Publications 2009

Department of Biogeochemistry

Al-Raei, A.M., Bosselmann K., Böttcher M.E., Hespenheide B. and Tauber F.: Seasonal dynamics of microbial sulfate reduction in temperate intertidal surface sediments: controls by temperature and organic matter. Ocean Dynamics 59:351-370 (2009). Springer Full Text

Arning, E.T., Birgel D., Brunner B. and Peckmann J.: Bacterial formation of phosphatic laminites off Peru. Geobiology 7:295-307 (2009). PubMed

Bagwell, C.E., Formolo M., Ye Q., Yeager C.M., Lyons T.W. and Zhang C.L.: Direct analysis of sulfate reducing bacterial communities in gas hydrate-impacted marine sediments by PCR-DGGE. Journal of Basic Microbiology 49: S87–S92 (2009). PubMed

Brüchert, V., Goldhammer, T., Ferdelman, T., Zabel, M.: Sulfide-oxidizing bacteria mediate authigenic apatite formation in phosphorite-containing sediments of the Namibian upwelling system - Evidence from P-33-labeling experiments. Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A165 (2009). Full Text

Brunner, B., Goldhammer, T., Templer, S. P., Bernasconi, S. M.: Dissimilatory sulfate reduction: Why is the oxygen isotope equilibrium value where it is? Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A166 (2009). ResearchGate

Cohen, P. A., Bradley, A., Knoll, A. H., Grotzinger, J. P., Jensen, S., Abelson, J., Hand, K., Love, G., Metz, J., Mcoughlin, N., Meister, P., Shepard, R., Tice, M., Wilson, J. P.: Tubular Compression Fossils from the Ediacaran Nama Group, Namibia. Journal of Paleontology 83(1):110-122 (2009). BioOne

D′Hondt, S., Spivack A., Pockalny R., Ferdelman T.G., Fischer J.P., Kallmeyer J., Abrams L.J., Smith D.C., Graham D., Hasiuk F., Schrum H., Stancin A.M.: Subseafloor sedimentary life in the South Pacific Gyre. PNAS 106(28):11651-11656 (doi:10.1073/pnas.0811793106) (2009). PubMed Full Text

Dale, A. W., P. Regnier, P. van Cappellen, H. Fossing, J. B. Jensen and B. B. Jørgensen: Remote quantification of methane fluxes in gassy marine sediments through seismic survey. Geology 37(3):235-238 (2009). Geology

Emeis, K.-C., Struck, U., Leipe, T., Ferdelman, T. G.: Variability in upwelling intensity and nutrient regime in the coastal upwelling system offshore Namibia: results from sediment archives. Int. J. Earth Sci. (Geol. Rundsch.) 98:309–326 (2009). Springer Full Text

Fischer, J.P., Ferdelman T.G., D′Hondt S., Røy H., Wenzhöfer F.: Oxygen penetration deep into the sediment of the South Pacific gyre. Biogeosciences 6:1467-1478 (2009). EBSCO

Formolo, M. J., Petsch, S. T., Martini, A. M., Ferdelman, T. G.: Signatures of anaerobic hydrocarbon biodegradation in sulfidic and methanic environments. Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A390 (2009). Full Text

Goldhammer, T., Brunner, B., Ferdelman, T., Zabel, M.: Phosphate oxygen isotopes and microbial activity in the marine subsurface. Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A448 (2009). ResearchGate

Hepp, D.A., Mörz, T., Hensen, C., Frederichs, T., Kasten, S., Riedinger, N., Hay, W.W.: A late Miocene-early Pliocene Antarctic deepwater record of repeated iron reduction events. Marine Geology 266(1-4):198-211 (2009). ScienceDirect

Hetzel, A., Böttcher M.E., Wortmann U.G. and Brumsack H.-J.: Paleo-redox conditions during OAE 2 reflected in Demerara Rise sediment geochemistry (ODP Leg 207). Palaeogeography, Palaeoclimatology, Palaeoecology 273:302-328 (2009). ScienceDirect

