Maternal influence on the fetal microbiome in a population-based study of the first-pass meconium

Study information

Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

study design

cross-sectional observational, not case-control

Citation

PMID PubMed identifier for scientific articles.

29538354

DOI Digital object identifier for electronic documents.

10.1038/pr.2018.29

URI Uniform resource identifier for web resources.

Authors

Tapiainen T, Paalanne N, Tejesvi MV, Koivusaari P, Korpela K, Pokka T, Salo J, Kaukola T, Pirttilä AM, Uhari M, Renko M

Journal

Pediatric research

Year

2018

BACKGROUND: Meconium is formed before birth and may reflect the microbiome of the fetus. To test our hypothesis, we investigated whether maternal factors during pregnancy, such as biodiversity of the living environment, influence the microbiome of the first stool more than immediate perinatal factors. METHODS: We recruited 218 consecutive newborn infants from one hospital. Regions of the bacterial 16S rRNA gene were sequenced to characterize the microbiomes of the first-pass meconium samples (N=212). We used a multivariate model to determine both the prenatal and perinatal factors affecting the microbiome. RESULTS: The number of operational taxonomic units ranged from 0 to 448 per newborn. The most abundant phyla were Firmicutes, with a relative abundance of 44%, Proteobacteria, 28%, and Bacteroidetes, 15%. By a multivariate analysis, the biodiversity of the home environment increased the diversity of microbiomes, whereas perinatal factors, such as the delivery mode or exposure to antimicrobials during labor did not have an effect. CONCLUSION: The microbiome of the first-pass meconium was not altered by immediate perinatal factors, but was affected by maternal factors during pregnancy, implying the in utero transfer of microbes and the development of the gut microbiota niche in fetal life.

Experiment 1

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Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): Shaimaa, WikiWorks

Subjects

Location of subjects: Finland

Host species Species from which microbiome was sampled (if applicable): Homo sapiens

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology: Meconium Meconium

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology: cesarean section caesarean 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 0 sample size Number of subjects in the control (unexposed) group: 172
Group 1 sample size Number of subjects in the case (exposed) group: 40
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any): newborns administerated antibiotics during delivery: Cefuroxime (n= 31), penicillin (n= 28), piperacillin-tazobactam (n=2)

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: Ion Torrent

Statistical Analysis

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)?: No

Signature 1

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Source: Table 3

Description: Effects of delivery mode on the microbiome of the first stool.

Abundance in Group 1: decreased abundance in C-section

NCBI	Links
Staphylococcus

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Experiment 2

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Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks

Subjects

Location of subjects: Finland

Host species Species from which microbiome was sampled (if applicable): Homo sapiens

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology: Meconium Meconium

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

Group 0 name Corresponds to the control (unexposed) group for case-control studies: no
Group 1 name Corresponds to the case (exposed) group for case-control studies: Antimicrobials use during delivery yes
Group 0 sample size Number of subjects in the control (unexposed) group: 151
Group 1 sample size Number of subjects in the case (exposed) group: 61
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any): newborns administerated antibiotics during delivery: Cefuroxime (n= 31), penicillin (n= 28), piperacillin-tazobactam (n=2)

Lab analysis

Sequencing type: 16S

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance: Ion Torrent

Statistical Analysis

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)?: No

Signature 1

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Source: Table 3

Description: Effect of antimicrobial use on the microbioome of the first stool

Abundance in Group 1: increased abundance in Antimicrobials use during delivery yes

NCBI	Links
Bifidobacterium

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Experiment 3

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Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks

Subjects

Location of subjects: Finland

Host species Species from which microbiome was sampled (if applicable): Homo sapiens

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology: Meconium Meconium

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

Group 0 name Corresponds to the control (unexposed) group for case-control studies: no
Group 1 name Corresponds to the case (exposed) group for case-control studies: Maternal consumption of probiotics yes
Group 0 sample size Number of subjects in the control (unexposed) group: 151
Group 1 sample size Number of subjects in the case (exposed) group: 61
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any): newborns administerated antibiotics during delivery: Cefuroxime (n= 31), penicillin (n= 28), piperacillin-tazobactam (n=2)

Lab analysis

Sequencing type: 16S

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance: Ion Torrent

Statistical Analysis

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)?: No

Signature 1

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Curated date: 2021/01/10

Curator: Shaimaa Elsafoury

Revision editor(s): WikiWorks

Source: Table 3

Description: Effect of probiotics during pregnancy on the microbioome of the first stool

Abundance in Group 1: increased abundance in Maternal consumption of probiotics yes

NCBI	Links
Lactobacillus

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Experiment 4

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Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks

Subjects

Location of subjects: Finland

Host species Species from which microbiome was sampled (if applicable): Homo sapiens

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology: Meconium Meconium

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

Group 0 name Corresponds to the control (unexposed) group for case-control studies: no
Group 1 name Corresponds to the case (exposed) group for case-control studies: Furry pets at home yes
Group 0 sample size Number of subjects in the control (unexposed) group: 108
Group 1 sample size Number of subjects in the case (exposed) group: 104
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any): newborns administerated antibiotics during delivery: Cefuroxime (n= 31), penicillin (n= 28), piperacillin-tazobactam (n=2)

Lab analysis

Sequencing type: 16S

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance: Ion Torrent

Statistical Analysis

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)?: No

Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment: delivery procedure, antimicrobial agent during labor, probiotics during pregnancy