In vitro simulation of oxic/suboxic diagenesis in an estuarine fluid mud subjected to redox oscillations, Estuarine, Coastal and Shelf Science, vol.88, issue.2, pp.279-291, 2010. ,
DOI : 10.1016/j.ecss.2010.04.003
Bioturbation and remineralization of sedimentary organic matter: effects of redox oscillation, Chemical Geology, vol.114, issue.3-4, pp.331-345, 1994. ,
DOI : 10.1016/0009-2541(94)90062-0
Bacterial Communities from Shoreline Environments (Costa da Morte, Northwestern Spain) Affected by the Prestige Oil Spill, Applied and Environmental Microbiology, vol.75, issue.11, pp.3407-3418, 2009. ,
DOI : 10.1128/AEM.01776-08
Basic local alignment search tool, Journal of Molecular Biology, vol.215, issue.3, pp.403-410, 1990. ,
DOI : 10.1016/S0022-2836(05)80360-2
Fast solid-phase extraction???gas chromatography???mass spectrometry procedure for oil fingerprinting, Journal of Chromatography A, vol.1025, issue.1, pp.133-138, 2004. ,
DOI : 10.1016/j.chroma.2003.10.080
Naphthalene biodegradation in temperate and arctic marine microcosms, Biodegradation, vol.27, issue.9, pp.111-125, 2014. ,
DOI : 10.1007/s10532-013-9644-3
Degradation of dissolved organic matter in oxic and anoxic lake water, Limnology and Oceanography, vol.49, issue.1, pp.109-116, 2004. ,
DOI : 10.4319/lo.2004.49.1.0109
Pollution-induced community tolerance (PICT) in marine periphyton in a gradient of tri-n-butyltin (TBT) contamination, Aquatic Toxicology, vol.35, issue.1, pp.59-77, 1996. ,
DOI : 10.1016/0166-445X(96)00007-0
Effects of Heavy Fuel Oil on the Bacterial Community Structure of a Pristine Microbial Mat, Applied and Environmental Microbiology, vol.73, issue.19, pp.6089-6097, 2007. ,
DOI : 10.1128/AEM.01352-07
Degradation of weathered diesel fuel by microorganisms from a contaminated aquifer in aerobic and anaerobic microcosms, Environmental Toxicology and Chemistry, vol.61, issue.3, pp.299-307, 1996. ,
DOI : 10.1002/etc.5620150312
Microbial degradation of polycyclic aromatic hydrocarbons in the aquatic environmented) Metabolism of polycyclic aromatic hydrocarbons in the aquatic environment, pp.41-68, 1989. ,
Anaerobic hydrocarbon degradation in petroleum contaminated harbor sediments under sulfate-reducing and artificially imposed ironreducing conditions, Environ Sci Technol, vol.30, pp.2764-2769, 1996. ,
Anaerobic degradation of polycyclic aromatic hydrocarbons and alkanes in petroleum-contaminated marine harbor sediments, Appl Environ Microbiol, vol.63, pp.3589-3593, 1997. ,
Biodegradation of hydrocarbons in bioturbated marine sediments Microbial bioremediation of non-metals: current research, pp.55-92, 2011. ,
Effectiveness of Bioremediation of Crude Oil Contaminated Subantarctic Intertidal Sediment: The Microbial Response, Microbial Ecology, vol.44, issue.2, pp.118-126, 2002. ,
DOI : 10.1007/s00248-001-1047-z
Statistical analysis of denaturing gel electrophoresis (DGE) fingerprinting patterns, Environmental Microbiology, vol.35, issue.11, pp.634-643, 2002. ,
DOI : 10.1046/j.1462-2920.2002.00358.x
Microbial degradation of aromatic compounds ??? from one strategy to four, Nature Reviews Microbiology, vol.182, issue.11, pp.803-816, 2011. ,
DOI : 10.1038/nrmicro2652
In situ bioturbation and hydrocarbon fate in an experimental contaminated Mediterranean coastal ecosystem, Chemosphere, vol.33, issue.8, pp.1449-1458, 1996. ,
DOI : 10.1016/0045-6535(96)00283-4
From community approaches to single-cell genomics: the discovery of ubiquitous hyperhalophilic Bacteroidetes generalists, The ISME Journal, vol.17, issue.1, 2014. ,
DOI : 10.1038/ismej.2014.95
Burial, exportation and degradation of acyclic petroleum hydrocarbons following a simulated oil spill in bioturbated Mediterranean coastal sediments, Chemosphere, vol.48, issue.9, pp.947-954, 2002. ,
DOI : 10.1016/S0045-6535(02)00122-4
