Age-specific differential changes on gut microbiota composition in patients with major depressive disorder/Experiment 1

From BugSigDB


Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-30

Curated date: 2022/06/17

Curator: Claregrieve1

Revision editor(s): Claregrieve1, Aiyshaaaa, Lwaldron

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
Major depressive disorder major depression,major depressive disorder,recurrent major depression,single major depressive episode,unipolar depression,Major depressive disorder
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Young Healthy Controls(aged 18-29 years)
Group 1 name Corresponds to the case (exposed) group for case-control studies
Middle-aged HC (aged 30-59 years)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Subjects without major depressive disorder between the ages of 30 to 59 years.
Group 0 sample size Number of subjects in the control (unexposed) group
27
Group 1 sample size Number of subjects in the case (exposed) group
44
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
NOT SPECIFIED

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
V3-V5
Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
Roche454

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

Chao1 Abundance-based estimator of species richness
unchanged

Signature 1

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-30

Curated date: 2023/04/07

Curator: Aiyshaaaa

Revision editor(s): Aiyshaaaa, Claregrieve1

Source: Figure 9 & Figure 10(A)

Description: Differential microbial abundance by LefSe between young HCs and middle-aged HCs

Abundance in Group 1: increased abundance in Middle-aged HC (aged 30-59 years)

NCBI Quality ControlLinks
Eubacteriales Family XIII. Incertae Sedis

Revision editor(s): Aiyshaaaa, Claregrieve1

Signature 2

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-30

Curated date: 2023/04/07

Curator: Aiyshaaaa

Revision editor(s): Aiyshaaaa, Claregrieve1

Source: Figure 9 & Figure 10(A)

Description: Differential microbial abundance by LefSe between young HCs and middle-aged HCs

Abundance in Group 1: decreased abundance in Middle-aged HC (aged 30-59 years)

NCBI Quality ControlLinks
Carnobacteriaceae
Collinsella
Coriobacteriaceae
Granulicatella
Megamonas
Streptococcaceae
Streptococcus
Veillonella

Revision editor(s): Aiyshaaaa, Claregrieve1