K. Amato, C. Yeoman, A. Kent, N. Righini, F. Carbonero et al., Habitat degradation impacts black howler monkey (Alouatta pigra) gastrointestinal microbiomes, The ISME Journal, vol.7, issue.7, pp.344-345, 2013.

J. Auguet, A. Barberan, and E. O. Casamayor, Global ecological patterns in uncultured Archaea, The ISME Journal, vol.4, issue.2, pp.182-190, 2010.

N. Bano, S. Ruffin, B. Ransom, and J. T. Hollibaugh, Phylogenetic composition of Arctic Ocean archaeal assemblages and comparison with Antarctic assemblages, Applied and Environmental Microbiology, vol.70, issue.2, pp.781-789, 2004.

A. Bolger, M. Lohse, and B. Usadel, Trimmomatic: a flexible trimmer for Illumina sequence data, Bioinformatics, vol.30, issue.15, pp.114-116, 2014.

J. Bray and J. T. Curtis, An ordination of the upland forest communities of southern Wisconsin, vol.27, pp.325-349, 1957.

C. Brochier-armanet, B. Boussau, S. Gribaldo, and P. Forterre, Mesophilic Crenarchaeota: proposal for a third archaeal phylum, the Thaumarchaeota, Nature Reviews Microbiology, vol.6, issue.3, pp.245-252, 2008.
URL : https://hal.archives-ouvertes.fr/hal-00256781

J. Caporaso, J. Kuczynski, J. Stombaugh, K. Bittinger, F. Bushman et al.,

B. Muegge, M. Pirrung, J. Reeder, J. Sevinsky, P. Turnbaugh et al., QIIME allows analysis of high-throughput community sequencing data, Nature Methods, vol.7, issue.5, pp.335-336, 2010.

A. Chao, Nonparametric estimation of the number of classes in a population, Scandinavian Journal of Statistics, vol.11, issue.4, pp.265-270, 1984.

A. Chao and S. M. Lee, Estimating the number of classes via sample coverage, Journal of the American Statistical Association, vol.87, issue.417, pp.210-217, 1992.

A. Chao, M. Ma, and M. Yang, Stopping rules and estimation for recapture debugging with unequal failure rates, Biometrika, vol.80, issue.1, pp.193-201, 1993.

M. Clark, A. Rowden, T. Schlacher, A. Williams, M. Consalvey et al., The ecology of seamounts: structure, function, and human impacts, 2010.

, Annual Review of Marine Science, vol.2, pp.253-278

R. Danovaro, C. Corinaldesi, G. Luna, M. Magagnini, E. Manini et al., Prokaryote diversity and viral production in deep-sea sediments and seamounts, Deep-Sea Research Part II: Topical Studies in Oceanography, vol.56, pp.738-747, 2009.

R. Danovaro, M. Molari, C. Corinaldesi, and A. Dell'anno, Macroecological drivers of archaea and bacteria in benthic deep-sea ecosystems, Science Advances, vol.2, issue.4, p.1500961, 2016.

E. F. Delong, Archaea in coastal marine environments, Proceedings of the National Academy of Sciences of the United States of America, vol.89, pp.685-690, 1992.

W. Desarbo, H. Hwang, and K. Jedidi, Redundancy Analysis, 2016.

A. Durbin and A. Teske, Sediment-associated microdiversity within the Marine Group I Crenarchaeota, Environmental Microbiology Reports, vol.2, issue.5, pp.693-703, 2010.

A. Durbin and A. Teske, Archaea in organic-lean and organic-rich marine subsurface sediments: an environmental gradient reflected in distinct phylogenetic lineages, Frontiers in Microbiology, vol.3, p.168, 2012.

R. C. Edgar, UPARSE: highly accurate OTU sequences from microbial amplicon reads, Nature Methods, vol.10, issue.10, pp.996-998, 2013.

