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Application of LpxC enzyme inhibitor to inhibit some fast-growing bacteria in human gut bacterial culturomics
BACKGROUND: Culturomics can ascertain traces of microorganisms to be cultivated using different strategies and identified by matrix-assisted laser desorption/ionization–time-of-flight mass spectrometry or 16S rDNA sequencing. However, to cater to all requirements of microorganisms and isolate as man...
Autores principales: | , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2019
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6937742/ https://www.ncbi.nlm.nih.gov/pubmed/31888576 http://dx.doi.org/10.1186/s12866-019-1681-6 |
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author | Hou, Fengyi Chang, Yuxiao Huang, Zongyu Han, Ni Bin, Lei Deng, Huimin Li, Zhengchao Pan, Zhiyuan Ding, Lei Gao, Hong Yang, Ruifu Zhi, Fachao Bi, Yujing |
author_facet | Hou, Fengyi Chang, Yuxiao Huang, Zongyu Han, Ni Bin, Lei Deng, Huimin Li, Zhengchao Pan, Zhiyuan Ding, Lei Gao, Hong Yang, Ruifu Zhi, Fachao Bi, Yujing |
author_sort | Hou, Fengyi |
collection | PubMed |
description | BACKGROUND: Culturomics can ascertain traces of microorganisms to be cultivated using different strategies and identified by matrix-assisted laser desorption/ionization–time-of-flight mass spectrometry or 16S rDNA sequencing. However, to cater to all requirements of microorganisms and isolate as many species as possible, multiple culture conditions must be used, imposing a heavy workload. In addition, the fast-growing bacteria (e.g., Escherichia) surpass the slow-growing bacteria in culture by occupying space and using up nutrients. Besides, some bacteria (e.g., Pseudomonas) suppress others by secreting antibacterial metabolites, making it difficult to isolate bacteria with lower competence. Applying inhibitors to restrain fast-growing bacteria is one method to cultivate more bacterial species from human feces. RESULTS: We applied CHIR-090, an LpxC enzyme inhibitor that has antibacterial activity against most Gram-negative bacteria, to culturomics of human fresh feces. The antibacterial activity of CHIR-090 was first assessed on five Gram-negative species of bacteria (Escherichia coli, Pseudomonas aeruginosa, Klebsiella pneumoniae, Proteus vulgaris, and Bacteroides vulgatus), all of which are commonly isolated from the human gut. Then, we assessed suitable concentrations of the inhibitor. Finally, CHIR-090 was applied in blood culture bottles for bacterial cultivation. In total, 102 species from five samples were identified. Of these, we found one new species, two species not reported previously in the human gut, and 11 species not previously isolated from humans. CONCLUSIONS: CHIR-090 can suppress E. coli, P. aeruginosa, K. pneumoniae, Pro. vulgaris, but not B. vulgatus. Compared with the non-inhibitor group, CHIR-090 increased bacteria isolation by 23.50%, including four species not reported in humans and one new species. Application of LpxC enzyme inhibitor in culturomics increased the number of species isolated from the human gut. |
format | Online Article Text |
id | pubmed-6937742 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-69377422019-12-31 Application of LpxC enzyme inhibitor to inhibit some fast-growing bacteria in human gut bacterial culturomics Hou, Fengyi Chang, Yuxiao Huang, Zongyu Han, Ni Bin, Lei Deng, Huimin Li, Zhengchao Pan, Zhiyuan Ding, Lei Gao, Hong Yang, Ruifu Zhi, Fachao Bi, Yujing BMC Microbiol Research Article BACKGROUND: Culturomics can ascertain traces of microorganisms to be cultivated using different strategies and identified by matrix-assisted laser desorption/ionization–time-of-flight mass spectrometry or 16S rDNA sequencing. However, to cater to all requirements of microorganisms and isolate as many species as possible, multiple culture conditions must be used, imposing a heavy workload. In addition, the fast-growing bacteria (e.g., Escherichia) surpass the slow-growing bacteria in culture by occupying space and using up nutrients. Besides, some bacteria (e.g., Pseudomonas) suppress others by secreting antibacterial metabolites, making it difficult to isolate bacteria with lower competence. Applying inhibitors to restrain fast-growing bacteria is one method to cultivate more bacterial species from human feces. RESULTS: We applied CHIR-090, an LpxC enzyme inhibitor that has antibacterial activity against most Gram-negative bacteria, to culturomics of human fresh feces. The antibacterial activity of CHIR-090 was first assessed on five Gram-negative species of bacteria (Escherichia coli, Pseudomonas aeruginosa, Klebsiella pneumoniae, Proteus vulgaris, and Bacteroides vulgatus), all of which are commonly isolated from the human gut. Then, we assessed suitable concentrations of the inhibitor. Finally, CHIR-090 was applied in blood culture bottles for bacterial cultivation. In total, 102 species from five samples were identified. Of these, we found one new species, two species not reported previously in the human gut, and 11 species not previously isolated from humans. CONCLUSIONS: CHIR-090 can suppress E. coli, P. aeruginosa, K. pneumoniae, Pro. vulgaris, but not B. vulgatus. Compared with the non-inhibitor group, CHIR-090 increased bacteria isolation by 23.50%, including four species not reported in humans and one new species. Application of LpxC enzyme inhibitor in culturomics increased the number of species isolated from the human gut. BioMed Central 2019-12-30 /pmc/articles/PMC6937742/ /pubmed/31888576 http://dx.doi.org/10.1186/s12866-019-1681-6 Text en © The Author(s). 2019 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 Article Hou, Fengyi Chang, Yuxiao Huang, Zongyu Han, Ni Bin, Lei Deng, Huimin Li, Zhengchao Pan, Zhiyuan Ding, Lei Gao, Hong Yang, Ruifu Zhi, Fachao Bi, Yujing Application of LpxC enzyme inhibitor to inhibit some fast-growing bacteria in human gut bacterial culturomics |
title | Application of LpxC enzyme inhibitor to inhibit some fast-growing bacteria in human gut bacterial culturomics |
title_full | Application of LpxC enzyme inhibitor to inhibit some fast-growing bacteria in human gut bacterial culturomics |
title_fullStr | Application of LpxC enzyme inhibitor to inhibit some fast-growing bacteria in human gut bacterial culturomics |
title_full_unstemmed | Application of LpxC enzyme inhibitor to inhibit some fast-growing bacteria in human gut bacterial culturomics |
title_short | Application of LpxC enzyme inhibitor to inhibit some fast-growing bacteria in human gut bacterial culturomics |
title_sort | application of lpxc enzyme inhibitor to inhibit some fast-growing bacteria in human gut bacterial culturomics |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6937742/ https://www.ncbi.nlm.nih.gov/pubmed/31888576 http://dx.doi.org/10.1186/s12866-019-1681-6 |
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