An analysis of the characteristics of the intestinal flora in patients with Parkinson's disease complicated with constipation
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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 W, Bi Z, Zhu Q, Gao H, Fan Y, Zhang C, Liu X, Ye M
Journal
American journal of translational research
Year
2021
Keywords:
16S rRNA sequencing, Parkinson’s disease (PD), constipation, gut microbiota
Parkinson's disease (PD) is a degenerative disease of the central nervous system (CNS) and is common among the middle-aged and elderly populations. Increasing evidence shows that the gut microbiota may trigger PD through the "gut-microbiota-brain" axis. A previous study revealed that constipation, one of the non-motor symptoms of PD, affects gut microbiota and the progression of PD. However, whether constipation is involved in gut microbiota-associated PD is largely unknown. Therefore, we investigated the relationship between gut microbiota, PD, and constipation in this study. We carried out 16S rRNA sequencing in 15 constipated PD patients (C-PD), 14 non-constipated PD (NC-PD) patients, and 15 healthy controls to evaluate the microbial population. Furthermore, co-occurrence networks were used to assess the gut ecology of the three groups. Spearman analyses were used to analyze the correlation between the differential microbiota and the clinical features. The results showed that there were differences in the composition of the gut microbiota among the C-PD group, the NC-PD group, and the healthy controls. No significant differences were observed in the alpha diversity among the three groups, but the beta diversity differed significantly among the groups. Compared with the healthy controls, the abundance of Hungatella and Collinsella was increased and the abundance of Lachnospira and Fusicatenibacter was reduced in the PD patients' feces. Compared with the NC-PD group, the relative abundance of Megamonas and Holdemanella were lower, while Hungatella, Streptococcus and Anaerotruncus were enriched in the C-PD group. The co-occurrence network analysis showed that the C-PD group presented a different microbial community relationship compared with the NC-PD group and the healthy controls. Our study provides strong evidence that the gut microbiota may be related to constipation in PD. In addition, our data suggest an association between the differential microbiota genera and the clinical features of PD. Therefore, modulating gut microbiota may be another way to monitor and optimize PD treatment.
Experiment 1
Needs review
Curated date: 2023/05/21
Curator:
Revision editor(s):
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
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Healthy Controls and Parkinson's Disease patients with constipation
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Parkinson's Disease patients without constipation
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- The PD patients were all screened from the outpatients and inpatients in the Department of Neurology and their Wexner scores (evaluation of constipation severity) were collected. Patients diagnosed with idiopathic PD by a neurologist according to the revised PD diagnostic criteria published by the International Movement Disorders Association in 2015.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 30
- Group 1 sample size Number of subjects in the case (exposed) group
- 14
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 3 months.
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V4-V5
- 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
- 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 Atrayees on 2023-6-28
Source: Figure 1G
Description: Difference contribution analysis chart
Abundance in Group 1: increased abundance in
| NCBI | Quality Control | Links |
|---|---|---|
| Sutterella parvirubra | ||
| uncultured Kopriimonas sp. |
Revision editor(s): Jacquelynshevin, WikiWorks
Experiment 2
Needs review
Curated date: 2023/05/21
Curator:
Revision editor(s):
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Healthy Controls
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Parkinson's Disease patients without constipation and Parkinson's Disease patients with constipation
- Group 0 sample size Number of subjects in the control (unexposed) group
- 15
- Group 1 sample size Number of subjects in the case (exposed) group
- 29
Lab analysis
Statistical Analysis
Alpha Diversity
- Chao1 Abundance-based estimator of species richness
- unchanged
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-6-28
Source: Figure 1G
Description: Difference contribution analysis chart
Abundance in Group 1: decreased abundance in
| NCBI | Quality Control | Links |
|---|---|---|
| Phocaeicola massiliensis | ||
| Lachnospira | ||
| Fusicatenibacter |
Revision editor(s): Jacquelynshevin, WikiWorks
Experiment 3
Needs review
Curated date: 2023/05/21
Curator:
Revision editor(s):
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Healthy Controls and Parkinson's Disease patients without constipation
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Parkinson's Disease patients with constipation
- Group 0 sample size Number of subjects in the control (unexposed) group
- 29
- Group 1 sample size Number of subjects in the case (exposed) group
- 15
Lab analysis
Statistical Analysis
Alpha Diversity
- Chao1 Abundance-based estimator of species richness
- unchanged
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-6-28
Source: Figure 1G
Description: Difference contribution analysis chart
Abundance in Group 1: increased abundance in
Revision editor(s): Jacquelynshevin, WikiWorks
Experiment 4
Needs review
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Parkinson's Disease patients without constipation
- Group 0 sample size Number of subjects in the control (unexposed) group
- 14
Lab analysis
Statistical Analysis
Alpha Diversity
- Chao1 Abundance-based estimator of species richness
- unchanged
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-6-27
Source: Figure 2H
Description: Difference contribution analysis chart.
Abundance in Group 1: decreased abundance in Parkinson's Disease patients with constipation
| NCBI | Quality Control | Links |
|---|---|---|
| Holdemanella | ||
| Megamonas | ||
| Leyella stercorea | ||
| Rhodospirillaceae | ||
| Rhodospirillales |
Revision editor(s): Jacquelynshevin, WikiWorks
Signature 2
Reviewed Marked as Reviewed by Atrayees on 2023-6-27
Source: Figure 2H
Description: Difference contribution analysis chart.
Abundance in Group 1: increased abundance in Parkinson's Disease patients with constipation
| NCBI | Quality Control | Links |
|---|---|---|
| Anaerotruncus | ||
| Bacilli | ||
| Hungatella | ||
| Lactobacillales | ||
| Oscillospiraceae bacterium | ||
| Streptococcaceae | ||
| Streptococcus | ||
| Subdoligranulum sp. 4_3_54A2FAA | ||
| Streptococcus salivarius |
Revision editor(s): Jacquelynshevin, WikiWorks
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