R. Edgar, B. Haas, J. Clemente, C. Quince, and R. Knight, UCHIME improves sensitivity and speed of chimera detection, Bioinformatics, vol.27, issue.16, 2011.

D. Emerson and C. L. Moyer, Microbiology of seamounts: common patterns observed in community structure, Oceanography, vol.23, issue.1, pp.148-163, 2010.

J. Fuhrman, K. Mccallum, and A. A. Davis, Novel major archaebacterial group from marine plankton, Nature, vol.356, issue.6365, pp.148-149, 1992.

S. Gantner, A. Andersson, A. , L. Bertilsson, and S. , Novel primers for 16S rRNA-based archaeal community analyses in environmental samples, Journal of Microbiological Methods, vol.84, issue.1, pp.12-18, 2011.

J. Gilbert, D. Field, P. Swift, L. Newbold, A. Oliver et al., The seasonal structure of microbial communities in the Western English Channel, Environmental Microbiology, vol.11, issue.12, pp.132-135, 2009.

K. Hara, T. Kakegawa, K. Yamashiro, A. Maruyama, J. Ishibashi et al., Analysis of the archaeal sub-seafloor community at Suiyo Seamount on the Izu-Bonin Arc, Advances in Space Research, vol.35, issue.9, pp.634-635, 2005.

Y. He, M. Li, V. Perumal, X. Feng, J. Fang et al., Genomic and enzymatic evidence for acetogenesis among multiple lineages of the archaeal phylum Bathyarchaeota widespread in marine sediments, Nature Microbiology, vol.1, issue.6, p.16035, 2016.

G. Herndl, T. Reinthaler, E. Teira, H. Van-aken, C. Veth et al., Contribution of Archaea to total prokaryotic production in the deep Atlantic Ocean, Applied and Environmental Microbiology, vol.71, issue.5, pp.303-305, 2005.

M. Hill and H. G. Gauch, Detrended correspondence analysis: an improved ordination technique. Vegetatio, vol.42, pp.47-58, 1980.

J. Huber, D. Butterfield, and J. A. Baross, Temporal changes in archaeal diversity and chemistry in a mid-ocean ridge subseafloor habitat, Applied and Environmental Microbiology, vol.68, issue.4, pp.585-586, 2002.

Y. Huo, H. Cheng, A. Post, C. Wang, X. Jiang et al., Ecological functions of uncultured microorganisms in the cobalt-rich ferromanganese crust of a seamount in the central Pacific are elucidated by fosmid sequencing, Acta Oceanologica Sinica, vol.34, issue.4, pp.92-113, 2015.

I. T. Jolliffe, Principal Component Analysis. 2 nd edn, 2002.

S. Jorgensen, B. Hannisdal, A. Lanzén, T. Baumberger, K. Flesland et al., Correlating microbial community profiles with geochemical data in highly stratified sediments from the Arctic Mid-Ocean Ridge, Proceedings of the National Academy of Sciences of the United States of America, vol.109, pp.2-846, 2012.

M. Karner, E. Delong, and D. M. Karl, Archaeal dominance in the mesopelagic zone of the Pacific Ocean, Nature, vol.409, issue.6819, pp.507-510, 2001.

S. Kato, M. Nakawake, J. Kita, T. Yamanaka, M. Utsumi et al., Characteristics of microbial communities in crustal fluids in a deep-sea hydrothermal field of the Suiyo Seamount, Frontiers in Microbiology, vol.4, p.85, 2013.

M. Krzywinski, J. Schein, I. Birol, J. Connors, R. Gascoyne et al., Circos: an information aesthetic for comparative genomics, Genome Research, vol.19, issue.9, pp.639-640, 2009.

A. Lauer, K. Sorensen, and A. Teske, Phylogenetic characterization of marine benthic Archaea in organic-poor sediments of the eastern Equatorial Pacific Ocean (ODP Site 1225). Microorganisms, vol.4, p.32, 2016.

J. Lavelle and C. Mohn, Motion, commotion, and biophysical connections at deep ocean seamounts, Oceanography, vol.23, issue.1, pp.90-103, 2010.