Role of prior exposure on anaerobic degradation of naphthalene and phenanthrene in marine harbor sediments, Organic Geochemistry, vol.30, issue.8, pp.937-945, 1999. ,
DOI : 10.1016/S0146-6380(99)00077-7
Marine microorganisms make a meal of oil, Nature Reviews Microbiology, vol.308, issue.3, pp.173-182, 2006. ,
DOI : 10.1038/nrmicro1348
Polycyclic Aromatic Hydrocarbon (PAH) Ecotoxicology in Marine Ecosystems, Journal of Toxicology and Environmental Health, Part A, vol.2, issue.1-2, pp.109-123, 2006. ,
DOI : 10.1006/taap.2001.9296
A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences, Journal of Molecular Evolution, vol.206, issue.5, Nov., pp.111-120, 1980. ,
DOI : 10.1007/BF01731581
Hydrocarbon-Degrading Bacteria and the Bacterial Community Response in Gulf of Mexico Beach Sands Impacted by the Deepwater Horizon Oil Spill, Applied and Environmental Microbiology, vol.77, issue.22, pp.7962-7974, 2011. ,
DOI : 10.1128/AEM.05402-11
Oxygen and carbon dioxide exchange in the polychaete Nereis virens: influence of ventilation activity and starvation, Marine Biology, vol.29, issue.3, pp.381-388, 1989. ,
DOI : 10.1007/BF00428134
Aerobic and anaerobic decomposition of organic matter in marine sediment: Which is fastest?, Limnology and Oceanography, vol.40, issue.8, pp.1430-1437, 1995. ,
DOI : 10.4319/lo.1995.40.8.1430
Rapid determination of 16S ribosomal RNA sequences for phylogenetic analyses., Proceedings of the National Academy of Sciences, vol.82, issue.20, pp.6955-6959, 1985. ,
DOI : 10.1073/pnas.82.20.6955
16/23S rRNA sequencing Nucleic acid techniques in bacterial systematics, pp.115-175, 1991. ,
Mobilization of PAHs and PCBs from In-Place Contaminated Marine Sediments During Simulated Resuspension Events, Estuarine, Coastal and Shelf Science, vol.49, issue.4, pp.577-595, 1999. ,
DOI : 10.1006/ecss.1999.0516
FactoMineR: an R package for multivariate analysis, J Stat Softw, vol.25, pp.1-18, 2008. ,
Microbial degradation of hydrocarbons in the environment, Microbiol Rev, vol.54, issue.3, pp.305-315, 1990. ,
The influence of sediment resuspension on the degradation of phenanthrene in flow-through microcosms, Marine Environmental Research, vol.61, issue.2, pp.202-223, 2006. ,
DOI : 10.1016/j.marenvres.2005.10.001
Microbial degradation of hydrocarbons in soil during aerobic/anaerobic changes and under purely aerobic conditions, Applied Microbiology and Biotechnology, vol.49, issue.5, pp.631-636, 1998. ,
DOI : 10.1007/s002530051225
Anaerobic degradation of non-substituted aromatic hydrocarbons, Current Opinion in Biotechnology, vol.22, issue.3, pp.406-414, 2011. ,
DOI : 10.1016/j.copbio.2011.02.009
Alkane biodegradation and dynamics of phylogenetic subgroups of sulfate-reducing bacteria in an anoxic coastal marine sediment artificially contaminated with oil, Chemosphere, vol.68, issue.7, pp.1327-1334, 2007. ,
DOI : 10.1016/j.chemosphere.2007.01.033
URL : https://hal.archives-ouvertes.fr/hal-00171086
Pseudomonas Diversity in Crude-Oil-Contaminated Intertidal Sand Samples Obtained after the Prestige Oil Spill, Applied and Environmental Microbiology, vol.77, issue.3, pp.1076-1085, 2011. ,
DOI : 10.1128/AEM.01741-10
Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA, Appl Environ Microbiol, vol.59, issue.3, pp.695-700, 1993. ,
Levels and toxicity of polycyclic aromatic hydrocarbons in marine sediments, TrAC Trends in Analytical Chemistry, vol.28, issue.6, pp.653-664, 2009. ,
DOI : 10.1016/j.trac.2009.04.004
Regulation of the Synthesis of Ribosomes and Ribosomal Components, Annual Review of Biochemistry, vol.53, issue.1, pp.75-117, 1984. ,
DOI : 10.1146/annurev.bi.53.070184.000451
Draft Genome Sequences for Oil-Degrading Bacterial Strains from Beach Sands Impacted by the Deepwater Horizon Oil Spill, Genome Announcements, vol.1, issue.6, pp.1015-1028, 2013. ,
DOI : 10.1128/genomeA.01015-13
