthritis (RA) are two common types of arthritis that the primary care provider must differentiate, in terms of diagnosis and treatment. Effective and non-invasive strategies for early detection and disease identification are sorely needed. Growing evidence suggests that RA has a correlation with oral microbiome and may be affected by its dynamic variations. There is already a study comparing oral microbiome in patients with RA and OA, however, it did not screen for potential biomarkers for arthritis. In this study, we assessed the oral microbiome in saliva samples from 110 RA patients, 67 OA patients and 155 healthy subjects, using 16S rRNA gene amplicon sequencing. The structure and differences in oral microbiome between RA, OA and healthy subjects were analyzed. Eight oral bacterial biomarkers were identified to differentiate RA from OA. This report provides proof of oral microbiota as an informative source for discovering non-invasive biomarkers for arthritis screening.

Experiment 1

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Reviewed Marked as Reviewed by Chloe on 2022/03/22

Curated date: 2021/08/16

Curator: Tislam

Revision editor(s): Lwaldron, Chloe, Tislam, WikiWorks

Subjects

Location of subjects: China

Host species Species from which microbiome was sampled (if applicable): 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

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology: rheumatoid arthritis , osteoarthritis Arthritis or polyarthritis, rheumatic,arthritis or polyarthritis, rheumatic,Arthritis, Rheumatoid,arthritis, rheumatoid,atrophic Arthritis,atrophic arthritis,autoimmune arthritis,Chronic rheumatic arthritis,Proliferative arthritis,RA,RA - Rheumatoid arthritis,RhA - Rheumatoid arthritis,Rheumatic gout,rheumatoid arthritis,Rheumatoid arthritis (disorder),Rheumatoid arthritis NOS,Rheumatoid arthritis NOS (disorder),rheumatoid arthritis, susceptibility to,Rheumatoid disease,Arthritides, Degenerative,Arthritis, Degenerative,arthrosis,Degenerative Arthritides,Degenerative Arthritis,degenerative arthritis,degenerative joint disease,hypertrophic arthritis,OA,Osteoarthritides,osteoarthritis,Osteoarthroses,Osteoarthrosis,osteoarthrosis,osteoarthrosis and allied disorder,Osteoarthrosis Deformans

Group 0 name Corresponds to the control (unexposed) group for case-control studies: healthy controls
Group 1 name Corresponds to the case (exposed) group for case-control studies: arthritis patient
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: arthritis
Group 0 sample size Number of subjects in the control (unexposed) group: 155
Group 1 sample size Number of subjects in the case (exposed) group: 177

Lab analysis

Sequencing type: 16S

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance: Illumina

Statistical Analysis

Statistical test: LEfSe

Significance threshold p-value or FDR threshold used for differential abundance testing (if any): .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

Alpha Diversity

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

Experiment 2

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Reviewed Marked as Reviewed by Chloe on 2022/03/22

Curated date: 2021/08/17

Curator: Tislam

Revision editor(s): Chloe, Tislam, LGeistlinger, WikiWorks

Subjects

Location of subjects: China

Host species Species from which microbiome was sampled (if applicable): 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

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology: rheumatoid arthritis , osteoarthritis Arthritis or polyarthritis, rheumatic,arthritis or polyarthritis, rheumatic,Arthritis, Rheumatoid,arthritis, rheumatoid,atrophic Arthritis,atrophic arthritis,autoimmune arthritis,Chronic rheumatic arthritis,Proliferative arthritis,RA,RA - Rheumatoid arthritis,RhA - Rheumatoid arthritis,Rheumatic gout,rheumatoid arthritis,Rheumatoid arthritis (disorder),Rheumatoid arthritis NOS,Rheumatoid arthritis NOS (disorder),rheumatoid arthritis, susceptibility to,Rheumatoid disease,Arthritides, Degenerative,Arthritis, Degenerative,arthrosis,Degenerative Arthritides,Degenerative Arthritis,degenerative arthritis,degenerative joint disease,hypertrophic arthritis,OA,Osteoarthritides,osteoarthritis,Osteoarthroses,Osteoarthrosis,osteoarthrosis,osteoarthrosis and allied disorder,Osteoarthrosis Deformans

Group 0 name Corresponds to the control (unexposed) group for case-control studies: Osteoarthritis
Group 1 name Corresponds to the case (exposed) group for case-control studies: rheumatoid arthritis
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: patient with rheumatoid arthritis
Group 0 sample size Number of subjects in the control (unexposed) group: 67
Group 1 sample size Number of subjects in the case (exposed) group: 110

Lab analysis

Sequencing type: 16S

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance: Illumina

Statistical Analysis

Statistical test: LEfSe

Significance threshold p-value or FDR threshold used for differential abundance testing (if any): .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

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness: unchanged
Richness Number of species: unchanged