L. Liao, X. Xu, X. Jiang, C. Wang, D. Zhang et al., Microbial diversity in deep-sea sediment from the cobalt-rich crust deposit region in the Pacific Ocean, FEMS Microbiology Ecology, vol.78, issue.3, pp.565-585, 2011.

J. Liu, W. Zhang, X. Li, X. Li, X. Chen et al., Bacterial community structure and novel species of magnetotactic bacteria in sediments from a seamount in the Mariana volcanic arc, Scientific Reports, vol.7, issue.1, p.17964, 2017.

A. E. Magurran, Ecological Diversity and Its Measurement, 1988.

R. Massana, E. Delong, and C. Pedrós-alió, A few cosmopolitan phylotypes dominate planktonic archaeal assemblages in widely different oceanic provinces, Applied and Environmental Microbiology, vol.66, issue.5, pp.1-777, 2000.

H. W. Menard, Marine Geology of the Pacific, 1964.

J. Meng, J. Xu, D. Qin, Y. He, X. X. Wang et al., Genetic and functional properties of uncultivated MCG archaea assessed by metagenome and gene expression analyses, The ISME Journal, vol.8, issue.3, pp.650-659, 2014.

T. Nakagawa, J. Ishibashi, A. Maruyama, T. Yamanaka, Y. Morimoto et al., Analysis of dissimilatory sulfite reductase and 16S rRNA gene fragments from deep-sea hydrothermal sites of the, 2004.

, , vol.70, pp.393-403

S. Nitahara, S. Kato, T. Urabe, A. Usui, and A. Yamagishi, Molecular characterization of the microbial community in hydrogenetic ferromanganese crusts of the Takuyo-Daigo Seamount, northwest Pacific, FEMS Microbiology Letters, vol.321, issue.2, pp.121-129, 2011.

S. Nitahara, S. Kato, A. Usui, T. Urabe, K. Suzuki et al., Archaeal and bacterial communities in deep-sea hydrogenetic ferromanganese crusts on old seamounts of the northwestern Pacific, PLoS One, vol.12, issue.2, p.173071, 2017.

T. D. O'hara, Seamounts: centres of endemism or species richness for ophiuroids?, Global Ecology and Biogeography, vol.16, issue.6, pp.720-732, 2007.

P. Offre, A. Spang, and C. Schleper, Archaea in biogeochemical cycles, Annual Review of Microbiology, vol.67, pp.437-457, 2013.

S. Ohene-adjei, R. Teather, M. Ivan, and R. J. Forster, Postinoculation protozoan establishment and association patterns of methanogenic archaea in the ovine rumen, Applied and Environmental Microbiology, vol.73, issue.14, pp.4-609, 2007.

A. Opatkiewicz, D. Butterfield, and J. A. Baross, Individual hydrothermal vents at Axial Seamount harbor distinct subseafloor microbial communities, FEMS Microbiology Ecology, vol.70, issue.3, pp.413-424, 2009.

W. Qin, K. Heal, R. Ramdasi, J. Kobelt, W. Martens-habbena et al., Nitrosopumilus maritimus gen. nov., sp. nov., Nitrosopumilus cobalaminigenes sp. nov., Nitrosopumilus oxyclinae sp. nov., and Nitrosopumilus ureiphilus sp. nov., four marine ammonia-oxidizing archaea of the phylum Thaumarchaeota, International Journal of Systematic and Evolutionary Microbiology, vol.67, issue.12, pp.67-72, 2017.

C. Quast, E. Pruesse, P. Yilmaz, J. Gerken, T. Schweer et al., The SILVA ribosomal RNA gene database project: improved data processing and web-based tools, Nucleic Acids Research, vol.41, issue.D1, pp.590-596, 2012.

