Age-specific differential changes on gut microbiota composition in patients with major depressive disorder
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Study information
-
Quality control
- Retracted paper
- Contamination issues suspected
- Batch effect issues suspected
- Uncontrolled confounding suspected
- Results are suspect (various reasons)
- Tags applied
study design
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
Authors
Chen JJ, He S, Fang L, Wang B, Bai SJ, Xie J, Zhou CJ, Wang W, Xie P
Journal
Aging
Year
2020
Keywords:
Actinobacteria, Bacteroidetes, Firmicutes, gut microbiota, major depressive disorder
Emerging evidence has shown the age-related changes in gut microbiota, but few studies were conducted to explore the effects of age on the gut microbiota in patients with major depressive disorder (MDD). This study was performed to identify the age-specific differential gut microbiota in MDD patients. In total, 70 MDD patients and 71 healthy controls (HCs) were recruited and divided into two groups: young group (age 18-29 years) and middle-aged group (age 30-59 years). The 16S rRNA gene sequences were extracted from the collected fecal samples. Finally, we found that the relative abundances of Firmicutes and Bacteroidetes were significantly decreased and increased, respectively, in young MDD patients as compared with young HCs, and the relative abundances of Bacteroidetes and Actinobacteria were significantly decreased and increased, respectively, in middle-aged MDD patients as compared with middle-aged HCs. Meanwhile, six and 25 differentially abundant bacterial taxa responsible for the differences between MDD patients (young and middle-aged, respectively) and their respective HCs were identified. Our results demonstrated that there were age-specific differential changes on gut microbiota composition in patients with MDD. Our findings would provide a novel perspective to uncover the pathogenesis underlying MDD.
Statistical test
LEfSe
Experiment 1
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 (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
- major depressive disorder major depression,major depressive disorder,recurrent major depression,single major depressive episode,unipolar depression
- 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
- 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
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 Control | Links |
|---|---|---|
| Eubacteriales Family XIII. Incertae Sedis |
Revision editor(s): Aiyshaaaa, Claregrieve1
Signature 2
Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-30
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 Control | Links |
|---|---|---|
| Carnobacteriaceae | ||
| Collinsella | ||
| Coriobacteriaceae | ||
| Granulicatella | ||
| Megamonas | ||
| Streptococcaceae | ||
| Streptococcus | ||
| Veillonella |
Revision editor(s): Aiyshaaaa, Claregrieve1
Experiment 2
Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-30
Differences from previous experiment shown
Subjects
- 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
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Young MDD (aged 18-29 years)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Middle-aged MDD (aged 30-59 years)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Individuals who have been diagnosed with Major Depressive Disorder(MDD) between the ages of 30-59 years.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 25
- Group 1 sample size Number of subjects in the case (exposed) group
- 45
- 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
Statistical Analysis
Alpha Diversity
- Chao1 Abundance-based estimator of species richness
- unchanged
Signature 1
Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-30
Source: Figure 9 & Figure 10(B)
Description: Differential microbial abundance by LefSe between young MDDs and middle-aged MDDs
Abundance in Group 1: increased abundance in Middle-aged MDD (aged 30-59 years)
| NCBI | Quality Control | Links |
|---|---|---|
| Anaerostipes | ||
| Eggerthella | ||
| Gordonibacter | ||
| Lachnospiraceae | ||
| Oscillospiraceae | ||
| Peptostreptococcaceae | ||
| Turicibacter |
Revision editor(s): Aiyshaaaa, Claregrieve1
Signature 2
Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-30
Source: Figure 9 & Figure 10(B)
Description: Differential microbial abundance by LefSe between young MDDs and middle-aged MDDs
Abundance in Group 1: decreased abundance in Middle-aged MDD (aged 30-59 years)
| NCBI | Quality Control | Links |
|---|---|---|
| Acidaminococcaceae | ||
| Megamonas | ||
| Phascolarctobacterium | ||
| Prevotella | ||
| Prevotellaceae | ||
| Veillonellaceae |
Revision editor(s): Aiyshaaaa, Claregrieve1
Experiment 3
Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-30
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Middle-aged HC (aged 30-59 years)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 44
Lab analysis
Statistical Analysis
Alpha Diversity
- Chao1 Abundance-based estimator of species richness
- unchanged
Signature 1
Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-30
Source: Figure 7
Description: Differential microbial abundance by LefSe between middle-aged HCs and MDDs
Abundance in Group 1: increased abundance in Middle-aged MDD (aged 30-59 years)
| NCBI | Quality Control | Links |
|---|---|---|
| Sutterellaceae | ||
| Acidaminococcaceae | ||
| Bacteroidaceae | ||
| Prevotellaceae | ||
| Anaerovorax | ||
| Sutterella | ||
| Oscillibacter | ||
| Phascolarctobacterium | ||
| Coprococcus | ||
| Bacteroides | ||
| Faecalibacterium |
Revision editor(s): Claregrieve1
Signature 2
Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-30
Source: Figure 7
Description: Differential microbial abundance by LefSe between middle-aged HCs and MDDs
Abundance in Group 1: decreased abundance in Middle-aged MDD (aged 30-59 years)
Revision editor(s): Claregrieve1
Experiment 4
Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-30
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Young HC (aged 18-29 years)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Young MDD (aged 18-29 years)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Individuals who have been diagnosed with Major Depressive Disorder(MDD) between the ages of 18-29 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
- 25
Lab analysis
Statistical Analysis
Alpha Diversity
- Chao1 Abundance-based estimator of species richness
- unchanged
Signature 1
Needs review
Source: Figure 6
Description: Differential microbial abundance by LefSe between young HCs and MDDs
Abundance in Group 1: decreased abundance in Young MDD (aged 18-29 years)
| NCBI | Quality Control | Links |
|---|---|---|
| Clostridiaceae | ||
| Peptostreptococcaceae | ||
| Oscillospiraceae bacterium | ||
| Clostridium sp. |
Revision editor(s): Claregrieve1
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