Almond Snacking for 8 wk Increases Alpha-Diversity of the Gastrointestinal Microbiome and Decreases Bacteroides fragilis Abundance Compared with an Isocaloric Snack in College Freshmen/Experiment 2

From BugSigDB


Reviewed Marked as Reviewed by Atrayees on 2023-6-26

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Atrayees, Victoria

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
Diet Dietary,Diets,Diet,diet
Group 0 name Corresponds to the control (unexposed) group for case-control studies
higher fiber (almonds) - 8 wk after intervention
Group 1 name Corresponds to the case (exposed) group for case-control studies
lower fiber (cracker) - 8 wk after intervention
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
students eating crackers
Group 0 sample size Number of subjects in the control (unexposed) group
38
Group 1 sample size Number of subjects in the case (exposed) group
35

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
V4-V5
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).
centered log-ratio
Statistical test
ANCOM
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
Simpson Estimator of species richness and species evenness: more weight on species evenness
unchanged
Richness Number of species
decreased

Signature 1

Needs review

Curated date: 2021/01/10

Curator: Lora Kasselman

Revision editor(s): Lwaldron, WikiWorks, Atrayees

Source: Table 1

Description: ANCOM results of selected taxa prevalent in at least 25% of the samples obtained from college freshmen in the almond and cracker groups 8 wk after the intervention

Abundance in Group 1: increased abundance in lower fiber (cracker) - 8 wk after intervention

NCBI Quality ControlLinks
Lachnospira
unclassified Mollicutes

Revision editor(s): Lwaldron, WikiWorks, Atrayees

Signature 2

Needs review

Curated date: 2021/01/10

Curator: Lora Kasselman

Revision editor(s): Lwaldron, WikiWorks, Atrayees

Source: Table 1

Description: ANCOM results of selected taxa prevalent in at least 25% of the samples obtained from college freshmen in the almond and cracker groups 8 wk after the intervention

Abundance in Group 1: decreased abundance in lower fiber (cracker) - 8 wk after intervention

NCBI Quality ControlLinks
Alistipes
Butyricimonas
Odoribacter
Muribaculaceae

Revision editor(s): Lwaldron, WikiWorks, Atrayees