Høgslund, S., N. P. Revsbech, J. G. Kuenen, B. B. Jørgensen, V. A. Gallardo, J. van de Vossenberg, J. L. Nielsen, L. Holmkvist, E. T. Arning and L. P. Nielsen: Physiology and behaviour of marine Thioploca. The ISME Journal 3:647-657 (2009). PubMed Full Text

Holler, T., G. Wegener, K. Knittel, A. Boetius, B. Brunner, M.M.M. Kuypers and F. Widdel: Substantial ¹³C/¹²C and D/H fractionation during anaerobic oxidation of methane by marine consortia enriched in vitro. Environmental Microbiology Reports 1(5):370-376 (2009). PubMed

Hubert, C., A. Loy, M. Nickel, C. Arnosti, C. Baranyi, V. Brüchert, T. Ferdelman, K. Finster, F. M. Christensen, J. Rosa de Rezende, V. Vandieken and B. B. Jørgensen: A constant flux of diverse thermophilic bacteria into the cold arctic seabed. Science:325: 1541-1544 (2009). PubMed

Kamyshny, Jr. A.: Improved Cyanolysis Protocol for Detection of Zero-valent Sulfur in Natural Aquatic Systems. Limnology and Oceanography: Methods 7:442-448 (2009). ASLO Full Text

Kamyshny, Jr. A.: Solubility of Cyclooctasulfur in Pure Water and Sea Water at Different Temperatures. Geochimica et Cosmochimica Acta 73:6022-6028 (2009). ScienceDirect

Kamyshny, Jr. A., Borkenstein C.G., Ferdelman T.G.: Protocol for quantitative detection of elemental sulfur and polysulfide zero-valent sulfur distribution in natural aquatic samples. Geostandards Geoanalytical Res. (Early Ed.) 33 (3):415-435 (2009). Wiley

Kamyshny, A., Yakushev, E., Jost, G.: Zero-valent sulfur-thiosulfate redox anomaly at the chemoclines of stratified basins. Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A619 (2009). ResearchGate

Lam, P., G. Lavik, M.M. Jensen, J. van de Vossenberg, M. Schmid, D. Woebken, D. Guitérrez, R. Amann, M.S.M. Jetten, and M.M.M. Kuypers: Revising the nitrogen cycle in the Peruvian oxygen minimum zone. PNAS 106(12):4752-4757 (2009). PubMed Full Text

Lavik, G., T. Stührmann, V. Brüchert, A. Van der Plas, V. Mohrholz, P. Lam, M. Mußmann, B.M. Fuchs, R. Amann, U. Lass, and M.M.M. Kuypers: Detoxification of sulphidic African shelf waters by blooming chemolithotrophs. Nature 457:581-585 (2009). PubMed

Leloup, J., H. Fossing, K. Kohls, L. Holmkvist, C. Borowski and B. B. Jørgensen: Sulfate-reducing bacteria in marine sediment (Aarhus Bay, Denmark): abundance and diversity related to geochemical zonation. Environmental Microbiology 11(5):1278-1291 (2009). PubMed

Lomstein, B. A., J. Niggemann, B. B. Jørgensen and A. T. Langerhuus: Accumulation of prokaryotic remains during organic matter diagenesis in surface sediments off Peru. Limnology and Oceanography 54(4):1139-1151 (2009). Readcube

Meister, P., Bernasconi, S.M., Aiello, I.W., Vasconcelos, C. and McKenzie, J.A.: Depth and controls of Ca-rhodochrosite precipitation in bioturbated sediments of the Eastern Equatorial Pacific, ODP Leg 201, Site 1226 and DSDP Leg 68, Site 503. Sedimentology 56:1552-1568 (2009). Wiley

Meister, P., Freund, S., Wehrmann, L. M., Brunner, B., Ferdelman, T. G.: Degree of pyritization and σ³⁴-values record suboxic conditions in Eastern Equatorial Pacific sediments (ODP Site 1226). Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73(13,Suppl. S): A868 (2009). Full Text