E. Roussel, A. Sauvadet, C. Chaduteau, Y. Fouquet, J. Charlou et al., Archaeal communities associated with shallow to deep subseafloor sediments of the New Caledonia Basin, Environmental Microbiology, vol.11, issue.9, pp.446-448, 2009.
URL : https://hal.archives-ouvertes.fr/hal-00617523

A. Rowden, T. Schlacher, A. Williams, M. Clark, R. Stewart et al., A test of the seamount oasis hypothesis: seamounts support higher epibenthic megafaunal biomass than adjacent slopes, Marine Ecology, vol.31, issue.S1, pp.95-106, 2010.

T. Schlacher, A. Rowden, J. Dower, and M. Consalvey, Seamount science scales undersea mountains: new research and outlook, Marine Ecology, vol.31, issue.S1, pp.1-13, 2010.

P. Schloss, S. Westcott, T. Ryabin, J. Hall, M. Hartmann et al., Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities, Applied and Environmental Microbiology, vol.75, issue.23, pp.7-537, 2009.

J. Simpson, S. Kocherginskaya, R. Aminov, L. Skerlos, T. Bradley et al., Comparative microbial diversity in the gastrointestinal tracts of food animal species, Integrative and Comparative Biology, vol.42, issue.2, pp.327-331, 2002.

P. ?milauer and J. Lep?, Multivariate Analysis of Ecological Data Using Canoco 5, 2014.

D. Stahl, D. La-torre, and J. R. , Physiology and diversity of ammonia-oxidizing archaea, Annual Review of Microbiology, vol.66, pp.83-101, 2012.

K. Takai, H. Oida, Y. Suzuki, H. Hirayama, S. Nakagawa et al., Spatial distribution of marine Crenarchaeota group I in the vicinity of deep-sea hydrothermal systems, Applied and Environmental Microbiology, vol.70, issue.4, pp.404-406, 2004.

K. Tamura, G. Stecher, D. Peterson, A. Filipski, and S. Kumar, MEGA6: molecular evolutionary genetics analysis version 6.0. Molecular Biology and Evolution, vol.30, pp.725-727, 2013.

J. Thompson, D. Higgins, and T. J. Gibson, CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice, Nucleic Acids Research, vol.22, issue.22, pp.4-673, 1994.

M. Tourna, M. Stieglmeier, A. Spang, M. Konneke, A. Schintlmeister et al., Nitrososphaera viennensis, an ammonia oxidizing archaeon from soil, Proceedings of the National Academy of Sciences of the United States of America, vol.108, pp.420-428, 2011.

Q. Wang, G. Garrity, J. Tiedje, and J. R. Cole, Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy, Applied and Environmental Microbiology, vol.73, issue.16, pp.261-266, 2007.

C. Woese and G. E. Fox, Phylogenetic structure of the prokaryotic domain: the primary kingdoms, Proceedings of the National Academy of Sciences of the United States of America, vol.74, 1977.

C. Woese, O. Kandler, and M. L. Wheelis, Towards a natural system of organisms: proposal for the domains, 1990.

B. Archaea and E. , Proceedings of the National Academy of Sciences of the United States of America, vol.87, pp.4-576

C. Wuchter, B. Abbas, M. Coolen, L. Herfort, V. Bleijswijk et al., Archaeal nitrification in the ocean, Proceedings of the National Academy of Sciences of the United States of America, vol.103, pp.12-317, 2006.

C. Yesson, M. Clark, M. Taylor, and A. D. Rogers, The global distribution of seamounts based on 30 arc seconds bathymetry data, Deep Sea Research Part I: Oceanographic Research Papers, vol.58, pp.442-453, 2011.

P. M. Yoshioka, Misidentification of the Bray-Curtis similarity index, Marine Ecology Progress Series, vol.368, pp.309-310, 2008.

C. Zhang, W. Xie, A. Martin-cuadrado, and F. Rodriguez-valera, Marine group II Archaea, potentially important players in the global ocean carbon cycle, Frontiers in Microbiology, vol.6, p.1108, 2015.