The alteration of gut microbiome and metabolism in amyotrophic lateral sclerosis patients
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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
Zeng Q, Shen J, Chen K, Zhou J, Liao Q, Lu K, Yuan J, Bi F
Journal
Scientific reports
Year
2020
Amyotrophic lateral sclerosis (ALS) is a neurodegenerative disease accompanied with severe paralysis or even death, while the pathogenesis of ALS is still unclear and no effective therapy exists. The accumulating evidence has indicated the association between gut microbiota and various neurological diseases. Thus, to explore the potential role of gut microbiome in ALS, 20 patients diagnosed with probable or definite ALS and 20 healthy controls were enrolled and their fecal excrements were collected. The analysis of fecal community diversity with 16S rDNA sequencing showed an obvious change in microbial structure of ALS patients, where Bacteroidetes at the phylum level and several microbes at the genus level were up-regulated, while Firmicutes at the phylum level and Megamonas at the genus level were down-regulated compared to healthy controls. Additionally, decreased gene function associated with metabolic pathways was observed in ALS patients. The metagenomics further demonstrated the discrepancies in microflora at the species level and relevant metabolites thereof were also revealed when combined with metabolomics. In conclusion, the altered composition of the gut microbiota and metabolic products in ALS patients provided deeper insights into the pathogenesis of ALS, and these biomarkers might be established as potential therapeutic targets which deserve further exploration.
Experiment 1
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
- amyotrophic lateral sclerosis ALS,ALS (Amyotrophic Lateral Sclerosis),ALS - Amyotrophic lateral sclerosis,amyotrophic lateral sclerosis,Amyotrophic lateral sclerosis (disorder),Amyotrophic Lateral Sclerosis With Dementia,Amyotrophic Lateral Sclerosis, Guam Form,Amyotrophic lateral sclerosis, Parkinsonism/Dementia complex of Guam,Amyotrophic Lateral Sclerosis-Parkinsonism/dementia Complex 1,AMYOTROPHIC SCLEROSIS,Bulbar motor neuron disease,Charcot disease,Dementia With Amyotrophic Lateral Sclerosis,Disease, Lou-Gehrigs,Gehrig Disease,Gehrig's Disease,GEHRIGS DIS,Gehrigs Disease,Guam Form of Amyotrophic Lateral Sclerosis,Lateral Scleroses, Amyotrophic,LOU GEHRIG DIS,Lou Gehrig Disease,Lou Gehrig disease,Lou Gehrig's Disease,Lou Gehrig's disease,LOU GEHRIGS DIS,Lou Gehrigs Disease,Lou-Gehrigs Disease,MOTOR NEURON DIS AMYOTROPHIC LATERAL SCLEROSIS,Motor Neuron Disease, Amyotrophic Lateral Sclerosis,Motor neuron disease, bulbar,motor neuron disease, bulbar,Sclerosis, Amyotrophic Lateral
- 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
- ALS patients
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients clinically diagnosed with probably or definite ALS according to the revised El Escorial criteria in the neurology department.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 20
- Group 1 sample size Number of subjects in the case (exposed) group
- 20
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V4
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Illumina
Statistical Analysis
- 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)?
- Yes
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 4
- Matched on Factors on which subjects have been matched on in a case-control study
- age
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- age
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Richness Number of species
- increased
Signature 1
Source: Figure 2
Description: Biomarkers with differential abundance between Amyotrophic lateral sclerosis (ALS) patients and healthy controls
Abundance in Group 1: increased abundance in ALS patients
NCBI | Quality Control | Links |
---|---|---|
Bacteroidales | ||
Bacteroidota | ||
Bacteroidia | ||
Porphyromonadaceae |
Revision editor(s): Fatima
Signature 2
Source: Figure 2
Description: Biomarkers with differential abundance between Amyotrophic lateral sclerosis (ALS) patients and healthy controls
Abundance in Group 1: decreased abundance in ALS patients
NCBI | Quality Control | Links |
---|---|---|
Megamonas | ||
Negativicutes | ||
Selenomonadales | ||
unclassified Megamonas | ||
Veillonellaceae |
Revision editor(s): Fatima
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