A summer in the greater Paris: trophic status of peri-urban lakes shapes prokaryotic community structure and functional potential
Abstract With more than 12 million inhabitants, the Greater Paris offers a “natural laboratory” to explore the effects of eutrophication on freshwater lake’s microbiomes within a relative restricted area (~ 70 km radius). Here, a 4-months survey was carried out during summertime to monitor planktoni...
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BMC
2025-02-01
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| Series: | Environmental Microbiome |
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| Online Access: | https://doi.org/10.1186/s40793-025-00681-x |
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| author | Pierre Foucault Sébastien Halary Charlotte Duval Midoli Goto Benjamin Marie Sahima Hamlaoui Ludwig Jardillier Dominique Lamy Emilie Lance Emmanuelle Raimbault Fayçal Allouti Marc Troussellier Cécile Bernard Julie Leloup Sébastien Duperron |
| author_facet | Pierre Foucault Sébastien Halary Charlotte Duval Midoli Goto Benjamin Marie Sahima Hamlaoui Ludwig Jardillier Dominique Lamy Emilie Lance Emmanuelle Raimbault Fayçal Allouti Marc Troussellier Cécile Bernard Julie Leloup Sébastien Duperron |
| author_sort | Pierre Foucault |
| collection | DOAJ |
| description | Abstract With more than 12 million inhabitants, the Greater Paris offers a “natural laboratory” to explore the effects of eutrophication on freshwater lake’s microbiomes within a relative restricted area (~ 70 km radius). Here, a 4-months survey was carried out during summertime to monitor planktonic microbial communities of nine lakes located around Paris (Île-de-France, France) of comparable morphologies, yet distinct trophic statuses from mesotrophic to hypereutrophic. By thus minimizing the confounding factors, we investigated how trophic status could influence prokaryotic community structures (16S rRNA gene sequencing) and functions (shotgun metagenomics). These freshwater lakes harbored highly distinct and diverse prokaryotic communities, and their trophic status appears as the main driver explaining both differences in community structure and functional potential. Although their gene pool was quite stable and shared among lakes, taxonomical and functional changes were correlated. According to trophic status, differences in phosphorus metabolism-related genes were highlighted among the relevant functions involved in the biogeochemical cycles. Overall, hypereutrophic lakes microbiomes displayed the highest contrast and heterogeneity over time, suggesting a specific microbial regime shift compared to eutrophic and mesotrophic lakes. |
| format | Article |
| id | doaj-art-3bc3fbc750e249c2b021e4408a925df2 |
| institution | OA Journals |
| issn | 2524-6372 |
| language | English |
| publishDate | 2025-02-01 |
| publisher | BMC |
| record_format | Article |
| series | Environmental Microbiome |
| spelling | doaj-art-3bc3fbc750e249c2b021e4408a925df22025-08-20T01:57:27ZengBMCEnvironmental Microbiome2524-63722025-02-0120111610.1186/s40793-025-00681-xA summer in the greater Paris: trophic status of peri-urban lakes shapes prokaryotic community structure and functional potentialPierre Foucault0Sébastien Halary1Charlotte Duval2Midoli Goto3Benjamin Marie4Sahima Hamlaoui5Ludwig Jardillier6Dominique Lamy7Emilie Lance8Emmanuelle Raimbault9Fayçal Allouti10Marc Troussellier11Cécile Bernard12Julie Leloup13Sébastien Duperron14Muséum National d’Histoire Naturelle, UMR 7245 CNRS-MNHN, Molécules de Communication et Adaptation des Microorganismes (MCAM)Muséum National d’Histoire Naturelle, UMR 7245 CNRS-MNHN, Molécules de Communication et Adaptation des Microorganismes (MCAM)Muséum National d’Histoire Naturelle, UMR 7245 CNRS-MNHN, Molécules de Communication et Adaptation des Microorganismes (MCAM)Muséum National d’Histoire Naturelle, UMR 7245 CNRS-MNHN, Molécules de Communication et Adaptation des Microorganismes (MCAM)Muséum National d’Histoire Naturelle, UMR 7245 CNRS-MNHN, Molécules de Communication et Adaptation des Microorganismes (MCAM)Muséum National d’Histoire Naturelle, UMR 7245 