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Auteur Jeanbille, M.; Gury, J.; Duran, R.; Tronczynski, J.; Ghiglione, J.-F.; Agogué, H.; Ben Said, O.; Taib, N.; Debroas, D.; Garnier, C.; Auguet, J.-C.
Titre Chronic Polyaromatic Hydrocarbon (PAH) Contamination Is a Marginal Driver for Community Diversity and Prokaryotic Predicted Functioning in Coastal Sediments Type Article scientifique
Année 2016 Publication Revue Abrégée Front. Microbiol.
Volume 7 Numéro Pages Unsp-1303
Mots-Clés archaeal communities; bacterial communities; benthic biodiversity; chronic contamination; coastal sediment; deep-sea; degrading bacteria; functional diversity; gulf-of-mexico; harbor sediments; horizon oil-spill; microbial communities; pah; polycyclic aromatic-hydrocarbons
Résumé Benthic microorganisms are key players in the recycling of organic matter and recalcitrant compounds such as polyaromatic hydrocarbons (PAHs) in coastal sediments. Despite their ecological importance, the response of microbial communities to chronic PAH pollution, one of the major threats to coastal ecosystems, has received very little attention. In one of the largest surveys performed so far on coastal sediments, the diversity and composition of microbial communities inhabiting both chronically contaminated and non-contaminated coastal sediments were investigated using high throughput sequencing on the 18S and 16S rRNA genes. Prokaryotic alpha-diversity showed significant association with salinity, temperature, and organic carbon content. The effect of particle size distribution was strong on eukaryotic diversity. Similarly to alpha-diversity, beta diversity patterns were strongly influenced by the environmental filter, while PAHs had no influence on the prokaryotic community structure and a weak impact on the eukaryotic community structure at the continental scale. However, at the regional scale, PAHs became the main driver shaping the structure of bacterial and eukaryotic communities. These patterns were not found for PICRUSt predicted prokaryotic functions, thus indicating some degree of functional redundancy. Eukaryotes presented a greater potential for their use as PAH contamination biomarkers, owing to their stronger response at both regional and continental scales.
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Langue English Langue du Résumé Titre Original
Éditeur de collection Titre de collection Titre de collection Abrégé
Volume de collection Numéro de collection Edition
ISSN 1664-302x ISBN Médium
Région Expédition Conférence
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Numéro d'Appel MARBEC @ alain.herve @ collection 1662
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Auteur Joux, F.; Bertrand, J.-C.; De Wit, R.; Grossi, V.; Intertaglia, L.; Lebaron, P.; Michotey, V.; Normand, P.; Peyret, P.; Raimbault, P.; Tamburini, C.; Urios, L.
Titre Methods for Studying Microorganisms in the Environment Type Chapitre de livre
Année 2015 Publication Revue Abrégée
Volume Numéro Pages 757-829
Mots-Clés Bacterial isolation; Biomarkers; Cultural techniques; Cytometry; DNA microarray; Microbial activities; Microbial Ecology; Microelectrodes; Molecular fingerprints; Pcr; Phospholipid fatty acid analyses; Pigment analyses; Sampling techniques
Résumé The main methods for the study of microorganisms in the environment (water, soil, sediment, biofilms), the different techniques of sampling for measuring biomass, the activities, and the diversity of the microorganisms are presented. To respond to these various issues, techniques as varied as those of flow cytometry, molecular biology, biochemistry, molecular isotopic tools, or electrochemistry are implemented. These different techniques are described with their advantages and disadvantages for different types of biotopes. The question of the isolation, culture, and conservation of microorganisms from the environment are also addressed. Without being exhaustive, this chapter emphasizes the importance of using appropriate and efficient methodological tools to properly explore the still mysterious compartment of microorganisms in the environment.
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Editeur Springer Netherlands Lieu de Publication Éditeur Bertrand, J.-C.; Caumette, P.; Lebaron, P.; Matheron, R.; Normand, P.; Sime-Ngando, T.
Langue en Langue du Résumé Titre Original
Éditeur de collection Titre de collection Titre de collection Abrégé Environmental Microbiology: Fundamentals and Applications
Volume de collection Numéro de collection Edition
ISSN ISBN 978-94-017-9117-5 978-94-017-9118-2 Médium
Région Expédition Conférence
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Numéro d'Appel MARBEC @ alain.herve @ collection 1393
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Auteur Kadowaki, K.; Barbera, C.G.; Godsoe, W.; Delsuc, F.; Mouquet, N.
Titre Predicting biotic interactions and their variability in a changing environment Type Article scientifique
Année 2016 Publication Revue Abrégée Biol. Lett.
