Association of Bitter Taste Receptor T2R38 Polymorphisms, Oral Microbiota, and Rheumatoid Arthritis

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Reviewed Marked as Reviewed by Folakunmi on 2024-1-18
study design
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
Authors
de Jesus VC, Singh M, Schroth RJ, Chelikani P, Hitchon CA
Journal
Current issues in molecular biology
Year
2021
Keywords:
G protein-coupled receptor, autoimmune disease, oral microbiome, oral–systemic disease, rheumatoid arthritis, taste genetics
The association of taste genetics and the oral microbiome in autoimmune diseases such as rheumatoid arthritis (RA) has not been reported. We explored a novel oral mucosal innate immune pathway involving the bitter taste G protein-coupled receptor T2R38. This case-control study aimed to evaluate whether T2R38 polymorphisms associate with the buccal microbial composition in RA. Genomic DNA was obtained from buccal swabs of 35 RA patients and 64 non-RA controls. TAS2R38 genotypes were determined by Sanger sequencing. The buccal microbiome was assessed by Illumina MiSeq sequencing of the V4-16S rRNA gene. Bacterial community differences were analyzed with alpha and beta diversity measures. Linear discriminant analysis effect size identified taxa discriminating between RA versus non-RA and across TAS2R38 genotypes. TAS2R38 genotype frequency was similar between RA and non-RA controls (PAV/PAV; PAV/AVI; AVI/AVI: RA 42.9%; 45.7%; 11.4% versus controls 32.8%; 48.4%; 18.8%, chi-square (2, N = 99) = 2.1, p = 0.35). The relative abundance of Porphyromonas, among others, differed between RA and non-RA controls. The relative abundance of several bacterial species also differed across TAS2R38 genotypes. These findings suggest an association between T2R38 polymorphisms and RA buccal microbial composition. However, further research is needed to understand the impact of T2R38 in oral health and RA development.

Experiment 1


Reviewed Marked as Reviewed by Atrayees on 2023-7-26

Curated date: 2022/11/08

Curator: Tislam

Revision editor(s): Tislam, WikiWorks, Aiyshaaaa, Atrayees

Subjects

Location of subjects
Canada
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
Internal cheek pouch Internal buccal pouch,Internal cheek pouch,internal cheek pouch
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Rheumatoid arthritis 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,Rheumatoid arthritis
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Non Rheumatoid Arthritis
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
Individual who have been diagnosed with Rheumatoid Arthritis(RA).
Group 0 sample size Number of subjects in the control (unexposed) group
64
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)
N/A

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)?
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

Signature 1

Reviewed Marked as Reviewed by Atrayees on 2023-7-26

Curated date: 2023/04/01

Curator: Aiyshaaaa

Revision editor(s): Aiyshaaaa

Source: Figure 3(a&b)

Description: Linear discriminant analysis (LDA) effect size (LEfSe) analysis demonstrated differences in the relative abundance of some taxa between RA and non-RA controls at genus and species level.

Abundance in Group 1: increased abundance in Rheumatoid Arthritis

NCBI Quality ControlLinks
Streptococcus
Rothia
Leptotrichia
Streptococcus salivarius
Rothia mucilaginosa
Selenomonas flueggei

Revision editor(s): Aiyshaaaa

Signature 2

Reviewed Marked as Reviewed by Atrayees on 2023-7-26

Curated date: 2023/04/01

Curator: Aiyshaaaa

Revision editor(s): Aiyshaaaa, Atrayees

Source: Figure 3(a&b)

Description: Linear discriminant analysis (LDA) effect size (LEfSe) analysis demonstrated differences in the relative abundance of some taxa between RA and non-RA controls at genus and species level.

Abundance in Group 1: decreased abundance in Rheumatoid Arthritis

NCBI Quality ControlLinks
Capnocytophaga
Aggregatibacter
Porphyromonas
Fusobacterium
Porphyromonas endodontalis
Veillonella parvula
Granulicatella elegans
Fusobacterium periodonticum
Prevotella melaninogenica
Bacteroidota bacterium

Revision editor(s): Aiyshaaaa, Atrayees

Experiment 2


Reviewed Marked as Reviewed by Folakunmi on 2024-1-18

Curated date: 2023/07/26

Curator: Atrayees

Revision editor(s): Atrayees, Folakunmi

Differences from previous experiment shown

Subjects

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Sensory perception of bitter taste bitter taste perception,bitter taste sensitivity,Sensory perception of bitter taste,sensory perception of bitter taste
Group 0 name Corresponds to the control (unexposed) group for case-control studies
rheumatoid arthritis patients carrying the AVI/AVI genotype (“non-tasters”)
Group 1 name Corresponds to the case (exposed) group for case-control studies
rheumatoid arthritis patients with the homozygous PAV/PAV (“supertasters”)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
rheumatoid arthritis patients with the homozygous PAV/PAV (“supertasters”)
Group 0 sample size Number of subjects in the control (unexposed) group
16

Lab analysis

Statistical Analysis

Alpha Diversity

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

Signature 1

Reviewed Marked as Reviewed by Folakunmi on 2024-1-18

Curated date: 2023/07/26

Curator: Atrayees

Revision editor(s): Atrayees

Source: Figure 4(a)

Description: Most highly differentially abundant bacteria in RA patients in buccal swab samples from participants with the homozygous AVI/AVI and PAV/PAV TAS2R38 genotypes by the LEfSE

Abundance in Group 1: decreased abundance in rheumatoid arthritis patients with the homozygous PAV/PAV (“supertasters”)

NCBI Quality ControlLinks
Campylobacter rectus
Selenomonas artemidis
Corynebacterium durum
Capnocytophaga sputigena
Candidatus Absconditabacteria bacterium
Leptotrichia sp.

