Background: The infant gut microbiota is a complex community of microorganisms that play a vital role in numerous essential biological processes. The method of delivery, particularly cesarean section, can impact the initial establishment of the gut microbiota, increasing the risk of chronic diseases. This study aimed to compare the gut microbiota composition of newborns on the basis of their mode of delivery (vaginal birth, scheduled cesarean section, or emergency cesarean section) via metagenomic techniques and bioinformatics tools. Methods: Publicly available data from a Danish cohort have been used in this study where the neonatal gut microbiota was analyzed in newborns grouped by mode of delivery and sample collection timing: vaginally born infants (n = 15), those delivered by scheduled cesarean section (n = 15), and those delivered by emergency cesarean section (n = 15). Fecal samples were collected at one week and one year after birth. DNA was extracted, and 16S rRNA gene amplicon sequencing was conducted. Taxonomic analyses were performed via the EzBioCloud platform to identify the differences in gut microbiome composition and abundance between infants based on delivery mode. Results: Newborns delivered vaginally presented an increased abundance of the phyla Bacteroidetes and Proteobacteria. At the genus level, Bacteroides and Bifidobacterium were dominant during the first week after birth. In contrast, newborns delivered by cesarean section, whether scheduled or emergent, display similar phylum-level profiles, with a dominance of Proteobacteria and Firmicutes. In terms of genus-level composition, those born through scheduled cesarean section presented high levels of Enterobacterales and Clostridium, whereas those born during emergency cesarean section presented relatively high levels of Enterobacterales and Veillonella. However, after one year, the differences in phyla and genus composition between infants born vaginally and those born by cesarean section were no longer significant. Conclusion: The mode of delivery has a crucial effect on the composition and establishment of the neonatal gut microbiota. These findings underscore the importance of considering the mode of delivery in research focused on optimizing the long-term health of newborns.

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Influence of Cesarean Section on the Establishment and Diversity of the Infant Gut Microbiome

  • Zakia Boudar,
  • Sara El Janahi,
  • Fatima Azzahrae El Yacoubi,
  • Amina Akhattab,
  • Sanae Amzel,
  • Souhayla Chahboune,
  • Wissal Maher,
  • Imane Allali,
  • Abderrazak Rfaki,
  • Nouzha Dini,
  • Najib Al Idrissi,
  • Hassan Ghazal

摘要

Background: The infant gut microbiota is a complex community of microorganisms that play a vital role in numerous essential biological processes. The method of delivery, particularly cesarean section, can impact the initial establishment of the gut microbiota, increasing the risk of chronic diseases. This study aimed to compare the gut microbiota composition of newborns on the basis of their mode of delivery (vaginal birth, scheduled cesarean section, or emergency cesarean section) via metagenomic techniques and bioinformatics tools. Methods: Publicly available data from a Danish cohort have been used in this study where the neonatal gut microbiota was analyzed in newborns grouped by mode of delivery and sample collection timing: vaginally born infants (n = 15), those delivered by scheduled cesarean section (n = 15), and those delivered by emergency cesarean section (n = 15). Fecal samples were collected at one week and one year after birth. DNA was extracted, and 16S rRNA gene amplicon sequencing was conducted. Taxonomic analyses were performed via the EzBioCloud platform to identify the differences in gut microbiome composition and abundance between infants based on delivery mode. Results: Newborns delivered vaginally presented an increased abundance of the phyla Bacteroidetes and Proteobacteria. At the genus level, Bacteroides and Bifidobacterium were dominant during the first week after birth. In contrast, newborns delivered by cesarean section, whether scheduled or emergent, display similar phylum-level profiles, with a dominance of Proteobacteria and Firmicutes. In terms of genus-level composition, those born through scheduled cesarean section presented high levels of Enterobacterales and Clostridium, whereas those born during emergency cesarean section presented relatively high levels of Enterobacterales and Veillonella. However, after one year, the differences in phyla and genus composition between infants born vaginally and those born by cesarean section were no longer significant. Conclusion: The mode of delivery has a crucial effect on the composition and establishment of the neonatal gut microbiota. These findings underscore the importance of considering the mode of delivery in research focused on optimizing the long-term health of newborns.