A. Achour-rokbani, A. Cordi, P. Poupin, P. Bauda, and P. Billard, Characterization of the ars gene cluster from extremely arsenic-resistant Microbacterium sp. strain A33, Appl. Environ. Microbiol, vol.76, pp.948-955, 2010.
URL : https://hal.archives-ouvertes.fr/hal-02130436

A. R. Achour, P. Bauda, and P. Billard, Diversity of arsenite transporter genes from arsenic-resistant soil bacteria, Res. Microbiol, vol.158, 1994.
URL : https://hal.archives-ouvertes.fr/hal-02130446

S. F. Altschul, T. L. Madden, A. A. Schaffer, J. Zhang, Z. Zhang et al., Gapped BLAST and PSI-BLAST: a new generation of protein database search programs, Nucl. Acids Res, vol.25, pp.3389-3402, 1997.

M. Anisimova and O. Gascuel, Approximate likelihood-ratio test for branches: a fast, accurate, and powerful alternative, Syst. Biol, vol.55, pp.539-552, 2006.
URL : https://hal.archives-ouvertes.fr/lirmm-00136658

K. E. Ashelford, N. A. Chuzhanova, J. C. Fry, A. J. Jones, and A. J. Weightman, At least 1 in 20 16S rRNA sequence records currently held in public repositories is estimated to contain substantial anomalies, Appl. Environ. Microbiol, vol.71, pp.7724-7736, 2005.

B. J. Baker and J. F. Banfield, Microbial communities in acid mine drainage, FEMS Microbiol. Ecol, vol.44, pp.139-152, 2003.

D. Benndorf, G. U. Balcke, H. Harms, and M. Von-bergen, Functional metaproteome analysis of protein extracts from contaminated soil and groundwater, ISME J, vol.1, pp.224-234, 2007.

P. N. Bertin, C. Médigue, and P. Normand, Advances in environmental genomics: towards an integrated view of micro-organisms and ecosystems, Microbiology, vol.154, pp.347-359, 2008.
URL : https://hal.archives-ouvertes.fr/hal-00370781

C. Brochier-armanet, B. Boussau, S. Gribaldo, and P. Forterre, Mesophilic Crenarchaeota: proposal for a third archaeal phylum, the Thaumarchaeota, Nat. Rev. Microbiol, vol.6, pp.245-252, 2008.
URL : https://hal.archives-ouvertes.fr/hal-00256781

O. Bruneel, R. Duran, C. Casiot, F. Elbaz-poulichet, and J. C. Personné, Diversity of microorganisms in FeeAs-rich acid mine drainage waters of Carnoules, France. Appl. Environ. Microbiol, vol.72, pp.551-556, 2006.

O. Bruneel, R. Duran, K. Koffi, C. Casiot, A. Fourçans et al., Microbial diversity in a pyrite-rich tailings impoundment (Carnoulès, France), Geomicrobiol. J, vol.22, pp.249-257, 2005.

O. Bruneel, N. Pascault, M. Egal, C. Bancon-montigny, M. S. Goni-urriza et al., Archaeal diversity in a FeeAs rich acid mine drainage at Carnoules (France), Extremophiles, vol.12, pp.563-571, 2008.

O. Bruneel, A. Volant, S. Gallien, B. Chaumande, C. Casiot et al., Characterization of the active bacterial community involved in natural attenuation processes in arsenic-rich creek sediments, Microb. Ecol, vol.61, pp.793-810, 2011.
URL : https://hal.archives-ouvertes.fr/hal-02341109

C. Casiot, V. Pedron, O. Bruneel, R. Duran, J. C. Personne et al., A new bacterial strain mediating As oxidation in the Fe-rich biofilm naturally growing in a groundwater Fe treatment pilot unit, Chemosphere, vol.64, pp.492-496, 2006.
URL : https://hal.archives-ouvertes.fr/hal-01841787

J. R. Cole, Q. Wang, E. Cardenas, J. Fish, B. Chai et al., The Ribosomal Database Project: improved alignments and new tools for rRNA analysis, Nucl. Acids Res, vol.37, 2009.

