Dietary selective effects manifest in the human gut microbiota from species composition to strain genetic makeup/Experiment 3

From BugSigDB


Needs review

Curated date: 2025/03/16

Curator: KateRasheed

Revision editor(s): KateRasheed

Subjects

Location of subjects
Germany
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 measurement Diet measurement,diet measurement
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Flexitarian
Group 1 name Corresponds to the case (exposed) group for case-control studies
Omnivore
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Omnivore refers to individuals regularly consuming a mixed diet of meat and meat products of ≥170 g/day).
Group 0 sample size Number of subjects in the control (unexposed) group
31
Group 1 sample size Number of subjects in the case (exposed) group
28

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).
arcsine square-root
Statistical test
MaAsLin2
Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
0.25
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, sex


Signature 1

Needs review

Curated date: 2025/03/17

Curator: KateRasheed

Revision editor(s): KateRasheed

Source: Supplementary Table 3

Description: A panel of species that were differentially abundant in one diet type compared to the other.

Abundance in Group 1: increased abundance in Omnivore

NCBI Quality ControlLinks
Erysipelotrichaceae bacterium
GGB9176_SGB14114GGB9176_SGB14114
Clostridia bacterium
GGB9524_SGB14924GGB9524_SGB14924
GGB9818_SGB15459GGB9818_SGB15459
Clostridia_unclassified_SGB14844Clostridia_unclassified_SGB14844
GGB1495_SGB2071GGB1495_SGB2071

Revision editor(s): KateRasheed

Signature 2

Needs review

Curated date: 2025/03/17

Curator: KateRasheed

Revision editor(s): KateRasheed

Source: Supplementary Table 3

Description: A panel of species that were differentially abundant in one diet type compared to the other.

Abundance in Group 1: decreased abundance in Omnivore

NCBI Quality ControlLinks
Clostridia bacterium
GGB9691_SGB15198GGB9691_SGB15198
Lachnospiraceae bacterium

Revision editor(s): KateRasheed