Volume 12 Numéro 5 Pages 20151073
Mots-Clés Bacteria; climate-change; climate change; distribution models; diversity; extinction risk; global change; microcosm; phylogeny; predictive ecology; range; responses; shifts
Résumé Global environmental change is altering the patterns of biodiversity worldwide. Observation and theory suggest that species' distributions and abundances depend on a suite of processes, notably abiotic filtering and biotic interactions, both of which are constrained by species' phylogenetic history. Models predicting species distribution have historically mostly considered abiotic filtering and are only starting to integrate biotic interaction. However, using information on present interactions to forecast the future of biodiversity supposes that biotic interactions will not change when species are confronted with new environments. Using bacterial microcosms, we illustrate how biotic interactions can vary along an environmental gradient and how this variability can depend on the phylogenetic distance between interacting species.
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Langue English Langue du Résumé Titre Original
Éditeur de collection Titre de collection Titre de collection Abrégé
Volume de collection Numéro de collection Edition
ISSN 1744-9561 ISBN Médium
Région Expédition Conférence
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Numéro d'Appel MARBEC @ alain.herve @ collection 1653
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Auteur Le Chevanton, M.; Garnier, M.; Bougaran, G.; Schreiber, N.; Lukomska, E.; Bérard, J.B.; Fouilland, E.; Bernard, O.; Cadoret, J.P.
Titre Screening and selection of growth-promoting bacteria for Dunaliella cultures Type Article scientifique
Année 2013 Publication Revue Abrégée Algal Research
Volume 2 Numéro Pages 212-222
Mots-Clés Bacterial diversity; Dunaliella; Interaction; bacteria; microalgae
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Editeur Lieu de Publication Éditeur
Langue Langue du Résumé Titre Original
Éditeur de collection Titre de collection Titre de collection Abrégé
Volume de collection Numéro de collection Edition
ISSN 2211-9264 ISBN Médium
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Numéro d'Appel MARBEC @ isabelle.vidal-ayouba @ collection 815
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Auteur Leboulanger, C.; Agogué, H.; Bernard, C.; Bouvy, M.; Carré, C.; Cellamare, M.; Duval, C.; Fouilland, E.; Got, P.; Intertaglia, L.; Lavergne, C.; Floc’h, E.L.; Roques, C.; Sarazin, G.
Titre Microbial Diversity and Cyanobacterial Production in Dziani Dzaha Crater Lake, a Unique Tropical Thalassohaline Environment Type Article scientifique
Année 2017 Publication Revue Abrégée Plos One
Volume 12 Numéro 1 Pages e0168879
Mots-Clés Biomass (ecology); Cyanobacteria; Lakes; Oxygen; Phytoplankton; Ribosomal RNA; Sea water; Surface water
Résumé This study describes, for the first time, the water chemistry and microbial diversity in Dziani Dzaha, a tropical crater lake located on Mayotte Island (Comoros archipelago, Western Indian Ocean). The lake water had a high level of dissolved matter and high alkalinity (10.6–14.5 g L-1 eq. CO32-, i.e. 160–220 mM compare to around 2–2.5 in seawater), with salinity up to 52 psu, 1.5 higher than seawater. Hierarchical clustering discriminated Dziani Dzaha water from other alkaline, saline lakes, highlighting its thalassohaline nature. The phytoplankton biomass was very high, with a total chlorophyll a concentration of 524 to 875 μg chl a L-1 depending on the survey, homogeneously distributed from surface to bottom (4 m). Throughout the whole water column the photosynthetic biomass was dominated (>97% of total biovolume) by the filamentous cyanobacteria Arthrospira sp. with a straight morphotype. In situ daily photosynthetic oxygen production ranged from 17.3 to 22.2 g O2 m-2 d-1, consistent with experimental production / irradiance measurements and modeling. Heterotrophic bacterioplankton was extremely abundant, with cell densities up to 1.5 108 cells mL-1 in the whole water column. Isolation and culture of 59 Eubacteria strains revealed the prevalence of alkaliphilic and halophilic organisms together with taxa unknown to date, based on 16S rRNA gene analysis. A single cloning-sequencing approach using archaeal 16S rDNA gene primers unveiled the presence of diverse extremophilic Euryarchaeota. The water chemistry of Dziani Dzaha Lake supports the hypothesis that it was derived from seawater and strongly modified by geological conditions and microbial activities that increased the alkalinity. Dziani Dzaha has a unique consortium of cyanobacteria, phytoplankton, heterotrophic Eubacteria and Archaea, with very few unicellular protozoa, that will deserve further deep analysis to unravel its uncommon diversity. A single taxon, belonging to the genus Arthrospira, was found responsible for almost all photosynthetic primary production.
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Langue Langue du Résumé Titre Original
Éditeur de collection Titre de collection Titre de collection Abrégé
Volume de collection Numéro de collection Edition
ISSN 1932-6203 ISBN Médium
Région Expédition Conférence
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Numéro d'Appel MARBEC @ alain.herve @ collection 1702
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