Urogenital schistosomiasis is associated with signatures of microbiome dysbiosis in Nigerian adolescents/Experiment 1

From BugSigDB


Needs review

Curated date: 2024/10/16

Curator: KateRasheed

Revision editor(s): KateRasheed

Subjects

Location of subjects
Nigeria
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
Schistosomiasis Bilharzia,Bilharziasis,bilharziasis,Katayama Fever,schistosomiasis,snail fever,Schistosomiasis
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Schistosomiasis negative
Group 1 name Corresponds to the case (exposed) group for case-control studies
Schistosomiasis positive
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Schistosomiasis positive are adolescents within the age of 11-15years that have been infected by Schistosoma.
Group 0 sample size Number of subjects in the control (unexposed) group
25
Group 1 sample size Number of subjects in the case (exposed) group
24

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
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
DESeq2
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

Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged
Simpson Estimator of species richness and species evenness: more weight on species evenness
unchanged
Richness Number of species
unchanged
Faith Phylogenetic diversity, takes into account phylogenetic distance of all taxa identified in a sample
unchanged

Signature 1

Needs review

Curated date: 2024/10/16

Curator: KateRasheed

Revision editor(s): KateRasheed

Source: Figure 3(Figs. 3)

Description: Significant abundance of taxa in the infected adolescents.

Abundance in Group 1: increased abundance in Schistosomiasis positive

NCBI Quality ControlLinks
Acinetobacter
Actinomycetes
Alloprevotella
Deltaproteobacteria
Desulfovibrio
Desulfovibrionaceae
Desulfovibrionales
Dialister
Fusobacteriales
Fusobacteriia
Haemophilus
Megasphaera
Moraxellaceae
Negativicutes
Olsenella
Pasteurellaceae
Pasteurellales
Peptococcaceae
Peptococcus
Prevotella
Prevotellaceae
Pseudomonadales
Pseudomonadota
Selenomonadales
Veillonellaceae
uncultured Coriobacteriaceae bacterium
Bifidobacteriaceae

Revision editor(s): KateRasheed

Signature 2

Needs review

Curated date: 2024/10/16

Curator: KateRasheed

Revision editor(s): KateRasheed

Source: Figure 3(Figs. 3)

Description: Significant abundance of taxa in the infected adolescents.

Abundance in Group 1: decreased abundance in Schistosomiasis positive

NCBI Quality ControlLinks
Bacillota
Betaproteobacteria
Candidatus Gastranaerophilales
Candidatus Melainabacteria
Clostridia
Cyanobacteriota
Eubacteriales
Mollicutes
Mycoplasmatota
Oscillospiraceae incertae sedis
Parabacteroides
Peptostreptococcaceae
Peptostreptococcaceae incertae sedis
Porphyromonadaceae
Subdoligranulum
uncultured Erysipelotrichaceae bacterium
uncultured Mollicutes bacterium
uncultured Mycoplasmatota bacterium
uncultured rumen bacterium
Clostridium

Revision editor(s): KateRasheed