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Consequences of the COVID-19 Outbreak Lockdown on Non-Viral Infectious Agents as Reported by a Laboratory-Based Surveillance System at the IHU Méditerranée Infection, Marseille, France

The objective of this paper is to describe the surveillance system MIDaS and to show how this system has been used for evaluating the consequences of the French COVID-19 lockdown on the bacterial mix of AP-HM and the antibiotic resistance. MIDas is a kind of surveillance activity hub, allowing the a...

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Autores principales: Kaba, Lanceï, Giraud-Gatineau, Audrey, Jimeno, Marie-Thérèse, Rolain, Jean-Marc, Colson, Philippe, Raoult, Didier, Chaudet, Hervé
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8348674/
https://www.ncbi.nlm.nih.gov/pubmed/34361994
http://dx.doi.org/10.3390/jcm10153210
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author Kaba, Lanceï
Giraud-Gatineau, Audrey
Jimeno, Marie-Thérèse
Rolain, Jean-Marc
Colson, Philippe
Raoult, Didier
Chaudet, Hervé
author_facet Kaba, Lanceï
Giraud-Gatineau, Audrey
Jimeno, Marie-Thérèse
Rolain, Jean-Marc
Colson, Philippe
Raoult, Didier
Chaudet, Hervé
author_sort Kaba, Lanceï
collection PubMed
description The objective of this paper is to describe the surveillance system MIDaS and to show how this system has been used for evaluating the consequences of the French COVID-19 lockdown on the bacterial mix of AP-HM and the antibiotic resistance. MIDas is a kind of surveillance activity hub, allowing the automatic construction of surveillance control boards. We investigated the diversity and resistance of bacterial agents from respiratory, blood, and urine samples during the lockdown period (from week 12 to 35 of 2020), using the same period of years from 2017 to 2019 as control. Taking into account the drop in patient recruitment, several species have exhibited significant changes in their relative abundance (either increasing or decreasing) with changes up to 9%. The changes were more important for respiratory and urine samples than for blood samples. The relative abundance in respiratory samples for the whole studied period was higher during the lockdown. A significant increase in the percentage of wild phenotypes during the lockdown was observed for several species. The use of the MIDaS syndromic collection and surveillance system made it possible to efficiently detect, analyze, and follow changes of the microbiological population as during the lockdown period.
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spelling pubmed-83486742021-08-08 Consequences of the COVID-19 Outbreak Lockdown on Non-Viral Infectious Agents as Reported by a Laboratory-Based Surveillance System at the IHU Méditerranée Infection, Marseille, France Kaba, Lanceï Giraud-Gatineau, Audrey Jimeno, Marie-Thérèse Rolain, Jean-Marc Colson, Philippe Raoult, Didier Chaudet, Hervé J Clin Med Article The objective of this paper is to describe the surveillance system MIDaS and to show how this system has been used for evaluating the consequences of the French COVID-19 lockdown on the bacterial mix of AP-HM and the antibiotic resistance. MIDas is a kind of surveillance activity hub, allowing the automatic construction of surveillance control boards. We investigated the diversity and resistance of bacterial agents from respiratory, blood, and urine samples during the lockdown period (from week 12 to 35 of 2020), using the same period of years from 2017 to 2019 as control. Taking into account the drop in patient recruitment, several species have exhibited significant changes in their relative abundance (either increasing or decreasing) with changes up to 9%. The changes were more important for respiratory and urine samples than for blood samples. The relative abundance in respiratory samples for the whole studied period was higher during the lockdown. A significant increase in the percentage of wild phenotypes during the lockdown was observed for several species. The use of the MIDaS syndromic collection and surveillance system made it possible to efficiently detect, analyze, and follow changes of the microbiological population as during the lockdown period. MDPI 2021-07-21 /pmc/articles/PMC8348674/ /pubmed/34361994 http://dx.doi.org/10.3390/jcm10153210 Text en © 2021 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Kaba, Lanceï
Giraud-Gatineau, Audrey
Jimeno, Marie-Thérèse
Rolain, Jean-Marc
Colson, Philippe
Raoult, Didier
Chaudet, Hervé
Consequences of the COVID-19 Outbreak Lockdown on Non-Viral Infectious Agents as Reported by a Laboratory-Based Surveillance System at the IHU Méditerranée Infection, Marseille, France
title Consequences of the COVID-19 Outbreak Lockdown on Non-Viral Infectious Agents as Reported by a Laboratory-Based Surveillance System at the IHU Méditerranée Infection, Marseille, France
title_full Consequences of the COVID-19 Outbreak Lockdown on Non-Viral Infectious Agents as Reported by a Laboratory-Based Surveillance System at the IHU Méditerranée Infection, Marseille, France
title_fullStr Consequences of the COVID-19 Outbreak Lockdown on Non-Viral Infectious Agents as Reported by a Laboratory-Based Surveillance System at the IHU Méditerranée Infection, Marseille, France
title_full_unstemmed Consequences of the COVID-19 Outbreak Lockdown on Non-Viral Infectious Agents as Reported by a Laboratory-Based Surveillance System at the IHU Méditerranée Infection, Marseille, France
title_short Consequences of the COVID-19 Outbreak Lockdown on Non-Viral Infectious Agents as Reported by a Laboratory-Based Surveillance System at the IHU Méditerranée Infection, Marseille, France
title_sort consequences of the covid-19 outbreak lockdown on non-viral infectious agents as reported by a laboratory-based surveillance system at the ihu méditerranée infection, marseille, france
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8348674/
https://www.ncbi.nlm.nih.gov/pubmed/34361994
http://dx.doi.org/10.3390/jcm10153210
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