Integrative microbiomics in bronchiectasis exacerbations

Mac Aogáin, M; Narayana, JK; Tiew, PY; Ali, NABM; Yong, VFL; Jaggi, TK; Lim, AYH; Keir, HR; Dicker, AJ; Thng, KX; Tsang, A; Ivan, FX; Poh, ME; Oriano, M; Aliberti, S; Blasi, F; Low, TB; Ong, TH; Oliver, B; Giam, YH; Tee, A; Koh, MS; Abisheganaden, JA; Tsaneva-Atanasova, K; Chalmers, JD; Chotirmall, SH

Integrative microbiomics in bronchiectasis exacerbations

Mac Aogáin, M Narayana, JK Tiew, PY Ali, NABM Yong, VFL Jaggi, TK Lim, AYH Keir, HR Dicker, AJ Thng, KX Tsang, A Ivan, FX Poh, ME Oriano, M Aliberti, S Blasi, F Low, TB Ong, TH Oliver, B

Giam, YH Tee, A Koh, MS Abisheganaden, JA Tsaneva-Atanasova, K Chalmers, JD Chotirmall, SH

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Publisher:: Springer Science and Business Media LLC
Publication Type:: Journal Article
Citation:: Nature Medicine, 2021, 27, (4), pp. 688-699
Issue Date:: 2021-04-05

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Field	Value	Language
dc.contributor.author	Mac Aogáin, M
dc.contributor.author	Narayana, JK
dc.contributor.author	Tiew, PY
dc.contributor.author	Ali, NABM
dc.contributor.author	Yong, VFL
dc.contributor.author	Jaggi, TK
dc.contributor.author	Lim, AYH
dc.contributor.author	Keir, HR
dc.contributor.author	Dicker, AJ
dc.contributor.author	Thng, KX
dc.contributor.author	Tsang, A
dc.contributor.author	Ivan, FX
dc.contributor.author	Poh, ME
dc.contributor.author	Oriano, M
dc.contributor.author	Aliberti, S
dc.contributor.author	Blasi, F
dc.contributor.author	Low, TB
dc.contributor.author	Ong, TH
dc.contributor.author	Oliver, B https://orcid.org/0000-0002-7122-9262
dc.contributor.author	Giam, YH
dc.contributor.author	Tee, A
dc.contributor.author	Koh, MS
dc.contributor.author	Abisheganaden, JA
dc.contributor.author	Tsaneva-Atanasova, K
dc.contributor.author	Chalmers, JD
dc.contributor.author	Chotirmall, SH
dc.date.accessioned	2022-01-14T05:00:47Z
dc.date.available	2021-02-16
dc.date.available	2022-01-14T05:00:47Z
dc.date.issued	2021-04-05
dc.identifier.citation	Nature Medicine, 2021, 27, (4), pp. 688-699
dc.identifier.issn	1078-8956
dc.identifier.issn	1546-170X
dc.identifier.uri	http://hdl.handle.net/10453/153117
dc.description.abstract	Bronchiectasis, a progressive chronic airway disease, is characterized by microbial colonization and infection. We present an approach to the multi-biome that integrates bacterial, viral and fungal communities in bronchiectasis through weighted similarity network fusion ( https://integrative-microbiomics.ntu.edu.sg ). Patients at greatest risk of exacerbation have less complex microbial co-occurrence networks, reduced diversity and a higher degree of antagonistic interactions in their airway microbiome. Furthermore, longitudinal interactome dynamics reveals microbial antagonism during exacerbation, which resolves following treatment in an otherwise stable multi-biome. Assessment of the Pseudomonas interactome shows that interaction networks, rather than abundance alone, are associated with exacerbation risk, and that incorporation of microbial interaction data improves clinical prediction models. Shotgun metagenomic sequencing of an independent cohort validated the multi-biome interactions detected in targeted analysis and confirmed the association with exacerbation. Integrative microbiomics captures microbial interactions to determine exacerbation risk, which cannot be appreciated by the study of a single microbial group. Antibiotic strategies probably target the interaction networks rather than individual microbes, providing a fresh approach to the understanding of respiratory infection.
dc.format	Print-Electronic
dc.language	eng
dc.publisher	Springer Science and Business Media LLC
dc.relation.ispartof	Nature Medicine
dc.relation.isbasedon	10.1038/s41591-021-01289-7
dc.rights	info:eu-repo/semantics/embargoedAccess
dc.subject	11 Medical and Health Sciences
dc.subject.classification	Immunology
dc.subject.mesh	Bronchiectasis
dc.subject.mesh	Disease Progression
dc.subject.mesh	Humans
dc.subject.mesh	Metagenomics
dc.subject.mesh	Microbial Interactions
dc.subject.mesh	Microbiota
dc.subject.mesh	Phylogeny
dc.subject.mesh	Humans
dc.subject.mesh	Bronchiectasis
dc.subject.mesh	Disease Progression
dc.subject.mesh	Phylogeny
dc.subject.mesh	Metagenomics
dc.subject.mesh	Microbial Interactions
dc.subject.mesh	Microbiota
dc.title	Integrative microbiomics in bronchiectasis exacerbations
dc.type	Journal Article
utslib.citation.volume	27
utslib.location.activity	United States
utslib.for	11 Medical and Health Sciences
pubs.organisational-group	/University of Technology Sydney
pubs.organisational-group	/University of Technology Sydney/Faculty of Science
pubs.organisational-group	/University of Technology Sydney/Strength - CHT - Health Technologies
pubs.organisational-group	/University of Technology Sydney/Faculty of Science/School of Life Sciences
pubs.organisational-group	/University of Technology Sydney/Centre for Health Technologies (CHT)
utslib.copyright.status	open_access	*
utslib.copyright.embargo	2022-04-01T00:00:00+1000Z
dc.date.updated	2022-01-14T05:00:38Z
pubs.issue	4
pubs.publication-status	Published
pubs.volume	27
utslib.citation.issue	4

Abstract:

Bronchiectasis, a progressive chronic airway disease, is characterized by microbial colonization and infection. We present an approach to the multi-biome that integrates bacterial, viral and fungal communities in bronchiectasis through weighted similarity network fusion ( https://integrative-microbiomics.ntu.edu.sg ). Patients at greatest risk of exacerbation have less complex microbial co-occurrence networks, reduced diversity and a higher degree of antagonistic interactions in their airway microbiome. Furthermore, longitudinal interactome dynamics reveals microbial antagonism during exacerbation, which resolves following treatment in an otherwise stable multi-biome. Assessment of the Pseudomonas interactome shows that interaction networks, rather than abundance alone, are associated with exacerbation risk, and that incorporation of microbial interaction data improves clinical prediction models. Shotgun metagenomic sequencing of an independent cohort validated the multi-biome interactions detected in targeted analysis and confirmed the association with exacerbation. Integrative microbiomics captures microbial interactions to determine exacerbation risk, which cannot be appreciated by the study of a single microbial group. Antibiotic strategies probably target the interaction networks rather than individual microbes, providing a fresh approach to the understanding of respiratory infection.

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http://hdl.handle.net/10453/153117