Lower gut microbiome diversity and higher abundance of proinflammatory genus Collinsella are associated with biopsy-proven nonalcoholic steatohepatitis/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Atrayees on 2023-7-27
Curated date: 2021/08/11
Curator: Madhubani Dey
Revision editor(s): Madhubani Dey, WikiWorks, Atrayees
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
- Non-alcoholic steatohepatitis NASH,nash - nonalcoholic Steatohepatitis,non alcoholic steatohepatitis,non-alcoholic steatohepatitis,nonalcoholic Steatohepatitis,nonalcoholic steatohepatitis,Non-alcoholic steatohepatitis
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Healthy controls
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Individuals diagnosed with Nonalcoholic steatohepatitis (without cirrhosis)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Individuals diagnosed with Nonalcoholic steatohepatitis (without cirrhosis); The Fatty Liver Inhibition of Progression (FLIP) Consortium algorithm was used as a diagnostic indicator where the histological diagnosis of NASH requires the presence of steatosis, ballooning, and lobular inflammation
- Group 0 sample size Number of subjects in the control (unexposed) group
- 76
- Group 1 sample size Number of subjects in the case (exposed) group
- 40
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- 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
- Kruskall-Wallis
- 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
- Matched on Factors on which subjects have been matched on in a case-control study
- age, body mass index, sex
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- decreased
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-7-27
Source: Figure 4
Description: Increased abundance of bacterial communities in individuals diagnosed with Nonalcoholic steatohepatitis (without cirrhosis)
Abundance in Group 1: increased abundance in Individuals diagnosed with Nonalcoholic steatohepatitis (without cirrhosis)
| NCBI | Quality Control | Links |
|---|---|---|
| Actinomyces | ||
| Collinsella | ||
| Eggerthella | ||
| Fusicatenibacter | ||
| Hungatella | ||
| Lachnoclostridium | ||
| Lachnospiraceae bacterium | ||
| Rhodospirillaceae |
Revision editor(s): Madhubani Dey
Signature 2
Reviewed Marked as Reviewed by Atrayees on 2023-7-27
Source: Figure 4
Description: Decreased abundance of bacterial communities in individuals diagnosed with Nonalcoholic steatohepatitis (without cirrhosis)
Abundance in Group 1: decreased abundance in Individuals diagnosed with Nonalcoholic steatohepatitis (without cirrhosis)
Revision editor(s): Madhubani Dey, Merit
