Articles | Volume 8, issue 4
Biogeosciences, 8, 973–985, 2011
https://doi.org/10.5194/bg-8-973-2011
© Author(s) 2011. This work is distributed under
the Creative Commons Attribution 3.0 License.
the Creative Commons Attribution 3.0 License.
Special issue: Interactions between planktonic organisms and the biogeochemical...
Biogeosciences, 8, 973–985, 2011
https://doi.org/10.5194/bg-8-973-2011
© Author(s) 2011. This work is distributed under
the Creative Commons Attribution 3.0 License.
the Creative Commons Attribution 3.0 License.
Research article 20 Apr 2011
Research article | 20 Apr 2011
Ecology of aerobic anoxygenic phototrophic bacteria along an oligotrophic gradient in the Mediterranean Sea
D. Lamy et al.
Related subject area
Biogeochemistry: Environmental Microbiology
Potential bioavailability of organic matter from atmospheric particles to marine heterotrophic bacteria
Microbial functional signature in the atmospheric boundary layer
New insight to niche partitioning and ecological function of ammonia oxidizing archaea in subtropical estuarine ecosystem
Metagenomic insights into the metabolism of microbial communities that mediate iron and methane cycling in Lake Kinneret sediments
Impact of reactive surfaces on the abiotic reaction between nitrite and ferrous iron and associated nitrogen and oxygen isotope dynamics
Biotic and abiotic transformation of amino acids in cloud water: Experimental studies and atmospheric implications
Reviews and syntheses: Bacterial bioluminescence – ecology and impact in the biological carbon pump
Salinity-dependent algae uptake and subsequent carbon and nitrogen metabolisms of two intertidal foraminifera (Ammonia tepida and Haynesina germanica)
On giant shoulders: how a seamount affects the microbial community composition of seawater and sponges
Spatial variations in sedimentary N-transformation rates in the North Sea (German Bight)
Patterns of (trace) metals and microorganisms in the Rainbow hydrothermal vent plume at the Mid-Atlantic Ridge
Co-occurrence of Fe and P stress in natural populations of the marine diazotroph Trichodesmium
Senescence as the main driver of iodide release from a diverse range of marine phytoplankton
Reviews and syntheses: Biological weathering and its consequences at different spatial levels – from nanoscale to global scale
Deep-sea sponge grounds as nutrient sinks: denitrification is common in boreo-Arctic sponges
Inducing the attachment of cable bacteria on oxidizing electrodes
Bacterial degradation activity in the eastern tropical South Pacific oxygen minimum zone
Macromolecular fungal ice nuclei in Fusarium: effects of physical and chemical processing
Effects of sea animal colonization on the coupling between dynamics and activity of soil ammonia-oxidizing bacteria and archaea in maritime Antarctica
Comprehensive characterization of an aspen (Populus tremuloides) leaf litter sample that maintained ice nucleation activity for 48 years
The origin and role of biological rock crusts in rocky desert weathering
Pyrite oxidization accelerates bacterial carbon sequestration in copper mine tailings
Biogeochemical evidence of anaerobic methane oxidation on active submarine mud volcanoes on the continental slope of the Canadian Beaufort Sea
Filtration artefacts in bacterial community composition can affect the outcome of dissolved organic matter biolability assays
Predominance of methanogens over methanotrophs in rewetted fens characterized by high methane emissions
Trichodesmium physiological ecology and phosphate reduction in the western tropical South Pacific
Potential for phenol biodegradation in cloud waters
Colony formation in Phaeocystis antarctica: connecting molecular mechanisms with iron biogeochemistry
In-depth characterization of diazotroph activity across the western tropical South Pacific hotspot of N2 fixation (OUTPACE cruise)
Programmed cell death in diazotrophs and the fate of organic matter in the western tropical South Pacific Ocean during the OUTPACE cruise
Rapid mineralization of biogenic volatile organic compounds in temperate and Arctic soils
A three-dimensional niche comparison of Emiliania huxleyi and Gephyrocapsa oceanica: reconciling observations with projections
Distribution and drivers of symbiotic and free-living diazotrophic cyanobacteria in the western tropical South Pacific
Virus-mediated transfer of nitrogen from heterotrophic bacteria to phytoplankton
Environmental controls on the elemental composition of a Southern Hemisphere strain of the coccolithophore Emiliania huxleyi
Calcium carbonates: induced biomineralization with controlled macromorphology
Contrasting effects of ammonium and nitrate additions on the biomass of soil microbial communities and enzyme activities in subtropical China
Effects of ultraviolet radiation on photosynthetic performance and N2 fixation in Trichodesmium erythraeum IMS 101
Biogeochemical cycling at the aquatic–terrestrial interface is linked to parafluvial hyporheic zone inundation history
Alterations in microbial community composition with increasing fCO2: a mesocosm study in the eastern Baltic Sea
Long-distance electron transport occurs globally in marine sediments
Vertical profiles of sediment methanogenic potential and communities in two plateau freshwater lakes
Annual variability and regulation of methane and sulfate fluxes in Baltic Sea estuarine sediments
Ocean acidification impacts bacteria–phytoplankton coupling at low-nutrient conditions
Seasonal changes in the D / H ratio of fatty acids of pelagic microorganisms in the coastal North Sea
The role of coccoliths in protecting Emiliania huxleyi against stressful light and UV radiation
Biogeochemical and biological impacts of diazotroph blooms in a low-nutrient, low-chlorophyll ecosystem: synthesis from the VAHINE mesocosm experiment (New Caledonia)
Nitrogen fixation in sediments along a depth transect through the Peruvian oxygen minimum zone
Transfer of diazotroph-derived nitrogen towards non-diazotrophic planktonic communities: a comparative study between Trichodesmium erythraeum, Crocosphaera watsonii and Cyanothece sp.
Cell-free extracellular enzymatic activity is linked to seasonal temperature changes: a case study in the Baltic Sea
Kahina Djaoudi, France Van Wambeke, Aude Barani, Nagib Bhairy, Servanne Chevaillier, Karine Desboeufs, Sandra Nunige, Mohamed Labiadh, Thierry Henry des Tureaux, Dominique Lefèvre, Amel Nouara, Christos Panagiotopoulos, Marc Tedetti, and Elvira Pulido-Villena
Biogeosciences, 17, 6271–6285, https://doi.org/10.5194/bg-17-6271-2020, https://doi.org/10.5194/bg-17-6271-2020, 2020
Romie Tignat-Perrier, Aurélien Dommergue, Alban Thollot, Olivier Magand, Timothy M. Vogel, and Catherine Larose
Biogeosciences, 17, 6081–6095, https://doi.org/10.5194/bg-17-6081-2020, https://doi.org/10.5194/bg-17-6081-2020, 2020
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The adverse atmospheric environmental conditions do not appear suited for microbial life. We conducted the first global comparative metagenomic analysis to find out if airborne microbial communities might be selected by their ability to resist these adverse conditions. The relatively higher concentration of fungi led to the observation of higher proportions of stress-related functions in air. Fungi might likely resist and survive atmospheric physical stress better than bacteria.
