A prebiotic dietary pilot intervention restores faecal metabolites and may be neuroprotective in Parkinson's Disease/Experiment 1

From BugSigDB


Reviewed Marked as Reviewed by Svetlana up on 2025-4-23

Curated date: 2025/04/09

Curator: Shulamite

Revision editor(s): Shulamite, KateRasheed

Subjects

Location of subjects
Germany
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
Response to diet Response to diet,response to diet
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Healthy spouses after prebiotics (CO group)
Group 1 name Corresponds to the case (exposed) group for case-control studies
Parkinson's Disease patients after prebiotics (PD group)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Patient diagnosed with parkinson disease after prebiotics.
Group 0 sample size Number of subjects in the control (unexposed) group
10
Group 1 sample size Number of subjects in the case (exposed) group
10
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
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
Mann-Whitney (Wilcoxon)
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
Matched on Factors on which subjects have been matched on in a case-control study
age

Alpha Diversity

Pielou Quantifies how equal the community is numerically
unchanged
Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged
Chao1 Abundance-based estimator of species richness
increased
Richness Number of species
increased

Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2025-4-23

Curated date: 2025/04/10

Curator: Shulamite

Revision editor(s): Shulamite

Source: Fig 2E

Description: Several genera were markedly reduced in the PD group after prebiotics, paralleled by several trends

Abundance in Group 1: increased abundance in Parkinson's Disease patients after prebiotics (PD group)

NCBI Quality ControlLinks
Christensenellales

Revision editor(s): Shulamite

Signature 2

Reviewed Marked as Reviewed by Svetlana up on 2025-4-23

Curated date: 2025/04/10

Curator: Shulamite

Revision editor(s): Shulamite, KateRasheed

Source: Fig 2E

Description: Several genera were markedly reduced in the PD group after prebiotics, paralleled by several trends

Abundance in Group 1: decreased abundance in Parkinson's Disease patients after prebiotics (PD group)

NCBI Quality ControlLinks
Blautia ABlautia A
Dorea
Thomasclavelia
Anaerovoracaceae
Eubacterium IEubacterium I

Revision editor(s): Shulamite, KateRasheed