Metagenome-wide association of gut microbiome features for schizophrenia/Experiment 3

From BugSigDB


Reviewed Marked as Reviewed by Chloe on 2024-1-3

Curated date: 2024/01/03

Curator: Chloe

Revision editor(s): Chloe

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
Schizophrenia [X]Schizophrenia, unspecified,[X]Schizophrenia, unspecified (disorder),Dementia Praecox,Disorder, Schizophrenic,Disorders, Schizophrenic,Other specified types of schizophrenia,Other specified types of schizophrenia, chronic state,Other specified types of schizophrenia, chronic state with acute exacerbation,Other specified types of schizophrenia, in remission,Other specified types of schizophrenia, subchronic state,Other specified types of schizophrenia, subchronic state with acute exacerbation,Other specified types of schizophrenia, unspecified state,SCHIZO NEC-CHR/EXACERB,SCHIZO NEC-SUBCHR/EXACER,SCHIZO NOS-CHR/EXACERB,SCHIZO NOS-SUBCHR/EXACER,schizoaffective disorder,schizophrenia,schizophrenia (disease),Schizophrenia (disorder),SCHIZOPHRENIA NEC-CHR,SCHIZOPHRENIA NEC-REMISS,SCHIZOPHRENIA NEC-SUBCHR,SCHIZOPHRENIA NEC-UNSPEC,Schizophrenia NOS,Schizophrenia NOS (disorder),SCHIZOPHRENIA NOS-UNSPEC,schizophrenia with or without an affective disorder,Schizophrenia, NOS,schizophrenia-1,Schizophrenias,SCHIZOPHRENIC DIS,Schizophrenic Disorder,Schizophrenic Disorders,Schizophrenic disorders (disorder),SCZD,Unspecified schizophrenia,Unspecified schizophrenia (disorder),Unspecified schizophrenia, chronic state with acute exacerbation,Unspecified schizophrenia, subchronic state with acute exacerbation,Unspecified schizophrenia, unspecified state,Schizophrenia
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Baseline Healthy controls
Group 1 name Corresponds to the case (exposed) group for case-control studies
3 Month Follow-up Schizophrenic patients (38 participant subsample)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
38 participants with schizophrenia selected for followup at 3 months. Only acutely relapsed schizophrenic (ARSCZ) and first-episode schizophrenic (FESCZ) patients were recruited in this study. The current episode of ARSCZ patients was required to happen in the last three months. ARSCZ patients were free of treatment for at least six months. The current episode of FESCZ patients was required to happen in the last year. FESCZ patients did not take any antipsychotics, or their accumulative dosages of antipsychotics intake were much less than the effective dosage (generally less than 100 mg chlorpromazine equivalents in the last two weeks based on the transformation method).
Group 0 sample size Number of subjects in the control (unexposed) group
81
Group 1 sample size Number of subjects in the case (exposed) group
38
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
30 days

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

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)?
Yes
Matched on Factors on which subjects have been matched on in a case-control study
alcohol drinking, diet, demographics, smoking status, socioeconomic status


Signature 1

Reviewed Marked as Reviewed by Chloe on 2024-1-3

Curated date: 2024/01/03

Curator: Chloe

Revision editor(s): Chloe

Source: Supplementary Data 10

Description: Baseline healthy controls compared to 3 month Follow up schizophrenia (38 samples)

Abundance in Group 1: increased abundance in 3 Month Follow-up Schizophrenic patients (38 participant subsample)

NCBI Quality ControlLinks
Caulobacter segnis
Caulobacter vibrioides
Peptostreptococcus stomatis
Klebsiella aerogenes
[Bacteroides] pectinophilus
[Eubacterium] siraeum
Klebsiella variicola
Akkermansia muciniphila
Enterobacter hormaechei
Enterobacter cloacae
Alistipes shahii
Enterobacter cancerogenus
Odoribacter splanchnicus
Phocaeicola plebeius

Revision editor(s): Chloe

Signature 2

Reviewed Marked as Reviewed by Chloe on 2024-1-3

Curated date: 2024/01/03

Curator: Chloe

Revision editor(s): Chloe

Source: Supplementary Data 10

Description: Decreased in participants with schizophrenia at 3 months compared to baseline controls

Abundance in Group 1: decreased abundance in 3 Month Follow-up Schizophrenic patients (38 participant subsample)

NCBI Quality ControlLinks
butyrate-producing bacterium
Ruminococcus sp. 5_1_39BFAA
butyrate-producing bacterium SS3/4

Revision editor(s): Chloe