Yanhong Lu, Shunyan Cheung, Ling Chen, Shuh-Ji Kao, Xiaomin Xia, Jianping Gan, Minhan Dai, and Hongbin Liu
Biogeosciences, 17, 6017–6032, https://doi.org/10.5194/bg-17-6017-2020, https://doi.org/10.5194/bg-17-6017-2020, 2020
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Through a comprehensive investigation, we observed differential niche partitioning among diverse ammonia-oxidizing archaea (AOA) sublineages in a typical subtropical estuary. Distinct AOA communities observed at DNA and RNA levels suggested that a strong divergence in ammonia-oxidizing activity among different AOA groups occurs. Our result highlights the importance of identifying major ammonia oxidizers at RNA level in future studies.
Michal Elul, Maxim Rubin-Blum, Zeev Ronen, Itay Bar-Or, Werner Eckert, and Orit Sivan
Biogeosciences Discuss., https://doi.org/10.5194/bg-2020-329, https://doi.org/10.5194/bg-2020-329, 2020
Revised manuscript accepted for BG
Anna-Neva Visser, Scott D. Wankel, Pascal A. Niklaus, James M. Byrne, Andreas A. Kappler, and Moritz F. Lehmann
Biogeosciences, 17, 4355–4374, https://doi.org/10.5194/bg-17-4355-2020, https://doi.org/10.5194/bg-17-4355-2020, 2020
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This study focuses on the chemical reaction between Fe(II) and nitrite, which has been reported to produce high levels of the greenhouse gas N2O. We investigated the extent to which dead biomass and Fe(II) minerals might enhance this reaction. Here, nitrite reduction was highest when both additives were present but less pronounced if only Fe(II) minerals were added. Both reaction systems show distinct differences, rather low N2O levels, and indicated the abiotic production of N2.
Saly Jaber, Muriel Joly, Maxence Brissy, Martin Leremboure, Amina Khaled, Barbara Ervens, and Anne-Marie Delort
Biogeosciences Discuss., https://doi.org/10.5194/bg-2020-250, https://doi.org/10.5194/bg-2020-250, 2020
Revised manuscript accepted for BG
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Our study is of interest to atmospheric scientists and environmental microbiologists as we show that clouds can be considered a medium where bacteria efficiently degrade and transform amino acids, in competition to chemical processes. As current atmospheric multiphase models are restricted to chemical degradation of organic compounds, our conclusions motivate further model development.
Lisa Tanet, Séverine Martini, Laurie Casalot, and Christian Tamburini
Biogeosciences, 17, 3757–3778, https://doi.org/10.5194/bg-17-3757-2020, https://doi.org/10.5194/bg-17-3757-2020, 2020
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Bioluminescent bacteria, the most abundant light-emitting organisms in the ocean, can be free-living, be symbiotic or colonize organic particles. This review suggests that they act as a visual target and may indirectly influence the sequestration of biogenic carbon in oceans by increasing the attraction rate for consumers. We summarize the instrumentation available to quantify this impact in future studies and propose synthetic figures integrating these ecological and biogeochemical concepts.
Michael Lintner, Bianca Biedrawa, Julia Wukovits, Wolfgang Wanek, and Petra Heinz
Biogeosciences, 17, 3723–3732, https://doi.org/10.5194/bg-17-3723-2020, https://doi.org/10.5194/bg-17-3723-2020, 2020
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Foraminifera are unicellular marine organisms that play an important role in the marine element cycle. Changes of environmental parameters such as salinity or temperature have a significant impact on the faunal assemblages. Our experiments show that changing salinity in the German Wadden Sea immediately influences the foraminiferal community. It seems that A. tepida is better adapted to salinity fluctuations than H. germanica.
Kathrin Busch, Ulrike Hanz, Furu Mienis, Benjamin Mueller, Andre Franke, Emyr Martyn Roberts, Hans Tore Rapp, and Ute Hentschel
Biogeosciences, 17, 3471–3486, https://doi.org/10.5194/bg-17-3471-2020, https://doi.org/10.5194/bg-17-3471-2020, 2020
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Seamounts are globally abundant submarine structures that offer great potential to study the impacts and interactions of environmental gradients at a single geographic location. In an exemplary way, we describe potential mechanisms by which a seamount can affect the structure of pelagic and benthic (sponge-)associated microbial communities. We conclude that the geology, physical oceanography, biogeochemistry, and microbiology of seamounts are even more closely linked than currently appreciated.
Alexander Bratek, Justus E. E. van
Beusekom, Andreas Neumann, Tina Sanders, Jana Friedrich, Kay-Christian Emeis, and Kirstin Dähnke
Biogeosciences, 17, 2839–2851, https://doi.org/10.5194/bg-17-2839-2020, https://doi.org/10.5194/bg-17-2839-2020, 2020
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The following paper highlights the importance of benthic N-transformation rates in different sediment types in the southern North Sea as a source of fixed nitrogen for primary producers and also as a sink of fixed nitrogen. Sedimentary fluxes of dissolved inorganic nitrogen support ∼7 to 59 % of the average annual primary production. Semi-permeable and permeable sediments contribute ∼68 % of the total benthic N2 production rates, counteracting eutrophication in the southern North Sea.
Sabine Haalboom, David M. Price, Furu Mienis, Judith D. L. van Bleijswijk, Henko C. de Stigter, Harry J. Witte, Gert-Jan Reichart, and Gerard C. A. Duineveld
Biogeosciences, 17, 2499–2519, https://doi.org/10.5194/bg-17-2499-2020, https://doi.org/10.5194/bg-17-2499-2020, 2020
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Mineral mining in deep-sea hydrothermal settings will lead to the formation of plumes of fine-grained, chemically reactive, suspended matter. Understanding how natural hydrothermal plumes evolve as they disperse from their source, and how they affect their surrounding environment, may help in characterising the behaviour of the diluted part of mining plumes. The natural plume provided a heterogeneous, geochemically enriched habitat conducive to the development of a distinct microbial ecology.
Noelle A. Held, Eric A. Webb, Matthew M. McIlvin, David A. Hutchins, Natalie R. Cohen, Dawn M. Moran, Korinna Kunde, Maeve C. Lohan, Claire Mahaffey, E. Malcolm S. Woodward, and Mak A. Saito
Biogeosciences, 17, 2537–2551, https://doi.org/10.5194/bg-17-2537-2020, https://doi.org/10.5194/bg-17-2537-2020, 2020
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Trichodesmium is a globally important marine nitrogen fixer that stimulates primary production in the surface ocean. We surveyed metaproteomes of Trichodesmium populations across the North Atlantic and other oceans, and we found that they experience simultaneous phosphate and iron stress because of the biophysical limits of nutrient uptake. Importantly, nitrogenase was most abundant during co-stress, indicating the potential importance of this phenotype to global nitrogen and carbon cycling.
Helmke Hepach, Claire Hughes, Karen Hogg, Susannah Collings, and Rosie Chance
Biogeosciences, 17, 2453–2471, https://doi.org/10.5194/bg-17-2453-2020, https://doi.org/10.5194/bg-17-2453-2020, 2020
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Tropospheric iodine takes part in numerous atmospheric chemical cycles, including tropospheric ozone destruction and aerosol formation. Due to its significance for atmospheric processes, it is crucial to constrain its sources and sinks. This paper aims at investigating and understanding features of biogenic iodate-to-iodide reduction in microalgal monocultures. We find that phytoplankton senescence may play a crucial role in the release of iodide to the marine environment.
