Correlation Analysis between Gut Microbiota and Metabolites in Children with Systemic Lupus Erythematosus

Study information

Reviewed Marked as Reviewed by Claregrieve1 on 2023-4-14

study design

cross-sectional observational, not case-control

Citation

PMID PubMed identifier for scientific articles.

34341764

DOI Digital object identifier for electronic documents.

https://doi.org/10.1155%2F2021%2F5579608

URI

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8325587/

Authors

Wen M, Liu T, Zhao M, Dang X, Feng S, Ding X, Xu Z, Huang X, Lin Q, Xiang W, Li X, He X, He Q

Journal

Journal of immunology research

Year

2021

Systemic lupus erythematosus (SLE) is an autoimmune-mediated diffuse connective tissue disease characterized by immune inflammation with an unclear aetiology and pathogenesis. This work profiled the intestinal flora and faecal metabolome of patients with SLE using 16S RNA sequencing and gas chromatography-mass spectrometry (GC-MS). We identified unchanged alpha diversity and partially altered beta diversity of the intestinal flora. Another important finding was the increase in Proteobacteria and Enterobacteriales and the decrease in Ruminococcaceae among SLE patients. For metabolites, amino acids and short-chain fatty acids were enriched when long-chain fatty acids were downregulated in SLE faecal samples. KEGG analysis showed the significance of the protein digestion and absorption pathway, and association analysis revealed the key role of 3-phenylpropanoic acid and Sphingomonas. Sphingomonas were reported to be less abundant in healthy periodontal sites of SLE patients than in those of HCs, indicating transmission of oral species to the gut. This study contributes to the understanding of the pathogenesis of SLE disease from the perspective of intestinal microorganisms, explains the pathogenesis of SLE, and serves as a basis for exploring potential treatments for the disease.

Experiment 1

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Reviewed Marked as Reviewed by Claregrieve1 on 2023-4-14

Curated date: 2023/03/19

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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: Systemic lupus erythematosus Disease, Libman-Sacks,disseminated lupus erythematosus,excess LMW-DNA,excess lymphocyte low molecular weight DNA,LIBMAN SACKS DIS,Libman Sacks Disease,Libman-Sacks Disease,lupus,Lupus Erythematosus Disseminatus,Lupus Erythematosus, Systemic,lupus erythematosus, systemic,SLE,SLE - lupus erythematosus, systemic,systemic lupus erythematosus,systemic lupus erythematosus (disease),Systemic lupus erythematosus

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

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

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: Individuals who have been diagnosed with systemic lupus erythematosus (SLE). Systemic lupus erythematosus (SLE) is an autoimmune-mediated diffuse connective tissue disease characterized by immune inflammation with an unclear aetiology and pathogenesis.

Group 0 sample size Number of subjects in the control (unexposed) group: 28

Group 1 sample size Number of subjects in the case (exposed) group: 33

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: V4-V5

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: unchanged

Signature 1

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Curated date: 2023/03/20

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Source: Table 2

Description: The differently abundant species at genus, class, phylum, order and family level in both the groups are listed.

Abundance in Group 1: increased abundance in

NCBI	Quality Control	Links
Alphaproteobacteria
Bacilli
Caulobacteraceae
Caulobacterales
Enterobacterales
Enterobacteriaceae
Escherichia/Shigella sp.
Gammaproteobacteria
Hungatella
Klebsiella
Kluyvera
Lachnoclostridium
Lactobacillales
Pseudomonadota
Rhodanobacteraceae
Rudaea
Sphingomonadaceae
Sphingomonadales
Sphingomonas
Streptococcaceae
Streptococcus
Thomasclavelia
Lysobacterales
[Clostridium] innocuum
Mediterraneibacter gnavus

Revision editor(s): Aiyshaaaa, WikiWorks

Signature 2

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Curated date: 2023/03/20

Curator: Aiyshaaaa

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Source: Table 2

Description: The differently abundant species at genus, class, phylum, order and family level in both the groups are listed in this table.

Abundance in Group 1: decreased abundance in

NCBI	Quality Control	Links
Agathobacter
Akkermansia
Akkermansiaceae
Christensenellaceae
Dialister
Dorea
Eubacterium coprostanoligenes
Faecalibacterium
Fusicatenibacter
Lachnospiraceae bacterium NC2004
Lachnospiraceae bacterium NK4A136
Odoribacter
Oscillospiraceae
Subdoligranulum
Lachnospira eligens

Revision editor(s): Aiyshaaaa, WikiWorks