Salivary microbiota and inflammation-related proteins in patients with psoriasis

From BugSigDB
Reviewed Marked as Reviewed by Atrayees on 2023-6-1
study design
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
URI
Authors
Belstrøm D, Eiberg JM, Enevold C, Grande MA, Jensen CAJ, Skov L, Hansen PR
Journal
Oral diseases
Year
2020
Keywords:
inflammation, microbiota, periodontitis, psoriasis, saliva
OBJECTIVE: The purpose of the present study was to characterize the composition of the salivary microbiota and quantify salivary levels of inflammation-related proteins (neutrophil gelatinase-associated lipocalin [NGAL] and transferrin) in patients with psoriasis and compare data to those obtained in patients with periodontitis and orally healthy controls, respectively. MATERIALS AND METHODS: Stimulated saliva samples from patients with psoriasis (n = 27), patients with periodontitis (n = 58), and orally healthy controls (n = 52) were characterized by means of next-generation sequencing of the 16S rRNA gene. Salivary levels of NGAL and transferrin were quantified using immunoassays. RESULTS: Linear discriminant effect size analysis showed that 52 (22 psoriasis-associated and 30 periodontitis-associated) and 21 (8 psoriasis-associated and 13 orally healthy control-associated) bacterial taxa differentiated the salivary microbiota in patients with psoriasis from that of patients with periodontitis and orally healthy controls, respectively. Significantly lower mean salivary levels of NGAL (psoriasis: 996 [std. error 320], periodontitis: 2,072 [295], orally healthy controls: 2,551 [345] ng/ml, p < .0001) and transferrin (psoriasis: 4.37 [0.92], periodontitis: 7.25 [0.88], orally healthy controls: 10.02 [0.94] ng/ml, p < .0001) were identified in patients with psoriasis. CONCLUSIONS: Psoriasis associates with characteristics of the salivary microbiota and salivary levels of inflammation-related proteins, which are different from characteristics in patients with periodontitis and orally healthy controls, respectively.

Experiment 1


Reviewed Marked as Reviewed by Atrayees on 2023-6-1

Curated date: 2023/03/30

Curator: Ellajessica

Revision editor(s): Ellajessica, Aiyshaaaa, Peace Sandy

Subjects

Location of subjects
Denmark
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
Psoriasis Other and unspecified pityriasis,OTHER PSORIASIS,Other psoriasis and similar disorders,Other psoriasis and similar disorders (disorder),Other psoriasis and similar disorders excluding psoriatic arthropathy,Palmoplantaris Pustulosis,PITYRIASIS NEC & NOS,PSORIAS RELATED DIS NEC,Psoriases,psoriasis,Psoriasis and similar disorders,Psoriasis and similar disorders (disorder),Psoriasis and similar disorders (navigational concept),Psoriasis and similar disorders NOS,Psoriasis and similar disorders NOS (disorder),Pustular Psoriasis of Palms and Soles,PUSTULAR PSORIASIS OF PALMS SOLES,Pustulosis of Palms and Soles,PUSTULOSIS OF PALMS SOLES,Pustulosis Palmaris et Plantaris,Psoriasis
Group 0 name Corresponds to the control (unexposed) group for case-control studies
orally healthy individuals
Group 1 name Corresponds to the case (exposed) group for case-control studies
Psoriasis patient
Group 0 sample size Number of subjects in the control (unexposed) group
52
Group 1 sample size Number of subjects in the case (exposed) group
27
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
V1-V3
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)
.0001
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

Pielou Quantifies how equal the community is numerically
unchanged
Chao1 Abundance-based estimator of species richness
unchanged
Richness Number of species
unchanged

Signature 1

Reviewed Marked as Reviewed by Atrayees on 2023-6-1

Curated date: 2023/03/30

Curator: Ellajessica

Revision editor(s): Ellajessica, Aiyshaaaa

Source: Figure 2(b)

Description: Using Linear discriminant effect size analysis. Linear discriminant analysis score expressed as (log 10) of significant bacterial taxa between healthy controls and Psoriasis.

Abundance in Group 1: increased abundance in Psoriasis patient

NCBI Quality ControlLinks
Aggregatibacter sp.
Capnocytophaga sp.
Haemophilus parainfluenzae
Neisseria perflava
Peptoniphilus lacrimalis
Prevotella melaninogenica
Rothia mucilaginosa

Revision editor(s): Ellajessica, Aiyshaaaa

Signature 2

Reviewed Marked as Reviewed by Atrayees on 2023-6-1

Curated date: 2023/03/30

Curator: Ellajessica

Revision editor(s): Ellajessica, Aiyshaaaa

Source: Figure 2(b)

Description: Using Linear discriminant effect size analysis. Linear discriminant analysis score expressed as (log 10) of significant bacterial taxa between healthy controls and Psoriasis.

Abundance in Group 1: decreased abundance in Psoriasis patient

NCBI Quality ControlLinks
Actinomyces sp.
Arachnia propionica
Capnocytophaga sp.
Lactobacillus gasseri
Neisseria macacae
Streptococcus mutans
Streptococcus sobrinus
Veillonella atypica
Veillonella sp.