Roger D. Finlay, Shahid Mahmood, Nicholas Rosenstock, Emile B. Bolou-Bi, Stephan J. Köhler, Zaenab Fahad, Anna Rosling, Håkan Wallander, Salim Belyazid, Kevin Bishop, and Bin Lian
Biogeosciences, 17, 1507–1533, https://doi.org/10.5194/bg-17-1507-2020, https://doi.org/10.5194/bg-17-1507-2020, 2020
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Effects of biological activity on mineral weathering operate at scales ranging from short-term, microscopic interactions to global, evolutionary timescale processes. Microorganisms have had well-documented effects at large spatio-temporal scales, but to establish the quantitative significance of microscopic measurements for field-scale processes, higher-resolution studies of liquid chemistry at local weathering sites and improved upscaling to soil-scale dissolution rates are still required.
Christine Rooks, James Kar-Hei Fang, Pål Tore Mørkved, Rui Zhao, Hans Tore Rapp, Joana R. Xavier, and Friederike Hoffmann
Biogeosciences, 17, 1231–1245, https://doi.org/10.5194/bg-17-1231-2020, https://doi.org/10.5194/bg-17-1231-2020, 2020
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Sponge grounds are known as nutrient sources, providing nitrate and ammonium to the ocean. We found that they also can do the opposite: in six species from Arctic and North Atlantic sponge grounds, we measured high rates of denitrification, which remove these nutrients from the sea. Rates were highest when the sponge tissue got low in oxygen, which happens when sponges stop pumping because of stress. Sponge grounds may become nutrient sinks when exposed to stress.
Cheng Li, Clare E. Reimers, and Yvan Alleau
Biogeosciences, 17, 597–607, https://doi.org/10.5194/bg-17-597-2020, https://doi.org/10.5194/bg-17-597-2020, 2020
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Novel filamentous cable bacteria that grow in the top layer of intertidal mudflat sediment were attracted to electrodes poised at a positive electrical potential. Several diverse morphologies of Desulfobulbaceae filaments, cells, and colonies were observed on the electrode surface. These observations provide information to suggest conditions that will induce cable bacteria to perform electron donation to an electrode, informing future experiments that culture cable bacteria outside of sediment.
Marie Maßmig, Jan Lüdke, Gerd Krahmann, and Anja Engel
Biogeosciences, 17, 215–230, https://doi.org/10.5194/bg-17-215-2020, https://doi.org/10.5194/bg-17-215-2020, 2020
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Little is known about the rates of bacterial element cycling in oxygen minimum zones (OMZs). We measured bacterial production and rates of extracellular hydrolytic enzymes at various in situ oxygen concentrations in the OMZ off Peru. Our field data show unhampered bacterial activity at low oxygen concentrations. Meanwhile bacterial degradation of organic matter substantially contributed to the formation of the OMZ.
Anna T. Kunert, Mira L. Pöhlker, Kai Tang, Carola S. Krevert, Carsten Wieder, Kai R. Speth, Linda E. Hanson, Cindy E. Morris, David G. Schmale III, Ulrich Pöschl, and Janine Fröhlich-Nowoisky
Biogeosciences, 16, 4647–4659, https://doi.org/10.5194/bg-16-4647-2019, https://doi.org/10.5194/bg-16-4647-2019, 2019
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A screening of more than 100 strains from 65 different species revealed that the ice nucleation activity within the fungal genus Fusarium is more widespread than previously assumed. Filtration experiments suggest that the single cell-free Fusarium IN is smaller than 100 kDa (~ 6 nm) and that aggregates can be formed in solution. Exposure experiments, freeze–thaw cycles, and long-term storage tests demonstrate a high stability of Fusarium IN under atmospherically relevant conditions.
Qing Wang, Renbin Zhu, Yanling Zheng, Tao Bao, and Lijun Hou
Biogeosciences, 16, 4113–4128, https://doi.org/10.5194/bg-16-4113-2019, https://doi.org/10.5194/bg-16-4113-2019, 2019
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We investigated abundance, potential activity, and diversity of soil ammonia-oxidizing archaea (AOA) and bacteria (AOB) in five Antarctic tundra patches, including penguin colony, seal colony, and tundra marsh. We have found (1) sea animal colonization increased AOB population size.; (2) AOB contributed to ammonia oxidation rates more than AOA in sea animal colonies; (3) community structures of AOB and AOA were closely related to soil biogeochemical processes associated with animal activities.
Yalda Vasebi, Marco E. Mechan Llontop, Regina Hanlon, David G. Schmale III, Russell Schnell, and Boris A. Vinatzer
Biogeosciences, 16, 1675–1683, https://doi.org/10.5194/bg-16-1675-2019, https://doi.org/10.5194/bg-16-1675-2019, 2019
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Ice nucleation particles (INPs) help ice form at temperatures as high as −4 °C and contribute to the formation of precipitation. Leaf litter contains a high concentration of INPs, but the organisms that produce them are unknown. Here, we cultured two bacteria and one fungus from leaf litter that produce INPs similar to those found in leaf litter. This suggests that leaf litter may be an important habitat of these organisms and supports a role of these organisms as producers of atmospheric INPs.
Nimrod Wieler, Hanan Ginat, Osnat Gillor, and Roey Angel
Biogeosciences, 16, 1133–1145, https://doi.org/10.5194/bg-16-1133-2019, https://doi.org/10.5194/bg-16-1133-2019, 2019
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In stony deserts, when rocks are exposed to atmospheric conditions, they undergo weathering. The cavernous (honeycomb) weathering pattern is one of the most common, but it is still unclear exactly how it is formed. We show that microorganisms, which differ from the surrounding soil and dust, form biological crusts on exposed rock surfaces. These microbes secrete polymeric substances that mitigate weathering by reducing evaporation rates and, consequently, salt transport rates through the rock.
Yang Li, Zhaojun Wu, Xingchen Dong, Zifu Xu, Qixin Zhang, Haiyan Su, Zhongjun Jia, and Qingye Sun
Biogeosciences, 16, 573–583, https://doi.org/10.5194/bg-16-573-2019, https://doi.org/10.5194/bg-16-573-2019, 2019
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This paper contributes to the study of bacterial carbon sequestration in mine tailings. Previous studies focused on carbonate mineral precipitation, while the role of autotrophs in carbon sequestration has been neglected. Carbon sequestration in two mine tailings treated with FeS2 was analyzed using 13C isotope labeling, pyrosequencing, and DNA SIP to identify carbon fixers. This paper is the first to investigate carbon sequestration by autotrophic groups in mine tailings.
Dong-Hun Lee, Jung-Hyun Kim, Yung Mi Lee, Alina Stadnitskaia, Young Keun Jin, Helge Niemann, Young-Gyun Kim, and Kyung-Hoon Shin
Biogeosciences, 15, 7419–7433, https://doi.org/10.5194/bg-15-7419-2018, https://doi.org/10.5194/bg-15-7419-2018, 2018
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In this study, we provide first evidence of lipid biomarker patterns and phylogenetic identities of key microbes mediating anaerobic oxidation of methane (AOM) communities in active mud volcanoes (MVs) on the continental slope of the Canadian Beaufort Sea. Our lipid and 16S rRNA results indicate that archaea of the ANME-2c and ANME-3 clades are involved in AOM in the MVs investigated.
