Characteristics of the intestinal flora in patients with peripheral neuropathy associated with type 2 diabetes/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/22
Curated date: 2021/06/21
Curator: Madhubani Dey
Revision editor(s): WikiWorks, Rimsha, Madhubani Dey, Peace Sandy
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
- Diabetic neuropathy Amyotrophies, Diabetic,Amyotrophy, Diabetic,Asymmetric Polyneuropathy, Diabetic,Diabetic Amyotrophies,Diabetic Amyotrophy,Diabetic Asymmetric Polyneuropathies,Diabetic Asymmetric Polyneuropathy,Diabetic Autonomic Neuropathies,Diabetic Autonomic Neuropathy,Diabetic Mononeuropathies,Diabetic Mononeuropathy,Diabetic Mononeuropathy Simplex,Diabetic Mononeuropathy Simplices,diabetic neuropathies,diabetic neuropathy,Painful Diabetic Neuropathies,Painful Diabetic Neuropathy,Diabetic neuropathy
- 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
- Individuals diagnosed with peripheral neuropathy associated with type 2 diabetes
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Individuals diagnosed with peripheral neuropathy associated with type 2 diabetes; The criteria for DPN were as follows: spontaneous limb pain, symmetrical or unilateral limb numbness, sensation of dullness and body tension, muscle weakness, weakened or absent tendon reflexes, and significant decreases in sensory and motor nerve conduction velocities as revealed via electromyography indicating the positive involvement of two or more nerves and normal arterial pulses in the foot and back.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 14
- 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)
- 3 months
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V3-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)?
- No
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Signature 1
Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/22
Source: Figure 5a, 5b
Description: Differential abundance of bacterial communities in individuals with diabetic peripheral neuropathy compared with healthy controls
Abundance in Group 1: increased abundance in Individuals diagnosed with peripheral neuropathy associated with type 2 diabetes
| NCBI | Quality Control | Links |
|---|---|---|
| Actinomycetota | ||
| Blautia | ||
| Escherichia | ||
| Escherichia/Shigella sp. | ||
| Bacillota | ||
| Lachnoclostridium | ||
| Megasphaera | ||
| [Ruminococcus] torques |
Revision editor(s): Madhubani Dey, Claregrieve1
Signature 2
Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/22
Source: Figure 5a, 5b
Description: Differential abundance of bacterial communities in individuals with diabetic peripheral neuropathy compared with healthy controls
Abundance in Group 1: decreased abundance in Individuals diagnosed with peripheral neuropathy associated with type 2 diabetes
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroides | ||
| Bacteroidota | ||
| Faecalibacterium |
Revision editor(s): Madhubani Dey, Claregrieve1
