TY - JOUR
T1 - Genomic attributes of airway commensal bacteria and mucosa
AU - Cuthbertson, Leah
AU - Löber, Ulrike
AU - Ish-Horowicz, Jonathan S.
AU - McBrien, Claire N.
AU - Churchward, Colin
AU - Parker, Jeremy C.
AU - Olanipekun, Michael T.
AU - Burke, Conor
AU - McGowan, Aisling
AU - Davies, Gwyneth A.
AU - Lewis, Keir E.
AU - Hopkin, Julian M.
AU - Chung, Kian Fan
AU - O’Carroll, Orla
AU - Faul, John
AU - Creaser-Thomas, Joy
AU - Andrews, Mark
AU - Ghosal, Robin
AU - Piatek, Stefan
AU - Willis-Owen, Saffron A.G.
AU - Bartolomaeus, Theda U.P.
AU - Birkner, Till
AU - Dwyer, Sarah
AU - Kumar, Nitin
AU - Turek, Elena M.
AU - William Musk, A.
AU - Hui, Jennie
AU - Hunter, Michael
AU - James, Alan
AU - Dumas, Marc Emmanuel
AU - Filippi, Sarah
AU - Cox, Michael J.
AU - Lawley, Trevor D.
AU - Forslund, Sofia K.
AU - Moffatt, Miriam F.
AU - Cookson, William O.C.
N1 - Funding Information:
The culture collection was funded primarily by the Asmarley Trust. Isolate sequencing was funded by the Wellcome Trust (WT098051; WT206194 and 108413/A/15/D), and we thank the Wellcome Sanger Institute Pathogen Informatics and Research Support Facility for supporting this research. Jonathan Ish-Horowicz was the recipient of a Wellcome Trust PhD studentship (215359/Z/19/Z). Bioinformatic investigation of isolated genomic sequences was supported by MDC Berlin DFG SFB1449: “Dynamic Hydrogels”; KFO339; “FOOD@“; DFG SFB1365: “Renoprotection”; and JPI-AMR: EMBARK. Genomic studies of airway transcripts were supported by a joint Wellcome Senior Investigator Award to WOCC and MFM (WT096964MA and WT097117MA). The Busselton Healthy Ageing Study is funded by grants from the Government of Western Australia (Office of Science, Department of Health) and the City of Busselton, and from private donations to the Busselton Population Medical Research Institute. We thank the WA Country Health Service and the community of Busselton for their ongoing support and participation.
Funding Information:
The culture collection was funded primarily by the Asmarley Trust. Isolate sequencing was funded by the Wellcome Trust (WT098051; WT206194 and 108413/A/15/D), and we thank the Wellcome Sanger Institute Pathogen Informatics and Research Support Facility for supporting this research. Jonathan Ish-Horowicz was the recipient of a Wellcome Trust PhD studentship (215359/Z/19/Z). Bioinformatic investigation of isolated genomic sequences was supported by MDC Berlin DFG SFB1449: “Dynamic Hydrogels”; KFO339; “FOOD@“; DFG SFB1365: “Renoprotection”; and JPI-AMR: EMBARK. Genomic studies of airway transcripts were supported by a joint Wellcome Senior Investigator Award to WOCC and MFM (WT096964MA and WT097117MA). The Busselton Healthy Ageing Study is funded by grants from the Government of Western Australia (Office of Science, Department of Health) and the City of Busselton, and from private donations to the Busselton Population Medical Research Institute. We thank the WA Country Health Service and the community of Busselton for their ongoing support and participation.
Publisher Copyright:
© The Author(s) 2024.
PY - 2024/12
Y1 - 2024/12
N2 - Microbial communities at the airway mucosal barrier are conserved and highly ordered, in likelihood reflecting co-evolution with human host factors. Freed of selection to digest nutrients, the airway microbiome underpins cognate management of mucosal immunity and pathogen resistance. We show here the initial results of systematic culture and whole-genome sequencing of the thoracic airway bacteria, identifying 52 novel species amongst 126 organisms that constitute 75% of commensals typically present in heathy individuals. Clinically relevant genes encode antimicrobial synthesis, adhesion and biofilm formation, immune modulation, iron utilisation, nitrous oxide (NO) metabolism and sphingolipid signalling. Using whole-genome content we identify dysbiotic features that may influence asthma and chronic obstructive pulmonary disease. We match isolate gene content to transcripts and metabolites expressed late in airway epithelial differentiation, identifying pathways to sustain host interactions with microbiota. Our results provide a systematic basis for decrypting interactions between commensals, pathogens, and mucosa in lung diseases of global significance.
AB - Microbial communities at the airway mucosal barrier are conserved and highly ordered, in likelihood reflecting co-evolution with human host factors. Freed of selection to digest nutrients, the airway microbiome underpins cognate management of mucosal immunity and pathogen resistance. We show here the initial results of systematic culture and whole-genome sequencing of the thoracic airway bacteria, identifying 52 novel species amongst 126 organisms that constitute 75% of commensals typically present in heathy individuals. Clinically relevant genes encode antimicrobial synthesis, adhesion and biofilm formation, immune modulation, iron utilisation, nitrous oxide (NO) metabolism and sphingolipid signalling. Using whole-genome content we identify dysbiotic features that may influence asthma and chronic obstructive pulmonary disease. We match isolate gene content to transcripts and metabolites expressed late in airway epithelial differentiation, identifying pathways to sustain host interactions with microbiota. Our results provide a systematic basis for decrypting interactions between commensals, pathogens, and mucosa in lung diseases of global significance.
UR - http://www.scopus.com/inward/record.url?scp=85185108361&partnerID=8YFLogxK
U2 - 10.1038/s42003-024-05840-3
DO - 10.1038/s42003-024-05840-3
M3 - Article
C2 - 38347162
AN - SCOPUS:85185108361
SN - 2399-3642
VL - 7
SP - 171
JO - Communications Biology
JF - Communications Biology
IS - 1
M1 - 171
ER -