Joshua F. Dean, Jurgen R. van Hal, A. Johannes Dolman, Rien Aerts, and James T. Weedon
Biogeosciences, 15, 7141–7154, https://doi.org/10.5194/bg-15-7141-2018, https://doi.org/10.5194/bg-15-7141-2018, 2018
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Lakes, rivers, ponds and streams are significant contributors of the greenhouse gas carbon dioxide to the atmosphere. This is partly due to the decomposition of plant and soil organic matter transported through these aquatic systems by microbial communities. In determining how vulnerable this organic material is to decomposition during aquatic transport, we show that standardized treatments in experiments can affect the way microbial communities behave and potentially the experimental outcome.
Xi Wen, Viktoria Unger, Gerald Jurasinski, Franziska Koebsch, Fabian Horn, Gregor Rehder, Torsten Sachs, Dominik Zak, Gunnar Lischeid, Klaus-Holger Knorr, Michael E. Böttcher, Matthias Winkel, Paul L. E. Bodelier, and Susanne Liebner
Biogeosciences, 15, 6519–6536, https://doi.org/10.5194/bg-15-6519-2018, https://doi.org/10.5194/bg-15-6519-2018, 2018
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Rewetting drained peatlands may lead to prolonged emission of the greenhouse gas methane, but the underlying factors are not well described. In this study, we found two rewetted fens with known high methane fluxes had a high ratio of microbial methane producers to methane consumers and a low abundance of methane consumers compared to pristine wetlands. We therefore suggest abundances of methane-cycling microbes as potential indicators for prolonged high methane emissions in rewetted peatlands.
Kyle R. Frischkorn, Andreas Krupke, Cécile Guieu, Justine Louis, Mónica Rouco, Andrés E. Salazar Estrada, Benjamin A. S. Van Mooy, and Sonya T. Dyhrman
Biogeosciences, 15, 5761–5778, https://doi.org/10.5194/bg-15-5761-2018, https://doi.org/10.5194/bg-15-5761-2018, 2018
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Trichodesmium is a keystone genus of marine cyanobacteria that is estimated to supply nearly half of the ocean’s fixed nitrogen, fuelling primary productivity and the cycling of carbon and nitrogen in the ocean. In our study we characterize Trichodesmium ecology across the western tropical South Pacific using gene and genome sequencing and geochemistry. We detected genes for phosphorus reduction, providing a mechanism for the noted importance of this organism in the ocean's phosphorus cycle.
Audrey Lallement, Ludovic Besaury, Elise Tixier, Martine Sancelme, Pierre Amato, Virginie Vinatier, Isabelle Canet, Olga V. Polyakova, Viatcheslay B. Artaev, Albert T. Lebedev, Laurent Deguillaume, Gilles Mailhot, and Anne-Marie Delort
Biogeosciences, 15, 5733–5744, https://doi.org/10.5194/bg-15-5733-2018, https://doi.org/10.5194/bg-15-5733-2018, 2018
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The main objective of this work was to evaluate the potential degradation of phenol, a highly toxic pollutant, by cloud microorganisms. Phenol concentrations measured on five cloud samples collected at the PUY station in France were from 0.15 to 0.74 µg L−1. Metatranscriptomic analysis suggested that phenol could be biodegraded directly in clouds, likely by Gammaproteobacteria. A large screening showed that 93 % of 145 bacterial strains isolated from clouds were able to degrade phenol.
Sara J. Bender, Dawn M. Moran, Matthew R. McIlvin, Hong Zheng, John P. McCrow, Jonathan Badger, Giacomo R. DiTullio, Andrew E. Allen, and Mak A. Saito
Biogeosciences, 15, 4923–4942, https://doi.org/10.5194/bg-15-4923-2018, https://doi.org/10.5194/bg-15-4923-2018, 2018
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Phaeocystis antarctica is an important phytoplankter of the Antarctic coastal environment where it dominates the early season bloom after sea ice retreat. Iron nutrition was found to be an important factor that results in Phaeocystis colony formation and a large restructuring of the proteome, including changes associated with the flagellate to colonial transition and adaptive responses to iron scarcity. Analysis of Phaeocystis proteins from the Ross Sea revealed the presence of both cell types.
Sophie Bonnet, Mathieu Caffin, Hugo Berthelot, Olivier Grosso, Mar Benavides, Sandra Helias-Nunige, Cécile Guieu, Marcus Stenegren, and Rachel Ann Foster
Biogeosciences, 15, 4215–4232, https://doi.org/10.5194/bg-15-4215-2018, https://doi.org/10.5194/bg-15-4215-2018, 2018
Dina Spungin, Natalia Belkin, Rachel A. Foster, Marcus Stenegren, Andrea Caputo, Mireille Pujo-Pay, Nathalie Leblond, Cécile Dupouy, Sophie Bonnet, and Ilana Berman-Frank
Biogeosciences, 15, 3893–3908, https://doi.org/10.5194/bg-15-3893-2018, https://doi.org/10.5194/bg-15-3893-2018, 2018
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The way marine organisms die can determine the fate of organic matter (OM) in the ocean. We investigated whether a form of auto-induced programmed cell death (PCD) influenced phytoplankton mortality and fate of OM. Our results from high biomass blooms of the cyanobacterium Trichodesmium show evidence for PCD and high production of sticky carbon material termed transparent exopolymeric particles (TEP) that facilitates cellular aggregation and enhances the vertical flux of OM to depth.
Christian Nyrop Albers, Magnus Kramshøj, and Riikka Rinnan
Biogeosciences, 15, 3591–3601, https://doi.org/10.5194/bg-15-3591-2018, https://doi.org/10.5194/bg-15-3591-2018, 2018
Natasha A. Gafar and Kai G. Schulz
Biogeosciences, 15, 3541–3560, https://doi.org/10.5194/bg-15-3541-2018, https://doi.org/10.5194/bg-15-3541-2018, 2018
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Emiliania huxleyi and Gephyrocapsa oceanica are the most prolific calcifying phytoplankton in today's oceans. We compare their sensitivity to combined anthropogenic stressors of temperature, light and CO2. For the future, we project a niche contraction for G. oceanica. Furthermore, there was good correlation of our new metric, the CaCO3 production potential, with satellite-derived concentrations in the modern ocean, indicating means of assessing overall coccolithophorid success in the future.
Marcus Stenegren, Andrea Caputo, Carlo Berg, Sophie Bonnet, and Rachel A. Foster
Biogeosciences, 15, 1559–1578, https://doi.org/10.5194/bg-15-1559-2018, https://doi.org/10.5194/bg-15-1559-2018, 2018
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We successfully performed quantitative PCR at sea. The qPCR data were procured within 3 h and used in decisions on further sampling on site. We designed and applied a new primer and probe set for quantifying the UCYN-A1 host and observed discrepancies between host and symbiont, which contradict previous studies. Lastly, we observed a clear vertical separation between a subsurface group (UCYN-A with hosts) and a surface group (remaining diazotrophs), mainly separated by temperature.
