Online citations, reference lists, and bibliographies.
← Back to Search

Delivery Mode Shapes The Acquisition And Structure Of The Initial Microbiota Across Multiple Body Habitats In Newborns

M. G. Domínguez-Bello, E. K. Costello, M. Contreras, M. Magris, G. Hidalgo, N. Fierer, R. Knight
Published 2010 · Medicine, Biology

Cite This
Download PDF
Analyze on Scholarcy
Upon delivery, the neonate is exposed for the first time to a wide array of microbes from a variety of sources, including maternal bacteria. Although prior studies have suggested that delivery mode shapes the microbiota's establishment and, subsequently, its role in child health, most researchers have focused on specific bacterial taxa or on a single body habitat, the gut. Thus, the initiation stage of human microbiome development remains obscure. The goal of the present study was to obtain a community-wide perspective on the influence of delivery mode and body habitat on the neonate's first microbiota. We used multiplexed 16S rRNA gene pyrosequencing to characterize bacterial communities from mothers and their newborn babies, four born vaginally and six born via Cesarean section. Mothers’ skin, oral mucosa, and vagina were sampled 1 h before delivery, and neonates’ skin, oral mucosa, and nasopharyngeal aspirate were sampled <5 min, and meconium <24 h, after delivery. We found that in direct contrast to the highly differentiated communities of their mothers, neonates harbored bacterial communities that were undifferentiated across multiple body habitats, regardless of delivery mode. Our results also show that vaginally delivered infants acquired bacterial communities resembling their own mother's vaginal microbiota, dominated by Lactobacillus, Prevotella, or Sneathia spp., and C-section infants harbored bacterial communities similar to those found on the skin surface, dominated by Staphylococcus, Corynebacterium, and Propionibacterium spp. These findings establish an important baseline for studies tracking the human microbiome's successional development in different body habitats following different delivery modes, and their associated effects on infant health.
This paper references
Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences
Weizhong Li (2006)
PRIMER v6: User Manual/Tutorial (PRIMER-E
KR Clarke (2006)
Airborne Concentrations of Bacteria in a Hospital Environment in Singapore
J. Obbard (2003)
Forensic identification using skin bacterial communities
N. Fierer (2010)
Caesarean delivery and risk of atopy and allergic disesase: meta‐analyses
P. Bager (2008)
Genetically engineered enteropathogenic Escherichia coli strain elicits a specific immune response and protects against a virulent challenge.
S. Boullier (2003)
The influence of sex, handedness, and washing on the diversity of hand surface bacteria
N. Fierer (2008)
Cesarean delivery may affect the early biodiversity of intestinal bacteria.
G. Biasucci (2008)
Error-correcting barcoded primers for pyrosequencing hundreds of samples in multiplex
M. Hamady (2008)
Relationship between intestinal microecology and the translocation of intestinal bacteria
C. Wells (2004)
Non‐parametric multivariate analyses of changes in community structure
K. Clarke (1993)
Gut microbiota, lipopolysaccharides, and innate immunity in the pathogenesis of obesity and cardiovascular risk.
Melania Manco (2010)
Gut microbiome modulates the toxicity of hydrazine: a metabonomic study.
J. Swann (2009)
Enterococcus faecalis from newborn babies regulate endogenous PPARγ activity and IL-10 levels in colonic epithelial cells
A. Are (2008)
Topographical and Temporal Diversity of the Human Skin Microbiome
E. Grice (2009)
Evolution of Mammals and Their Gut Microbes
R. Ley (2008)
LISA Study Group (2004) Mode of delivery and development of atopic disease during the first 2 years of life
K Negele (2004)
Bacteriology of Humans: An Ecological Perspective
M. Wilson (2008)
Quantitative and Qualitative β Diversity Measures Lead to Different Insights into Factors That Structure Microbial Communities
C. Lozupone (2007)
Diversity of the Lactobacillus group in breast milk and vagina of healthy women and potential role in the colonization of the infant gut
R. Martín (2007)
Community-associated methicillin-resistant Staphylococcus aureus infection among healthy newborns--Chicago and Los Angeles County, 2004.