Revision editor(s): Atrayees

Signature 2

Reviewed Marked as Reviewed by Folakunmi on 2024-1-18

Curated date: 2023/07/26

Curator: Atrayees

Revision editor(s): Atrayees

Source: Figure 4(b)

Description: Most highly differentially abundant bacteria in RA patients in buccal swab samples from participants with the homozygous AVI/AVI and PAV/PAV TAS2R38 genotypes by the LEfSE

Abundance in Group 1: increased abundance in rheumatoid arthritis patients with the homozygous PAV/PAV (“supertasters”)

NCBI Quality ControlLinks
Streptococcus salivarius

Revision editor(s): Atrayees

Experiment 3


Reviewed Marked as Reviewed by Folakunmi on 2024-1-18

Curated date: 2023/07/26

Curator: Atrayees

Revision editor(s): Atrayees, Folakunmi

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Non-rheumatoid arthritis patients carrying the AVI/AVI genotype (“non-tasters”)
Group 1 name Corresponds to the case (exposed) group for case-control studies
Non-rheumatoid arthritis patients with the homozygous PAV/PAV (“supertasters”)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Non-rheumatoid arthritis patients with the homozygous PAV/PAV (“supertasters”)
Group 0 sample size Number of subjects in the control (unexposed) group
64
Group 1 sample size Number of subjects in the case (exposed) group
64

Lab analysis

Statistical Analysis

Alpha Diversity

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

Signature 1

Reviewed Marked as Reviewed by Folakunmi on 2024-1-18

Curated date: 2023/07/26

Curator: Atrayees

Revision editor(s): Atrayees

Source: Figure 4(b)

Description: Most highly differentially abundant bacteria in non-RA patients in buccal swab samples from participants with the homozygous AVI/AVI and PAV/PAV TAS2R38 genotypes by the LEfSE

Abundance in Group 1: decreased abundance in Non-rheumatoid arthritis patients with the homozygous PAV/PAV (“supertasters”)

NCBI Quality ControlLinks
Lancefieldella parvula

Revision editor(s): Atrayees

Signature 2

Reviewed Marked as Reviewed by Folakunmi on 2024-1-18

Curated date: 2023/07/26

Curator: Atrayees

Revision editor(s): Atrayees

Source: Figure 4(b)

Description: Most highly differentially abundant bacteria in non-RA patients in buccal swab samples from participants with the homozygous AVI/AVI and PAV/PAV TAS2R38 genotypes by the LEfSE

Abundance in Group 1: increased abundance in Non-rheumatoid arthritis patients with the homozygous PAV/PAV (“supertasters”)

NCBI Quality ControlLinks
Prevotella histicola
Megasphaera micronuciformis
Segatella salivae
Candidatus Saccharibacteria
Catonella morbi
Veillonella rogosae
Oribacterium asaccharolyticum

Revision editor(s): Atrayees

Experiment 4


Reviewed Marked as Reviewed by Folakunmi on 2024-1-18

Curated date: 2023/07/26

Curator: Atrayees

Revision editor(s): Atrayees, Folakunmi

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
All participants carrying the AVI/AVI genotype (“non-tasters”)
Group 1 name Corresponds to the case (exposed) group for case-control studies
All participants with the homozygous PAV/PAV (“supertasters”)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
All participants with the homozygous PAV/PAV (“supertasters”)
Group 0 sample size Number of subjects in the control (unexposed) group
99
Group 1 sample size Number of subjects in the case (exposed) group
99

Lab analysis

Statistical Analysis

Alpha Diversity

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

Signature 1

Reviewed Marked as Reviewed by Folakunmi on 2024-1-18

Curated date: 2023/07/26

Curator: Atrayees

Revision editor(s): Atrayees

Source: Figure 4(c)

Description: Most highly differentially abundant bacteria in all patients in buccal swab samples from participants with the homozygous AVI/AVI and PAV/PAV TAS2R38 genotypes by the LEfSE

Abundance in Group 1: decreased abundance in All participants with the homozygous PAV/PAV (“supertasters”)

NCBI Quality ControlLinks
Abiotrophia defectiva

Revision editor(s): Atrayees

Signature 2

Reviewed Marked as Reviewed by Folakunmi on 2024-1-18

Curated date: 2023/07/26

Curator: Atrayees

Revision editor(s): Atrayees

Source: Figure 4(c)

Description: Most highly differentially abundant bacteria in all patients in buccal swab samples from participants with the homozygous AVI/AVI and PAV/PAV TAS2R38 genotypes by the LEfSE

Abundance in Group 1: increased abundance in All participants with the homozygous PAV/PAV (“supertasters”)

NCBI Quality ControlLinks
Campylobacter gracilis

Revision editor(s): Atrayees