Gut Microbiota Features in Young Children With Autism Spectrum Disorders
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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.
URI
Authors
Coretti L, Paparo L, Riccio MP, Amato F, Cuomo M, Natale A, Borrelli L, Corrado G, Comegna M, Buommino E, Castaldo G, Bravaccio C, Chiariotti L, Berni Canani R, Lembo F
Journal
Frontiers in microbiology
Year
2018
Keywords:
ASD, Bifidobacterium longum, Faecalibacterium prausnitzii, butyrate, gut microbiome, propionate, short chain fatty acids
Proliferation and/or depletion of clusters of specific bacteria regulate intestinal functions and may interfere with neuro-immune communication and behavior in patients with autism spectrum disorder (ASD). Consistently, qualitative and quantitative alteration of bacterial metabolites may functionally affect ASD pathophysiology. Up to date, age-restricted cohort studies, that may potentially help to identify specific microbial signatures in ASD, are lacking. We investigated the gut microbiota (GM) structure and fecal short chain fatty acids (SCFAs) levels in a cohort of young children (2-4 years of age) with ASD, with respect to age-matched neurotypical healthy controls. Strong increase of Bacteroidetes and Proteobacteria and decrease of Actinobacteria was observed in these patients. Among the 91 OTUs whose relative abundance was altered in ASD patients, we observed a striking depletion of Bifidobacterium longum, one of the dominant bacteria in infant GM and, conversely, an increase of Faecalibacterium prausnitzii, a late colonizer of healthy human gut and a major butyrate producer. High levels of F. prausnitzii were associated to increase of fecal butyrate levels within normal range, and over representation of KEGG functions related to butyrate production in ASD patients. Here we report unbalance of GM structure with a shift in colonization by gut beneficial bacterial species in ASD patients as off early childhood.
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
- Autism spectrum disorder atypical autism,autism spectrum disease,autism spectrum disorder,Autism Spectrum Disorders,autistic spectrum disorder,CHILD DEVELOPMENT DIS PERVASIVE,Child Development Disorders, Pervasive,Development Disorder, Pervasive,Development Disorders, Pervasive,Disorder, Autism Spectrum,Disorder, Pervasive Development,Disorders, Autism Spectrum,Disorders, Pervasive Development,PDD,PERVASIVE CHILD DEVELOPMENT DIS,Pervasive Child Development Disorders,Pervasive Development Disorder,Pervasive Development Disorders,pervasive developmental disorder - not otherwise specified,pervasive developmental disorders,Spectrum Disorder, Autism,Spectrum Disorders, Autism,Autism spectrum disorder
- 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
- Children with Autism Spectrum Disorder (ASD)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Diagnosis of autism spectrum disorder was made according to the Diagnostic and Statistical Manual of Mental Disorders - Fifth Edition (DSM-5)
- 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
- 11
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 4 weeks
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V3-V4
- 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
- Kruskall-Wallis
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.05
- Matched on Factors on which subjects have been matched on in a case-control study
- age
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
Signature 1
Source: Figure 2
Description: Taxonomic differences of gut microbiota between healthy controls and ASD groups
Abundance in Group 1: increased abundance in Children with Autism Spectrum Disorder (ASD)
| NCBI | Quality Control | Links |
|---|---|---|
| Pseudomonadota | ||
| Bacteroidia |
Revision editor(s): AlishaM
Signature 2
Source: Figure 2
Description: Taxonomic differences of gut microbiota between healthy controls and ASD groups
Abundance in Group 1: decreased abundance in Children with Autism Spectrum Disorder (ASD)
| NCBI | Quality Control | Links |
|---|---|---|
| Actinomycetota | ||
| Streptococcaceae | ||
| Coriobacteriaceae | ||
| Bifidobacteriaceae | ||
| Actinomycetaceae |
Revision editor(s): AlishaM
Experiment 2
Differences from previous experiment shown
Subjects
Lab analysis
Statistical Analysis
- 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
- 2
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
Signature 1
Source: Table 3, Supplementary Table S1
Description: Comparison of relative abundances of each OTU identified in ASD patients and healthy controls
Abundance in Group 1: increased abundance in Children with Autism Spectrum Disorder (ASD)
| NCBI | Quality Control | Links |
|---|---|---|
| Lachnospiraceae | ||
| Oscillospiraceae | ||
| Bacteroidaceae | ||
| Enterobacteriaceae | ||
| Pasteurellaceae | ||
| Peptostreptococcaceae | ||
| Porphyromonadaceae |
Revision editor(s): AlishaM
Signature 2
Source: Figure 3, Supplementary Table S1
Description: Comparison of relative abundances of each OTU identified in ASD patients and healthy controls
Abundance in Group 1: decreased abundance in Children with Autism Spectrum Disorder (ASD)
| NCBI | Quality Control | Links |
|---|---|---|
| Gemellaceae | ||
| Lachnospiraceae | ||
| Actinomycetaceae | ||
| Streptococcaceae | ||
| Coriobacteriaceae | ||
| Aerococcaceae | ||
| Corynebacteriaceae | ||
| Bifidobacteriaceae |
Revision editor(s): AlishaM
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