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Human gut resistome can be country-specific

The emergence and spread of antibiotic resistance have become emerging threats to human health. The human gut is a large reservoir for antibiotic resistance genes. The gut resistome may be influenced by many factors, but the consumption of antibiotics at both individual and country level should be o...

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Detalles Bibliográficos
Autores principales: Xia, Yao, Zhu, Yanshan, Li, Qier, Lu, Jiahai
Formato: Online Artículo Texto
Lenguaje:English
Publicado: PeerJ Inc. 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6431545/
https://www.ncbi.nlm.nih.gov/pubmed/30923648
http://dx.doi.org/10.7717/peerj.6389
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author Xia, Yao
Zhu, Yanshan
Li, Qier
Lu, Jiahai
author_facet Xia, Yao
Zhu, Yanshan
Li, Qier
Lu, Jiahai
author_sort Xia, Yao
collection PubMed
description The emergence and spread of antibiotic resistance have become emerging threats to human health. The human gut is a large reservoir for antibiotic resistance genes. The gut resistome may be influenced by many factors, but the consumption of antibiotics at both individual and country level should be one of the most significant factors. Previous studies have suggested that the gut resistome of different populations may vary, but lack quantitative characterization supported with relatively large datasets. In this study, we filled the gap by analyzing a large gut resistome dataset of 1,267 human gut samples of America, China, Denmark, and Spain. We built a stacking machine-learning model to determine whether the gut resistome can act as the sole feature to identify the nationality of an individual reliably. It turned out that the machine learning method could successfully identify American, Chinese, Danish, and Spanish populations with F1 score of 0.964, 0.987, 0.971, and 0.986, respectively. Our finding does highlight the significant differences in the composition of the gut resistome among different nationalities. Our study should be valuable for policy-makers to look into the influences of country-specific factors of the human gut resistome.
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spelling pubmed-64315452019-03-28 Human gut resistome can be country-specific Xia, Yao Zhu, Yanshan Li, Qier Lu, Jiahai PeerJ Bioinformatics The emergence and spread of antibiotic resistance have become emerging threats to human health. The human gut is a large reservoir for antibiotic resistance genes. The gut resistome may be influenced by many factors, but the consumption of antibiotics at both individual and country level should be one of the most significant factors. Previous studies have suggested that the gut resistome of different populations may vary, but lack quantitative characterization supported with relatively large datasets. In this study, we filled the gap by analyzing a large gut resistome dataset of 1,267 human gut samples of America, China, Denmark, and Spain. We built a stacking machine-learning model to determine whether the gut resistome can act as the sole feature to identify the nationality of an individual reliably. It turned out that the machine learning method could successfully identify American, Chinese, Danish, and Spanish populations with F1 score of 0.964, 0.987, 0.971, and 0.986, respectively. Our finding does highlight the significant differences in the composition of the gut resistome among different nationalities. Our study should be valuable for policy-makers to look into the influences of country-specific factors of the human gut resistome. PeerJ Inc. 2019-03-21 /pmc/articles/PMC6431545/ /pubmed/30923648 http://dx.doi.org/10.7717/peerj.6389 Text en © 2019 Xia et al. http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ) and either DOI or URL of the article must be cited.
spellingShingle Bioinformatics
Xia, Yao
Zhu, Yanshan
Li, Qier
Lu, Jiahai
Human gut resistome can be country-specific
title Human gut resistome can be country-specific
title_full Human gut resistome can be country-specific
title_fullStr Human gut resistome can be country-specific
title_full_unstemmed Human gut resistome can be country-specific
title_short Human gut resistome can be country-specific
title_sort human gut resistome can be country-specific
topic Bioinformatics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6431545/
https://www.ncbi.nlm.nih.gov/pubmed/30923648
http://dx.doi.org/10.7717/peerj.6389
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