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Deciphering the Urinary Microbiota Repertoire by Culturomics Reveals Mostly Anaerobic Bacteria From the Gut

Human urine was considered sterile for a long time. However, 416 species have been previously cultured, including only 40 anaerobic species. Here, we used culturomics, particularly those targeting anaerobes, to better understand the urinary microbiota. By testing 435 urine samples, we isolated 450 d...

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Autores principales: Dubourg, Grégory, Morand, Aurélie, Mekhalif, Fatima, Godefroy, Raphael, Corthier, Alice, Yacouba, Abdourahamane, Diakite, Ami, Cornu, Florent, Cresci, Marina, Brahimi, Samy, Caputo, Aurélia, Lechevallier, Eric, Tsimaratos, Michel, Moal, Valérie, Lagier, Jean-Christophe, Raoult, Didier
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7596177/
https://www.ncbi.nlm.nih.gov/pubmed/33178140
http://dx.doi.org/10.3389/fmicb.2020.513305
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author Dubourg, Grégory
Morand, Aurélie
Mekhalif, Fatima
Godefroy, Raphael
Corthier, Alice
Yacouba, Abdourahamane
Diakite, Ami
Cornu, Florent
Cresci, Marina
Brahimi, Samy
Caputo, Aurélia
Lechevallier, Eric
Tsimaratos, Michel
Moal, Valérie
Lagier, Jean-Christophe
Raoult, Didier
author_facet Dubourg, Grégory
Morand, Aurélie
Mekhalif, Fatima
Godefroy, Raphael
Corthier, Alice
Yacouba, Abdourahamane
Diakite, Ami
Cornu, Florent
Cresci, Marina
Brahimi, Samy
Caputo, Aurélia
Lechevallier, Eric
Tsimaratos, Michel
Moal, Valérie
Lagier, Jean-Christophe
Raoult, Didier
author_sort Dubourg, Grégory
collection PubMed
description Human urine was considered sterile for a long time. However, 416 species have been previously cultured, including only 40 anaerobic species. Here, we used culturomics, particularly those targeting anaerobes, to better understand the urinary microbiota. By testing 435 urine samples, we isolated 450 different bacterial species, including 256 never described in urine of which 18 were new species. Among the bacterial species identified, 161 were anaerobes (35%). This study increased the known urine repertoire by 39%. Among the 672 bacterial species isolated now at least once from urine microbiota, 431 (64.1%) were previously isolated from gut microbiota, while only 213 (31.7%) were previously isolated from vagina. These results suggest that many members of the microbiota in the urinary tract are in fact derived from the gut, and a paradigm shift is thus needed in our understanding.
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spelling pubmed-75961772020-11-10 Deciphering the Urinary Microbiota Repertoire by Culturomics Reveals Mostly Anaerobic Bacteria From the Gut Dubourg, Grégory Morand, Aurélie Mekhalif, Fatima Godefroy, Raphael Corthier, Alice Yacouba, Abdourahamane Diakite, Ami Cornu, Florent Cresci, Marina Brahimi, Samy Caputo, Aurélia Lechevallier, Eric Tsimaratos, Michel Moal, Valérie Lagier, Jean-Christophe Raoult, Didier Front Microbiol Microbiology Human urine was considered sterile for a long time. However, 416 species have been previously cultured, including only 40 anaerobic species. Here, we used culturomics, particularly those targeting anaerobes, to better understand the urinary microbiota. By testing 435 urine samples, we isolated 450 different bacterial species, including 256 never described in urine of which 18 were new species. Among the bacterial species identified, 161 were anaerobes (35%). This study increased the known urine repertoire by 39%. Among the 672 bacterial species isolated now at least once from urine microbiota, 431 (64.1%) were previously isolated from gut microbiota, while only 213 (31.7%) were previously isolated from vagina. These results suggest that many members of the microbiota in the urinary tract are in fact derived from the gut, and a paradigm shift is thus needed in our understanding. Frontiers Media S.A. 2020-10-16 /pmc/articles/PMC7596177/ /pubmed/33178140 http://dx.doi.org/10.3389/fmicb.2020.513305 Text en Copyright © 2020 Dubourg, Morand, Mekhalif, Godefroy, Corthier, Yacouba, Diakite, Cornu, Cresci, Brahimi, Caputo, Lechevallier, Tsimaratos, Moal, Lagier and Raoult. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Microbiology
Dubourg, Grégory
Morand, Aurélie
Mekhalif, Fatima
Godefroy, Raphael
Corthier, Alice
Yacouba, Abdourahamane
Diakite, Ami
Cornu, Florent
Cresci, Marina
Brahimi, Samy
Caputo, Aurélia
Lechevallier, Eric
Tsimaratos, Michel
Moal, Valérie
Lagier, Jean-Christophe
Raoult, Didier
Deciphering the Urinary Microbiota Repertoire by Culturomics Reveals Mostly Anaerobic Bacteria From the Gut
title Deciphering the Urinary Microbiota Repertoire by Culturomics Reveals Mostly Anaerobic Bacteria From the Gut
title_full Deciphering the Urinary Microbiota Repertoire by Culturomics Reveals Mostly Anaerobic Bacteria From the Gut
title_fullStr Deciphering the Urinary Microbiota Repertoire by Culturomics Reveals Mostly Anaerobic Bacteria From the Gut
title_full_unstemmed Deciphering the Urinary Microbiota Repertoire by Culturomics Reveals Mostly Anaerobic Bacteria From the Gut
title_short Deciphering the Urinary Microbiota Repertoire by Culturomics Reveals Mostly Anaerobic Bacteria From the Gut
title_sort deciphering the urinary microbiota repertoire by culturomics reveals mostly anaerobic bacteria from the gut
topic Microbiology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7596177/
https://www.ncbi.nlm.nih.gov/pubmed/33178140
http://dx.doi.org/10.3389/fmicb.2020.513305
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