The airway microbiota of neonates colonized with asthma-associated pathogenic bacteria

Jonathan Thorsen, Xuan Ji Li, Shuang Peng, Rikke Bjersand Sunde, Shiraz A. Shah, Madhumita Bhattacharyya, Casper Sahl Poulsen, Christina Egeø Poulsen, Cristina Leal Rodriguez, Michael Widdowson, Avidan Uriel Neumann, Urvish Trivedi, Bo Chawes, Klaus Bønnelykke, Hans Bisgaard, Søren J. Sørensen () and Jakob Stokholm ()
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Jonathan Thorsen: University of Copenhagen
Xuan Ji Li: University of Copenhagen
Shuang Peng: University of Copenhagen
Rikke Bjersand Sunde: University of Copenhagen
Shiraz A. Shah: University of Copenhagen
Madhumita Bhattacharyya: University of Augsburg
Casper Sahl Poulsen: University of Copenhagen
Christina Egeø Poulsen: University of Copenhagen
Cristina Leal Rodriguez: University of Copenhagen
Michael Widdowson: University of Copenhagen
Avidan Uriel Neumann: University of Augsburg
Urvish Trivedi: University of Copenhagen
Bo Chawes: University of Copenhagen
Klaus Bønnelykke: University of Copenhagen
Hans Bisgaard: University of Copenhagen
Søren J. Sørensen: University of Copenhagen
Jakob Stokholm: University of Copenhagen

Nature Communications, 2023, vol. 14, issue 1, 1-12

Abstract: Abstract Culture techniques have associated colonization with pathogenic bacteria in the airways of neonates with later risk of childhood asthma, whereas more recent studies utilizing sequencing techniques have shown the same phenomenon with specific anaerobic taxa. Here, we analyze nasopharyngeal swabs from 1 month neonates in the COPSAC2000 prospective birth cohort by 16S rRNA gene sequencing of the V3-V4 region in relation to asthma risk throughout childhood. Results are compared with previous culture results from hypopharyngeal aspirates from the same cohort and with hypopharyngeal sequencing data from the later COPSAC2010 cohort. Nasopharyngeal relative abundance values of Streptococcus pneumoniae, Haemophilus influenzae, and Moraxella catarrhalis are associated with the same species in the hypopharyngeal cultures. A combined pathogen score of these bacteria’s abundance values is associated with persistent wheeze/asthma by age 7. No other taxa are associated. Compared to the hypopharyngeal aspirates from the COPSAC2010 cohort, the anaerobes Veillonella and Prevotella, which have previously been implicated in asthma development, are less commonly detected in the COPSAC2000 nasopharyngeal samples, but correlate with the pathogen score, hinting at latent community structures that bridge current and previous results. These findings have implications for future asthma prevention efforts.

Date: 2023
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DOI: 10.1038/s41467-023-42309-z

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