K. Coupland, F. Battaglia-brunet, K. B. Hallberg, M. C. Dictor, F. Garrido et al., Oxidation of iron, sulfur and arsenic in mine waters and mine wastes: an important role of novel Thiomonas spp, Biohydrometallurgy: A Sustainable Technology in Evolution, pp.639-646, 2004.

E. F. Delong, Archaea in coastal marine environments, Proc. Natl. Acad. Sci. U S A, vol.89, pp.5685-5689, 1992.

V. J. Denef, R. S. Mueller, and J. F. Banfield, AMD biofilms: using model communities to study microbial evolution and ecological complexity in nature, vol.4, pp.599-610, 2010.

W. K. Dodds, J. R. Jones, and E. B. Welch, Suggested classification of stream trophic state: distributions of temperate stream types by chlorophyll, total nitrogen, and phosphorus, Water Res, vol.32, 1998.

R. C. Edgar, MUSCLE: multiple sequence alignment with high accuracy and high throughput, Nucl. Acids Res, vol.32, 2004.

J. A. Fuhrman, K. Mccallum, and A. A. Davis, Novel major archaebacterial group from marine plankton, Nature, vol.356, pp.148-149, 1992.

P. E. Galand, C. Lovejoy, and W. F. Vincent, Remarkably diverse and contrasting archaeal communities in a large arctic river and the coastal Arctic Ocean, Aquat. Microb. Ecol, vol.44, pp.115-126, 2006.

S. Guindon and O. Gascuel, A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood, Syst. Biol, vol.52, pp.696-704, 2003.

K. B. Hallberg and D. B. Johnson, Microbiology of a wetland ecosystem constructed to remediate mine drainage from a heavy metal mine, Sci. Total Environ, vol.338, pp.53-66, 2005.

N. Hamamura, R. E. Macur, S. Korf, G. Ackerman, W. P. Taylor et al., Linking microbial oxidation of arsenic with detection and phylogenetic analysis of arsenite oxidase genes in diverse geothermal environments, Environ. Microbiol, vol.11, pp.421-431, 2009.

R. Hatzenpichler, E. V. Lebedeva, E. Spieck, K. Stoecker, A. Richter et al., A moderately thermophilic ammoniaoxidizing crenarchaeote from a hot spring, Proc. Natl. Acad. Sci. U S A, vol.105, 2008.

S. Honschopp, N. Brunken, A. Nehrhorn, and H. J. Breunig, Isolation and characterization of a new arsenic methylating bacterium from soil, Microbiol. Res, vol.151, pp.37-41, 1996.

D. B. Johnson and K. B. Hallberg, The microbiology of acidic mine waters, Res. Microbiol, vol.154, pp.466-473, 2003.

U. K. Laemmli, Cleavage of structural proteins during the assembly of the head of bacteriophage T4, Nature, vol.227, pp.680-685, 1970.

D. Lièvremont, P. N. Bertin, and M. C. Lett, Arsenic in contaminated waters: biogeochemical cycle, microbial metabolism and biotreatment processes, Biochimie, vol.91, pp.1229-1237, 2009.

R. E. Macur, C. R. Jackson, L. M. Botero, T. R. Mcdermott, and W. P. Inskeep, Bacterial populations associated with the oxidation and reduction of arsenic in an unsaturated soil, Environ. Sci. Technol, vol.38, pp.104-111, 2004.

B. K. Mandal and K. T. Suzuki, Arsenic round the world: a review, Talanta, vol.58, 2002.

S. A. Mokashi and K. M. Paknikar, Arsenic (III) oxidizing Microbacterium lacticum and its use in the treatment of arsenic contaminated groundwater, Lett. Appl. Microbiol, vol.34, pp.258-262, 2002.

R. S. Mueller, V. J. Denef, L. H. Kalnejais, K. B. Suttle, B. C. Thomas et al., Ecological distribution and population physiology defined by proteomics in a natural microbial community, Mol. Syst. Biol, vol.6, p.374, 2010.