Emma J. Shelford and Curtis A. Suttle
Biogeosciences, 15, 809–819, https://doi.org/10.5194/bg-15-809-2018, https://doi.org/10.5194/bg-15-809-2018, 2018
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This work demonstrates that lysis by viruses facilitates the transfer of nitrogen to phytoplankton in the ocean, and thus viruses are key players in nitrogen cycling in the oceans and in maintaining oxygen production by marine primary producers.
Yuanyuan Feng, Michael Y. Roleda, Evelyn Armstrong, Cliff S. Law, Philip W. Boyd, and Catriona L. Hurd
Biogeosciences, 15, 581–595, https://doi.org/10.5194/bg-15-581-2018, https://doi.org/10.5194/bg-15-581-2018, 2018
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We conducted a series of incubation experiments to understand how the changes in five environmental drivers will affect the elemental composition of the calcifying phytoplankton species Emiliania huxleyi. These findings provide new diagnostic information to aid our understanding of how the physiology and the related marine biogeochemistry of the ecologically important species Emiliania huxleyi will respond to changes in different environmental drivers in the global climate change scenario.
Aileen Meier, Anne Kastner, Dennis Harries, Maria Wierzbicka-Wieczorek, Juraj Majzlan, Georg Büchel, and Erika Kothe
Biogeosciences, 14, 4867–4878, https://doi.org/10.5194/bg-14-4867-2017, https://doi.org/10.5194/bg-14-4867-2017, 2017
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Biomineralization of (magnesium) calcite and vaterite by bacterial isolates was observed using isolates from limestone associated groundwater, rock and soil. More than 92 % of isolates could form carbonates with different crystal macromorphologies. Using different conditions like varying temperature, pH or media components but also cocultivation to test for collaborative effects of sympatric bacteria, mechanisms of calcium carbonate formation were studied.
Chuang Zhang, Xin-Yu Zhang, Hong-Tao Zou, Liang Kou, Yang Yang, Xue-Fa Wen, Sheng-Gong Li, Hui-Min Wang, and Xiao-Min Sun
Biogeosciences, 14, 4815–4827, https://doi.org/10.5194/bg-14-4815-2017, https://doi.org/10.5194/bg-14-4815-2017, 2017
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Ammonium additions had stronger inhibition effects on soil microbial biomass of different communities than nitrate addition. However, inhibition effects of nitrate additions on P hydrolase were stronger than ammonium additions, but not on C- and N-hydrolase and oxidase. Ammonium additions decreased N-acquisition specific enzyme activities normalized by total microbial biomass, but increased P-acquisition specific enzyme activities. Different effects on soil pH may explain the different effects.
Xiaoni Cai, David A. Hutchins, Feixue Fu, and Kunshan Gao
Biogeosciences, 14, 4455–4466, https://doi.org/10.5194/bg-14-4455-2017, https://doi.org/10.5194/bg-14-4455-2017, 2017
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Trichodesmium is significant marine N2 fixer. We conducted short- and long-term UV exposure experiment to investigate how UV affects this organism. Our results showed N2 fixation and carbon fixation rates were significantly reduced under UV radiation. As a defense strategy, Trichodesmium is able to synthesize UV-absorbing compounds to protect from UV damage. Our results suggest that shipboard experiments in UV-opaque containers may have substantially overestimated in situ N2 fixation rate.
Amy E. Goldman, Emily B. Graham, Alex R. Crump, David W. Kennedy, Elvira B. Romero, Carolyn G. Anderson, Karl L. Dana, Charles T. Resch, Jim K. Fredrickson, and James C. Stegen
Biogeosciences, 14, 4229–4241, https://doi.org/10.5194/bg-14-4229-2017, https://doi.org/10.5194/bg-14-4229-2017, 2017
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The history of river inundation influences shoreline sediment biogeochemical cycling and microbial dynamics. Sediment exhibited a binary respiration response to rewetting, in which respiration from less recently saturated sediment was suppressed relative to more recently saturated sediment, likely due to inhibition of fungal metabolic activity. River shorelines should likely be integrated as a distinct environment into hydrobiogeochemical models to predict watershed biogeochemical function.
Katharine J. Crawfurd, Santiago Alvarez-Fernandez, Kristina D. A. Mojica, Ulf Riebesell, and Corina P. D. Brussaard
Biogeosciences, 14, 3831–3849, https://doi.org/10.5194/bg-14-3831-2017, https://doi.org/10.5194/bg-14-3831-2017, 2017
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Carbon dioxide (CO2) is increasing in the atmosphere and oceans. To simulate future conditions we manipulated CO2 concentrations of natural Baltic seawater in 55 m3 bags in situ. We saw increased growth rates and abundances of the smallest-sized eukaryotic phytoplankton and reduced abundances of other phytoplankton with increased CO2. Viral and bacterial abundances were also affected. This would lead to more carbon recycling in the surface water and affect marine food webs and the carbon cycle.
Laurine D. W. Burdorf, Anton Tramper, Dorina Seitaj, Lorenz Meire, Silvia Hidalgo-Martinez, Eva-Maria Zetsche, Henricus T. S. Boschker, and Filip J. R. Meysman
Biogeosciences, 14, 683–701, https://doi.org/10.5194/bg-14-683-2017, https://doi.org/10.5194/bg-14-683-2017, 2017
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Recently, long filamentous bacteria have been reported to conduct electrons over centimetre distances in marine sediments. These so-called cable bacteria have an
electricity-based metabolism, effectively turning the seafloor into a natural battery. In this study we demonstrate a global occurrence of these cable bacteria in marine sediments, spanning a large range of climate zones (off Greenland, the USA, Australia, the Netherlands) and a large range of coastal habitats.
Yuyin Yang, Ningning Li, Wei Wang, Bingxin Li, Shuguang Xie, and Yong Liu
Biogeosciences, 14, 341–351, https://doi.org/10.5194/bg-14-341-2017, https://doi.org/10.5194/bg-14-341-2017, 2017
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The present study investigated the vertical profiles of sediment methanogenic potential and communities in two plateau freshwater lakes. Hydrogenotrophic methanogenesis was the major methane production pathway in the freshwater lakes. Lake trophic status was found to influence sediment methanogen community and activity. This work could provide some new insights into methane production in freshwater sediment ecosystem.
Joanna E. Sawicka and Volker Brüchert
Biogeosciences, 14, 325–339, https://doi.org/10.5194/bg-14-325-2017, https://doi.org/10.5194/bg-14-325-2017, 2017
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The biogeochemistry of methane was studied in high-latitude fjord-type estuarine sediment in the Baltic Sea from April 2012 to April 2013. A large variability in methane-producing and methane-oxidizing processes was observed over the year. Oxygen was the most important regulator for the methane flux. In addition to eutrophication effects, free gas movement is suggested as a factor controlling methane concentrations.
