Gut microbiota in early pediatric multiple sclerosis: a case-control study/Experiment 3

From BugSigDB


Reviewed Marked as Reviewed by Atrayees on 2023-6-30

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Atrayees

Subjects

Location of subjects
United States of America
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
IMD naive cases multiple sclerosis
Group 0 sample size Number of subjects in the control (unexposed) group
16
Group 1 sample size Number of subjects in the case (exposed) group
9
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
2 months

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
Negative Binomial Regression
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

Richness Number of species
unchanged

Signature 1

Reviewed Marked as Reviewed by Atrayees on 2023-6-30

Curated date: 2021/01/10

Curator: Rimsha Azhar

Revision editor(s): Lwaldron, WikiWorks

Source: Supplementary Table 7a, Supp Table 7b

Description: Taxa enriched and depleted in the IMD naive cases vs. controls

Abundance in Group 1: increased abundance in IMD naive cases multiple sclerosis

NCBI Quality ControlLinks
Acidaminococcus
Akkermansia muciniphila
Atopobium
Bacteroides caccae
Bacteroides ovatus
Bifidobacterium
Bilophila
Blautia producta
Catenibacterium
Christensenellaceae
Comamonadaceae
Coprococcus
Coriobacteriaceae
Desulfovibrio
Dorea
Eubacteriales
Eubacterium
Faecalibacterium prausnitzii
Haemophilus parainfluenzae
Lachnospiraceae
Megamonas
Megasphaera
Methanobrevibacter
Oscillospira
Oscillospiraceae
Parabacteroides distasonis
Phascolarctobacterium
Phocaeicola plebeius
Segatella copri
Leyella stercorea
Pseudoramibacter
Ruminococcus
Sutterella
Veillonella dispar
Mediterraneibacter gnavus

Revision editor(s): Lwaldron, WikiWorks

Signature 2

Reviewed Marked as Reviewed by Atrayees on 2023-6-30

Curated date: 2021/01/10

Curator: Rimsha Azhar

Revision editor(s): WikiWorks

Source: Supplementary Table 7a, Supp Table 7b

Description: Taxa enriched and depleted in the IMD naive cases vs. controls

Abundance in Group 1: decreased abundance in IMD naive cases multiple sclerosis

NCBI Quality ControlLinks
Oscillospiraceae
Segatella copri
Ligilactobacillus ruminis
Paraprevotella
Lachnospiraceae
Rikenellaceae
Bacteroides
Ruminococcus
Parabacteroides distasonis
Bacteroides uniformis
Butyricimonas
Mitsuokella multacida
Coprococcus
Peptostreptococcus anaerobius
Anaerostipes
Akkermansia muciniphila
Bacteroides eggerthii
Sutterella
Faecalibacterium prausnitzii
Bacteroides fragilis
Catenibacterium
Dialister
Phocaeicola coprophilus
Bacteroides ovatus
Dorea

Revision editor(s): WikiWorks