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Preliminary landscape of Candidatus Saccharibacteria in the human microbiome

INTRODUCTION: Candidate Phyla Radiation (CPR) and more specifically Candidatus Saccharibacteria (TM7) have now been established as ubiquitous members of the human oral microbiota. Additionally, CPR have been reported in the gastrointestinal and urogenital tracts. However, the exploration of new huma...

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Autores principales: Naud, Sabrina, Valles, Camille, Abdillah, Abdourahim, Abou Chacra, Linda, Mekhalif, Fatima Zouina, Ibrahim, Ahmad, Caputo, Aurelia, Baudoin, Jean-Pierre, Gouriet, Frédérique, Bittar, Fadi, Lagier, Jean-Christophe, Ranque, Stéphane, Fenollar, Florence, Tidjani Alou, Maryam, Raoult, Didier
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10414567/
https://www.ncbi.nlm.nih.gov/pubmed/37577371
http://dx.doi.org/10.3389/fcimb.2023.1195679
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author Naud, Sabrina
Valles, Camille
Abdillah, Abdourahim
Abou Chacra, Linda
Mekhalif, Fatima Zouina
Ibrahim, Ahmad
Caputo, Aurelia
Baudoin, Jean-Pierre
Gouriet, Frédérique
Bittar, Fadi
Lagier, Jean-Christophe
Ranque, Stéphane
Fenollar, Florence
Tidjani Alou, Maryam
Raoult, Didier
author_facet Naud, Sabrina
Valles, Camille
Abdillah, Abdourahim
Abou Chacra, Linda
Mekhalif, Fatima Zouina
Ibrahim, Ahmad
Caputo, Aurelia
Baudoin, Jean-Pierre
Gouriet, Frédérique
Bittar, Fadi
Lagier, Jean-Christophe
Ranque, Stéphane
Fenollar, Florence
Tidjani Alou, Maryam
Raoult, Didier
author_sort Naud, Sabrina
collection PubMed
description INTRODUCTION: Candidate Phyla Radiation (CPR) and more specifically Candidatus Saccharibacteria (TM7) have now been established as ubiquitous members of the human oral microbiota. Additionally, CPR have been reported in the gastrointestinal and urogenital tracts. However, the exploration of new human niches has been limited to date. METHODS: In this study, we performed a prospective and retrospective screening of TM7 in human samples using standard PCR, real-time PCR, scanning electron microscopy (SEM) and shotgun metagenomics. RESULTS: Using Real-time PCR and standard PCR, oral samples presented the highest TM7 prevalence followed by fecal samples, breast milk samples, vaginal samples and urine samples. Surprisingly, TM7 were also detected in infectious samples, namely cardiac valves and blood cultures at a low prevalence (under 3%). Moreover, we observed CPR-like structures using SEM in all sample types except cardiac valves. The reconstruction of TM7 genomes in oral and fecal samples from shotgun metagenomics reads further confirmed their high prevalence in some samples. CONCLUSION: This study confirmed, through their detection in multiple human samples, that TM7 are human commensals that can also be found in clinical settings. Their detection in clinical samples warrants further studies to explore their role in a pathological setting.
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spelling pubmed-104145672023-08-11 Preliminary landscape of Candidatus Saccharibacteria in the human microbiome Naud, Sabrina Valles, Camille Abdillah, Abdourahim Abou Chacra, Linda Mekhalif, Fatima Zouina Ibrahim, Ahmad Caputo, Aurelia Baudoin, Jean-Pierre Gouriet, Frédérique Bittar, Fadi Lagier, Jean-Christophe Ranque, Stéphane Fenollar, Florence Tidjani Alou, Maryam Raoult, Didier Front Cell Infect Microbiol Cellular and Infection Microbiology INTRODUCTION: Candidate Phyla Radiation (CPR) and more specifically Candidatus Saccharibacteria (TM7) have now been established as ubiquitous members of the human oral microbiota. Additionally, CPR have been reported in the gastrointestinal and urogenital tracts. However, the exploration of new human niches has been limited to date. METHODS: In this study, we performed a prospective and retrospective screening of TM7 in human samples using standard PCR, real-time PCR, scanning electron microscopy (SEM) and shotgun metagenomics. RESULTS: Using Real-time PCR and standard PCR, oral samples presented the highest TM7 prevalence followed by fecal samples, breast milk samples, vaginal samples and urine samples. Surprisingly, TM7 were also detected in infectious samples, namely cardiac valves and blood cultures at a low prevalence (under 3%). Moreover, we observed CPR-like structures using SEM in all sample types except cardiac valves. The reconstruction of TM7 genomes in oral and fecal samples from shotgun metagenomics reads further confirmed their high prevalence in some samples. CONCLUSION: This study confirmed, through their detection in multiple human samples, that TM7 are human commensals that can also be found in clinical settings. Their detection in clinical samples warrants further studies to explore their role in a pathological setting. Frontiers Media S.A. 2023-07-27 /pmc/articles/PMC10414567/ /pubmed/37577371 http://dx.doi.org/10.3389/fcimb.2023.1195679 Text en Copyright © 2023 Naud, Valles, Abdillah, Abou Chacra, Mekhalif, Ibrahim, Caputo, Baudoin, Gouriet, Bittar, Lagier, Ranque, Fenollar, Tidjani Alou and Raoult https://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 Cellular and Infection Microbiology
Naud, Sabrina
Valles, Camille
Abdillah, Abdourahim
Abou Chacra, Linda
Mekhalif, Fatima Zouina
Ibrahim, Ahmad
Caputo, Aurelia
Baudoin, Jean-Pierre
Gouriet, Frédérique
Bittar, Fadi
Lagier, Jean-Christophe
Ranque, Stéphane
Fenollar, Florence
Tidjani Alou, Maryam
Raoult, Didier
Preliminary landscape of Candidatus Saccharibacteria in the human microbiome
title Preliminary landscape of Candidatus Saccharibacteria in the human microbiome
title_full Preliminary landscape of Candidatus Saccharibacteria in the human microbiome
title_fullStr Preliminary landscape of Candidatus Saccharibacteria in the human microbiome
title_full_unstemmed Preliminary landscape of Candidatus Saccharibacteria in the human microbiome
title_short Preliminary landscape of Candidatus Saccharibacteria in the human microbiome
title_sort preliminary landscape of candidatus saccharibacteria in the human microbiome
topic Cellular and Infection Microbiology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10414567/
https://www.ncbi.nlm.nih.gov/pubmed/37577371
http://dx.doi.org/10.3389/fcimb.2023.1195679
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