Mucosa-associated gut microbiome in Japanese patients with functional constipation/Experiment 2

From BugSigDB


Reviewed Marked as Reviewed by Svetlana up on 2025-3-19

Curated date: 2025/03/17

Curator: Tosin

Revision editor(s): Tosin

Subjects

Location of subjects
Japan
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
Mucus Mucus,mucus
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Chronic constipation Chronic constipation,Infrequent bowel movements,chronic constipation
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
Patients with Functional constipation (FC)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Male patients diagnosed with functional constipation according to the Rome IV criteria with average age of 71.4 years (37–84)
Group 0 sample size Number of subjects in the control (unexposed) group
14
Group 1 sample size Number of subjects in the case (exposed) group
15

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
Matched on Factors on which subjects have been matched on in a case-control study
age

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged
Chao1 Abundance-based estimator of species richness
unchanged
Richness Number of species
unchanged

Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2025-3-19

Curated date: 2025/03/17

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 3

Description: Differential abundant taxa between the constipation group and healthy controls

Abundance in Group 1: increased abundance in Patients with Functional constipation (FC)

NCBI Quality ControlLinks
Alistipes
Bacteroidales
Bacteroidia
Bacteroidota
Betaproteobacteria
Comamonas
Fusobacterium
Streptococcus
TM73TM73
Candidatus Saccharimonadota

Revision editor(s): Tosin

Signature 2

Reviewed Marked as Reviewed by Svetlana up on 2025-3-19

Curated date: 2025/03/17

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 3

Description: Differential abundant taxa between the constipation group and Healthy controls

Abundance in Group 1: decreased abundance in Patients with Functional constipation (FC)

NCBI Quality ControlLinks
Acinetobacter
Alphaproteobacteria
Anaerotruncus
Bacillales
Deferribacteraceae
Deferribacterales
Deferribacteres
Deferribacterota
Moraxellaceae
Mucispirillum
Oscillospira
Propionibacteriaceae
Propionibacterium
Pseudomonadales
Rickettsiales
unclassified Eubacteriales
unclassified Lachnospiraceae
unclassified Pseudomonadota
Muribaculaceae

Revision editor(s): Tosin