A comparative study of the gut microbiota in immune-mediated inflammatory diseases-does a common dysbiosis exist?/Experiment 3

From BugSigDB


Reviewed Marked as Reviewed by Fatima on 2022/05/17

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, ChiomaBlessing

Subjects

Location of subjects
Canada
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
Multiple sclerosis Disseminated Sclerosis,generalized multiple sclerosis,insular sclerosis,MS,MS (Multiple Sclerosis),multiple sclerosis,MULTIPLE SCLEROSIS ACUTE FULMINATING,Multiple Sclerosis, Acute Fulminating,Sclerosis, Disseminated,Sclerosis, Multiple,Multiple sclerosis
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
multiple sceloris
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
patients with immune-mediated inflammatory disease (IMID)
Group 0 sample size Number of subjects in the control (unexposed) group
23
Group 1 sample size Number of subjects in the case (exposed) group
19
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
8 weeks

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
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
Kruskall-Wallis
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)?
Yes

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
decreased
Simpson Estimator of species richness and species evenness: more weight on species evenness
decreased

Signature 1

Reviewed Marked as Reviewed by Fatima on 2022/05/17

Curated date: 2021/01/10

Curator: Fatima Zohra

Revision editor(s): WikiWorks, Merit, ChiomaBlessing

Source: Table 2

Description: Abundant taxa in Multiple sclerosis patients microbiota relative to healthy controls (HC)

Abundance in Group 1: increased abundance in multiple sceloris

NCBI Quality ControlLinks
Actinomyces
Anaerofustis
Clostridia
Clostridiaceae
Clostridium
Eggerthella
Faecalicoccus
Streptococcus
Turicibacter

Revision editor(s): WikiWorks, Merit, ChiomaBlessing

Signature 2

Reviewed Marked as Reviewed by Fatima on 2022/05/17

Curated date: 2021/01/10

Curator: Fatima Zohra

Revision editor(s): WikiWorks, ChiomaBlessing

Source: Table 2

Description: Abundant taxa in Multiple sclerosis patients microbiota relative to healthy controls (HC)

Abundance in Group 1: decreased abundance in multiple sceloris

NCBI Quality ControlLinks
Butyricicoccus
Dialister
Faecalibacterium
Fusicatenibacter
Gemmiger
Lachnospira
Sporobacterium
Subdoligranulum

Revision editor(s): WikiWorks, ChiomaBlessing