Oral microbiota of patients with phenylketonuria: A nation-based cross-sectional study/Experiment 4

From BugSigDB


Needs review

Curated date: 2024/07/01

Curator: MyleeeA

Revision editor(s): MyleeeA

Subjects

Location of subjects
Germany
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
Subgingival dental plaque Subgingival plaque,Subgingival dental plaque,subgingival dental plaque
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Phenylketonuria Folling disease,Folling's disease,Folling's syndrome,Følling's disease,HPA, non-PKU mild,hyperphenylalaninemia, non-PKU mild,imbecilitus phenylpyruvica,oligophrenia Phenylpyruvica,oligophrenia phenylpyruvica,PAH deficiency,Pah deficiency,pah deficiency,Phenylalanine hydroxylase deficiency,phenylalanine hydroxylase deficiency,phenylalaninemia,phenylketonuria,phenylketonuria, maternal,phenylpyruvic oligophrenia,PKU,Phenylketonuria
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Control Adults (CTRL-SP)
Group 1 name Corresponds to the case (exposed) group for case-control studies
Phenylketonuria (PKU-SP)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Patients diagnosed with Phenylketonuria (PKU) and who stimulated Sub gingival plaque samples were gotten from.
Group 0 sample size Number of subjects in the control (unexposed) group
52
Group 1 sample size Number of subjects in the case (exposed) group
45
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
N/A

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
V1-V2
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
Mann-Whitney (Wilcoxon)
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

Pielou Quantifies how equal the community is numerically
unchanged
Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged
Richness Number of species
unchanged
Faith Phylogenetic diversity, takes into account phylogenetic distance of all taxa identified in a sample
decreased

Signature 1

Needs review

Curated date: 2024/08/13

Curator: MyleeeA

Revision editor(s): MyleeeA

Source: Figure 2(D)

Description: Differential abundant genera in Phenylketonuria (PKU) and Control Subgingival plaque Adults Patients

Abundance in Group 1: increased abundance in Phenylketonuria (PKU-SP)

NCBI Quality ControlLinks
Actinomyces
Fretibacterium
Kingella

Revision editor(s): MyleeeA

Signature 2

Needs review

Curated date: 2024/08/13

Curator: MyleeeA

Revision editor(s): MyleeeA

Source: Figure 2(D)

Description: Differential abundant genera in Phenylketonuria (PKU) and Control Subgingival plaque Adults Patients

Abundance in Group 1: decreased abundance in Phenylketonuria (PKU-SP)

NCBI Quality ControlLinks
Gemella
Peptostreptococcus
Stomatobaculum

Revision editor(s): MyleeeA