Stunted microbiota and opportunistic pathogen colonization in caesarean-section birth/Experiment 1

From BugSigDB


Needs review

Curated date: 2025/04/18

Curator: Ameenatoloko

Revision editor(s): Ameenatoloko

Subjects

Location of subjects
United Kingdom
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
Delivery measurement Delivery measurement,delivery measurement
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Vaginal mode of delivery during early transmission - Transmission vs Vaginal mode of delivery during early transmission - No Transmission
Group 1 name Corresponds to the case (exposed) group for case-control studies
Caesarean section (CS) mode of delivery during early transmission - Transmission vs CS mode of delivery during early transmission - No Transmission
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Babies delivered by caesarean section exhibit markedly reduced rates of maternal microbial strain transmission in comparison to those delivered vaginally, as well as a persistent depletion of Bacteroides species and other commensals.
Group 0 sample size Number of subjects in the control (unexposed) group
35
Group 1 sample size Number of subjects in the case (exposed) group
24

Lab analysis

Sequencing type
WMS
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
Not specified
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
Fisher's Exact 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)?
Yes


Signature 1

Needs review

Curated date: 2025/04/23

Curator: Ameenatoloko

Revision editor(s): Ameenatoloko

Source: Fig. 3a, Table S7

Description: Maternal microbial strain transmission frequencies between vaginally and caesarean-delivered babies, longitudinally sampled during the neonatal (early) period.

Abundance in Group 1: decreased abundance in Caesarean section (CS) mode of delivery during early transmission - Transmission vs CS mode of delivery during early transmission - No Transmission

NCBI Quality ControlLinks
Bifidobacterium longum
Phocaeicola vulgatus
Streptococcus salivarius
Streptococcus thermophilus
[Ruminococcus] torques

Revision editor(s): Ameenatoloko

Signature 2

Needs review

Curated date: 2025/05/06

Curator: Ameenatoloko

Revision editor(s): Ameenatoloko

Source: Fig. 3a, Table S7

Description: Maternal microbial strain transmission frequencies between vaginally and caesarean delivered babies, longitudinally sampled during the neonatal (early) period.

Abundance in Group 1: increased abundance in Caesarean section (CS) mode of delivery during early transmission - Transmission vs CS mode of delivery during early transmission - No Transmission

NCBI Quality ControlLinks
Escherichia coli
Bifidobacterium bifidum
[Ruminococcus] torques
Bacteroides fragilis
Bifidobacterium pseudocatenulatum

Revision editor(s): Ameenatoloko