Oldenburg, T. B. P., Larter, S. R., Adams, J. J., Clements, M., Hubert, C., Rowan, A. K., Brown, A., Head, I. M., Grigoriyan, A. A., Voordouw, G., Fustic, M.: Methods for Recovery of Microorganisms and Intact Microbial Polar Lipids from Oil-Water Mixtures: Laboratory Experiments and Natural Well-Head Fluids. Analytical Chemistry 81(10):4130-4136 (2009). PubMed

Rabus, R., Wilkes, H., Widdel, F.: Proteogenomic insights into anaerobic biodegradation of hydrocarbons. Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A1065 (2009). Full Text

Rincon-Martinez, D., Contreras, S., Lamy, F., Tiedemann, R.: Are glacials (interglacial) in the easternmost Pacific Ocean drier (wetter) during the last 300 000 years? Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73(13,Suppl. S): A1102 (2009). Full Text

Robador, A., Brüchert, V., and Jørgensen, B.B.: The impact of temperature change on the activity and community composition of sulphate-reducing bacteria in arctic versus temperate marine sediments. Environmental Microbiology 11(7):1692-1703 (2009). PubMed

Røy, H., K. Vopel, M. Huettel and B. B. Jørgensen: Sulfide assimilation by ectosymbionts of the sessile ciliate, Zoothamnium niveum. Marine Biology 156:669-677 (2009). Springer Full Text

Sawicka, J.E., Robador, A., Hubert, C., Jørgensen, B.B., Brüchert V.: Effects of freeze-thaw cycles on anaerobic microbial processes in an Arctic intertidal mud flat. The ISME Journal 1-10, doi:10.1038/ismej.2009.140 (2009). PubMed Full Text

Teske, A., Jørgensen, B. B., Gallardo, V. A.: Filamentous bacteria inhabiting the sheaths of marine Thioploca spp. on the Chilean continental shelf. FEMS Microbiol Ecol 68:164–172 (2009). PubMed

Velbel, M.A., Donatelle, A.R., and Formolo, M.J.: Reactant-product textures, volume relations, and implications for major-element mobility during natural weathering of hornblende, Tallulah Falls Formation, Georgia Blue Ridge. U.S.A. American Journal of Science 309:661-688 (2009). AJS

Wassmann, P., B. B. Jørgensen, M. Reigstad and D. Slagstad: Sedimentation and degradation of biogenic matter. pp. 323-338. In: Ecosystem Barents Sea. E. Sakshaug, G. Johnsen and K. Kovacs (eds.), Tapir Academic Press, Trondheim (2009).

Webster, G., Blazejak A., Cragg B.A., Schippers A., Sass H., Rinna J., Tang X., Mathes F, Ferdelman T.G., Fry J.C., Weightman A.J., and Parkes R.J.: Subsurface microbiology and biogeochemistry of a deep, cold-water carbonate mound from the Porcupine Seabight (IODP Expedition 307). Env. Microbiol. 11(1):239-257 (2009). PubMed Full Text

Wehrmann, L.M., Knab, N.J., Pirlet, H., Unnithan, V., Wild, C. and Ferdelman, T.G.: Carbon mineralization and carbonate preservation in modern cold-water coral reef sediments on the Norwegian shelf. Biogeosciences 6:663-680 (2009). Biogeosciences Full Text

Wehrmann, L. M., Templer, S. P., Maignien, L., Bernasconi, S. M., Brunner, B., Ferdelman, T. G.: The imprint of methane seepage on geochemical processes in cold-water coral mounds on Pen Duick Escarpment, Gulf of Cadiz. Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A1424 (2009). ScienceDirect

Wild, C., Wehrmann, L.M., Mayr, C., Schöttner, S.I., Allers, E. and Lundälv T.: Microbial degradation of cold-water coral-derived organic matter: potential implication for organic C cycling in the water column above Tisler Reef. Aquatic Biology 7:71-80 (2009). Full Text

Ph.D. theses

Holmkvist, Lars: A cryptic sulfur cycle driven by iron below the sulfate-methane transition zone. Dissertation Universität Bremen, Bremen (2009), 271pp.

