Changes in the stool and oropharyngeal microbiome in obsessive-compulsive disorder/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-22
Subjects
- Location of subjects
- Spain
- 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
- Obsessive-compulsive disorder Anancastic neurosis,obsessive compulsive disorder,obsessive-compulsive disorder,OCD,Obsessive-compulsive disorder
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control (healthy group)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- OCD T0 (Baseline)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients with Obsessive-compulsive disorder (OCD), which is a neuropsychiatric condition characterized by intrusive and unwanted thoughts (termed obsessions) and repetitive behaviors or mental acts (termed compulsions), which are carried out to at least partially alleviate the anxiety or distress brought on by the obsessions. Timepoint 0 was the baseline timepoint prior to three months of pharmacological treatment and cognitive behavioral therapy (referred to as T0).
- Group 0 sample size Number of subjects in the control (unexposed) group
- 33
- Group 1 sample size Number of subjects in the case (exposed) group
- 32
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V3-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
- 2.0
- Matched on Factors on which subjects have been matched on in a case-control study
- age, sex
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Inverse Simpson Modification of Simpsons index D as 1/D to obtain high values in datasets of high diversity and vice versa
- unchanged
- Richness Number of species
- decreased
- Faith Phylogenetic diversity, takes into account phylogenetic distance of all taxa identified in a sample
- decreased
Signature 1
Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-22
Curated date: 2023/03/24
Curator: Kahvecirem
Revision editor(s): Claregrieve1, Kahvecirem, Merit, Aiyshaaaa
Source: Figure 3A
Description: Differential microbial abundance in stool samples between controls and OCD patients at the T0 timepoint
Abundance in Group 1: increased abundance in OCD T0 (Baseline)
| NCBI | Quality Control | Links |
|---|---|---|
| Alistipes | ||
| Anaerostipes | ||
| Barnesiellaceae | ||
| Coprobacter | ||
| Flavonifractor | ||
| Hungatella | ||
| Oscillibacter | ||
| Rikenellaceae | ||
| Mollicutes | ||
| Oscillospiraceae bacterium |
Revision editor(s): Claregrieve1, Kahvecirem, Merit, Aiyshaaaa
Signature 2
Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-22
Source: Figure 3A
Description: Differential microbial abundance in stool samples between controls and OCD patients at the T0 timepoint
Abundance in Group 1: decreased abundance in OCD T0 (Baseline)
Revision editor(s): Kahvecirem, Merit, Claregrieve1
