M. Anderson-glenna, V. Bakkestuen, and N. Clipson, Spatial and temporal variability in epilithic biofilm bacterial communities along an upland river gradient, FEMS Microbiology Ecology, vol.69, issue.3, pp.407-418, 2008.
DOI : 10.1016/S0723-2020(98)80067-2

URL : https://academic.oup.com/femsec/article-pdf/64/3/407/18102962/64-3-407.pdf

R. Araya, K. Tani, T. Takagi, N. Yamaguchi, and M. Nasu, Bacterial activity and community composition in stream water and biofilm from an urban river determined by fluorescent in situ hybridization and DGGE analysis, FEMS Microbiology Ecology, vol.10, issue.1, pp.111-119, 2003.
DOI : 10.1016/S0168-6496(00)00102-1

V. Baldy, M. Gessner, and E. Chauvet, Bacteria, Fungi and the Breakdown of Leaf Litter in a Large River, Oikos, vol.74, issue.1, pp.93-102, 1995.
DOI : 10.2307/3545678

URL : https://hal.archives-ouvertes.fr/hal-01296551

T. Battin, L. Kaplan, J. Newbold, X. Cheng, and C. Hansen, Effects of Current Velocity on the Nascent Architecture of Stream Microbial Biofilms, Applied and Environmental Microbiology, vol.69, issue.9, pp.5443-5452, 2003.
DOI : 10.1128/AEM.69.9.5443-5452.2003

C. Branco, O. Necchi, G. Carvalho, R. Emed, and C. Peres, Effects of artificial substratum types and exposure time on macroalgal colonization in a tropical stream, Fundamental and Applied Limnology / Archiv f??r Hydrobiologie, vol.178, issue.1, pp.17-27, 2010.
DOI : 10.1127/1863-9135/2010/0178-0017

A. Cattaneo and M. Amireault, How Artificial Are Artificial Substrata for Periphyton?, Journal of the North American Benthological Society, vol.11, issue.2, pp.244-256, 1992.
DOI : 10.2307/1467389

R. Danilov and N. Ekelund, Comparison of usefulness of three types of artificial substrata (glass, wood and plastic) when studying settlement patterns of periphyton in lakes of different trophic status, Journal of Microbiological Methods, vol.45, issue.3, pp.167-170, 2001.
DOI : 10.1016/S0167-7012(01)00247-0

M. Das, T. Royer, and L. Leff, Fungal communities on decaying leaves in streams: a comparison of two leaf species, Mycological Progress, vol.17, issue.4, pp.267-275, 2008.
DOI : 10.1016/B978-0-12-372180-8.50042-1

S. Diedhiou, Activity, composition and structure of soil microbial communities in Savannah shrubs of agroecosystems in semi-arid Senegal. Thesis, 2007.

H. Fischer, J. Bergfur, W. Goedkoop, and L. Tranvik, Microbial leaf degraders in boreal streams: bringing together stochastic and deterministic regulators of community composition, Freshwater Biology, vol.71, issue.11, pp.2276-2289, 2009.
DOI : 10.1139/b80-126

N. Fromin, J. Hamelin, S. Tarnawski, D. Roesti, K. Jourdain-miserez et al., Statistical analysis of denaturing gel electrophoresis (DGE) fingerprinting patterns, Environmental Microbiology, vol.35, issue.11, pp.634-643, 2002.
DOI : 10.1016/S0168-6496(00)00102-1

M. Gessner and E. Chauvet, Importance of Stream Microfungi in Controlling Breakdown Rates of Leaf Litter, Ecology, vol.75, issue.6, pp.1807-1817, 1994.
DOI : 10.2307/1939639

S. Golladay and R. Sinsabaugh, Biofilm development on leaf and wood surfaces in a boreal river, Freshwater Biology, vol.80, issue.3, pp.437-450, 1991.
DOI : 10.1146/annurev.ecolsys.17.1.567

T. Hill, K. Walsh, J. Harris, and B. Moffett, Using ecological diversity measures with bacterial communities, FEMS Microbiology Ecology, vol.10, issue.1, pp.1-11, 2003.
DOI : 10.1111/j.1574-6941.2003.tb01040.x