Holtappels, Moritz: Exchange of nutrients and oxygen between sediments and water column: the role of the benthic boundary layer. Universität Bremen, Bremen (2009), 164pp.

Robador, Alberto: Temperature control of bacterial carbon mineralization processes in marine sediments. Dissertation, MarMic, Universität Bremen, Bremen (2009), 119pp.

Ecophysiology Group

Diploma thesis

Hohmann, Tine: Einfluss von Licht auf das Migrationsverhalten eines marinen Beggiatoa Stammes. Diplomarbeit Universität Bremen, Bremen (2009), 89pp.

Microbial Genomics Group

Field, D., P. Sterk, N. Kyrpides, R. Kottmann, F. O. Glöckner, L. Hirschman, G.M. Garrity, J. Wooley, and P. Gilna: Meeting report from the Genomic Standards Consortium (GSC) workshops 6 and 7. SIGS 1(1):68-71 (doi:10.4056/sigs.25165) (2009). PubMed Full Text

Jogler, C., M. Kube, S. Schübbe, S. Ullrich, H. Teeling, D. A. Bazylinski, R. Reinhardt, and D. Schüler: Comparative analysis of magnetosome gene clusters in magnetotactic bacteria provides further evidence for horizontal gene transfer. Environ. Microbiol. 11(5):1267-1277 (2009). PubMed

Strittmatter, A. W., H. Liesegang, R. Rabus, I. Decker, J. Amann, S. Andres, A. Henne, W. F. Fricke, R. Martinez-Arias, D. Bartels, A. Goesmann, L. Krause, A. Pühler, H.-P. Klenk, M. Richter, M. Schüler, F. O. Glöckner, A. Meyerdierks, G. Gottschalk and R. Amann: Genome sequence of Desulfobacterium autotrophicum HRM2, a marine sulfate reducer oxidizing organic carbon completely to carbon dioxide. Environ. Microbiol. 11(5):1038-1055 (2009). PubMed Full Text

Wecker, P., C. Klockow, A. Ellrott, C. Quast, P. Langhammer, J. Harder, and F. O. Glöckner: Transcriptional response of the model planctomycete Rhodopirellula baltica SH1^T to changing environmental conditions. BMC Genomics 10:410 (doi:10.1186/1471-2164-10-410) (2009). PubMed Full Text

Wooley, J.C., D. Field, and F. O. Glöckner: Extending Standards for Genomics and Metagenomics Data: A Research Coordination Network for the Genomic Standards Consortium (RCN4GSC). SIGS 1(1):85-90 (doi:10.4056/sigs.26218) (2009). PubMed Full Text

M.Sc theses

Yilmaz, Pelin: Application of statistical methods for the analysis of geo-referenced sequence data in their environmental context. MarMic, Master thesis, Universität Bremen, Bremen (2009), 76pp.

Buttigieg, Pier Luigi: Investigating habitat-specific signatures of the marine bacterioplankton: insights from comparative genomics. MarMic, Master Thesis/ PhD Proposal, University of Bremen, Bremen (2009), 74pp.

Ph.D. theses

Kottmann, Renzo: Data integration for marine ecological genomics. PhD thesis, MarMic, Jacobs University Bremen, Bremen (2009), 156pp.

Wecker, Patricia: Ecological aspects of the marine planctomycete Rhodopirellula baltica SH1T : a whole genome array approach. Dissertation Jacobs University, Bremen (2009), 222pp.

Zhurina, Daria: Identification and partial characterization of transcriptional regulators involved in temperature-dependent expression of levansucrase in Pseudomonas syringae. PhD thesis, MarMic, Jacobs University, Bremen (2009), 94pp.