Aerobic degradation of aromatic hydrocarbons Handbook of hydrocarbon and lipid microbiology, In: Timmis KN, pp.799-837, 2010. ,
Imaging Oxygen Distribution in Marine Sediments. The Importance of Bioturbation and Sediment Heterogeneity, Acta Biotheoretica, vol.101, issue.1???2, pp.123-135, 2008. ,
DOI : 10.1007/s10441-008-9033-1
URL : https://hal.archives-ouvertes.fr/hal-00256326
Enzymes for Aerobic Degradation of Alkanes, pp.781-798, 2010. ,
DOI : 10.1007/978-3-540-77587-4_59
Robust Hydrocarbon Degradation and Dynamics of Bacterial Communities during Nutrient-Enhanced Oil Spill Bioremediation, Applied and Environmental Microbiology, vol.68, issue.11, pp.5537-5548, 2002. ,
DOI : 10.1128/AEM.68.11.5537-5548.2002
Bacterial Community Dynamics and Hydrocarbon Degradation during a Field-Scale Evaluation of Bioremediation on a Mudflat Beach Contaminated with Buried Oil, Applied and Environmental Microbiology, vol.70, issue.5, pp.2603-2613, 2004. ,
DOI : 10.1128/AEM.70.5.2603-2613.2004
The neighbour-joining method: a new method for reconstructing phylogenetic trees, Mol Biol Evol, vol.4, pp.406-425, 1987. ,
Stable-Isotope Probing of Bacteria Capable of Degrading Salicylate, Naphthalene, or Phenanthrene in a Bioreactor Treating Contaminated Soil, Applied and Environmental Microbiology, vol.71, issue.3, pp.1202-1209, 2005. ,
DOI : 10.1128/AEM.71.3.1202-1209.2005
Impact of oil on bacterial community structure in bioturbated sediments Laboratory studies of oxic and anoxic degradation of chlorophyll-a in Long Island Sound sediments, PLoS One Geochim Cosmochim Acta, vol.8, issue.57, pp.147-157, 1993. ,
Effects of oxygen and redox oscillation on degradation of cell-associated lipids in surficial marine sediments, Geochimica et Cosmochimica Acta, vol.66, issue.11, pp.2003-2012, 2002. ,
DOI : 10.1016/S0016-7037(02)00830-X
MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods, Molecular Biology and Evolution, vol.28, issue.10, pp.2731-2739, 2011. ,
DOI : 10.1093/molbev/msr121
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.4673-4680, 1994. ,
DOI : 10.1093/nar/22.22.4673
Natural microbial diversity in superficial sediments of Milazzo Harbor (Sicily) and community successions during microcosm enrichment with various hydrocarbons, Environmental Microbiology, vol.48, issue.9, pp.1426-1441, 2005. ,
DOI : 10.1099/ijs.0.02424-0
Biodegradation of diesel oil and gasoline contaminated effluent employing intermittent aeration, Journal of Hazardous Materials, vol.168, issue.2-3, pp.1366-1372, 2009. ,
DOI : 10.1016/j.jhazmat.2009.03.023
Bioremediation of an Experimental Oil Spill on the Shoreline of Delaware Bay, Environmental Science & Technology, vol.30, issue.5, pp.1764-1775, 1996. ,
DOI : 10.1021/es950754r
Effect of oxic/anoxic switches on bacterial communities and PAH biodegradation in an oil-contaminated sludge, Environmental Science and Pollution Research, vol.94, issue.11, pp.1022-1032, 2011. ,
DOI : 10.1007/s11356-010-0435-7
URL : https://hal.archives-ouvertes.fr/hal-00907074
Dynamics of metabolically active bacterial communities involved in PAH and toxicity elimination from oil-contaminated sludge during anoxic/oxic oscillations, Applied Microbiology and Biotechnology, vol.373, issue.11, pp.4199-4211, 2013. ,
DOI : 10.1007/s00253-012-4219-5
Degradation and preservation of organic matter in marine sediments Handbook of environmental chemistry, pp.295-321, 2006. ,
DECIPHER, a Search-Based Approach to Chimera Identification for 16S rRNA Sequences, Applied and Environmental Microbiology, vol.78, issue.3, pp.717-725, 2012. ,
DOI : 10.1128/AEM.06516-11
Effects of Manure Compost Application on Soil Microbial Community Diversity and Soil Microenvironments in a Temperate Cropland in China, PLoS ONE, vol.81, issue.10, p.108555, 2014. ,
DOI : 10.1371/journal.pone.0108555.t003