Bacterial Community Variation in Human Body Habitats Across Space and Time
E. K. Costello (2009)
Developmental microbial ecology of the neonatal gastrointestinal tract.
R. Mackie (1999)
Factors Influencing the Composition of the Intestinal Microbiota in Early Infancy
C. Hoyen (2007)
Microbes on the human vaginal epithelium
R. Hyman (2005)
Worlds within worlds: evolution of the vertebrate gut microbiota
R. Ley (2008)
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont.
E. Martens (2008)
Fecal microflora in healthy infants born by different methods of delivery: permanent changes in intestinal flora after cesarean delivery.
M. Grönlund (1999)
Antibiotic prophylaxis versus no prophylaxis for preventing infection after cesarean section.
F. Smaill (2010)
Differences in the composition of vaginal microbial communities found in healthy Caucasian and black women
X. Zhou (2007)
Mechanisms of Succession in Natural Communities and Their Role in Community Stability and Organization
J. Connell (1977)
Efficacy and safety of cefepime: a systematic review and meta-analysis.
D. Yahav (2007)
Probiotics prevent IgE-associated allergy until age 5 years in cesarean-delivered children but not in the total cohort.
Mikael Kuitunen (2009)
Effects of the gut microbiota on host adiposity are modulated by the short-chain fatty-acid binding G protein-coupled receptor, Gpr41
Buck S. Samuel (2008)
Community-associated methicillin-resistant Staphylococcus aureus infection among healthy newborns-Chicago and Los Angeles County
J Watson (2004)
UniFrac: a New Phylogenetic Method for Comparing Microbial Communities
C. Lozupone (2005)
An Immunomodulatory Molecule of Symbiotic Bacteria Directs Maturation of the Host Immune System
S. Mazmanian (2005)
Development of the Human Infant Intestinal Microbiota
C. Palmer (2007)
FastTree: Computing Large Minimum Evolution Trees with Profiles instead of a Distance Matrix
M. Price (2009)
Gut microorganisms, mammalian metabolism and personalized health care
J. Nicholson (2005)
Short pyrosequencing reads suffice for accurate microbial community analysis
Z. Liu (2007)
Mechanisms underlying the resistance to diet-induced obesity in germ-free mice
F. Bäckhed (2007)
Mode of delivery and development of atopic disease during the fi rst 2 years of life
K Negele (2004)
Prebiotics in human milk: a review.
G. Coppa (2006)
The importance of the development of the intestinal microbiota in infancy
C. Vael (2009)
Delivery mode shapes the acquisition and structure of the initial microbiota across multiple body habitats in newborns
J. Neu (2011)
Mode of delivery and development of atopic disease during the first 2 years of life
Kathrin Negele (2004)
NAST: a multiple sequence alignment server for comparative analysis of 16S rRNA genes
T. DeSantis (2006)
The gut microbiota as an environmental factor that regulates fat storage.
F. Bäckhed (2004)
Diversity of Human Vaginal Bacterial Communities and Associations with Clinically Defined Bacterial Vaginosis
B. Oakley (2008)
Community-associated methicillin-resistant Staphylococcus aureus infection among healthy newborns—Chicago and Los Angeles County, 2004. MMWR 55:329–332
J Watson (2006)
Reduced Enterobacterial and Increased Staphylococcal Colonization of the Infantile Bowel: An Effect of Hygienic Lifestyle?