Microbial Habitat Group

Berg, P., R.N. Glud, A. Hume, H. Stahl, K. Oguri, V. Meyer and H. Kitazato: Eddy correlation measurements of oxygen uptake in deep ocean sediments. Limnology and Oceanography-Methods 7:576-584 (2009). ASLO Full Text

Böer, S.I., C. Arnosti, J.E.E. van Beusekom and A. Boetius: Temporal variations in microbial activities and carbon turnover in subtidal sandy sediments. Biogeosciences 6:1149-1165 (2009). Biogeosciences Full Text

Böer, S.I., S.I.C. Hedtkamp, J.E.E. van Beusekom, J.A. Fuhrman, A. Boetius and A. Ramette: Time- and sediment depth-related variations in bacterial diversity and community structure in subtidal sands. ISME Journal 3:780-791 (2009). PubMed Full Text

Boetius, A., C. Bienhold, S. Schöttner, J. Ufkes and A. Ramette: Fingerabdrücke mikrobieller Gemeinschaften im Meer. BIOspektrum 7:726-729 (2009). ResearchGate Full Text

Boetius, A. and S. Joye: Thriving in salt. Science 324:1523-1525 (2009).

Boetius, A. and F. Wenzhöfer: In situ technologies for studying deep-sea hotspot ecosystems. Oceanography 22:177 (2009). Oceanography Full Text

Cambon-Bonavita, M.A. T. Nadalig, E. Roussel, E. Delage, S. Duperron, J.C. Caprais, A. Boetius and M. Sibuet: Diversity and distribution of methane-oxidizing microbial communities associated with different faunal assemblages in a giant pockmark of the Gabon continental margin. Deep-Sea Research II 56:2248-2258 (2009). Archimer Full Text

D'Hondt, S., A.J. Spivack, R. Pockalny, T.G. Ferdelman, J.P. Fischer, J. Kallmeyer, L.J. Abrams, D.C. Smith, D. Graham, F. Hasiuk, H. Schrum and A.M. Stancin: Subseafloor sedimentary life in the South Pacific Gyre. PNAS 106:11651-11656 (2009). PubMed Full Text

Duperron, S., D. de Beer, M. Zbinden, A. Boetius, V. Schipani, N. Kahil and F. Gaill: Molecular characterization of bacteria associated with the trophosome and the tube of Lamellibrachia sp., a siboglinid annelid from cold seeps in the eastern Mediterranean. FEMS Microbiology Ecology 69:395-409 (2009). PubMed

Durbin, A. M., Biddle, J., Martino, A., House, C., Fischer, J., Spivack, A., Schrum, H., D'Hondt, S., Teske, A.: Microbial community stratification in TOC-depleted marine subsurface sediments of the Pacific Ocean. Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A316 (2009). ResearchGate

Fischer, J.P., Ferdelman T.G., D′Hondt S., Røy H., Wenzhöfer F.: Oxygen penetration deep into the sediment of the South Pacific gyre. Biogeosciences 6:1467-1478 (2009). Biogeosciences Full Text

Foucher, J.P., G.K. Westbrook, A. Boetius, S. Ceramicola, S. Dupré, J. Mascle, J. Mienert, O. Pfannkuche, C. Pierre and D. Praeg: Structure and drivers of cold seep ecosystems. Oceanography 22(1):92-109 (2009). Archimer Full Text

Glud, R.N., B. Thamdrup, H. Stahl, F. Wenzhöfer, A. Glud, H. Nomaki, K. Oguri, N.P. Revsbech and H. Kitazato: Nitrogen cycling in a deep ocean margin sediment (Sagami Bay, Japan). Limnology and Oceanography 54(3):723-734 (2009). ResearchGate Full Text

Glud, R.N., H. Stahl, P. Berg, F. Wenzhöfer, K. Oguri and H. Kitazato: In situ microscale variation in distribution and consumption of O₂: A case study from a deep ocean margin sediment (Sagami Bay, Japan). Limnology and Oceanography 54:1-12 (2009). ASLO Full Text

Haeckel, M., Bigalke, N., Boetius, A., De Beer, D., Rehder, G., Savy, J. P.:Sequestering CO₂ in marine sediments - Geochemical insights from a natural case study. Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A484 (2009). ResearchGate

