The Potential of Gut Microbiota in Prediction of Stroke-Associated Pneumonia
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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
Li Z, Gu M, Sun H, Chen X, Zhou J, Zhang Y
Journal
Brain sciences
Year
2023
Keywords:
gut microbiota, predictor, short-chain fatty acids, stroke, stroke-associated pneumonia
BACKGROUND: Stroke-associated pneumonia (SAP) is a common stroke complication, and the changes in the gut microbiota composition may play a role. Our study aimed to evaluate the predictive ability of gut microbiota for SAP. METHODS: Acute ischemic stroke patients were prospectively enrolled and divided into two groups based on the presence or absence of SAP. The composition of gut microbiota was characterized by the 16S RNA Miseq sequencing. The gut microbiota that differed significantly between groups were incorporated into the conventional risk scores, the Acute Ischemic Stroke-Associated Pneumonia Score (AIS-APS), and the Age, Atrial fibrillation, Dysphagia, Sex, Stroke Severity Score (A2DS2). The predictive performances were assessed in terms of the area under the curve (AUC), the Net Reclassification Improvement (NRI), and the Integrated Discrimination Improvement (IDI) indices. RESULTS: A total of 135 patients were enrolled, of whom 43 had SAP (31%). The short-chain fatty acids (SCFAs)-producing bacteria, such as Bacteroides, Fusicatenibacter, and Butyricicoccus, were decreased in the SAP group. The integrated models showed better predictive ability for SAP (AUC = 0.813, NRI = 0.333, p = 0.052, IDI = 0.038, p = 0.018, for AIS-APS; AUC = 0.816, NRI = 0.575, p < 0.001, IDI = 0.043, p = 0.007, for A2DS2) in comparison to the differential genera (AUC = 0.699) and each predictive score (AUCAISAPS = 0.777; AUCA2DS2 = 0.777). CONCLUSIONS: The lower abundance of SCFAs-producing gut microbiota after acute ischemic stroke was associated with SAP and may play a role in SAP prediction.
Experiment 1
Reviewed Marked as Reviewed by Svetlana up on 2024-10-22
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
- Ischemic stroke Ischaemic stroke,Ischemic stroke,ischemic stroke
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Patients without stroke-associated pneumonia (non-SAP)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Patients with stroke-associated pneumonia (SAP)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients who developed stroke-associated pneumonia after an acute ischemic stroke often due to immune suppression and difficulty swallowing.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 92
- Group 1 sample size Number of subjects in the case (exposed) group
- 43
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 30 days
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
- 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
- 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
- increased
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2024-10-22
Source: Figure 3b
Description: LEfSe of gut microbiota with significantly differential bacteria between two groups.(SAP and non-SAP). The analysis highlights the increased relative abundances of certain taxa in the SAP group. These taxa are identified as key microbial features distinguishing the SAP group from the NSAP group, potentially playing a role in the development of stroke-associated pneumonia.
Abundance in Group 1: increased abundance in Patients with stroke-associated pneumonia (SAP)
Revision editor(s): Tosin
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2024-10-22
Source: Figure 3b
Description: LEfSe of gut microbiota with significantly differential between two groups.(SAP and Non SAP). The analysis highlights the decreased relative abundances of certain taxa in the SAP group, where they may indicate a protective role against the development of stroke-associated pneumonia.
Abundance in Group 1: decreased abundance in Patients with stroke-associated pneumonia (SAP)
Revision editor(s): Tosin
Experiment 2
Reviewed Marked as Reviewed by Svetlana up on 2024-10-22
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Patients without stroke-associated Pnuemonia(non-SAP)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Patients with stroke-associated Pnuemonia(SAP)
Lab analysis
Statistical Analysis
- Statistical test
- Metastats
- 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
- Not specified
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
- increased
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2024-10-22
Source: Figure 2
Description: Gut microbiota with significantly different relative abundance between the two groups (SAP and non-SAP) at genus level in Metastats analysis where certain taxas were more enriched in the SAP group potentially contributing to the altered gut microbiota observed in the patients.
Abundance in Group 1: increased abundance in Patients with stroke-associated Pnuemonia(SAP)
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroides | ||
| Butyricicoccus | ||
| Butyricimonas | ||
| Coprococcus | ||
| Fusicatenibacter | ||
| Clostridium_XIVbClostridium_XIVb |
Revision editor(s): Tosin
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