Thomas Hornick, Lennart T. Bach, Katharine J. Crawfurd, Kristian Spilling, Eric P. Achterberg, Jason N. Woodhouse, Kai G. Schulz, Corina P. D. Brussaard, Ulf Riebesell, and Hans-Peter Grossart
Biogeosciences, 14, 1–15, https://doi.org/10.5194/bg-14-1-2017, https://doi.org/10.5194/bg-14-1-2017, 2017
Sandra Mariam Heinzelmann, Nicole Jane Bale, Laura Villanueva, Danielle Sinke-Schoen, Catharina Johanna Maria Philippart, Jaap Smede Sinninghe Damsté, Stefan Schouten, and Marcel Teunis Jan van der Meer
Biogeosciences, 13, 5527–5539, https://doi.org/10.5194/bg-13-5527-2016, https://doi.org/10.5194/bg-13-5527-2016, 2016
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In order to understand microbial communities in the environment it is necessary to assess their metabolic potential. The hydrogen isotopic composition of fatty acids has been shown to be promising tool to study the general metabolism of microorganisms in pure culture. Here we showed that it is possible to study seasonal changes in the general metabolism of the whole community by studying the hydrogen isotopic composition of fatty acids.
Juntian Xu, Lennart T. Bach, Kai G. Schulz, Wenyan Zhao, Kunshan Gao, and Ulf Riebesell
Biogeosciences, 13, 4637–4643, https://doi.org/10.5194/bg-13-4637-2016, https://doi.org/10.5194/bg-13-4637-2016, 2016
Sophie Bonnet, Melika Baklouti, Audrey Gimenez, Hugo Berthelot, and Ilana Berman-Frank
Biogeosciences, 13, 4461–4479, https://doi.org/10.5194/bg-13-4461-2016, https://doi.org/10.5194/bg-13-4461-2016, 2016
Jessica Gier, Stefan Sommer, Carolin R. Löscher, Andrew W. Dale, Ruth A. Schmitz, and Tina Treude
Biogeosciences, 13, 4065–4080, https://doi.org/10.5194/bg-13-4065-2016, https://doi.org/10.5194/bg-13-4065-2016, 2016
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Benthic nitrogen fixation and sulfate reduction were investigated in the Peruvian oxygen minimum zone. The data suggest a coupling of both activities to a large extent, but that also sulfide and organic matter availability are controlling the benthic diazotrophy in this area. The molecular analysis confirms the presence of heterotrophic diazotrophs. This work improves our understanding of N cycling in OMZ sediments and the understanding of N sources in the marine environment.
Hugo Berthelot, Sophie Bonnet, Olivier Grosso, Véronique Cornet, and Aude Barani
Biogeosciences, 13, 4005–4021, https://doi.org/10.5194/bg-13-4005-2016, https://doi.org/10.5194/bg-13-4005-2016, 2016
Federico Baltar, Catherine Legrand, and Jarone Pinhassi
Biogeosciences, 13, 2815–2821, https://doi.org/10.5194/bg-13-2815-2016, https://doi.org/10.5194/bg-13-2815-2016, 2016
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This work deals with one of the central topics in biogeochemistry, the factors controlling the degradation of organic matter. We found the contribution of dissolved (cell-free) to the total extracellular enzymatic activities follows a strong seasonal pattern, with the largest proportions during cold periods. Our results suggest that temperature changes can have strong implications in the hydrolysis of organic matter, suggesting a link between global warming and the degradation of organic matter.
Cited articles
Beatty, J. T.: On the natural selection and evolution of the aerobic phototrophic bacteria, Photosynth. Res., 73, 109–114, 2002.
Bendschneider, K. and Robinson, R. J.: A new spectrophotometric determination of nitrite in seawater, J. Mar. Res., 11, 87–96, 1952.
Benner, R. and Strom, M.: A critical-evaluation of the analytical blank associated with DOC measurements by high-temperature catalytic-oxidation, Mar. Chem., 41, 153–160, 1993.
Berman, T., Walline, P. D., Schneller, A., Rothenberg, J., and Towsend, D. W.: Secchi disk depth record: a claim for the eastern Mediterranean, Limnol. Oceanogr., 30, 447–448, 1985.
Cho, J. C., Stapels, M. D., Morris, R. M., Vergin, K. L., Schwalbach, M. S., Givan, S. A., Barofsky, D. F., and Giovannoni, S. J.: Polyphyletic photosynthetic reaction centre genes in oligotrophic marine Gammaproteobacteria, Environ. Microbiol., 9, 1456–1463, 2007.
Cottrell, M. T. and Kirchman, D. L.: Photoheterotrophic microbes in the Arctic Ocean in summer and winter, Appl. Environ. Microbiol., 75, 4958–4966, 2009.
Cottrell, M. T., Mannino, A., and Kirchman, D. L.: Aerobic anoxygenic phototrophic bacteria in the Mid-Atlantic Bight and the North Pacific Gyre, Appl. Environ. Microbiol., 72, 557–564, 2006.
Cottrell, M. T., Ras, J., and Kirchman, D. L.: Bacteriochlorophyll and community structure of aerobic anoxygenic phototrophic bacteria in a particle-rich estuary, ISME J., 4, 945–954, 2010.
Crombet, Y., Leblanc, K., Quéguiner, B., Moutin, T., Rimmelin, P., Ras, J., Claustre, H., Leblond, N., Oriol, L., and Pujo-Pay, M.: Deep silicon maxima in the stratified oligotrophic Mediterranean Sea, Biogeosciences, 8, 459–475, https://doi.org/10.5194/bg-8-459-2011, 2011.
De Corte, D., Yokokawa, T., Varela, M. M., Agogue, H., and Herndl, G. J.: Spatial distribution of bacteria and Archaea and amoA gene copy numbers throughout the water column of the eastern Mediterranean Sea, ISME J., 3, 147–158, 2009.
Eiler, A.: Evidence for the ubiquity of mixotrophic bacteria in the upper ocean: Implications and consequences, Appl. Environ. Microbiol., 72, 7431–7437, 2006.
Gonzalez, J. M., Simo, R., Massana, R., Covert, J. S., Casamayor, E. O., Pedros-Alio, C., and Moran, M. A.: Bacterial community structure associated with a dimethylsulfoniopropionate producing North Atlantic algal bloom, Appl. Environ. Microbiol., 66, 4237–4246, 2000.
Holmes, M. R., Aminot, A., Kérouel, R., Hooker, B. A., and Peterson, B. J.: A simple and precise method for measuring ammonium in marine and freshwater ecosystems, Can. J. Fish. Aquat. Sci., 56, 1801–1808, 1999.
Ignatiades, L.: Scaling the trophic status of the Aegean Sea, eastern Mediterranean, J. Sea Res., 54, 51–57, 2005.
Jeanthon, C., Boeuf, D., Dahan, O., Le Gall, F., Garczarek, L., Bendif, E. M., and Lehours, A.-C.: Diversity of cultivated and metabolically active aerobic anoxygenic phototrophic bacteria along an oligotrophic gradient in the Mediterranean Sea, Biogeosciences Discuss., in preparation, 2011.
Jiao, N., Zhang, Y., Zeng, Y. H., Hong, N., Liu, R., Chen, F., and Wang, P.: Distinct distribution pattern of abundance and diversity of aerobic anoxygenic phototrophic bacteria in the global ocean, Environ. Microbiol., 9, 3091–3099, 2007.