Hoffmann, F., R. Radax, D. Woebken, M. Holtappels, G. Lavik, H.T. Rapp, M.-L. Schläppy, C. Schleper and M.M.M. Kuypers: Complex nitrogen cycling in the sponge Geodia barretti. Environmental Microbiology 11(9):2228-2243 (2009). PubMed

Holler, T., G. Wegener, K. Knittel, A. Boetius, B. Brunner, M.M.M. Kuypers and F. Widdel: Substantial ¹³C/¹²C and D/H fractionation during anaerobic oxidation of methane by marine consortia enriched in vitro. Environmental Microbiology Reports 1(5):370-376 (2009). PubMed

Huguen, C., J.P. Foucher, J. Mascle, H. Ondréas, M. Thouement, S. Gontharet, A. Stadnitskaia, C. Pierre, G. Bayon, L. Loncke, A. Boetius, I. Bouloubassi, G. de Lange, J.C. Caprais, Y. Fouquet, J. Woodside, S. Dupré and the NAUTINIL Scientific Party: Menes caldera, a highly active site of brine seepage in the Eastern Mediterranean sea: "In situ" observations from the NAUTINIL expedition (2003). Marine Geology 261:138-152 (2009). Archimer Full Text

Jansen, S., E. Walpersdorf, U. Werner, M. Billerbeck, M.E. Böttcher and D. de Beer: Functioning of intertidal flats inferred from temporal and spatial dynamics of O₂, H₂S and pH in their surface sediment. Ocean Dynamics 59:317-332 (2009). Springer Full Text

Kanzog, C. and A. Ramette: Microbial colonisation of artificial and deep-sea sediments in the Arctic Ocean. Marine Ecology 30:391-404 (2009). Wiley

Kanzog, C., Ramette, A., Quéric, N. V., Klages, M.: Response of benthic microbial communities to chitin enrichment: an in situ study in the deep Arctic Ocean. Polar Biol 32:105–112 (2009). Springer Full Text

Knittel, K. and A. Boetius: Anaerobic oxidation of methane: progress with an unknown process. Annual Review of Microbiology 63:311-334 (2009). PubMed

López-López, A., P. Yarza, M. Richter, A. Suárez-Suárez, H. Niemann, J. Antón and R. Rosselló-Móra: Extremely halophilic microbial communities in anaerobic sediments from a solar saltern. Environmental Microbiology Reports (doi 10.1111/j.1758-2229.00108.x) (2009). PubMed

Niemann, H., D. Fischer, D. Graffe, K. Knittel, A. Montiel, O. Heilmayer, K. Nöthen, T. Pape, S. Kasten, G. Bohrmann, A. Boetius and J. Gutt: Biogeochemistry of a low-activity cold seep in the Larsen B area, western Weddell Sea, Antarctica. Biogeosciences 6:2383-2395 (2009). PubMed Full Text

Omoregie, E.O., H. Niemann, V. Mastalerz, G.J. de Lange, A. Stadnitskaia, J. Mascle, J.-P. Foucher and A. Boetius: Microbial methane oxidation and sulfate reduction at cold seeps of the deep Eastern Mediterranean Sea. Marine Geology 261:114-127 (2009). ScienceDirect

Ramette, A.: Quantitative community fingerprinting methods for estimating the abundance of operational taxonomic units in natural microbial communities. Applied and Environmental Microbiology 75:2495-2505 (2009). PubMed Full Text

Ramette, A., J.M. Tiedje and A. Boetius: Impact of space, time and complex environments on microbial communities. Clinical Microbiology and Infection 15 (Suppl. 1):60-62 (2009). PubMed Full Text

Ramette, A. and A. Boetius: How to use a crystal ball in environmental microbiology: developing new ways to explore complex datasets. Environmental Microbiology Reports 1(1):3-26 (2009). Full Text

Rehder, G., Nakamura, K., Deimling, J. S. V., Boetius, A., De Beer, D., Inagaki, F., Haeckel, M., Thomas, S.: Natural occurrences of liquid CO₂ emissions in the Okinawa Trough: Geological setting and variations of gas composition. Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A1082 (2009). Full Text

