Gut microbiome and serum metabolome alterations associated with lactose intolerance (LI): a case‒control study and paired-sample study based on the American Gut Project (AGP)/Experiment 2
From BugSigDB
Reviewed Marked as Reviewed by Svetlana up on 2024-11-27
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
- Lactose intolerance lactase persistence,lactose intolerance,lactose intolerance (disease),LM - lactose malabsorption,Lactose intolerance
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Healthy controls (HC)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Participants with Lactose Intolerance(LI)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Participants with condition, Lactose intolerance (LI) which is a prevalent condition characterized by gastrointestinal symptoms that arise following lactose consumption.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 41
- Group 1 sample size Number of subjects in the case (exposed) group
- 41
- 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
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2024-11-27
Source: Fig 3b
Description: LeFSe analysis reveals significant taxonomic differences between LI Patients and HCs.
Abundance in Group 1: increased abundance in Participants with Lactose Intolerance(LI)
Revision editor(s): Nathcynthia, Rahila, Tosin
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2024-11-27
Source: Fig 3b
Description: LeFSe analysis reveals significant taxonomic differences between LI Patients and HCs.
Abundance in Group 1: decreased abundance in Participants with Lactose Intolerance(LI)
| NCBI | Quality Control | Links |
|---|---|---|
| Clostridium sp. AF36-18BH | ||
| Eubacterium sp. | ||
| Faecalibacterium sp. CAG:82 | ||
| Lachnospira eligens | ||
| unclassified Faecalibacterium | ||
| uncultured Ruminococcus sp. |
Revision editor(s): Nathcynthia, Rahila, Tosin
