Self-Balance of Intestinal Flora in Spouses of Patients With Rheumatoid Arthritis

From BugSigDB
Needs review
study design
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
URI
Authors
Liu Z, Wu Y, Luo Y, Wei S, Lu C, Zhou Y, Wang J, Miao T, Lin H, Zhao Y, Liu Q, Liu Y
Journal
Frontiers in medicine
Year
2020
Keywords:
16S rRNA sequencing, environment/gene interaction, gut microbiota, rheumatoid arthritis, spouses
We sought to characterize and assess differences in compositions of intestinal flora between patients with rheumatoid arthritis (RA) and their respective spouses. Eighty volunteers were recruited, including 30 pairs of RA patients and their spouses, and 20 healthy individuals. Fresh stool samples were collected, processed, and 16S rRNA-sequencing was performed. Data were analyzed using an operational taxonomic units-based method, and community structure assessments were performed. Community composition analysis indicated that there were similar intestinal microbiota structures in RA and in their respective spouses. Gut microbiota in spouses of RA were different from those of the healthy controls group, but these differences were not significant. We found that Blautia spp. and Streptococcus spp. were two most associated species in RA and these taxa were significantly higher in comparison to healthy controls. In contrast, our findings suggested that Roseburia spp. and Lachnoclostridium spp. were significantly lower in the RA in comparison to healthy controls. In conclusion, RA patients shared similar gut microbiota pattern with their spouses which were different from healthy individuals. The findings suggest that disturbance of the balance of gut microbiota may play an important role in the dynamics of pathogenesis of RA.

Experiment 1


Needs review

Curated date: 2021/10/16

Curator: Tislam

Revision editor(s): Tislam, WikiWorks

Subjects

Location of subjects
China
Host species Species from which microbiome was sampled (if applicable)
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
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
rheumatoid arthritis Arthritis or polyarthritis, rheumatic,arthritis or polyarthritis, rheumatic,Arthritis, Rheumatoid,arthritis, rheumatoid,atrophic Arthritis,atrophic arthritis,autoimmune arthritis,Chronic rheumatic arthritis,Proliferative arthritis,RA,RA - Rheumatoid arthritis,RhA - Rheumatoid arthritis,Rheumatic gout,rheumatoid arthritis,Rheumatoid arthritis (disorder),Rheumatoid arthritis NOS,Rheumatoid arthritis NOS (disorder),rheumatoid arthritis, susceptibility to,Rheumatoid disease
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
rheumatoid arthritis patient
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
rheumatoid arthritis patient
Group 0 sample size Number of subjects in the control (unexposed) group
20
Group 1 sample size Number of subjects in the case (exposed) group
30
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
Potential volunteer enrolees (including patients and or healthy individuals) were excluded from this study if having: (1) ingested antibiotics in the last 6 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

Statistical test
LEfSe
Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
.05
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
Matched on Factors on which subjects have been matched on in a case-control study
sex, age

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
decreased
Chao1 Abundance-based estimator of species richness
decreased
Simpson Estimator of species richness and species evenness: more weight on species evenness
decreased

Signature 1

incomplete

Curated date: 2021/10/16

Curator: Tislam

Revision editor(s): Tislam

Source: Figure 3, text

Description: Discriminant analysis of LEfSe multistage species difference.

Abundance in Group 1: decreased abundance in rheumatoid arthritis patient

NCBI Quality ControlLinks
Roseburia
Lachnoclostridium

Revision editor(s): Tislam

Signature 2

incomplete

Curated date: 2021/10/19

Curator: Tislam

Revision editor(s): Tislam

Source: Figure 3, text

Description: Discriminant analysis of LEfSe multistage species difference. It can be seen from the figure that, among the three groups, the abundance peaks of species with significant differences were distributed in RA and HC, respectively, and there was no peak in the SP group.

Abundance in Group 1: decreased abundance in rheumatoid arthritis patient

NCBI Quality ControlLinks
Roseburia
Lachnoclostridium
Acidimicrobiales
Bacteroidales
Mycoplasmataceae
Erysipelotrichaceae
Candidatus Microthrix
Mycoplasma
Mycoplasmatales
Thermoactinomycetaceae
Gallicola
Kroppenstedtia
Veillonellaceae

Revision editor(s): Tislam

Signature 3

incomplete

Curated date: 2021/10/19

Curator: Tislam

Revision editor(s): Tislam

Source: Figure 3, text

Description: Discriminant analysis of LEfSe multistage species difference. It can be seen from the figure that, among the three groups, the abundance peaks of species with significant differences were distributed in RA and HC, respectively, and there was no peak in the SP group.

Abundance in Group 1: decreased abundance in rheumatoid arthritis patient

NCBI Quality ControlLinks

Revision editor(s): Tislam

Signature 4

incomplete

Curated date: 2021/10/19

Curator: Tislam

Revision editor(s): Tislam

Source: Figure 3, text

Description:

Abundance in Group 1: decreased abundance in rheumatoid arthritis patient

NCBI Quality ControlLinks
Roseburia

Revision editor(s): Tislam

Signature 5

Needs review

Curated date: 2021/10/19

Curator: Tislam

Revision editor(s): Tislam

Source: Figure 3, text

Description: Discriminant analysis of LEfSe multistage species difference.

Abundance in Group 1: decreased abundance in rheumatoid arthritis patient

NCBI Quality ControlLinks
Roseburia

Revision editor(s): Tislam

Signature 6

incomplete

Curated date: 2021/10/19

Curator: Tislam

Revision editor(s): Tislam

Source: Figure 3, text

Description: Discriminant analysis of LEfSe multistage species difference.

Abundance in Group 1: decreased abundance in rheumatoid arthritis patient

NCBI Quality ControlLinks
Roseburia

Revision editor(s): Tislam

Signature 7

incomplete

Curated date: 2021/10/20

Curator: Fatima

Revision editor(s): Fatima

Source: Figure1

Description:

Abundance in Group 1: increased abundance in rheumatoid arthritis patient

NCBI Quality ControlLinks
Abiotrophia

Revision editor(s): Fatima

Signature 8

Needs review

Curated date: 2021/10/20

Curator: Fatima

Revision editor(s): Fatima

Source: Figure1

Description:

Abundance in Group 1: decreased abundance in rheumatoid arthritis patient

NCBI Quality ControlLinks
Acetitomaculum

Revision editor(s): Fatima

Signature 9

incomplete

Curated date: 2021/10/20

Curator: Tislam

Revision editor(s): Tislam

Source: Figure 3, text

Description:

Abundance in Group 1:
NCBI Quality ControlLinks

Revision editor(s): Tislam

Signature 10

incomplete

Curated date: 2021/10/21

Curator: Tislam

Revision editor(s): Tislam

Source: Figure 3, text

Description:

Abundance in Group 1:
NCBI Quality ControlLinks
Roseburia

Revision editor(s): Tislam