title: Substrates specialization in lipid compounds and hydrocarbons of Marinobacter genus.
abstract: The impact of petroleum contamination and of burrowing macrofauna on abundances of Marinobacter and denitrifiers was tested in marine sediment mesocoms after 3 months incubation. Quantification of this genus by qPCR with a new primer set showed that the main factor favoring Marinobacter abundance was hydrocarbon amendment followed by macrofauna presence. In parallel, proportion of nosZ-harboring bacteria increased in the presence of marcrofauna. Quantitative finding were explained by physiological data from a set of 34 strains and by genomic analysis of 16 genomes spanning 15 different Marinobacter-validated species (Marinobacter hydrocarbonoclasticus, Marinobacter daeopensis, Marinobacter santoriniensis, Marinobacter pelagius, Marinobacter flavimaris, Marinobacter adhaerens, Marinobacter xestospongiae, Marinobacter algicola, Marinobacter vinifirmus, Marinobacter maritimus, Marinobacter psychrophilus, Marinobacter lipoliticus, Marinobacter manganoxydans, Marinobacter excellens, Marinobacter nanhaiticus) and 4 potential novel ones. Among the 105 organic electron donors tested in physiological analysis, Marinobacter pattern appeared narrow for almost all kinds of organic compounds except lipid ones. Strains of this set could oxidize a very large spectrum of lipids belonging to glycerolipids, branched, fatty acyls, and aromatic hydrocarbon classes. Physiological data were comforted by genomic analysis, and genes of alkane 1-monooxygenase, haloalkane dehalogenase, and flavin-binding monooxygenase were detected in most genomes. Denitrification was assessed for several strains belonging to M. hydrocarbonoclasticus, M. vinifirmus, Marinobacter maritinus, and M. pelagius species indicating the possibility to use nitrate as alternative electron acceptor. Higher occurrence of Marinobacter in the presence of petroleum appeared to be the result of a broader physiological trait allowing this genus to use lipids including hydrocarbon as principal electron donors.
authors.affiliation: Aix Marseille Université, UM110, MIO CNRS IRD, campus de Luminy, case 901, 13288, Marseille, France.
authors.forename: Patricia
authors.initials: P
authors.lastname: Bonin
authors.affiliation: Aix Marseille Université, UM110, MIO CNRS IRD, campus de Luminy, case 901, 13288, Marseille, France.|Sorbonne Universités, UPMC Univ Paris 06, IFD, 4 Place Jussieu, 75252, Paris cedex 05, France.
authors.forename: Christophe
authors.initials: C
authors.lastname: Vieira
authors.affiliation: Institut Pluridisciplinaire de Recherche en Environnement et Matériaux, Equipe Environnement et Microbiologie, UMR 5254, CNRS, IBEAS, Université de Pau et des Pays de l'Adour, Pau, France.
authors.forename: Régis
authors.initials: R
authors.lastname: Grimaud
authors.affiliation: Aix Marseille Université, UM110, MIO CNRS IRD, campus de Luminy, case 901, 13288, Marseille, France.
authors.forename: Cécile
authors.initials: C
authors.lastname: Militon
authors.affiliation: Aix Marseille Université, UM110, MIO CNRS IRD, campus de Luminy, case 901, 13288, Marseille, France.
authors.forename: Philippe
authors.initials: P
authors.lastname: Cuny
authors.affiliation: Aix Marseille Université, UM110, MIO CNRS IRD, campus de Luminy, case 901, 13288, Marseille, France.|Ecosystèmes, Biodiversité, Evolution (ECOBIO), CNRS : UMR6553 - Université de Rennes 1 - INEE - Observatoire des Sciences de l'Univers de Rennes, Rennes, France.
authors.forename: Oscar
authors.initials: O
authors.lastname: Lima
authors.affiliation: Aix Marseille Université, UM110, MIO CNRS IRD, campus de Luminy, case 901, 13288, Marseille, France.
authors.forename: Sophie
authors.initials: S
authors.lastname: Guasco
authors.affiliation: Department of Biological Oceanography, Royal Netherlands Institute for Sea Research, NL-1790, Den Burg, AB, Netherlands.
authors.forename: Corina P D
authors.initials: CP
authors.lastname: Brussaard
authors.affiliation: Aix Marseille Université, UM110, MIO CNRS IRD, campus de Luminy, case 901, 13288, Marseille, France. valerie.michotey@univ-amu.fr.
authors.forename: Valérie
authors.initials: V
authors.lastname: Michotey
mesh_terms: D016680:Genome, Bacterial; D019015:Geologic Sediments / Q000382:microbiology; D006838:Hydrocarbons / Q000378:metabolism*; D050356:Lipid Metabolism; D053520:Marinobacter / Q000235:genetics / Q000302:isolation & purification / Q000378:metabolism*; D059392:Petroleum Pollution; D010802:Phylogeny
chemical_list: D006838:Hydrocarbons
keywords: Denitrification; Electron donor pattern; Hydrocarbon; Marine sediment; Marinobater; Quantification