G. W. Nicol, D. Tscherko, L. Chang, U. Hammesfahr, and J. I. Prosser, Crenarchaeal community assembly and microdiversity in developing soils at two sites associated with deglaciation, Environ. Microbiol, vol.8, 2006.

L. Raskin, J. M. Stromley, B. E. Rittmann, and D. A. Stahl, Group-specific 16S rRNA hybridization probes to describe natural communities of methanogens, Appl. Environ. Microbiol, vol.60, pp.1232-1240, 1994.

B. Rathinasabapathi, S. B. Raman, G. Kertulis, and L. Ma, Arsenicresistant proteobacterium from the phyllosphere of arsenichyperaccumulating fern (Pteris vittata L.) reduces arsenate to arsenite, Can. J. Microbiol, vol.52, pp.695-700, 2006.

C. Rudolph, C. Moissl, R. Henneberger, and R. Huber, Ecology and microbial structures of archaeal/bacterial strings-of-pearls communities and archaeal relatives thriving in cold sulfidic springs, FEMS Microbiol. Ecol, vol.50, pp.1-11, 2004.

K. H. Schleifer, Classification of Bacteria and Archaea: past, present and future, Syst. Appl. Microbiol, vol.32, pp.533-542, 2009.

P. D. Schloss and J. Handelsman, Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness, Appl. Environ. Microbiol, vol.71, 2005.

V. K. Sharma and M. Sohn, Aquatic arsenic: toxicity, speciation, transformations, and remediation, Environ. Int, vol.35, pp.743-759, 2009.

M. K. Sliwinski and R. M. Goodman, Spatial heterogeneity of crenarchaeal assemblages within mesophilic soil ecosystems as revealed by PCR-singlestranded conformation polymorphism profiling, Appl. Environ. Microbiol, vol.70, 2004.

P. L. Smedley and D. G. Kinniburgh, A review of the source, behaviour and distribution of arsenic in natural waters, Appl. Geochem, vol.17, pp.517-568, 2002.

D. A. Stahl and R. Amann, Development and application of nucleic acid probes, Nucleic Acid Techniques in Bacterial Systematics, pp.205-248, 1991.

P. Thomas, J. K. Finnie, and J. G. Williams, Feasibility of identification and monitoring of arsenic species in soil and sediment samples by coupled high-performance liquid chromatography e inductively coupled plasma mass spectrometry, J. Anal. Spectrom, vol.12, pp.1367-1372, 1997.

J. D. Thompson, T. J. Gibson, and D. G. Higgins, Multiple Sequence Alignment Using ClustalWand ClustalX, Curr. Protoc. Bioinformatics Chapter, vol.2, p.3, 2002.

S. L. Tsai, S. Singh, and W. Chen, Arsenic metabolism by microbes in nature and the impact on arsenic remediation, Curr. Opin. Biotechnol, vol.20, pp.659-667, 2009.

G. W. Tyson, J. Chapman, P. Hugenholtz, E. E. Allen, R. J. Ram et al., Community structure and metabolism through reconstruction of microbial genomes from the environment, Nature, vol.428, pp.37-43, 2004.

C. Valenzuela-encinas, I. Neria-gonzalez, R. J. Alcantara-hernandez, J. A. Enriquez-aragon, I. Estrada-alvarado et al., Phylogenetic analysis of the archaeal community in an alkaline-saline soil of the former lake Texcoco (Mexico), Extremophiles, vol.12, pp.247-254, 2008.

N. C. Verberkmoes, V. J. Denef, R. L. Hettich, and J. F. Banfield, Systems biology: functional analysis of natural microbial consortia using community proteomics, Nat. Rev. Microbiol, vol.7, 2009.

S. Weiss, C. Carapito, J. Cleiss, S. Koechler, E. Turlin et al., Enhanced structural and functional genome elucidation of the arsenite-oxidizing strain Herminiimonas arsenicoxydans by proteomics data, Biochimie, vol.91, 2009.
URL : https://hal.archives-ouvertes.fr/hal-00370778

T. A. Williams, F. M. Codoner, C. Toft, and M. A. Fares, Two chaperonin systems in bacterial genomes with distinct ecological roles, Trends Genet, vol.26, pp.47-51, 2010.