Characteristics of fecal microbiota in different constipation subtypes and association with colon physiology, lifestyle factors, and psychological status
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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
- 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
- Chronic constipation Chronic constipation,Infrequent bowel movements,chronic constipation
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Healthy Controls (HC) participants
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Chronic Constipation (CC) patients
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Individuals diagnosed with conditions like Slow-Transit Constipation (STC) or Dyssynergic Defecation (DD).
- Group 0 sample size Number of subjects in the control (unexposed) group
- 31
- Group 1 sample size Number of subjects in the case (exposed) group
- 53
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 1 Month
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V4
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- 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
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
- Richness Number of species
- unchanged
Signature 1
Source: Figure 2b and 2d
Description: Statistical analysis of bacterium at the phylum and family level.
Abundance in Group 1: increased abundance in Chronic Constipation (CC) patients
| NCBI | Quality Control | Links |
|---|---|---|
| Actinomycetota | ||
| Bacillota | ||
| Bifidobacteriaceae | ||
| Coriobacteriaceae | ||
| Erysipelotrichaceae | ||
| Lachnospiraceae | ||
| Oscillospiraceae |
Revision editor(s): Oriade-designs, Aiyshaaaa
Signature 2
Source: Figure 2b and 2d
Description: Statistical analysis of bacterium at the phylum and family level.
Abundance in Group 1: decreased abundance in Chronic Constipation (CC) patients
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroidaceae | ||
| Bacteroidota | ||
| Prevotellaceae | ||
| Pseudomonadota | ||
| Streptococcaceae |
Revision editor(s): Oriade-designs, Aiyshaaaa
Experiment 2
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Normal-transit constipation (NTC)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Slow-transit constipation (STC)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Individuals diagnosed with Slow-Transit Constipation (STC).
- Group 0 sample size Number of subjects in the control (unexposed) group
- 22
- Group 1 sample size Number of subjects in the case (exposed) group
- 31
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 1 month
Lab analysis
Statistical Analysis
Signature 1
Source: Figure 3a and 3b
Description: Statistic analysis of bacterium in the family and phylum level in STC and NTC groups
Abundance in Group 1: increased abundance in Slow-transit constipation (STC)
| NCBI | Quality Control | Links |
|---|---|---|
| Bacillota | ||
| Christensenellaceae | ||
| Coriobacteriaceae | ||
| Peptostreptococcaceae |
Revision editor(s): Oriade-designs, Aiyshaaaa
Signature 2
Source: Figure 3a and 3b
Description: Statistic analysis of bacterium in the phylum level in STC and NTC groups
Abundance in Group 1: decreased abundance in Slow-transit constipation (STC)
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroidaceae | ||
| Bacteroidota | ||
| Prevotellaceae |
Revision editor(s): Oriade-designs, Aiyshaaaa
Experiment 3
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Healthy Controls (HC)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Normal-transit constipation (NTC)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Individuals diagnosed with Normal-transit constipation (NTC)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 31
- Group 1 sample size Number of subjects in the case (exposed) group
- 22
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 1 Month
Lab analysis
Statistical Analysis
Signature 1
Source: Figure 3a&3b
Description: Statistic analysis of bacterium in the phylum and family level in NTC and HC groups.
Abundance in Group 1: increased abundance in Normal-transit constipation (NTC)
| NCBI | Quality Control | Links |
|---|---|---|
| Acidaminococcaceae | ||
| Actinomycetota | ||
| Bacillota | ||
| Bacteroidaceae | ||
| Bifidobacteriaceae | ||
| Enterobacteriaceae | ||
| Lachnospiraceae | ||
| Porphyromonadaceae | ||
| Verrucomicrobiaceae | ||
| Eubacteriales |
Revision editor(s): Oriade-designs, Aiyshaaaa
Signature 2
Source: Figure 3a and 3b
Description: Statistic analysis of bacterium in the family and phylum level in NTC and HC groups.
Abundance in Group 1: decreased abundance in Normal-transit constipation (NTC)
| NCBI | Quality Control | Links |
|---|---|---|
| Alcaligenaceae | ||
| Bacteroidota | ||
| Prevotellaceae | ||
| Pseudomonadota | ||
| Rikenellaceae | ||
| Staphylococcaceae | ||
| Streptococcaceae | ||
| Veillonellaceae |
Revision editor(s): Oriade-designs, Aiyshaaaa
Experiment 4
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Slow-Transit Constipation (STC)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Individuals diagnosed with conditions like Slow-Transit Constipation (STC)
- Group 1 sample size Number of subjects in the case (exposed) group
- 31
Lab analysis
Statistical Analysis
Signature 1
Source: Figure 3a and 3b
Description: Statistic analysis of bacterium in the phylum and family level in STC and HC groups.
