The gut microbiome and metabolites are altered and interrelated in patients with functional constipation/Experiment 1

From BugSigDB


Reviewed Marked as Reviewed by Svetlana up on 2025-4-15

Curated date: 2025/03/18

Curator: Daberechi

Revision editor(s): Daberechi, Tosin

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
Chronic constipation Chronic constipation,Infrequent bowel movements,chronic constipation
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Healthy control
Group 1 name Corresponds to the case (exposed) group for case-control studies
Functional Constipation
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Patients diagnosed with Functional Constipation by physicians according to the Rome IV diagnostic criteria.
Group 0 sample size Number of subjects in the control (unexposed) group
21
Group 1 sample size Number of subjects in the case (exposed) group
21
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
1 month

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
T-Test
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
Matched on Factors on which subjects have been matched on in a case-control study
age, body mass index, sex

Alpha Diversity

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

Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2025-4-15

Curated date: 2025/03/18

Curator: Daberechi

Revision editor(s): Daberechi, Tosin

Source: Figure 1E and Table S1

Description: Differential microbiome of the FC (Functional constipation) and HC (Healthy control) groups at the genus levels

Abundance in Group 1: increased abundance in Functional Constipation

NCBI Quality ControlLinks
Akkermansia
Anaerobutyricum hallii
Bacteria incertae sedis
Barnesiella
Colidextribacter
Eubacterium coprostanoligenes
Eubacterium ruminantium
Flavonifractor
Intestinibacter
Klebsiella
Lachnoclostridium
Lachnospira
Lachnospira eligens
Lachnospiraceae bacterium NK4A136
Oscillibacter
Parabacteroides
[Eubacterium] siraeum
Lachnospiraceae UCG 004Lachnospiraceae UCG 004
Lachnospiraceae UCG 010Lachnospiraceae UCG 010
UCG-005UCG-005
UCG-003UCG-003
Oscillospiraceae UCG-002Oscillospiraceae UCG-002

Revision editor(s): Daberechi, Tosin

Signature 2

Reviewed Marked as Reviewed by Svetlana up on 2025-4-15

Curated date: 2025/03/18

Curator: Daberechi

Revision editor(s): Daberechi, Tosin

Source: Figure 1E and Table S1

Description: Differential microbiome of the FC (Functional constipation) and HC (Healthy control) groups at the genus levels

Abundance in Group 1: decreased abundance in Functional Constipation

NCBI Quality ControlLinks
ML635J40_aquatic_groupML635J40_aquatic_group

Revision editor(s): Daberechi, Tosin