Current Phd Thesis

Hélène Rogue

2022-2025 / Exposure of periphytic and sediment microbial communities to pharmaceuticals in small rivers and resulting adaptive responses.
Doctoral School: E2M2 – Evolution, Ecosystem, Microbiology, and Modellling. (University of Lyon)
Co-directors: Stéphane Pesce and Cécile Miège (INRAE, UR RiverLy, LAMA)

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Recently Defended Phd Thesis

Laura Kergoat

2019-2022 / Functional and structural responses of microbial communities to combined stressors in hyporheic zone.
Doctoral School: E2M2 – Evolution, Ecosystem, Microbiology, and Modellling. (University of Lyon)
Co-directors: Chloé Bonnineau and Thibault Datry (INRAE, UR RiverLy, EcoFlowS)

Related publications:

KERGOAT L, DABRIN A, MASSON M, DATRY T, BONNINEAU C, 2023. Clogging modulates the copper effects on microbial communities of streambed sediments. Ecotoxicology 32, 321-335. doi: 10.1007/s10646-023-02641-y

Other articles

KERGOAT L, BESSE-HOGGAN P, LEREMBOURE M, BEGUET J, DEVERS-LAMRANI M, MARTIN-LAURENT F, MASSON M, MORIN S, ROINAT A, PESCE S, BONNINEAU C, 2021. Environmental concentrations of sulfonamides can alter bacterial structure and induce diatom deformities in freshwater biofilm communities. Front. Microbiol. 12:643719

PESCE S, KERGOAT L, PARIS L, BILLET L, BESSE-HOGGAN P, BONNINEAU C, 2021. Contrasting effects of environmental concentrations of sulfonamides on microbial heterotrophic activities in freshwater sediment. Front. Microbiol. 12:753647. 

MARTIN-LAURENT F., TOPP E., BILLET L., BATISSON I., MALANDAIN C., BESSE-HOGGAN P., MORIN S., ARTIGAS J., BONNINEAU C., KERGOAT L., DEVERS-LAMRANI M., PESCE S., 2019. Environmental risk assessment of antibiotics in agroecosystems: ecotoxicological effects on aquatic microbial communities and dissemination of antimicrobial resistances and antibiotic biodegradation potential along the soil-water continuum. Environmental Science and Pollution Research.

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Loren Billet

2018-2021 / Fate of antibiotics, antibiotrophs and resistance genes along the soil-water-sediment continuum in agroecosystems
Doctoral School: E2M2 – Evolution, Ecosystem, Microbiology, and Modellling. (University of Lyon)
Co-directors: Stéphane Pesce and Marion Devers (INRAE, UMR Agroecology)
Presentation during EcotoxicoMic2020 congress

Related publications:

BILLET L, PESCE S, MARTIN-LAURENT F, DEVERS-LAMRANI M, 2023. Experimental evidence for manure-borne bacteria invasion in soil during a coalescent event: influence of the antibiotic sulfamethazine. Microb. Ecol. 85, 1463–1472. doi: 10.1007/s00248-022-02020-w. hal-04157280

BILLET L, PESCE S, ROUARD N, SPOR A, PARIS L, LEREMBOURE M, MOUNIER A, BESSE-HOGGAN P, MARTIN-LAURENT F, DEVERS-LAMRANI M, 2021. Antibiotrophy: Key Function for Antibiotic-Resistant Bacteria to Colonize Soils—Case of Sulfamethazine-Degrading Microbacterium sp. C448. Front. Microbiol., 12:643087. doi: 10.3389/fmicb.2021.643087

PESCE S, KERGOAT L, PARIS L, BILLET L, BESSE-HOGGAN P, BONNINEAU C, 2021. Contrasting effects of environmental concentrations of sulfonamides on microbial heterotrophic activities in freshwater sediment. Front. Microbiol. 12:753647.

MARTIN-LAURENT F., TOPP E., BILLET L., BATISSON I., MALANDAIN C., BESSE-HOGGAN P., MORIN S., ARTIGAS J., BONNINEAU C., KERGOAT L., DEVERS-LAMRANI M., PESCE S., 2019. Environmental risk assessment of antibiotics in agroecosystems: ecotoxicological effects on aquatic microbial communities and dissemination of antimicrobial resistances and antibiotic biodegradation potential along the soil-water continuum. Environmental Science and Pollution Research.

Other articles

BILLET L, DEVERS-LAMRANI M, SERRE RF, JULIA E, VANDECASTEELE C, ROUARD N, MARTIN-LAURENT F, SPOR A, 2021. Complete Genome Sequences of Four Atrazine-Degrading Bacterial Strains, Pseudomonas sp. Strain ADPe, Arthrobacter sp. Strain TES, Variovorax sp. Strain 38R, and Chelatobacter sp. Strain SR38. Microbiol Resour Announc. 10, e01080-20. doi: 10.1128/MRA.01080-20

BILLET L, DEVERS-LAMRANI M, ROUARD N, MARTIN-LAURENT F, SPOR A, 2019. Labour sharing promotes coexistence in atrazine degrading bacterial communities. Sci Rep 9, 18363 (2019). Doi : 10.1038/s41598-019-54978-2

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Ayanleh Mahamoud Ahmed

2016-2020 / Structural and functional responses of sediment microbial communities to contaminants in lake and rivers systems: Microcosm experiments.
Doctoral School: SISEO – Systems, Environmental and Organizational Sciences and Engineering (Univeristy Savoie Mont-Blanc).
Co-directors: Stéphane Pesce and Emilie Lyautey (University Savoie Mont-Blanc, UMR CARRTEL)

Related publications:

MAHAMOUD AHMED A., TARDY V., BONNINEAU C., BILLARD P., PESCE S., LYAUTEY E., 2020. Changes in sediment microbial diversity following chronic copper exposure induce community copper-tolerance without increasing sensitivity to arsenic. J. Haz. Mat. 391, 122197

PESCE S., CAMPICHE S., CASADO-MARTINEZ C., MAHAMOUD AHMED A., BONNINEAU C., DABRIN A., LYAUTEY E., FERRARI B.J.D., 2020. Towards simple tools to assess functional effects of contaminants on natural microbial and invertebrate sediment communities. Environ. Sci. Pollut. Res. 27, 6680-6689

MAHAMOUD AHMED A., LYAUTEY E., BONNINEAU C., DABRIN A., PESCE S., 2018. Environmental concentrations of copper, alone or in mixture with arsenic, can impact river sediment microbial community structure and functions. Front. Microbiol. 9, 1852.