Abundance in Group 1: increased abundance in Slow-Transit Constipation (STC)
Revision editor(s): Oriade-designs, Aiyshaaaa
Signature 2
Source: Figure 3a and 3b
Description: Statistic analysis of bacterium in the phylum and family level in STC and HC groups.
Abundance in Group 1: decreased abundance in Slow-Transit Constipation (STC)
| NCBI | Quality Control | Links |
|---|---|---|
| Alcaligenaceae | ||
| Bacteroidaceae | ||
| Prevotellaceae | ||
| Rikenellaceae | ||
| Streptococcaceae | ||
| Veillonellaceae | ||
| Bacteroidota | ||
| Pseudomonadota |
Revision editor(s): Oriade-designs, Aiyshaaaa
Experiment 5
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Non-dyssynergic defecation (non-DD)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Dyssynergic defecation (DD)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Individuals diagnosed with Dyssynergic Defecation (DD).
- 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
- 38
Lab analysis
Statistical Analysis
Signature 1
Source: Fig 3c and 3d
Description: Statistic analysis of bacterium in the phylum and family level in DD and non-DD group.
Abundance in Group 1: increased abundance in Dyssynergic defecation (DD)
| NCBI | Quality Control | Links |
|---|---|---|
| Acidaminococcaceae | ||
| Bacteroidaceae | ||
| Bacteroidota | ||
| Caryophanaceae | ||
| Oscillospiraceae | ||
| Porphyromonadaceae |
Revision editor(s): Aiyshaaaa, Oriade-designs
Signature 2
Source: Figure 3c and 3d
Description: Statistic analysis of bacterium in the phylum and family level in DD and non-DD groups.
Abundance in Group 1: decreased abundance in Dyssynergic defecation (DD)
| NCBI | Quality Control | Links |
|---|---|---|
| Bacillota | ||
| Enterobacteriaceae | ||
| Lachnospiraceae | ||
| Prevotellaceae | ||
| Pseudomonadota | ||
| Veillonellaceae |
Revision editor(s): Aiyshaaaa, Oriade-designs
Experiment 6
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Healthy Controls (HC)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 31
Lab analysis
Statistical Analysis
Signature 1
Source: Figure 3c and 3d
Description: Statistic analysis of bacterium in the phylum and family level in DD and HC groups.
Abundance in Group 1: increased abundance in Dyssynergic defecation (DD)
| NCBI | Quality Control | Links |
|---|---|---|
| Acidaminococcaceae | ||
| Bacillota | ||
| Bifidobacteriaceae | ||
| Caryophanaceae | ||
| Oscillospiraceae | ||
| Porphyromonadaceae |
Revision editor(s): Aiyshaaaa, Oriade-designs
Signature 2
Source: Fig 3c and 3d
Description: Statistic analysis of bacterium in the phylum and family level in DD and HC groups.
Abundance in Group 1: decreased abundance in Dyssynergic defecation (DD)
| NCBI | Quality Control | Links |
|---|---|---|
| Alcaligenaceae | ||
| Bacteroidaceae | ||
| Bacteroidota | ||
| Prevotellaceae | ||
| Pseudomonadota | ||
| Streptococcaceae | ||
| Veillonellaceae |
Revision editor(s): Aiyshaaaa, Oriade-designs
Experiment 7
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Non-dyssynergic defecation (non-DD)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Individuals who has been catergorized as Non-Dyssynergic Defecation (non-DD).
- Group 1 sample size Number of subjects in the case (exposed) group
- 15
Lab analysis
Statistical Analysis
Signature 1
Source: Figure 3c and 3d
Description: Statistic analysis of bacterium in the phylum level in non-DD and HC groups.
Abundance in Group 1: increased abundance in Non-dyssynergic defecation (non-DD)
| NCBI | Quality Control | Links |
|---|---|---|
| Bacillota | ||
| Bifidobacteriaceae | ||
| Caryophanaceae | ||
| Coriobacteriaceae | ||
| Enterobacteriaceae | ||
| Lachnospiraceae | ||
| Oscillospiraceae | ||
| Pseudomonadota |
Revision editor(s): Aiyshaaaa, Oriade-designs
Signature 2
Source: Fig 3c and 3d
Description: Statistic analysis of bacterium in the phylum and family level in non-DD and HC groups.
Abundance in Group 1: decreased abundance in Non-dyssynergic defecation (non-DD)
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroidota | ||
| Bacteroidaceae | ||
| Prevotellaceae | ||
| Acidaminococcaceae | ||
| Veillonellaceae | ||
| Streptococcaceae | ||
| Rikenellaceae | ||
| Porphyromonadaceae | ||
| Alcaligenaceae |
Revision editor(s): Aiyshaaaa
