Prenatal and Peripartum Exposure to Antibiotics and Cesarean Section Delivery Are Associated with Differences in Diversity and Composition of the Infant Meconium Microbiome

Study information

Needs review

study design

prospective cohort

Citation

PMID PubMed identifier for scientific articles.

32012716

DOI Digital object identifier for electronic documents.

10.3390/microorganisms8020179

URI

Authors

Wong WSW, Sabu P, Deopujari V, Levy S, Shah AA, Clemency N, Provenzano M, Saadoon R, Munagala A, Baker R, Baveja R, Mueller NT, Dominguez-Bello MG, Huddleston K, Niederhuber JE, Hourigan SK

Journal

Microorganisms

Year

2020

Keywords:

antibiotics, delivery mode, infant, microbiome, neonate, pediatrics

The meconium microbiome may provide insight into intrauterine and peripartum exposures and the very earliest intestinal pioneering microbes. Prenatal antibiotics have been associated with later obesity in children, which is thought to be driven by microbiome dependent mechanisms. However, there is little data regarding associations of prenatal or peripartum antibiotic exposure, with or without cesarean section (CS), with the features of the meconium microbiome. In this study, 16S ribosomal RNA gene sequencing was performed on bacterial DNA of meconium samples from 105 infants in a birth cohort study. After multivariable adjustment, delivery mode (p = 0.044), prenatal antibiotic use (p = 0.005) and peripartum antibiotic use (p < 0.001) were associated with beta diversity of the infant meconium microbiome. CS (vs. vaginal delivery) and peripartum antibiotics were also associated with greater alpha diversity of the meconium microbiome (Shannon and Simpson, p < 0.05). Meconium from infants born by CS (vs. vaginal delivery) had lower relative abundance of the genus Escherichia (p < 0.001). Prenatal antibiotic use and peripartum antibiotic use (both in the overall analytic sample and when restricting to vaginally delivered infants) were associated with differential abundance of several bacterial taxa in the meconium. Bacterial taxa in the meconium microbiome were also differentially associated with infant excess weight at 12 months of age, however, sample size was limited for this comparison. In conclusion, prenatal and peripartum antibiotic use along with CS delivery were associated with differences in the diversity and composition of the meconium microbiome. Whether or not these differences in the meconium microbiome portend risk for long-term health outcomes warrants further exploration.

Experiment 1

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Needs review

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): Shaimaa, WikiWorks, Victoria

Subjects

Location of subjects: United States of America

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: Meconium Meconium,meconium

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology: Cesarean section caesarean section,Cesarean section,cesarean section

Group 0 name Corresponds to the control (unexposed) group for case-control studies: vaginal delivery

Group 1 name Corresponds to the case (exposed) group for case-control studies: C-section

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: meconium defined as the first stool passed, other than meconium staining of amniotic fluid.

Group 0 sample size Number of subjects in the control (unexposed) group: 62

Group 1 sample size Number of subjects in the case (exposed) group: 43

Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any): Mothers of infants born by CS received significantly more peripartum antibiotics than those born by VD (43/43 (100%) in CS vs. 19/62 (31%) in VD, p < 0.001).

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: 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

Shannon Estimator of species richness and species evenness: more weight on species richness: increased

Simpson Estimator of species richness and species evenness: more weight on species evenness: increased

Richness Number of species: unchanged

Signature 1

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Mark reviewed

Your review change was submitted

Needs review

Curated date: 2021/01/10

Curator: Shaimaa Elsafoury

Revision editor(s): WikiWorks

Source: Figure 4 & text

Description: Differentially abundant OTUs(FDR< 0.05) according to deliverymode

Abundance in Group 1: increased abundance in C-section

NCBI	Quality Control	Links
Veillonella
Methylobacterium
Citrobacter
Staphylococcus
Corynebacterium
Streptococcus
Acidovorax
Propionibacterium
Granulicatella
Acinetobacter
Bradyrhizobium
Delftia
Pseudoscardovia
Lactobacillus
Achromobacter
Meiothermus
Chelatococcus
Stenotrophomonas
Tepidimonas
Haemophilus
Leptothrix
Comamonas
Rubrivivax
Sediminibacterium
Lactococcus
Enterobacter
Anoxybacillus
Agrobacterium