The gut microbiota is associated with psychiatric symptom severity and treatment outcome among individuals with serious mental illness
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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
- United States of America
- Host species Species from which microbiome was sampled (if applicable)
- 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
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- unipolar depression Depression,Depression, Emotional,Depression, Endogenous,Depression, Involutional,Depression, Neurotic,Depression, Unipolar,Depressions,Depressions, Emotional,Depressions, Endogenous,Depressions, Neurotic,Depressions, Unipolar,DEPRESSIVE DIS,DEPRESSIVE DIS MAJOR,Depressive Disorder,Depressive Disorder, Major,Depressive Disorders,Depressive Disorders, Major,Depressive Neuroses,Depressive Neurosis,Depressive Symptom,Depressive Symptoms,Depressive Syndrome,Depressive Syndromes,Disorder, Depressive,Disorder, Major Depressive,Disorders, Depressive,Disorders, Major Depressive,Emotional Depression,Emotional Depressions,Endogenous Depression,Endogenous Depressions,Involutional Depression,Involutional Psychoses,Involutional Psychosis,MAJOR DEPRESSIVE DIS,major depressive disorder,Major Depressive Disorders,Neuroses, Depressive,Neurosis, Depressive,Neurotic Depression,Neurotic Depressions,Paraphrenia, Involutional,Psychoses, Involutional,Psychosis, Involutional,Symptom, Depressive,Symptoms, Depressive,Syndrome, Depressive,Syndromes, Depressive,Unipolar Depressions,unipolar depression
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- mild depression
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- severe depression
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- psychiatric inpatients diagnosed by DSM-IV Disorders, SCID-I and SCID-II interviews, CSSR-S, SLEQ and GAD-7
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
- 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
Signature 1
Source: Figure 1a,1b
Description: Bacterial biomarkers associated with depression severity with genus and species level resolution at admission
Abundance in Group 1: increased abundance in severe depression
NCBI | Quality Control | Links |
---|---|---|
Abyssicoccus albus | ||
Flavonifractor plautii | ||
Ruminococcus | ||
Ruminococcus sp. |
Signature 2
Subject page title: | The gut microbiota is associated with psychiatric symptom severity and treatment outcome among individuals with serious mental illness/Experiment 1/Signature 2 |
---|---|
Reviewer: | Rukky |
Review date: | 2023-3-28 |
Review state: | Reviewed |
Quality control tags: |
Source: Figure 1a,1b
Description: Bacterial biomarkers associated with depression severity with genus and species level resolution at admission
Abundance in Group 1: decreased abundance in severe depression
NCBI | Quality Control | Links |
---|---|---|
Actinomycetota | ||
Alistipes senegalensis | ||
Bifidobacterium adolescentis | ||
Oxalobacter formigenes | ||
Ruminococcaceae sp. B_A14 | ||
Oscillospiraceae bacterium |
Experiment 2
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- moderate depression
Lab analysis
Statistical Analysis
Signature 1
Source: Figure 1a,1b
Description: Bacterial biomarkers associated with depression severity with genus and species level resolution at admission
Abundance in Group 1: increased abundance in moderate depression
NCBI | Quality Control | Links |
---|---|---|
Flavonifractor | ||
Streptococcus anginosus | ||
Coprococcus catus | ||
[Clostridium] symbiosum |
Revision editor(s): WikiWorks
Experiment 3
Subjects
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- anxiety disorder anxiety,anxiety disorder,anxiety disorders,anxiety neuroses,anxiety neurosis,anxiety state,anxiety/mood disorders,chronic stress,mood and anxiety disorder,mood and anxiety disorders,neurotic anxiety states
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- mild anxiety
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- severe anxiety
Lab analysis
Statistical Analysis
Signature 1
Source: Figure 1c, 1d
Description: Bacterial biomarkers associated with anxiety severity with genus and species level resolution at admission
Abundance in Group 1: increased abundance in severe anxiety
NCBI | Quality Control | Links |
---|---|---|
Streptococcus anginosus | ||
Lachnospiraceae bacterium |
Signature 2
Source: Figure 1c, 1d
Description: Bacterial biomarkers associated with anxiety severity with genus and species level resolution at admission
Abundance in Group 1: decreased abundance in severe anxiety
Experiment 4
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- moderate anxiety