Revision editor(s): Ellajessica, Aiyshaaaa

Experiment 2


Reviewed Marked as Reviewed by Atrayees on 2023-6-1

Curated date: 2023/04/03

Curator: Ellajessica

Revision editor(s): Ellajessica, Aiyshaaaa

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
periodntitis
Group 1 name Corresponds to the case (exposed) group for case-control studies
Psoriasis
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Individuals who have been diagnosed with Psoriasis.
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
58

Lab analysis

Statistical Analysis

Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
.001

Alpha Diversity

Pielou Quantifies how equal the community is numerically
unchanged
Chao1 Abundance-based estimator of species richness
unchanged
Richness Number of species
unchanged

Signature 1

Reviewed Marked as Reviewed by Atrayees on 2023-6-1

Curated date: 2023/04/24

Curator: Aiyshaaaa

Revision editor(s): Aiyshaaaa

Source: Figure 2(a)

Description: Using Linear discriminant effect size analysis. Linear discriminant analysis score expressed as (log 10) of significant bacterial taxa between Periodontitis (P) versus Psoriasis (PS).

Abundance in Group 1: increased abundance in Psoriasis

NCBI Quality ControlLinks
Aggregatibacter sp.
Butyrivibrio sp.
Campylobacter concisus
Capnocytophaga sp.
Fusobacterium sp.
Gemella morbillorum
Kingella denitrificans
Leptotrichia shahii
Leptotrichia sp.
Mogibacterium neglectum
Neisseria perflava
Neisseria subflava
Porphyromonas sp.
Prevotella pallens
Prevotella sp.
Streptococcus sp.

Revision editor(s): Aiyshaaaa

Signature 2

Reviewed Marked as Reviewed by Atrayees on 2023-6-1

Curated date: 2023/04/24

Curator: Aiyshaaaa

Revision editor(s): Aiyshaaaa

Source: Figure 2(a)

Description: Using Linear discriminant effect size analysis. Linear discriminant analysis score expressed as (log 10) of significant bacterial taxa between Periodontitis (P) versus Psoriasis (PS).

Abundance in Group 1: decreased abundance in Psoriasis

NCBI Quality ControlLinks
Fretibacterium sp.
Treponema denticola
Fusobacterium naviforme
Treponema sp.
Fretibacterium fastidiosum
Streptococcus constellatus
Porphyromonas gingivalis
Rothia dentocariosa
Desulfobulbus sp.
Tannerella forsythia
Mogibacterium timidum
Metamycoplasma faucium
Hoylesella pleuritidis
Treponema socranskii
Fusobacterium
Streptococcus mutans
Filifactor alocis
Prevotella intermedia
Porphyromonas endodontalis
Schaalia odontolytica
Rothia mucilaginosa

Revision editor(s): Aiyshaaaa

Experiment 3


Reviewed Marked as Reviewed by Atrayees on 2023-6-1

Curated date: 2023/05/31

Curator: Atrayees

Revision editor(s): Atrayees

Differences from previous experiment shown

Subjects

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
orally healthy individuals
Group 1 name Corresponds to the case (exposed) group for case-control studies
Periodontitis patients
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Patients who have been diagnosed with periodontitis
Group 0 sample size Number of subjects in the control (unexposed) group
52
Group 1 sample size Number of subjects in the case (exposed) group
27

Lab analysis

Statistical Analysis

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
Not specified

Alpha Diversity

Pielou Quantifies how equal the community is numerically
unchanged
Chao1 Abundance-based estimator of species richness
unchanged
Richness Number of species
unchanged

Signature 1

Reviewed Marked as Reviewed by Atrayees on 2023-6-1

Curated date: 2023/05/31

Curator: Atrayees

Revision editor(s): Atrayees

Source: Figure 2(c)

Description: Using Linear discriminant effect size analysis. Linear discriminant analysis score expressed as (log 10) of significant bacterial taxa between healthy controls versus Periodontitis (P).

Abundance in Group 1: increased abundance in Periodontitis patients

NCBI Quality ControlLinks
Actinomyces oris
Alloprevotella tannerae
Bulleidia extructa
Campylobacter sp.
Clostridiales bacterium
Desulfobulbus sp.
Filifactor alocis
Fretibacterium fastidiosum
Fretibacterium sp.
Fusobacterium nucleatum
Fusobacterium sp.
Haemophilus parainfluenzae
Hoylesella pleuritidis
Lactobacillus ultunensis
Metamycoplasma faucium
Mogibacterium timidum
Peptostreptococcaceae bacterium
Porphyromonas endodontalis
Porphyromonas gingivalis
Prevotella dentalis
Prevotella intermedia
Prevotella sp.
Rothia
Rothia dentocariosa
Rothia mucilaginosa
Streptococcus anginosus
Streptococcus constellatus
Tannerella forsythia
Treponema amylovorum
Treponema denticola
Treponema lecithinolyticum
Treponema socranskii
Treponema sp.

Revision editor(s): Atrayees

Signature 2

Reviewed Marked as Reviewed by Atrayees on 2023-6-1

Curated date: 2023/05/31

Curator: Atrayees

Revision editor(s): Atrayees

Source: Figure 2(c)

Description: Using Linear discriminant effect size analysis. Linear discriminant analysis score expressed as (log 10) of significant bacterial taxa between healthy controls versus Periodontitis (P).

Abundance in Group 1: decreased abundance in Periodontitis patients

NCBI Quality ControlLinks
Capnocytophaga gingivalis
Granulicatella elegans
Veillonella denticariosi
Neisseria sp.
Lachnospiraceae bacterium
Leptotrichia sp.
Hoylesella saccharolytica
Mitsuokella sp.
Kingella sp. (in: b-proteobacteria)
Ottowia sp.
Mogibacterium neglectum
Leptotrichia buccalis
Arachnia propionica
Aggregatibacter sp.
Enterococcus durans
Oscillospiraceae bacterium
Neisseria oralis
Mogibacterium vescum
Solobacterium moorei
Neisseria macacae
Prevotella histicola

Revision editor(s): Atrayees