Gut microbiota modulation via fecal microbiota transplantation mitigates hyperoxaluria and calcium oxalate crystal depositions induced by high oxalate diet/Experiment 1

From BugSigDB


Needs review

Curated date: 2025/03/18

Curator: Dorcas-od

Revision editor(s): Dorcas-od

Subjects

Location of subjects
China
Host species Species from which microbiome was sampled. Contact us to have more species added.
Rattus norvegicus
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
Oxalate measurement Oxalate measurement,oxalate measurement
Group 0 name Corresponds to the control (unexposed) group for case-control studies
5%K2Ox-0day
Group 1 name Corresponds to the case (exposed) group for case-control studies
5%K2Ox-45day
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Rats exposed to a 5% K2Ox diet that induces hyperoxaluria, evidenced by increased urinary oxalate excretion and renal CaOx crystal deposition
Group 0 sample size Number of subjects in the control (unexposed) group
8
Group 1 sample size Number of subjects in the case (exposed) group
8

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
MaAsLin2
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
3.5

Alpha Diversity

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

Signature 1

Needs review

Curated date: 2025/04/01

Curator: Dorcas-od

Revision editor(s): Dorcas-od

Source: Figure 1e

Description: The differential genera between the Normal group and the HDOx groups at day 45.

Abundance in Group 1: increased abundance in 5%K2Ox-45day

NCBI Quality ControlLinks
Lactobacillus
Roseburia
Ruminococcaceae_UCG-014Ruminococcaceae_UCG-014
Ruminiclostridium_6Ruminiclostridium_6
Ruminococcaceae_NK4A214_groupRuminococcaceae_NK4A214_group
Ruminiclostridium_9Ruminiclostridium_9
Ruminococcus_2Ruminococcus_2
Eubacterium coprostanoligenes

Revision editor(s): Dorcas-od

Signature 2

Needs review

Curated date: 2025/04/01

Curator: Dorcas-od

Revision editor(s): Dorcas-od

Source: Figure 1e-h

Description: (e, f) The differential genera between the Normal group and the HDOx groups at day 45.

Abundance in Group 1: decreased abundance in 5%K2Ox-45day

NCBI Quality ControlLinks
Parasutterella
Ruminococcaceae_UCG-005Ruminococcaceae_UCG-005

Revision editor(s): Dorcas-od