Integrative microbiomics in bronchiectasis exacerbations
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-microbio...
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my.um.eprints.346392022-05-27T01:56:54Z http://eprints.um.edu.my/34639/ Integrative microbiomics in bronchiectasis exacerbations Mac Aogain, Micheal Narayana, Jayanth Kumar Tiew, Pei Yee Ali, Nur A'tikah Binte Mohamed Yong, Valerie Fei Lee Jaggi, Tavleen Kaur Lim, Albert Yick Hou Keir, Holly R. Dicker, Alison J. Thng, Kai Xian Tsang, Akina Ivan, Fransiskus Xaverius Poh, Mau Ern Oriano, Martina Aliberti, Stefano Blasi, Francesco Low, Teck Boon Ong, Thun How Oliver, Brian Giam, Yan Hui Tee, Augustine Koh, Mariko Siyue Abisheganaden, John Arputhan Tsaneva-Atanasova, Krasimira Chalmers, James D. Chotirmall, Sanjay H. QD Chemistry QH301 Biology 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. Nature Portfolio 2021-04 Article PeerReviewed Mac Aogain, Micheal and Narayana, Jayanth Kumar and Tiew, Pei Yee and Ali, Nur A'tikah Binte Mohamed and Yong, Valerie Fei Lee and Jaggi, Tavleen Kaur and Lim, Albert Yick Hou and Keir, Holly R. and Dicker, Alison J. and Thng, Kai Xian and Tsang, Akina and Ivan, Fransiskus Xaverius and Poh, Mau Ern and Oriano, Martina and Aliberti, Stefano and Blasi, Francesco and Low, Teck Boon and Ong, Thun How and Oliver, Brian and Giam, Yan Hui and Tee, Augustine and Koh, Mariko Siyue and Abisheganaden, John Arputhan and Tsaneva-Atanasova, Krasimira and Chalmers, James D. and Chotirmall, Sanjay H. (2021) Integrative microbiomics in bronchiectasis exacerbations. Nature Medicine, 27 (4). ISSN 1078-8956, DOI https://doi.org/10.1038/s41591-021-01289-7 <https://doi.org/10.1038/s41591-021-01289-7>. 10.1038/s41591-021-01289-7 |
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QD Chemistry QH301 Biology Mac Aogain, Micheal Narayana, Jayanth Kumar Tiew, Pei Yee Ali, Nur A'tikah Binte Mohamed Yong, Valerie Fei Lee Jaggi, Tavleen Kaur Lim, Albert Yick Hou Keir, Holly R. Dicker, Alison J. Thng, Kai Xian Tsang, Akina Ivan, Fransiskus Xaverius Poh, Mau Ern Oriano, Martina Aliberti, Stefano Blasi, Francesco Low, Teck Boon Ong, Thun How Oliver, Brian Giam, Yan Hui Tee, Augustine Koh, Mariko Siyue Abisheganaden, John Arputhan Tsaneva-Atanasova, Krasimira Chalmers, James D. Chotirmall, Sanjay H. Integrative microbiomics in bronchiectasis exacerbations |
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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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Mac Aogain, Micheal Narayana, Jayanth Kumar Tiew, Pei Yee Ali, Nur A'tikah Binte Mohamed Yong, Valerie Fei Lee Jaggi, Tavleen Kaur Lim, Albert Yick Hou Keir, Holly R. Dicker, Alison J. Thng, Kai Xian Tsang, Akina Ivan, Fransiskus Xaverius Poh, Mau Ern Oriano, Martina Aliberti, Stefano Blasi, Francesco Low, Teck Boon Ong, Thun How Oliver, Brian Giam, Yan Hui Tee, Augustine Koh, Mariko Siyue Abisheganaden, John Arputhan Tsaneva-Atanasova, Krasimira Chalmers, James D. Chotirmall, Sanjay H. |
author_facet |
Mac Aogain, Micheal Narayana, Jayanth Kumar Tiew, Pei Yee Ali, Nur A'tikah Binte Mohamed Yong, Valerie Fei Lee Jaggi, Tavleen Kaur Lim, Albert Yick Hou Keir, Holly R. Dicker, Alison J. Thng, Kai Xian Tsang, Akina Ivan, Fransiskus Xaverius Poh, Mau Ern Oriano, Martina Aliberti, Stefano Blasi, Francesco Low, Teck Boon Ong, Thun How Oliver, Brian Giam, Yan Hui Tee, Augustine Koh, Mariko Siyue Abisheganaden, John Arputhan Tsaneva-Atanasova, Krasimira Chalmers, James D. Chotirmall, Sanjay H. |
author_sort |
Mac Aogain, Micheal |
title |
Integrative microbiomics in bronchiectasis exacerbations |
title_short |
Integrative microbiomics in bronchiectasis exacerbations |
title_full |
Integrative microbiomics in bronchiectasis exacerbations |
title_fullStr |
Integrative microbiomics in bronchiectasis exacerbations |
title_full_unstemmed |
Integrative microbiomics in bronchiectasis exacerbations |
title_sort |
integrative microbiomics in bronchiectasis exacerbations |
publisher |
Nature Portfolio |
publishDate |
2021 |
url |
http://eprints.um.edu.my/34639/ |
_version_ |
1735409619502628864 |
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13.1944895 |