I. Adlerberth (2006)
Fecal micro fl ora in healthy infants born by different methods of delivery : Permanent changes in intestinal fl ora after cesarean delivery
MM Grönlund (1999)
Greengenes, a Chimera-Checked 16S rRNA Gene Database and Workbench Compatible with ARB
T. Z. Desantis (2006)
Naïve Bayesian Classifier for Rapid Assignment of rRNA Sequences into the New Bacterial Taxonomy
Q. Wang (2007)
Additional maternal and nonmaternal factors contribute to microbiota shaping in newborns
L. Putignani (2010)
A (2006) Cd-hit: A fast program for clustering and comparing large sets of protein or nucleotide sequences. Bioinformatics 22:1658–1659
WZ Li (2006)
Maternal Alloantigens Promote the Development of Tolerogenic Fetal Regulatory T Cells in Utero
Jeff E. Mold (2008)

This paper is referenced by
Microorganisms in Confined Habitats: Microbial Monitoring and Control of Intensive Care Units, Operating Rooms, Cleanrooms and the International Space Station
Maximilian Mora (2016)
Cleanliness in context: reconciling hygiene with a modern microbial perspective
Roo Vandegrift (2016)
Gene-environment interaction in chronic disease: a European Science Foundation Forward Look.
H. Renz (2011)
Antibiotics as both friends and foes of the human gut microbiome: The microbial community approach
Teresa Nogueira (2019)
What is the Healthy Gut Microbiota Composition? A Changing Ecosystem across Age, Environment, Diet, and Diseases
E. Rinninella (2019)
Beneficial Microbes
K. J. Domig (2014)
The intestinal microbiome of infants and the use of probiotics
F. Indrio (2011)
The human gut microbiome of Latin America populations: a landscape to be discovered
F. Magne (2016)
Oral Microbial Profile Discriminates Breast-fed From Formula-fed Infants
P. Holgerson (2013)
Comparative Microbiome Analysis Reveals the Ecological Relationships Between Rumen Methanogens, Acetogens, and Their Hosts
Z. Li (2020)
Gut microbiota in patients with type 2 diabetes mellitus
K. Allin (2015)
Colonization and infection in the newborn infant: Does chlorhexidine play a role in infection prevention?
Lizeth Ortegón (2017)
Oral microbiome and health
Neetu Sharma (2018)
Do pregnancy-related changes in the microbiome stimulate innate immunity?
S. Konstantinov (2013)
Role of microbiota in postnatal maturation of intestinal T-cell responses.
V. Gaboriau-Routhiau (2011)
Ice Age Milk : Did Low Ultra-Violet Light Influence Milk Vitamin D Content ?
C. Gaiani (2018)
Conservation and Diversity of Seed Associated Endophytes in Zea across Boundaries of Evolution, Ethnography and Ecology
D. Johnston-Monje (2011)
Respiratory Microbiome in Children
Dong Hyun Kim (2019)
Gut Microbiota: The Neglected Endocrine Organ
G. Clarke (2014)
The composition of the gut microbiota throughout life, with an emphasis on early life
J. Rodríguez (2015)
Allergie, Mikrobiom und weitere epigenetische Faktoren
K. Stockert (2020)
The gut virome: the ‘missing link’ between gut bacteria and host immunity?
I. Mukhopadhya (2019)
Is the delivery mode a critical factor for the microbial communities in the meconium?
Chen-jian Liu (2019)
Characterization of the fecal microbiota differs between age groups in Koreans
Sun-Young Kook (2018)
Consumption of artificially sweetened beverages during pregnancy impacts infant gut microbiota and body mass index
Isabelle Laforest-Lapointe (2020)
Mycobiota: micro-eukaryotes inhabiting our body as commensals or opportunistic pathogens
L. Rizzetto (2015)
Antibiotics, gut microbiota, environment in early life and type 1 diabetes
Youjia Hu (2017)
Is there a relationship between intestinal microbiota, dietary compounds, and obesity?
Joanna Kałużna-Czaplińska (2017)
Environmental determinants of islet autoimmunity (ENDIA): a pregnancy to early life cohort study in children at-risk of type 1 diabetes
M. Penno (2013)
Dysbiosis, Probiotics, Synbiotics and Human Health
Saikh Maa (2014)
Early Onset of Diabetes in the Proband Is the Major Determinant of Risk in HLA DR3-DQ2/DR4-DQ8 Siblings
K. Gillespie (2014)
Gut microbiota maturation during early human life induces enterocyte proliferation via microbial metabolites
Michael W. Dougherty (2020)
See more
Semantic Scholar Logo Some data provided by SemanticScholar