Characteristics and Dysbiosis of the Gut Microbiome in Renal Transplant Recipients/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by KateRasheed on 2025-8-2
Subjects
- Location of subjects
- Netherlands
- 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
- Renal transplant outcome measurement Renal transplant outcome measurement,renal transplant outcome measurement
- 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
- RTR (Renal Transplant Recipients)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- These are renal transplant recipients that were at least one year post transplantation
- Group 0 sample size Number of subjects in the control (unexposed) group
- 105
- Group 1 sample size Number of subjects in the case (exposed) group
- 139
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V4-V5
- 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).
- arcsine square-root
- Statistical test
- MaAsLin2
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.1
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- Yes
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- age, body mass index, smoking behavior, sex, Confounders controlled for: "medication use" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.medication use
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- decreased
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by KateRasheed on 2025-8-2
Source: Figure 4 & Table S1
Description: Significantly differential abundant taxa between RTRs and healthy controls.
Abundance in Group 1: increased abundance in RTR (Renal Transplant Recipients)
Signature 2
Reviewed Marked as Reviewed by KateRasheed on 2025-8-2
Source: Figure 4 & Table S1
Description: Significantly differential abundant taxa between RTRS and healthy controls.
Abundance in Group 1: decreased abundance in RTR (Renal Transplant Recipients)
