Cerebral small vessel disease burden is associated with decreased abundance of gut Barnesiella intestinihominis bacterium in the Framingham Heart Study/Experiment 2
Curated date: 2023/10/15
Curator: Sinmisoluwa Adesanya
Revision editor(s): Sinmisoluwa Adesanya, Folakunmi
Subjects
- Location of subjects
- United States of America
- 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
- Cerebral small vessel disease genetic cerebral small vessel disease,small vessel cerebrovascular disease,Cerebral small vessel disease,cerebral small vessel disease
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Lower burden (Healthy)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- High burden (Unhealthy)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Participants with Cerebral small vessel disease that were tested using the WMH marker
- Group 0 sample size Number of subjects in the control (unexposed) group
- 832
- Group 1 sample size Number of subjects in the case (exposed) group
- 136
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- unspecified
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
- MaAsLin2
- 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, body mass index, time, education level, sex
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Signature 1
Curated date: 2023/10/15
Curator: Sinmisoluwa Adesanya
Revision editor(s): Sinmisoluwa Adesanya, Chinelsy, Folakunmi
Source: Table S4, S5, S6
Description: Difference between the gut microbiome of patients with cSVD marker PSMD and the Lower burden (Healthy) group at phylum, genus and species rank
Abundance in Group 1: increased abundance in High burden (Unhealthy)
| NCBI | Quality Control | Links |
|---|---|---|
| Christensenella | ||
| Enterocloster aldenensis | ||
| Pseudomonadota |
Revision editor(s): Sinmisoluwa Adesanya, Chinelsy, Folakunmi
Signature 2
Curated date: 2023/10/15
Curator: Sinmisoluwa Adesanya
Revision editor(s): Sinmisoluwa Adesanya, Chinelsy, Folakunmi, Welile
Source: Table S4, S5, S6
Description: Difference between the gut microbiome of patients with cSVD marker PSMD and the Lower burden (Healthy) group at phylum, genus and species rank
Abundance in Group 1: decreased abundance in High burden (Unhealthy)
Revision editor(s): Sinmisoluwa Adesanya, Chinelsy, Folakunmi, Welile
