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Strong pathogen competition in neonatal gut colonisation
Opportunistic bacterial pathogen species and their strains that colonise the human gut are generally understood to compete against both each other and the commensal species colonising this ecosystem. Currently we are lacking a population-wide quantification of strain-level colonisation dynamics and...
Autores principales: | , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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Nature Publishing Group UK
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9715557/ https://www.ncbi.nlm.nih.gov/pubmed/36456554 http://dx.doi.org/10.1038/s41467-022-35178-5 |
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author | Mäklin, Tommi Thorpe, Harry A. Pöntinen, Anna K. Gladstone, Rebecca A. Shao, Yan Pesonen, Maiju McNally, Alan Johnsen, Pål J. Samuelsen, Ørjan Lawley, Trevor D. Honkela, Antti Corander, Jukka |
author_facet | Mäklin, Tommi Thorpe, Harry A. Pöntinen, Anna K. Gladstone, Rebecca A. Shao, Yan Pesonen, Maiju McNally, Alan Johnsen, Pål J. Samuelsen, Ørjan Lawley, Trevor D. Honkela, Antti Corander, Jukka |
author_sort | Mäklin, Tommi |
collection | PubMed |
description | Opportunistic bacterial pathogen species and their strains that colonise the human gut are generally understood to compete against both each other and the commensal species colonising this ecosystem. Currently we are lacking a population-wide quantification of strain-level colonisation dynamics and the relationship of colonisation potential to prevalence in disease, and how ecological factors might be modulating these. Here, using a combination of latest high-resolution metagenomics and strain-level genomic epidemiology methods we performed a characterisation of the competition and colonisation dynamics for a longitudinal cohort of neonatal gut microbiomes. We found strong inter- and intra-species competition dynamics in the gut colonisation process, but also a number of synergistic relationships among several species belonging to genus Klebsiella, which includes the prominent human pathogen Klebsiella pneumoniae. No evidence of preferential colonisation by hospital-adapted pathogen lineages in either vaginal or caesarean section birth groups was detected. Our analysis further enabled unbiased assessment of strain-level colonisation potential of extra-intestinal pathogenic Escherichia coli (ExPEC) in comparison with their propensity to cause bloodstream infections. Our study highlights the importance of systematic surveillance of bacterial gut pathogens, not only from disease but also from carriage state, to better inform therapies and preventive medicine in the future. |
format | Online Article Text |
id | pubmed-9715557 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-97155572022-12-03 Strong pathogen competition in neonatal gut colonisation Mäklin, Tommi Thorpe, Harry A. Pöntinen, Anna K. Gladstone, Rebecca A. Shao, Yan Pesonen, Maiju McNally, Alan Johnsen, Pål J. Samuelsen, Ørjan Lawley, Trevor D. Honkela, Antti Corander, Jukka Nat Commun Article Opportunistic bacterial pathogen species and their strains that colonise the human gut are generally understood to compete against both each other and the commensal species colonising this ecosystem. Currently we are lacking a population-wide quantification of strain-level colonisation dynamics and the relationship of colonisation potential to prevalence in disease, and how ecological factors might be modulating these. Here, using a combination of latest high-resolution metagenomics and strain-level genomic epidemiology methods we performed a characterisation of the competition and colonisation dynamics for a longitudinal cohort of neonatal gut microbiomes. We found strong inter- and intra-species competition dynamics in the gut colonisation process, but also a number of synergistic relationships among several species belonging to genus Klebsiella, which includes the prominent human pathogen Klebsiella pneumoniae. No evidence of preferential colonisation by hospital-adapted pathogen lineages in either vaginal or caesarean section birth groups was detected. Our analysis further enabled unbiased assessment of strain-level colonisation potential of extra-intestinal pathogenic Escherichia coli (ExPEC) in comparison with their propensity to cause bloodstream infections. Our study highlights the importance of systematic surveillance of bacterial gut pathogens, not only from disease but also from carriage state, to better inform therapies and preventive medicine in the future. Nature Publishing Group UK 2022-12-01 /pmc/articles/PMC9715557/ /pubmed/36456554 http://dx.doi.org/10.1038/s41467-022-35178-5 Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . |
spellingShingle | Article Mäklin, Tommi Thorpe, Harry A. Pöntinen, Anna K. Gladstone, Rebecca A. Shao, Yan Pesonen, Maiju McNally, Alan Johnsen, Pål J. Samuelsen, Ørjan Lawley, Trevor D. Honkela, Antti Corander, Jukka Strong pathogen competition in neonatal gut colonisation |
title | Strong pathogen competition in neonatal gut colonisation |
title_full | Strong pathogen competition in neonatal gut colonisation |
title_fullStr | Strong pathogen competition in neonatal gut colonisation |
title_full_unstemmed | Strong pathogen competition in neonatal gut colonisation |
title_short | Strong pathogen competition in neonatal gut colonisation |
title_sort | strong pathogen competition in neonatal gut colonisation |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9715557/ https://www.ncbi.nlm.nih.gov/pubmed/36456554 http://dx.doi.org/10.1038/s41467-022-35178-5 |
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