Deciphering Gut Microbiota Dysbiosis and Corresponding Genetic and Metabolic Dysregulation in Psoriasis Patients Using Metagenomics Sequencing/Experiment 1

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Reviewed Marked as Reviewed by Svetlana up on 2025-4-7

Curated date: 2025/04/01

Curator: Tosin

Revision editor(s): Tosin

Subjects

Location of subjects
China
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
Feces Cow dung,Cow pat,Droppings,Dung,Excrement,Excreta,Faeces,Fecal material,Fecal matter,Fewmet,Frass,Guano,Matières fécales@fr,Merde@fr,Ordure,Partie de la merde@fr,Piece of shit,Porción de mierda@es,Portion of dung,Portion of excrement,Portion of faeces,Portion of fecal material,Portion of fecal matter,Portion of feces,Portion of guano,Portion of scat,Portionem cacas,Scat,Spoor,Spraint,Stool,Teil der fäkalien@de,Feces,feces
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
Healthy donors
Group 1 name Corresponds to the case (exposed) group for case-control studies
Psoriasis patients
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Patients with Psoriasis
Group 0 sample size Number of subjects in the control (unexposed) group
15
Group 1 sample size Number of subjects in the case (exposed) group
30
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
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)?
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, body mass index, sex

Alpha Diversity

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

Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2025-4-7

Curated date: 2025/04/01

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 5A and 5B

Description: Differentially abundant bacteria between psoriasis and control groups

Abundance in Group 1: decreased abundance in Psoriasis patients

NCBI Quality ControlLinks
Aggregatibacter segnis
Alistipes
Alistipes indistinctus
Alistipes indistinctus YIT 12060
Archaea
Bacteroides oleiciplenus YIT 12058
Enterocloster bolteae 90B7
Fusobacterium mortiferum
Fusobacterium mortiferum ATCC 9817
Haemophilus
Haemophilus haemolyticus HK386
Haemophilus parainfluenzae
Haemophilus paraphrohaemolyticus
Klebsiella aerogenes
Ligilactobacillus ruminis
Methanobacteriota
Odoribacter
Odoribacter splanchnicus
Odoribacter splanchnicus DSM 20712
Oscillibacter
Oscillospiraceae
Oxalobacter
Oxalobacter formigenes
Oxalobacteraceae
Pasteurellaceae
Pasteurellales
Pedobacter
Porphyromonadaceae
Rikenellaceae
Sphingobacteriaceae
unclassified Oscillibacter
unclassified Klebsiella aerogenesunclassified Klebsiella aerogenes
unclassified Ligilactobacillus ruminisunclassified Ligilactobacillus ruminis
unclassified Haemophilus sputorumunclassified Haemophilus sputorum
unclassified Haemophilus parainfleunzaeunclassified Haemophilus parainfleunzae
unclassified Fusobacterium periodonticumunclassified Fusobacterium periodonticum

Revision editor(s): Tosin