Karl, D. M.: Microbiological oceanography – Hidden in a sea of microbes, Nature, 415, 590–591, 2002.
Karl, D. M. and Tien, G.: MAGIC: a sensitive and precise method for measuring dissolved phosphorus in aquatic environment, Limnol. Oceanogr., 37, 105–116, 1992.
Koblížek, M., Béjà, O., Bidigare, R. R., Christensen, S., Benitez-Nelson, B., Vetriani, C., Kolber, M. K., Falkowski, P. G., and Kolber, Z. S.: Isolation and characterization of Erythrobacter sp strains from the upper ocean, Arch. Microbiol., 180, 327–338, 2003.
Koblížek, M., Sto\'{n}-Egiert, J., Sagan, S., and Kolber, Z. S.: Diel changes in bacteriochlorophyll a concentration suggest rapid bacterioplankton cycling in the Baltic Sea, FEMS Microbiol. Ecol., 51, 353–361, 2005.
Koblížek, M., Falkowski, P. G., and Kolber, Z. S.: Diversity and distribution of photosynthetic bacteria in the Black Sea, Deep-Sea Res. Pt. II, 53, 1934–1944, 2006.
Koblížek, M., Mašín, M., Ras, J., Poulton, A. J., and Prášil, O.: Rapid growth rates of aerobic anoxygenic phototrophs in the ocean, Environ. Microbiol., 9, 2401–2406, 2007.
Kolber, Z. S., Van Dover, C. L., Niederman, R. A., and Falkowski, P. G.: Bacterial photosynthesis in surface waters of the open ocean, Nature, 407, 177–179, 2000.
Kolber, Z. S., Plumley, F. G., Lang, A. S., Beatty, J. T., Blankenship, R. E., VanDover, C. L., Vetriani, C., Koblížek, M., Rathgeber, C., and Falkowski, P. G.: Contribution of aerobic photoheterotrophic bacteria to the carbon cycle in the ocean, Science, 292, 2492–2495, 2001.
Lamy, D., De Carvalho-Maalouf, P., Cottrell, M. T., Lami, R., Catala, P., Oriol, L., Caparros, J., Ras, J., Kirchman, D. L., and Lebaron, P.: Seasonal dynamics of aerobic phototrophs in a Mediterranean coastal lagoon, Aquat. Microb. Ecol., 62, 153–163, 2011.
Lami, R., Cottrell, M. T., Ras, J., Ulloa, O., Obernosterer, I., Claustre, H., Kirchman, D. L., and Lebaron, P.: High abundances of aerobic anoxygenic photosynthetic bacteria in the South Pacific Ocean, Appl. Environ. Microbiol., 73, 4198–4205, 2007.
Lami, R., \`{E}uperová, Z., Ras, J., Lebaron, P., and Koblížek, M.: Distribution of free-living and particle-attached aerobic anoxygenic phototrophic bacteria in marine environments, Aquat. Microb. Ecol., 55, 31–38, 2009.
Lehours, A.-C., Cottrell, M. T., Dahan, O., Kirchman, D. L., and Jeanthon, C.: Summer distribution and diversity of aerobic anoxygenic phototrophic bacteria in the Mediterranean Sea in relation to environmental variables, FEMS Microbiol. Ecol., 74, 397–409, 2010.
López-Sandoval, D. C., Fernández, A., and Marañón, E.: Dissolved and particulate primary production along a longitudinal gradient in the Mediterranean Sea, Biogeosciences, 8, 815–825, https://doi.org/10.5194/bg-8-815-2011, 2011.
Marie, D., Simon, N., Guillou, L., Partensky, F., and Vaulot, D.: Flow cytometric analysis of marine picoplankton, in: Protocols in flow cytometry and cell sorting, edited by: Diamond, R. A. and De Maggio, S., Springer-Verlag, Berlin, Germany, 421–454, 2002.
Mašín, M., Nedoma, J., Pechar, L., and Koblížek, M.: Distribution of aerobic anoxygenic phototrophs in temperate freshwater systems, Environ. Microbiol., 10, 1988–1996, 2008.
Moran, M. A. and Miller, W. L.: Resourceful heterotrophs make the most of light in the coastal ocean, Nat. Rev. Microbiol., 5, 792–800, 2007.
Moutin, T. and Raimbault, P.: Primary production, carbon export and nutrients availability in western and eastern Mediterranean Sea in early summer 1996 (MINOS cruise), J. Marine Syst., 33–34, 273–288, 2002.
Moutin, T., Thingstad, T. F., Van Wambeke, F., Marie, D., Slawyk, G., Raimbault, P., and Claustre, H.: Does competition for nanomolar phosphate supply explain the predominance of the cyanobacterium Synechococcus?, Limnol. Oceanogr., 47, 1562–1567, 2002.
Moutin, T., Karl, D. M., Duhamel, S., Rimmelin, P., Raimbault, P., Van Mooy, B. A. S., and Claustre, H.: Phosphate availability and the ultimate control of new nitrogen input by nitrogen fixation in the tropical Pacific Ocean, Biogeosciences, 5, 95–109, https://doi.org/10.5194/bg-5-95-2008, 2008.
Moutin, T., Van Wambeke, F., and Prieur, L.: Introduction to the Biogeochemistry from the Oligotrophic to the Ultraoligotrophic Mediterranean (BOUM) experiment, Biogeosciences Discuss., in preparation, 2011.
Murphy, J. and Riley, J. P.: A modified single solution method for the determination of phosphate in natural waters, Anal. Chim. Acta, 27, 31–36, 1962.
Oz, A., Sabehi, G., Koblížek, M., Massana, R., and Béjà, O.: Roseobacter-like bacteria in Red and Mediterranean Sea aerobic anoxygenic photosynthetic populations, Appl. Environ. Microbiol., 71, 344–353, 2005.
Pinhassi, J., Gomez-Consarnau, L., Alonso-Saez, L., Sala, M. M., Vidal, M., Pedros-Alio, C., and Gasol, J. M.: Seasonal changes in bacterioplankton nutrient limitation and their effects on bacterial community composition in the NW Mediterranean Sea, Aquat. Microb. Ecol., 44, 241–252, 2006.
Pregl, F.: Quantitative Organic Microanalysis, Churchill, London, 69 pp., 1937.
Pujo-Pay, M. and Raimbault, P.: Improvement of the wet-oxydation procedure for simultaneous determination of particulate organic nitrogen and phosphorus collected on filters, Mar. Ecol.-Prog. Ser., 105, 203–207, 1994.
Pujo-Pay, M., Conan, P., and Raimbault, P.: Excretion of dissolved organic nitrogen by phytoplankton assessed by wet oxidation and N-15 tracer procedures, Mar. Ecol.-Prog. Ser., 153, 99–111, 1997.
Pujo-Pay, M., Conan, P., Oriol, L., Cornet-Barthaux, V., Falco, C., Ghiglione, J.-F., Goyet, C., Moutin, T., and Prieur, L.: Integrated survey of elemental stoichiometry (C, N, P) from the western to eastern Mediterranean Sea, Biogeosciences, 8, 883–899, https://doi.org/10.5194/bg-8-883-2011, 2011.