URL : https://academic.oup.com/femsec/article-pdf/43/1/1/18090308/43-1-1.pdf

K. Kralj, A. Plenkovi?-moraj, M. Gligora, B. Primc-habdija, and L. ?ipo?, Structure of Periphytic Community on Artificial Substrata: Influence of Depth, Slide Orientation and Colonization Time in Karstic Lake Visova??ko, Croatia, Hydrobiologia, vol.23, issue.270, pp.249-258, 2006.
DOI : 10.1111/j.1529-8817.1987.tb04444.x

K. Kröpfl, P. Vladár, K. Szabó, É. Ács, A. Borsodi et al., Chemical and biological characterisation of biofilms formed on different substrata in Tisza river (Hungary), Environmental Pollution, vol.144, issue.2, pp.626-631, 2006.
DOI : 10.1016/j.envpol.2006.01.031

C. Lane, K. Taffs, and J. Corfield, A comparison of diatom community structure on natural and artificial substrata, Hydrobiologia, vol.493, issue.1/3, pp.65-79, 2003.
DOI : 10.1023/A:1025498732371

G. Lear, M. Anderson, J. Smith, K. Boxen, and G. Lewis, Spatial and temporal heterogeneity of the bacterial communities in stream epilithic biofilms, FEMS Microbiology Ecology, vol.61, issue.3, pp.463-473, 2008.
DOI : 10.1111/j.1574-6941.2008.00548.x

E. Lyautey, S. Teissier, J. Charcosset, J. Rols, and F. Garabetian, Bacterial diversity of epilithic biofilm assemblages of an anthropised river section, assessed by DGGE analysis of a 16S rDNA fragment, Aquatic Microbial Ecology, vol.33, pp.217-224, 2003.
DOI : 10.3354/ame033217

E. Lyautey, B. Lacoste, L. Ten-hage, J. Rols, and F. Garabetian, Analysis of bacterial diversity in river biofilms using 16S rDNA PCR-DGGE: methodological settings and fingerprints interpretation, Water Research, vol.39, issue.2-3, pp.380-388, 2005.
DOI : 10.1016/j.watres.2004.09.025

P. Möhlenhoff, L. Müller, A. Gorbushina, and K. Petersen, Molecular approach to the characterisation of fungal communities: methods for DNA extraction, PCR amplification and DGGE analysis of painted art objects, FEMS Microbiology Letters, vol.195, issue.2, pp.169-173, 2001.
DOI : 10.1016/S0378-1097(01)00006-4

G. Muyzer, D. Waal, E. Uitterlinden, and A. , Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA, J Appl Environ Microbiol, vol.59, pp.695-700, 1993.

A. Piterina and J. Pembroke, Use of PCR-DGGE Based Molecular Methods to Analyse Microbial Community Diversity and Stability during the Thermophilic Stages of an ATAD Wastewater Sludge Treatment Process as an Aid to Performance Monitoring, ISRN Biotechnology, vol.65, issue.2, pp.10-5402162645, 2013.
DOI : 10.1128/AEM.70.2.781-789.2004

F. Preston, The Canonical Distribution of Commonness and Rarity: Part I, Ecology, vol.43, issue.2, pp.410-432, 1962.
DOI : 10.2307/1931976

A. Rozej, A. Cydzik-kwiatkowska, B. Kowalska, and D. Kowalski, Structure and microbial diversity of biofilms on different pipe materials of a model drinking water distribution systems, World Journal of Microbiology and Biotechnology, vol.61, issue.1, pp.37-47, 2015.
DOI : 10.2166/wst.2010.813

G. Sandhu, B. Kline, L. Stockman, and G. Roberts, Molecular probes for diagnosis of fungal infections, J Clinic Microbiol, vol.33, pp.2913-2919, 1995.

C. Tien, W. Wu, T. Chuang, and C. Chen, Development of river biofilms on artificial substrates and their potential for biomonitoring water quality, Chemosphere, vol.76, issue.9, pp.1288-1295, 2009.
DOI : 10.1016/j.chemosphere.2009.06.013

L. Xin-yu, S. Zhen-cheng, L. Xu, Z. Cheng-gang, and Z. Hui-wen, Assessing the effects of acetochlor on soil fungal communities by DGGE and clone library analysis, Ecotoxicology, vol.62, issue.6, pp.1111-1116, 2010.
DOI : 10.1007/s10646-010-0493-0