Effects of Commercial Apple Varieties on Human Gut Microbiota Composition and Metabolic Output Using an In Vitro Colonic Model/Experiment 1

From BugSigDB


Reviewed Marked as Reviewed by ChiomaBlessing on 2024-2-13

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, ChiomaBlessing

Subjects

Location of subjects
United Kingdom
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
Diet Dietary,Diets,Diet,diet
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Poorly fermentable fiber (cellulose)
Group 1 name Corresponds to the case (exposed) group for case-control studies
Renatta canada apple - at 10 hr
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Healthy donors administered with Renetta Canada apple
Group 0 sample size Number of subjects in the control (unexposed) group
3
Group 1 sample size Number of subjects in the case (exposed) group
3
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
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
ANOVA
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

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
decreased
Chao1 Abundance-based estimator of species richness
decreased
Richness Number of species
decreased

Signature 1

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-2-13

Curated date: 2021/01/10

Curator: Lora Kasselman

Revision editor(s): WikiWorks, ChiomaBlessing

Source: Table 2

Description: Changes in bacterial taxa relative abundance (%) at 10 h in donors administered with Renetta Canada apple compared to those administered with poorly fermentable fiber (cellulose)

Abundance in Group 1: decreased abundance in Renatta canada apple - at 10 hr

NCBI Quality ControlLinks
Bilophila
Eubacteriales
Lachnospiraceae
Oscillospira
Parabacteroides
Ruminococcus
unclassified Eubacteriales
unclassified Mogibacterium

Revision editor(s): WikiWorks, ChiomaBlessing

Signature 2

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-2-20

Curated date: 2024/02/20

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing

Source: Table 2

Description: Changes in bacterial taxa relative abundance (%) at 10 h in donors administered with Renetta Canada apple compared to those administered with poorly fermentable fiber (cellulose)

Abundance in Group 1: increased abundance in Renatta canada apple - at 10 hr

NCBI Quality ControlLinks
Bifidobacterium

Revision editor(s): ChiomaBlessing