Impact of probiotic Saccharomyces boulardii on the gut microbiome composition in HIV-treated patients: A double-blind, randomised, placebo-controlled trial
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Quality control
- Retracted paper
- Contamination issues suspected
- Batch effect issues suspected
- Uncontrolled confounding suspected
- Results are suspect (various reasons)
- Tags applied
Experiment 1
Subjects
- Location of subjects
- Spain
- 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
- HIV infection [X]Human immunodeficiency virus disease,[X]Human immunodeficiency virus disease (disorder),[X]Unspecified human immunodeficiency virus [HIV] disease,[X]Unspecified human immunodeficiency virus [HIV] disease (disorder),HIV - Human immunodeficiency virus infection,HIV INFECT,HIV Infection,HIV infection,HIV Infections,HIV infectious disease,HTLV III INFECT,HTLV III Infections,HTLV III LAV INFECT,HTLV III LAV Infections,HTLV WIII INFECTIONS,HTLV WIII LAV INFECTIONS,HTLV-III Infection,HTLV-III Infections,HTLV-III-LAV Infection,HTLV-III-LAV Infections,HUMAN IMMUNO VIRUS DIS,human immunodeficiency virus,Human immunodeficiency virus [HIV] disease,HUMAN IMMUNOdeficiency VIRUS [HIV] INFECTION,Human immunodeficiency virus caused disease or disorder,Human immunodeficiency virus disease,Human immunodeficiency virus disease (disorder),Human immunodeficiency virus disease or disorder,Human immunodeficiency virus infection,Human immunodeficiency virus infection (disorder),Human immunodeficiency virus infection, NOS,Human immunodeficiency virus infectious disease,human immunodeficiency virus infectious disease,Infection, HIV,Infection, HTLV-III,Infection, HTLV-III-LAV,Infections, HIV,Infections, HTLV-III,Infections, HTLV-III-LAV,LYMPHOTROPIC VIRUS TYPE III INFECTIONS HUMAN T,T LYMPHOTROPIC VIRUS TYPE III INFECT HUMAN,T Lymphotropic Virus Type III Infections, Human,T-Lymphotropic Virus Type III Infections, Human,Unspecified human immunodeficiency virus [HIV] disease (disorder),hIV infection
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- baseline
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- immunological non-responders assigned to treatment for 12 weeks
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- HIV-infected immunological non-responders (INR) who received S. boulardii probiotic
- Group 0 sample size Number of subjects in the control (unexposed) group
- 22
- Group 1 sample size Number of subjects in the case (exposed) group
- 22
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 2 months
Lab analysis
- Sequencing type
- 16S
- 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
- Mann-Whitney (Wilcoxon)
- 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
Signature 1
Source: Text (Saccharomyces boulardii produces changes in some gut bacterial communities, lines 3-7)
Description: Changes in some gut bacterial communities produced by Saccharomyces boulardii after 12 weeks of intervention
Abundance in Group 1: increased abundance in immunological non-responders assigned to treatment for 12 weeks
NCBI | Quality Control | Links |
---|---|---|
Desulfovibrio | ||
Megamonas |
Signature 2
Source: Text (Saccharomyces boulardii produces changes in some gut bacterial communities, lines 3-7)
Description: Changes in some gut bacterial communities produced by Saccharomyces boulardii after 12 weeks of intervention
Abundance in Group 1: decreased abundance in immunological non-responders assigned to treatment for 12 weeks
NCBI | Quality Control | Links |
---|---|---|
Catenibacterium | ||
Clostridiaceae |
Experiment 2
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- immunological responders assigned to treatment for 12 weeks
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- HIV-infected immunological responders (IR) who received S. boulardii probiotic
Lab analysis
Statistical Analysis
Signature 1
Source: Text (Saccharomyces boulardii produces changes in some gut bacterial communities, lines 3-7)
Description: Changes in some gut bacterial communities produced by Saccharomyces boulardii after 12 weeks of intervention
Abundance in Group 1: increased abundance in immunological responders assigned to treatment for 12 weeks
NCBI | Quality Control | Links |
---|---|---|
Desulfovibrio | ||
Megamonas |
Signature 2
Source: Text (Saccharomyces boulardii produces changes in some gut bacterial communities, lines 3-7)
Description: Changes in some gut bacterial communities produced by Saccharomyces boulardii after 12 weeks of intervention
Abundance in Group 1: decreased abundance in immunological responders assigned to treatment for 12 weeks
NCBI | Quality Control | Links |
---|---|---|
Catenibacterium | ||
Clostridiaceae |