The Potential of Gut Microbiota in Prediction of Stroke-Associated Pneumonia

Study information

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Reviewed Marked as Reviewed by Svetlana up on 2024-10-22

study design

cross-sectional observational, not case-control

Citation

PMID PubMed identifier for scientific articles.

37626573

DOI Digital object identifier for electronic documents.

https://doi.org/10.3390/brainsci13081217

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

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Curated date: 2024/10/03

Curator: Tosin

Revision editor(s): Tosin

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

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Curated date: 2024/10/04

Curator: Tosin

Revision editor(s): Tosin

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)

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Bacilli
Butyrivibrio
Clostridium perfringens
Corynebacteriaceae
Corynebacterium
Lactobacillales
[Clostridium] innocuum
uncultured Lachnospiraceae bacterium
uncultured bacterium
uncultured organism

Revision editor(s): Tosin

Signature 2

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Curated date: 2024/10/04

Curator: Tosin

Revision editor(s): Tosin

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)

NCBI	Quality Control	Links
Bacteroidales
Bacteroidota
Butyricicoccus
Fusicatenibacter
Negativicutes
Selenomonadales
Sutterellaceae
butyrate-producing bacterium L2-12
uncultured organism
Clostridium_XIVbClostridium_XIVb

Revision editor(s): Tosin

Experiment 2

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Reviewed Marked as Reviewed by Svetlana up on 2024-10-22

Curated date: 2024/10/08

Curator: Tosin

Revision editor(s): Tosin

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

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Curated date: 2024/10/08

Curator: Tosin

Revision editor(s): Tosin

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)

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Bacteroides
Butyricicoccus
Butyricimonas
Coprococcus
Fusicatenibacter
Clostridium_XIVbClostridium_XIVb

Revision editor(s): Tosin

Signature 2

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Curated date: 2024/12/07

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Source: Figure S3

Description: Gut Microbiota with significantly different relative abundance between the SAP (stroke associated pneumonia) and non SAP groups at phylum and family level in Metastats analysis.

Abundance in Group 1: decreased abundance in Patients with stroke-associated Pnuemonia(SAP)

NCBI	Quality Control	Links
Bacteroidaceae
Bacteroidota
Sutterellaceae
Veillonellaceae

Revision editor(s): Tosin