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Diversity and enterotype in gut bacterial community of adults in Taiwan
BACKGROUND: Gastrointestinal microbiota, particularly gut microbiota, is associated with human health. The biodiversity of gut microbiota is affected by ethnicities and environmental factors such as dietary habits or medicine intake, and three enterotypes of the human gut microbiome were announced i...
Autores principales: | , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2017
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5310273/ https://www.ncbi.nlm.nih.gov/pubmed/28198673 http://dx.doi.org/10.1186/s12864-016-3261-6 |
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author | Liang, Chao Tseng, Han-Chi Chen, Hui-Mei Wang, Wei-Chi Chiu, Chih-Min Chang, Jen-Yun Lu, Kuan-Yi Weng, Shun-Long Chang, Tzu-Hao Chang, Chao-Hsiang Weng, Chen-Tsung Wang, Hwei-Ming Huang, Hsien-Da |
author_facet | Liang, Chao Tseng, Han-Chi Chen, Hui-Mei Wang, Wei-Chi Chiu, Chih-Min Chang, Jen-Yun Lu, Kuan-Yi Weng, Shun-Long Chang, Tzu-Hao Chang, Chao-Hsiang Weng, Chen-Tsung Wang, Hwei-Ming Huang, Hsien-Da |
author_sort | Liang, Chao |
collection | PubMed |
description | BACKGROUND: Gastrointestinal microbiota, particularly gut microbiota, is associated with human health. The biodiversity of gut microbiota is affected by ethnicities and environmental factors such as dietary habits or medicine intake, and three enterotypes of the human gut microbiome were announced in 2011. These enterotypes are not significantly correlated with gender, age, or body weight but are influenced by long-term dietary habits. However, to date, only two enterotypes (predominantly consisting of Bacteroides and Prevotella) have shown these characteristics in previous research; the third enterotype remains ambiguous. Understanding the enterotypes can improve the knowledge of the relationship between microbiota and human health. RESULTS: We obtained 181 human fecal samples from adults in Taiwan. Microbiota compositions were analyzed using next-generation sequencing (NGS) technology, which is a culture-independent method of constructing microbial community profiles by sequencing 16S ribosomal DNA (rDNA). In these samples, 17,675,898 sequencing reads were sequenced, and on average, 215 operational taxonomic units (OTUs) were identified for each sample. In this study, the major bacteria in the enterotypes identified from the fecal samples were Bacteroides, Prevotella, and Enterobacteriaceae, and their correlation with dietary habits was confirmed. A microbial interaction network in the gut was observed on the basis of the amount of short-chain fatty acids, pH value of the intestine, and composition of the bacterial community (enterotypes). Finally, a decision tree was derived to provide a predictive model for the three enterotypes. The accuracies of this model in training and independent testing sets were 97.2 and 84.0%, respectively. CONCLUSIONS: We used NGS technology to characterize the microbiota and constructed a predictive model. The most significant finding was that Enterobacteriaceae, the predominant subtype, could be a new subtype of enterotypes in the Asian population. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12864-016-3261-6) contains supplementary material, which is available to authorized users. |
format | Online Article Text |
id | pubmed-5310273 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-53102732017-02-22 Diversity and enterotype in gut bacterial community of adults in Taiwan Liang, Chao Tseng, Han-Chi Chen, Hui-Mei Wang, Wei-Chi Chiu, Chih-Min Chang, Jen-Yun Lu, Kuan-Yi Weng, Shun-Long Chang, Tzu-Hao Chang, Chao-Hsiang Weng, Chen-Tsung Wang, Hwei-Ming Huang, Hsien-Da BMC Genomics Research BACKGROUND: Gastrointestinal microbiota, particularly gut microbiota, is associated with human health. The biodiversity of gut microbiota is affected by ethnicities and environmental factors such as dietary habits or medicine intake, and three enterotypes of the human gut microbiome were announced in 2011. These enterotypes are not significantly correlated with gender, age, or body weight but are influenced by long-term dietary habits. However, to date, only two enterotypes (predominantly consisting of Bacteroides and Prevotella) have shown these characteristics in previous research; the third enterotype remains ambiguous. Understanding the enterotypes can improve the knowledge of the relationship between microbiota and human health. RESULTS: We obtained 181 human fecal samples from adults in Taiwan. Microbiota compositions were analyzed using next-generation sequencing (NGS) technology, which is a culture-independent method of constructing microbial community profiles by sequencing 16S ribosomal DNA (rDNA). In these samples, 17,675,898 sequencing reads were sequenced, and on average, 215 operational taxonomic units (OTUs) were identified for each sample. In this study, the major bacteria in the enterotypes identified from the fecal samples were Bacteroides, Prevotella, and Enterobacteriaceae, and their correlation with dietary habits was confirmed. A microbial interaction network in the gut was observed on the basis of the amount of short-chain fatty acids, pH value of the intestine, and composition of the bacterial community (enterotypes). Finally, a decision tree was derived to provide a predictive model for the three enterotypes. The accuracies of this model in training and independent testing sets were 97.2 and 84.0%, respectively. CONCLUSIONS: We used NGS technology to characterize the microbiota and constructed a predictive model. The most significant finding was that Enterobacteriaceae, the predominant subtype, could be a new subtype of enterotypes in the Asian population. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12864-016-3261-6) contains supplementary material, which is available to authorized users. BioMed Central 2017-01-25 /pmc/articles/PMC5310273/ /pubmed/28198673 http://dx.doi.org/10.1186/s12864-016-3261-6 Text en © The Author(s). 2017 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided 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 Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. |
spellingShingle | Research Liang, Chao Tseng, Han-Chi Chen, Hui-Mei Wang, Wei-Chi Chiu, Chih-Min Chang, Jen-Yun Lu, Kuan-Yi Weng, Shun-Long Chang, Tzu-Hao Chang, Chao-Hsiang Weng, Chen-Tsung Wang, Hwei-Ming Huang, Hsien-Da Diversity and enterotype in gut bacterial community of adults in Taiwan |
title | Diversity and enterotype in gut bacterial community of adults in Taiwan |
title_full | Diversity and enterotype in gut bacterial community of adults in Taiwan |
title_fullStr | Diversity and enterotype in gut bacterial community of adults in Taiwan |
title_full_unstemmed | Diversity and enterotype in gut bacterial community of adults in Taiwan |
title_short | Diversity and enterotype in gut bacterial community of adults in Taiwan |
title_sort | diversity and enterotype in gut bacterial community of adults in taiwan |
topic | Research |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5310273/ https://www.ncbi.nlm.nih.gov/pubmed/28198673 http://dx.doi.org/10.1186/s12864-016-3261-6 |
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