Pivotal interplays between fecal metabolome and gut microbiome reveal functional signatures in cerebral ischemic stroke/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Peace Sandy on 2024-3-28
Curated date: 2024/03/14
Curator: Adeoyo Olajumoke
Revision editor(s): Adeoyo Olajumoke, Peace Sandy
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 , Urine , Blood plasma 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,Urine,urine,Blood plasm,Plasma,Portion of blood plasma,Portion of plasma,Blood plasma,blood plasma
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Stroke Acute Cerebrovascular Accident,Acute Cerebrovascular Accidents,Acute Stroke,Acute Strokes,Apoplexy,Apoplexy, Cerebrovascular,Brain Vascular Accident,Brain Vascular Accidents,cerebral infarction,Cerebral Stroke,Cerebral Strokes,Cerebrovascular Accident,cerebrovascular accident,Cerebrovascular accident (disorder),Cerebrovascular accident (disorder) [Ambiguous],CEREBROVASCULAR ACCIDENT, (CVA),cerebrovascular accident, (CVA),Cerebrovascular Accident, Acute,Cerebrovascular Accidents,Cerebrovascular Accidents, Acute,Cerebrovascular Apoplexy,Cerebrovascular Apoplexya,Cerebrovascular Stroke,Cerebrovascular Strokes,CVA,CVA (cerebral vascular accident),CVA (Cerebrovascular Accident),CVA - Cerebrovascular accident,CVA - Cerebrovascular accident unspecified,CVA, CEREBROVASCULAR ACCIDENT,CVA, cerebrovascular accident,CVAs (Cerebrovascular Accident),ischemic stroke,stroke,Stroke and cerebrovascular accident unspecified,Stroke and cerebrovascular accident unspecified (disorder),stroke disorder,Stroke NOS,Stroke NOS (disorder),STROKE SYNDROME,stroke syndrome,Stroke, Acute,Stroke, Cerebral,Stroke, Cerebrovascular,Stroke/CVA - undefined,Strokes,Strokes, Acute,Strokes, Cerebral,Strokes, Cerebrovascular,SYNDROME, STROKE,syndrome, stroke,undetermined stroke,Vascular Accident, Brain,Vascular Accidents, Brain,Stroke
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Healthy individuals
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Cerebral ischemic stroke patients
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients diagnosed with ischemic stroke by skull computed tomography examination who have not experienced any pre-existing metabolic or gut diseases.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 30
- Group 1 sample size Number of subjects in the case (exposed) group
- 60
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 1 month
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)?
- Yes
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Richness Number of species
- increased
Signature 1
Reviewed Marked as Reviewed by Peace Sandy on 2024-3-28
Source: Figure. 6
Description: Significantly different abundant taxa with LDA score (log10) > 2.0 and P < 0.05
Abundance in Group 1: increased abundance in Cerebral ischemic stroke patients
Revision editor(s): Adeoyo Olajumoke
Signature 2
Reviewed Marked as Reviewed by Peace Sandy on 2024-3-28
Source: Figure. 6
Description: Significantly different abundant taxa with LDA score (log10) > 2.0 and P < 0.05
Abundance in Group 1: decreased abundance in Cerebral ischemic stroke patients
| NCBI | Quality Control | Links |
|---|---|---|
| Acetobacter sp. CAG:977 | ||
| Azospirillum | ||
| Azospirillum sp. CAG:260 | ||
| Bacteroides caecimuris | ||
| Barnesiella intestinihominis | ||
| Eubacterium sp. CAG:841 | ||
| Rhodospirillaceae |
Revision editor(s): Adeoyo Olajumoke