CNRS-MNHN, Molécules de Communication et Adaptation des Microorganismes (MCAM)Université Paris-Saclay, UMR 8079 Univ. Paris-Saclay-CNRS-AgroParisTech, Unité d’Écologie Systématique et Évolution (ESE)Institut d’Écologie et des Sciences de l’Environnement de Paris (iEES-Paris), Sorbonne Université, UMR 7618 CNRS-INRA-IRD-Univ. Paris Cité-UPECMuséum National d’Histoire Naturelle, UMR 7245 CNRS-MNHN, Molécules de Communication et Adaptation des Microorganismes (MCAM)Institut de Physique du Globe de Paris, UMR 7154, Univ. Paris Cité-CNRSMuséum National d’Histoire Naturelle, UAR 7200 MNHN, Acquisition et Analyses de Données pour l’Histoire naturelle (2AD)Marine Biodiversity, Exploitation & Conservation (MARBEC), Univ. Montpellier-CNRS- Ifremer-IRDMuséum National d’Histoire Naturelle, UMR 7245 CNRS-MNHN, Molécules de Communication et Adaptation des Microorganismes (MCAM)Institut d’Écologie et des Sciences de l’Environnement de Paris (iEES-Paris), Sorbonne Université, UMR 7618 CNRS-INRA-IRD-Univ. Paris Cité-UPECMuséum National d’Histoire Naturelle, UMR 7245 CNRS-MNHN, Molécules de Communication et Adaptation des Microorganismes (MCAM)Abstract With more than 12 million inhabitants, the Greater Paris offers a “natural laboratory” to explore the effects of eutrophication on freshwater lake’s microbiomes within a relative restricted area (~ 70 km radius). Here, a 4-months survey was carried out during summertime to monitor planktonic microbial communities of nine lakes located around Paris (Île-de-France, France) of comparable morphologies, yet distinct trophic statuses from mesotrophic to hypereutrophic. By thus minimizing the confounding factors, we investigated how trophic status could influence prokaryotic community structures (16S rRNA gene sequencing) and functions (shotgun metagenomics). These freshwater lakes harbored highly distinct and diverse prokaryotic communities, and their trophic status appears as the main driver explaining both differences in community structure and functional potential. Although their gene pool was quite stable and shared among lakes, taxonomical and functional changes were correlated. According to trophic status, differences in phosphorus metabolism-related genes were highlighted among the relevant functions involved in the biogeochemical cycles. Overall, hypereutrophic lakes microbiomes displayed the highest contrast and heterogeneity over time, suggesting a specific microbial regime shift compared to eutrophic and mesotrophic lakes.https://doi.org/10.1186/s40793-025-00681-xEutrophicationMicrobiomeMetagenomeFreshwater ecologyPhytoplankton |
| spellingShingle | Pierre Foucault Sébastien Halary Charlotte Duval Midoli Goto Benjamin Marie Sahima Hamlaoui Ludwig Jardillier Dominique Lamy Emilie Lance Emmanuelle Raimbault Fayçal Allouti Marc Troussellier Cécile Bernard Julie Leloup Sébastien Duperron A summer in the greater Paris: trophic status of peri-urban lakes shapes prokaryotic community structure and functional potential Environmental Microbiome Eutrophication Microbiome Metagenome Freshwater ecology Phytoplankton |
| title | A summer in the greater Paris: trophic status of peri-urban lakes shapes prokaryotic community structure and functional potential |
| title_full | A summer in the greater Paris: trophic status of peri-urban lakes shapes prokaryotic community structure and functional potential |
| title_fullStr | A summer in the greater Paris: trophic status of peri-urban lakes shapes prokaryotic community structure and functional potential |
| title_full_unstemmed | A summer in the greater Paris: trophic status of peri-urban lakes shapes prokaryotic community structure and functional potential |
| title_short | A summer in the greater Paris: trophic status of peri-urban lakes shapes prokaryotic community structure and functional potential |
| title_sort | summer in the greater paris trophic status of peri urban lakes shapes prokaryotic community structure and functional potential |
| topic | Eutrophication Microbiome Metagenome Freshwater ecology Phytoplankton |
| url | https://doi.org/10.1186/s40793-025-00681-x |
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