634. Pneumococcal Colonization and the Nasopharyngeal Microbiota of Children in Botswana
Session: Poster Abstract Session: Microbiome
Thursday, October 5, 2017
Room: Poster Hall CD
  • IDWeek Poster - 42 x 60 - 09-30-17.pdf (315.0 kB)
  • Background: Streptococcus pneumoniae is the predominant bacterial respiratory pathogen during childhood. Nasopharyngeal colonization precedes infections caused by S. pneumoniae. Interactions between S. pneumoniae and the nasopharyngeal microbial communities of children are poorly described.  

    Methods: We collected nasopharyngeal swabs from 170 children 1 to 23 months of age without pneumonia in Botswana between August 2012 and June 2016. We tested these samples for common respiratory viruses and S. pneumoniae using PCR. We sequenced the V3 region of the bacterial 16S ribosomal RNA gene and used zero-inflated Gaussian distribution mixture models to compare the relative abundances of bacterial genera in children with and without S. pneumoniae colonization.

    Results: Mean age was 8.3 months, and 51% were female. Ninety-six (56%) children were colonized with S. pneumoniae and 59 (35%) had one or more respiratory viruses. S. pneumoniae colonization was associated with older age (P=0.0001). Upper respiratory symptoms were more frequent in children with S. pneumoniae colonization (60% vs. 32%; P=0.001), even among children without respiratory viruses (50% vs. 20%; P=0.002). Principal component analysis using Bray-Curtis distances demonstrated that nasopharyngeal samples clustered by S. pneumoniae detection (Figure 1). S. pneumoniae colonization was associated with higher relative abundances of Haemophilus, Moraxella, and Streptococcus, and lower relative abundances of Corynebacterium and Staphylococcus (Figure 2). Respiratory virus infection had no appreciable effect on the composition of the nasopharyngeal microbiota.

    Conclusion: S. pneumoniae colonization is associated with substantial alterations of the nasopharyngeal microbiota of children independent of respiratory virus co-infection. Prospective studies are needed to determine the extent to which the nasopharyngeal microbiota modifies S. pneumoniae colonization risk.

    Matthew Kelly, MD, MPH1, Michael Surette, MD2, Marek Smieja, MD, PhD3, Laura Rossi, BSc4, Kathy Luinstra, BSc5, Andrew Steenhoff, MBBCh, DCH6, David Goldfarb, MD, FRCPC7, Tonya Arscott-Mills, MD, MPH8, Sefelani Boiditswe, BNSc8, Ikanyeng Rulaganyang, BNSc8, Charles Muthoga, BSc8, Kwana Lechiile, BSc8, Tiny Mazhani, MD9, John Rawls, PhD1, Coleen Cunningham, MD10, Samir Shah, MD11, Kristen Feemster, MD, MPH, MSHP12 and Patrick Seed, MD, PhD13, (1)Duke University, Durham, NC, (2)McMaster University, Hamilton, ON, Canada, (3)St. Joseph's Healthcare/McMaster University, Hamilton, ON, Canada, (4)McMaster University, Hamiloton, ON, Canada, (5)St. Joseph's Healthcare, Hamilton, ON, Canada, (6)Division of Infectious Diseases, The Children's Hospital of Philadelphia, Philadelphia, PA, (7)Pathology and Laboratory Medicine, University of British Columbia, Vancouver, BC, Canada, (8)Botswana-UPenn Partnership, Gaborone, Botswana, (9)University of Botswana School of Medicine, Gaborone, Botswana, (10)Pediatrics, Division of Infectious Diseases, Department of Pediatrics, Duke University Medical Center, Durham, NC, (11)Division of Hospital Medicine, Cincinnati Children's Hospital Medical Center, Cincinati, OH, (12)Division of Infectious Diseases, Department of Pediatrics, The Children's Hospital of Philadelphia, Philadelphia, PA, (13)Ann & Robert H. Lurie Children's Hosp.; Northwestern Univ., Feinberg School of Medicine; The Stanley Manne Children's Research Institute, Chicago, IL


    M. Kelly, None

    M. Surette, None

    M. Smieja, None

    L. Rossi, None

    K. Luinstra, None

    A. Steenhoff, None

    D. Goldfarb, None

    T. Arscott-Mills, None

    S. Boiditswe, None

    I. Rulaganyang, None

    C. Muthoga, None

    K. Lechiile, None

    T. Mazhani, None

    J. Rawls, None

    C. Cunningham, None

    S. Shah, None

    K. Feemster, None

    P. Seed, None

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