Altered composition of the gut microbiome in patients with drug-resistant epilepsy

Study information

Reviewed Marked as Reviewed by Lwaldron on 2021/12/16

study design

cross-sectional observational, not case-control

Citation

PMID PubMed identifier for scientific articles.

30291996

DOI Digital object identifier for electronic documents.

10.1016/j.eplepsyres.2018.09.013

URI

Authors

Peng A, Qiu X, Lai W, Li W, Zhang L, Zhu X, He S, Duan J, Chen L

Journal

Epilepsy research

Year

2018

Keywords:

Drug-resistant epilepsy, Epilepsy, Microbiome, Microbiota, Ruminococcus

OBJECTIVE: The relationship between the gut microbiota and the central nervous system has been gradually recognized while whether microbiome plays a role in the pathogenesis of drug-resistant epilepsy is still unknown. The aim of our work was to explore whether dysbiosis is involved in the mechanism of drug-resistant epilepsy. METHODS: Patients with epilepsy attending West China Hospital of Sichuan University were enrolled from March to May 2017. Patients were grouped into drug-resistant (n = 42) and drug-sensitive (n = 49) groups, another 65 healthy controls were from the same families of the patients. The fecal samples were collected and the microbiome composition was analyzed by high-throughout sequencing of the 16s ribosomal DNA. RESULTS: We found that the gut microbial community of drug-resistant epilepsy was significantly altered with an abnormal increased abundance of rare flora. While the gut microbiome composition of drug-sensitive epilepsy was similar with that of healthy controls. Specifically, patients with four seizures per year or fewer showed an increase of Bifidobacteria and Lactobacillus than those with more than four seizures per year. CONCLUSIONS: Dysbiosis may be involved in the mechanism of drug-resistant epilepsy and restoring the gut microbial community may be a novel therapeutic method for drug-resistant epilepsy.

Experiment 1

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Reviewed Marked as Reviewed by Lwaldron on 2021/12/16

Curated date: 2021/12/16

Curator: Fatima

Revision editor(s): Fatima, WikiWorks, 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: Epilepsy [X]Other epilepsy,[X]Other epilepsy (disorder),EF - Epileptic fit,EP - Epilepsy,Epilectic attack, NOS,EPILEP NEC W/O INTR EPIL,EPILEP NOS W/O INTR EPIL,epilepsy,Epilepsy (disorder),Epilepsy and recurrent seizures,EPILEPSY NEC W INTR EPIL,Epilepsy NOS,Epilepsy NOS (disorder),EPILEPSY NOS W INTR EPIL,Epilepsy, NOS,Epilepsy, unspecified,Epilepsy, unspecified, with intractable epilepsy,Epilepsy, unspecified, without mention of intractable epilepsy,Epileptic,Epileptic attack,Epileptic attack, NOS,Epileptic convulsions,Epileptic convulsions, NOS,Epileptic disorder,Epileptic disorder, NOS,Epileptic fit,Epileptic fits,Epileptic fits, NOS,Epileptic Seizure,Epileptic seizure (finding),Epileptic seizures,Epileptic seizures, NOS,Generalised convulsion,Generalised fit,Generalised seizure,Generalized convulsion,Generalized fit,Generalized seizure,Generalized seizure (finding),Other forms of epilepsy,Other forms of epilepsy (disorder),Other forms of epilepsy and recurrent seizures,Other forms of epilepsy NOS,Other forms of epilepsy NOS (disorder),Other forms of epilepsy, with intractable epilepsy,Other forms of epilepsy, without mention of intractable epilepsy,Seizure disorder,seizure disorder,Seizure disorder (disorder),Epilepsy

Group 0 name Corresponds to the control (unexposed) group for case-control studies: Drug sensitive epilepsy

Group 1 name Corresponds to the case (exposed) group for case-control studies: Drug resistant epilepsy

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: Drug resistant epilepsy patients were defined according to the 2015 International League Against Epilepsy (ILAE)

Group 0 sample size Number of subjects in the control (unexposed) group: 49

Group 1 sample size Number of subjects in the case (exposed) group: 42

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

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: increased

Chao1 Abundance-based estimator of species richness: increased

Simpson Estimator of species richness and species evenness: more weight on species evenness: increased

Signature 1

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Reviewed Marked as Reviewed by Lwaldron on 2021/12/16

Curated date: 2021/12/16

Curator: Fatima

Revision editor(s): Fatima

Source: Figure 2

Description: Lefse analysis showing microbiome differences in patients with drug sensitive epilepsy and drug sensitive epilepsy

Abundance in Group 1: decreased abundance in Drug resistant epilepsy

NCBI	Quality Control	Links
Bacteria
Bacteroidaceae
Bacteroidales
Bacteroides
Bacteroidota
Bacteroidia
Barnesiella

Revision editor(s): Fatima

Signature 2

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Reviewed Marked as Reviewed by Fatima on 2022/02/16

Curated date: 2021/12/16

Curator: Fatima

Revision editor(s): Fatima

Source: Figure 2

Description: Lefse analysis showing microbiome differences among drug resistance and drug sensitive epilepsy

Abundance in Group 1: increased abundance in Drug resistant epilepsy

NCBI	Quality Control	Links
Erysipelotrichia
Moraxellaceae
Bacillota
Lachnospiraceae
Negativicutes
Selenomonadales
Roseburia
Phascolarctobacterium
Acidaminococcaceae
Methanobacteria
Methanobacteriaceae
Methanobrevibacter
Methanobacteriales
Fusobacteriota
Fusobacteriia
Fusobacteriaceae
Fusobacteriales
Fusobacterium
Coprococcus
Neisseriales
Neisseria
Neisseriaceae
Archaea
Methanobacteriota
Verrucomicrobiales
Verrucomicrobiota
Akkermansia
Verrucomicrobiaceae
Verrucomicrobiia
Gemmiger
Ruminococcus
Paraprevotella
Coprobacillus
Delftia
Candidatus Saccharibacteria
Dorea
Holdemania
Erysipelotrichaceae
Atopobium
Erysipelotrichales

Revision editor(s): Fatima

Experiment 2

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Your review change was submittedDuplicate this Experiment Add a new Signature

Reviewed Marked as Reviewed by Lwaldron on 2021/12/16

Curated date: 2021/12/16

Curator: Fatima

Revision editor(s): Fatima, WikiWorks, Peace Sandy

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies: Healthy controls

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: Drug sensitive epilepsy patients were defined according to the 2015 International League Against Epilepsy (ILAE)