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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doaj-daa8ef37966b4c7dbdc1eebe93e133572021-08-06T15:26:27ZengMDPI AGJournal of Clinical Medicine2077-03832021-07-01103210321010.3390/jcm10153210Consequences 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, FranceLanceï Kaba0Audrey Giraud-Gatineau1Marie-Thérèse Jimeno2Jean-Marc Rolain3Philippe Colson4Didier Raoult5Hervé Chaudet6IHU Méditerranée Infection, 19-21 Boulevard Jean Moulin, 13005 Marseille, FranceIHU Méditerranée Infection, 19-21 Boulevard Jean Moulin, 13005 Marseille, FranceAssistance Publique-Hôpitaux de Marseille (AP-HM), 13005 Marseille, FranceIHU Méditerranée Infection, 19-21 Boulevard Jean Moulin, 13005 Marseille, FranceIHU Méditerranée Infection, 19-21 Boulevard Jean Moulin, 13005 Marseille, FranceIHU Méditerranée Infection, 19-21 Boulevard Jean Moulin, 13005 Marseille, FranceIHU Méditerranée Infection, 19-21 Boulevard Jean Moulin, 13005 Marseille, FranceThe 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.https://www.mdpi.com/2077-0383/10/15/3210syndromic surveillanceclinical microbiology laboratoryepidemiologylockdownCOVID-19diversity |
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DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Lanceï Kaba Audrey Giraud-Gatineau Marie-Thérèse Jimeno Jean-Marc Rolain Philippe Colson Didier Raoult Hervé Chaudet |
spellingShingle |
Lanceï Kaba Audrey Giraud-Gatineau Marie-Thérèse Jimeno Jean-Marc Rolain Philippe Colson Didier Raoult Hervé Chaudet 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 Journal of Clinical Medicine syndromic surveillance clinical microbiology laboratory epidemiology lockdown COVID-19 diversity |
author_facet |
Lanceï Kaba Audrey Giraud-Gatineau Marie-Thérèse Jimeno Jean-Marc Rolain Philippe Colson Didier Raoult Hervé Chaudet |
author_sort |
Lanceï Kaba |
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_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_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_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 |
publisher |
MDPI AG |
series |
Journal of Clinical Medicine |
issn |
2077-0383 |
publishDate |
2021-07-01 |
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. |
topic |
syndromic surveillance clinical microbiology laboratory epidemiology lockdown COVID-19 diversity |
url |
https://www.mdpi.com/2077-0383/10/15/3210 |
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