Effects of healthy low-carbohydrate diet and time-restricted eating on weight and gut microbiome in adults with overweight or obesity: Feeding RCT/Experiment 1

From BugSigDB


Reviewed Marked as Reviewed by ChiomaBlessing on 2025-4-22

Curated date: 2025/04/11

Curator: MyleeeA

Revision editor(s): MyleeeA, Daberechi

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 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
Response to diet Response to diet,response to diet
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Healthy Low Carbohydrate Diet at Baseline (HLCD)
Group 1 name Corresponds to the case (exposed) group for case-control studies
Healthy Low Carbohydrate Diet at Endpoint (HLCD)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
The participants in the Healthy Low Carbohydrate Diet (HLCD) alone group were provided with HLCD and instructed to follow their usual eating regimens during the 12 week feeding trial. The HLCD was a relatively healthy type of LCD consisting of approximately 30%, 50%, and 20% of total energy from carbohydrates, fats, and proteins, emphasizing the consumption of unsaturated fatty acids, plant proteins, and high-quality carbohydrates including whole grains, fresh vegetables, and fruits.
Group 0 sample size Number of subjects in the control (unexposed) group
48
Group 1 sample size Number of subjects in the case (exposed) group
43
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
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)?
No
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
unchanged

Signature 1

Reviewed Marked as Reviewed by ChiomaBlessing on 2025-4-22

Curated date: 2025/04/12

Curator: MyleeeA

Revision editor(s): MyleeeA

Source: Figure 2c and Supplementary Figure 2

Description: Significant taxonomic changes between Healthy Low Carbohydrate Diet (HLCD) at baseline and Endpoint as accessed using LefSe.

Abundance in Group 1: increased abundance in Healthy Low Carbohydrate Diet at Endpoint (HLCD)

NCBI Quality ControlLinks
Bacteroidales
Bacteroidia
Bacteroidota
Betaproteobacteria
Burkholderiales
Enterobacter hormaechei
Enterobacterales
Enterobacteriaceae
Escherichia
Escherichia coli
Gammaproteobacteria
Klebsiella
Klebsiella pneumoniae
Pseudomonadota
Sutterellaceae
Weissella confusa

Revision editor(s): MyleeeA

Signature 2

Reviewed Marked as Reviewed by ChiomaBlessing on 2025-4-22

Curated date: 2025/04/12

Curator: MyleeeA

Revision editor(s): MyleeeA

Source: Figure 2c and Supplementary Figure 2

Description: Significant taxonomic changes between Healthy Low Carbohydrate Diet (HLCD) at baseline and Endpoint as accessed using LefSe.

Abundance in Group 1: decreased abundance in Healthy Low Carbohydrate Diet at Endpoint (HLCD)

NCBI Quality ControlLinks
Bacillota
Clostridia
Dorea
Dorea longicatena
Eubacteriales
Faecalibacterium
Mediterraneibacter
Oscillospiraceae
Peptostreptococcaceae
Romboutsia
Romboutsia timonensis
Streptococcus sp. A12
Turicibacter sanguinis
[Ruminococcus] torques
unclassified Clostridia

Revision editor(s): MyleeeA