A Study of the Infant Nasal Microbiome Development over the First Year of Life and in Relation to Their Primary Adult Caregivers Using cpn60 Universal Target (UT) as a Phylogenetic Marker

PLoS One. 2016 Mar 28;11(3):e0152493. doi: 10.1371/journal.pone.0152493. eCollection 2016.

Abstract

Whereas the infant gut microbiome is the subject of intense study, relatively little is known regarding the nares microbiome in newborns and during early life. This study aimed to survey the typical composition and diversity of human anterior nare microflora for developing infants over time, and to explore how these correlate to their primary caregivers. Single nare swabs were collected at five time points over a one-year period for each subject from infant-caregiver pairs. Our study comprised of 50 infants (recruited at 2 weeks, post delivery) and their 50 primary caregivers. Applying the chaperonin-60 (cpn60) universal target (UT) amplicon as our molecular barcoding marker to census survey the microbial communities, we longitudinally surveyed infant nares microbiota at 5 time points over the course of the first year of life. The inter- and intra-subject diversity was catalogued and compared, both longitudinally and relative to their adult primary caregivers. Although within-subject variability over time and inter-subject variability were both observed, the assessment detected only one or two predominant genera for individual infant samples, belonging mainly to phyla Actinobacteria, Firmicutes, and Proteobacteria. Consistent with previously observed microbial population dynamics in other body sites, the diversity of nares microflora increased over the first year of life and infants showed differential operational taxonomic units (OTUs) relative to their matched primary caregiver. The collected evidence also support that both temporal and seasonal changes occur with respect to carriage of potentially pathogenic bacteria (PPBs), which may influence host predisposition to infection. This pilot study surveying paired infant/caregiver nare microbiomes provides novel longitudinal diversity information that is pertinent to better understanding nare microbiome development in infants.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Adult
  • Biodiversity
  • Caregivers*
  • Chaperonin 60 / genetics*
  • Genetic Markers
  • Humans
  • Infant
  • Infant, Newborn
  • Microbiota / genetics*
  • Nose / microbiology*
  • Phylogeny*
  • Sequence Analysis, DNA

Substances

  • Chaperonin 60
  • Genetic Markers

Grants and funding

This work was funded by the Public Health Agency of Canada (to MRM and MRG), and an intramural grant from the Canadian federal Genomics Research and Development Initiative (GRDI) (awarded to MRM). SWP was supported by GRDI. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.