Ramette, A.: Multivariate analyses in microbial ecology, FEMS Microbiol. Ecol., 62, 142–160, 2007.
Ras, J., Claustre, H., and Uitz, J.: Spatial variability of phytoplankton pigment distributions in the Subtropical South Pacific Ocean: comparison between in situ and predicted data, Biogeosciences, 5, 353–369, https://doi.org/10.5194/bg-5-353-2008, 2008.
Rimmelin, P. and Moutin, T.: Re-examination of the MGIC method to determine low orthophosphate concentration in seawater, Anal. Chim. Acta, 548, 174–182, 2005.
Salka, I., Moulisová, V., Koblížek, M., Jost, G., Jürgens, K., and Labrenz, M.: Abundance, depth distribution, and composition of aerobic bacteriochlorophyll a-producing bacteria in four basins of the central Baltic Sea, Appl. Environ. Microbiol., 74, 4398–4404, 2008.
Schwalbach, M. S. and Fuhrman, J. A.: Wide-ranging abundances of aerobic anoxygenic phototrophic bacteria in the world ocean revealed by epifluorescence microscopy and quantitative PCR, Limnol. Oceanogr., 50, 620–628, 2005.
Sharp, J. H.: Improved analysis for particulate organic carbon and nitrogen from seawater, Limnol. Oceanogr., 19, 984–989, 1974.
Shiba, T.: Roseobacter litoralis gen. nov., sp. nov., and Roseobacter denitrificans sp. nov., aerobic pink-pigmented bacteria which contain bacteriochlorophyll-a, Syst. Appl. Microbiol., 14, 140–145, 1991.
Sieracki, M. E., Gilg, I. C., Thier, E. C., Poulton, N. J., and Goericke, R.: Distribution of planktonic aerobic anoxygenic photoheterotrophic bacteria in the northwest Atlantic, Limnol. Oceanogr., 51, 38–46, 2006.
Smith, D. C. and Azam, F.: A simple and economical method for measuring bacterial protein synthesis rates in seawater using 3H-leucine, Mar. Microb. Food Webs, 6, 107–114, 1992.
Suzuki, M. T. and Béjà, O.: An elusive marine photosynthetic bacterium is finally unveiled, P. Natl. Acad. Sci. USA, 104, 2561–2562, 2007.
Suzuki, M. T., Preston, C. M., Chavez, F. P., and DeLong, E. F.: Quantitative mapping of bacterioplankton populations in seawater: field tests across an upwelling plume in Monterey Bay, Aquat. Microb. Ecol., 24, 117–127, 2001.
Tanaka, T., Thingstad, T. F., Christaki, U., Colombet, J., Cornet-Barthaux, V., Courties, C., Grattepanche, J.-D., Lagaria, A., Nedoma, J., Oriol, L., Psarra, S., Pujo-Pay, M., and Van Wambeke, F.: Lack of P-limitation of phytoplankton and heterotrophic prokaryotes in surface waters of three anticyclonic eddies in the stratified Mediterranean Sea, Biogeosciences, 8, 525–538, https://doi.org/10.5194/bg-8-525-2011, 2011.
ter Braak, C. J. and Smilauer, P.: CANOCO reference manual and CanoDraw for Wimdows user's guide: software for canonical community ordination (version 4.5), Microcomputer Power, Ithaca, NY, 500 pp., 2002.
ter Braak, C. J. F.: CANOCO – an extension of DECORANA to analyze species-environment relationships, Hydrobiologia, 184, 169–170, 1989.
Thingstad, T. F., Zweifel, U. L., and Rassoulzadegan, F.: P limitation of heterotrophic bacteria and phytoplankton in the northwest Mediterranean, Limnol. Oceanogr., 43, 88–94, 1998.
Tréguer, P. and Le Corre, P.: Manuel d'analyse des sels nutritifs dans l'eau de mer, in: Utilisation de l'Autoanalyzer II Technicon, 2nd edn., edited by: Laboratoire d'Océanographie chimique, U. d. B. O., Brest, France, 110 pp., 1975.
Van Heukelem, L. and Thomas, C. S.: Computer-assisted high-performance liquid chromatography method development with applications to the isolation and analysis of phytoplankton pigments, J. Chromatogr., 910, 31–49, 2001.
Van Wambeke, F., Christaki, U., Giannokourou, A., Moutin, T., and Souvemerzoglou, K.: Longitudinal and vertical trends of bacterial limitation by phosphorus and carbon in the Mediterranean Sea, Microb. Ecol., 43, 119–133, https://doi.org/10.1007/s00248-001-0038-4, 2002.
Van Wambeke, F., Nedoma, J., Duhamel, S., and Lebaron, P.: Alkaline phosphatase activity of marine bacteria studied with ELF 97 substrate: success and limits in the P-limited Mediterranean Sea, Aquat. Microb. Ecol., 52, 245–251, 2008.
Van Wambeke, F., Catala, P., and Lebaron, P.: Relationships between cytometric characteristics of high and low nucleic-acid bacterioplankton cells, bacterial production and environmental parameters along a longitudinal gradient across the Mediterranean Sea, Biogeosciences Discuss., 7, 8245–8279, https://doi.org/10.5194/bgd-7-8245-2010, 2010.
Waidner, L. A. and Kirchman, D. L.: Aerobic anoxygenic phototrophic bacteria attached to particles in turbid waters of the Delaware and Chesapeake estuaries, Appl. Environ. Microbiol., 73, 3936–3944, 2007.
Winter, C., Kerros, M. E., and Weinbauer, M. G.: Seasonal changes of bacterial and archaeal communities in the dark ocean: evidence from the Mediterranean Sea, Limnol. Oceanogr., 54, 160–170, 2009.
Wood, E. D., Amstrong, F. A. J., and Richards, F. A.: Determination of nitrate in sea water by cadmium-copper reduction to nitrite, J. Mar. Biol. Assoc. UK, 47, 23–31, 1967.
Yurkov, V. V. and Beatty, J. T.: Aerobic anoxygenic phototrophic bacteria, Microbiol. Mol. Biol. Rev., 62, 695–724, 1998.
Yurkov, V. V. and Csotonyi, J. T.: New light on aerobic anoxygenic phototrophs, Adv. Photosynth. Respir., 28, 31–55, 2009.
Yutin, N. and Béjà, O.: Putative novel photosynthetic reaction centre organizations in marine aerobic anoxygenic photosynthetic bacteria: insights from metagenomics and environmental genomics, Environ. Microbiol., 7, 2027–2033, 2005.
Yutin, N., Suzuki, M. T., Teeling, H., Weber, M., Venter, J. C., Rusch, D. B., and Béjà, O.: Assessing diversity and biogeography of aerobic anoxygenic phototrophic bacteria in surface waters of the Atlantic and Pacific Oceans using the Global Ocean Sampling expedition metagenomes, Environ. Microbiol., 9, 1464–1475, 2007.
Yutin, N., Béjà, O., and Suzuki, M. T.: The use of denaturing gradient gel electrophoresis with fully degenerate pufM primers to monitor aerobic anoxygenic phototrophic assemblages, Limnol. Oceanogr.-Meth., 6, 427–440, 2008.
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