Rayan Bouchali

Publications

Loyau A, Bouchali R, Bernardo-Cravo A, Schmeller DS. Silent threats, microbial shifts: Changes in amphibian skin microbiome in the presence of ranavirus

and chytrid pathogens in asymptomatic populations. Infection Genetics Evolution. Submitted.

Bouchali R, Loyau A, Calapez AR, Peirera da Silva J, Esposito L, Forio M-A, FeiO MJ, Gaschet M, Ho L, Lin Y-P, Mouly D, Piscopo N, Rodrigues F, Serra

SRQ, Stalder T, Tamburis O, Vivant M, Schmeller DS. Probiotic cities start in streams: infectious risk drivers and urban planning implications. Hygiene and 

Environmental Health Advances. Submitted.

Feio MJ, Calapez AR, Dias M, Norte AC, Osório HC, Peirera da Silva J, Rodrigues F,  Schmeller DS, Bouchali R, Loyau A, Goethals P, Forio M-A, Ho L, 

Moen A, Henni SH, Morch MLB, Esposito L, Piscopo N, Karagiannis A, Symeonidis A, Koutalieris G, Serra SRQ. Diptera populations in European urban 

streams: potential implications of rehabilitation and climate change for One Health. Eco-Environment & Health. Submitted.  

Bouchali R, De Carvalho FG, Loyau A, Kelly-Irving M, Riboul D, Schmeller DS. Emerging health risks in mountain lakes. Submitted.

Colin Y, Marjolet L, Bouchali R, Marti R, Vautrin F, Voisin J, Bourgeois E, Rodriguez-Nava V, Blaha D, Winiarski T, Mermillod-Blondin F, Cournoyer B, 2020. 

Coalescence of bacterial groups originating from urban runoffs and artificial infiltration systems among aquifer microbiomes. Hydrology and Earth System 

Sciences 24, 4257–4273, 10.5194/hess-24-4257-2020

Aigle A, Colin Y, Bouchali R, Bourgeois E, Marti R, Ribun S, Marjolet L, Pozzi A.C.M, Misery B, Colinon C, Bernardin-Souibgui C, Wiest L, Blaha D, Galia W, 

Cournoyer B, 2021. Spatio-temporal variations in chemical pollutants found among urban deposits match changes in thiopurine S-, Se-methyltransferase-

harboring bacteria tracked by the tpm metabarcoding approach. Science of The Total Environment 767, 145425, 10.1016/j.scitotenv.2021.145425

Bouchali R, C Mandon, Aigle A, Marjolet L, Vareilles S, Lipeme-Kouyi G, Polomé P, Toussaint J-Y, Cournoyer B, 2022. Bacterial assemblages of urban 

microbiomes mobilized by runoff waters match land use typologies and harbor core species involved in pollutant degradation and opportunistic human 

infections. Science of the Total Environment 815, 152662.  10.1016/j.scitotenv.2021.152662

Bouchali R, Marjolet L, Mondamert L, Chonova T, Ribun S, Laurent E, Bouchez A, Labanowski J, Cournoyer B, 2023. evidence of bacterial community 

coalescence between freshwater and discharged tpm-harboring bacterial taxa from hospital and domestic wastewater treatment plants among epilithic 

biofilms. Microorganisms, 11, 922. https://doi.org/10.3390/microorganisms11040922

Bouchali R, Mandon C, Danty – Berger E, Géloën A, Marjolet L, Youenou B, C.M. Pozzi A,Vareilles S, Galia W, Lipeme Kouyi G, Toussaint J-Y, Cournoyer B,

2024. Runoff microbiome quality assessment of a city center rainwater harvesting zone shows a differentiation of pathogen loads according to human mobility

patterns. International Journal of Hygiene and Environmental Health, 260, 114391, https://doi.org/10.1016/j.ijheh.2024.114391

Loyau A, Bouchali R, Sentenac H, Schmeller DS, 2024. The commensal skin microbiome of amphibian mountain populations and its association with the 

pathogen Batrachochytrium dendrobatidis. Environ Microbiol., 26:e16699, https://doi.org/10.1111/1462-2920.16699

Dominguez-Lage A, C.M Pozzi A, Bouchali R, Luton B, Youenou B, Mandon C, Toussaint J-Y, Galia W, Cournoyer B, 2025. Bacterial diversity and health 

hazards associated with resuspended road matter transported by runoff into storm and combined sewers. Water Sci Technol., wst2025080,

https://doi.org/10.2166/wst.2025.080

Rodrigues F, Calapez AR, Pereira AMPT, Silva LJG, Freitas A, Bouchali R, et al, 2025. Patterns of pharmaceutical contamination in streams of European cities across urbanisation gradients: potential impacts on One Health. J Hazard Mater., 139946. https://doi.org/10.1016/j.jhazmat.2025.139946

Bouchali R, Sentenac H, Bates KA, Fisher MC, Schmeller DS, Loyau A. Unraveling the disease pyramid: the role of environmental micro-eukaryotes in

amphibian resistance to the deadly fungal pathogen Batrachochytrium dendrobatidis, 2025. mSystems, e01436-25. https://doi.org/10.1128/msystems.01436-

25

Bouchali R, Sentenac H, Schmeller DS, Bernardo-Cravo A, Loyau A, 2025. The fungal pathogen Batrachochytrium dendrobatidis drives the relationship

between environmental and amphibian skin microbiota. ISME comm., ycag016. https://doi.org/10.1093/ismeco/ycag016

Norte AC, Dias M, Calapez AR, Pereira da Silva J, Serra SRQ, Havrevold Henni S,  Mørch M-LB, Moen A, Bouchali R, Loyau A, Schmeller DS, Goethals P,

Ho L, Forio M-A, Esposito L, Piscopo N, Ramos JA, Feio MJ, 2026. Urbanisation impacts avian biodiversity on stream ecosystems – insights from a large 

geographical scale. Journal of Environmental Management, 414, 130415. https://doi.org/10.1016/j.jenvman.2026.130415

Angiolani-Larrea FN, Bouchali R, Loyau A, Schmeller DS, Ringler E. Paternal care as a source of key skin microbiota in a poison frog. bioRxiv. 2025. 

Preprint. https://doi.org/10.64898/2025.12.30.696907.

Education

2022 PhD in Miocrobial Ecology. University of Lyon, France

2018 MSc in Microbial Ecology. University of Montpellier, France