Røy, H., K. Vopel, M. Huettel and B. B. Jørgensen: Sulfide assimilation by ectosymbionts of the sessile ciliate, Zoothamnium niveum. Marine Biology 156:669-677 (2009). Springer Full Text

Schöttner, S., F. Hoffmann, C. Wild, H.T. Rapp, A. Boetius and A. Ramette: Inter- and intra- habitat bacterial diversity associated with cold-water corals. The ISME Journal 3:756-759 (2009). PubMed Full Text

Schubotz, F., Ventura, G. T., Nelson, R. K., Wegener, G., Knittel, K., Wilhelm, T., Zabel, M., Kasten, S., Boetius, A., Reddy, C. M., Hinrichs, K. U.: Structure and function of a cold seep nurtured by seepage of heavy oil. Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A1186 (2009). ResearchGate

Treude, T., C.R. Smith, F. Wenzhöfer, E. Carney, A.F. Bernardino, A.K. Hannides, M. Krüger and A. Boetius: Biogeochemistry of a deep-sea whale fall: sulfate reduction, sulfide efflux and methanogenesis. Marine Ecology Progress Series 382:1-21 (2009). MEPS Full Text

Treude, T., Smith, C. R., Wenzhöfer, F., Carney, E., Bernardino, A. F., Hannides, A. K., Krüger, M., Boetius, A.: From whale to chemosynthesis: Energy and carbon fluxes at a deep-sea whale fall. Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A1346 (2009). ResearchGate Full Text

Ufkes, J., Ramette, A., Haeckel, M., de Beer, D., Inagaki, F., Boetius, A.: Impact of high CO₂concentrations on the structure of microbial communities in marine sediments. Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A1359 (2009). ResearchGate

Vanreusel, A., A.C. Andersen, A. Boetius, D. Connelly, M.R. Cunha, C. Decker, A. Hilario, K.A. Kormas, L. Maignien, K. Olu, M. Pachiadaki, B. Ritt, C. Rodrigues, J. Sarrazin, P. Tyler, S. van Gaever and H. Vanneste: Biodiversity of cold seep ecosystems along the European margins. Oceanography 22(1):110-127 (2009). Archimer Full Text

Weaver, P.P.E., A. Boetius, R. Danovaro, A. Freiwald, V. Gunn, S. Heussner, T. Morato, I. Schewe and S. van den Hove: The future of integrated deep-sea research in Europe The HERMIONE Project. Oceanography 22(1):178-191 (2009). Oceanography Full Text

Wegener, G. and A. Boetius: An experimental study on short-term changes in the anaerobic oxidation of methane in response to varying methane and sulfate fluxes. Biogeosciences 6:867–876 (2009). Biogeosciences Full Text

Wegener, G., Holler, T., Kellermann, M., Musat, N., Kuypers, M. M. M., Boetius, A.: New insights into AOM by stable isotope probing combined with HISH-nanoSIMS and membrane-derived lipid analysis. Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A1424 (2009). ResearchGate

Wild, C., L.M. Wehrmann, C. Mayr, S.I. Schöttner, E. Allers and T. Lundälv: Microbial degradation of cold water coral-derived organic matter: potential implication for organic C cycling in the water column above Tisler Reef. Aquatic Biology 7:71-80 (2009). Full Text

Zhao, S., A. Ramette, G.L. Niu, H. Liu and N.Y. Zhou: Effects of nitrobenzene contamination and of bioaugmentation on nitrification and ammonia-oxidizing bacteria in soil. FEMS Microbiology Ecology 70: 315–323 (2009). PubMed

M.Sc theses

Jacob, M.: Development and validation of community fingerprinting tools to analyze microbial diversity in marine sediments. MarMic, Master thesis, University of Bremen, Bremen (2009), 60pp.

Pop Ristova, P.: Biogeochemical activity and associated biodiversity at reduced deep sea hot spot ecosystems. Master thesis, MarMic, University of Bremen, Bremen (2009), 63pp.

Ph.D. theses

Felden, J.: Methane fluxes and associated biogeochemical processes in cold seep ecosystems. PhD thesis, MarMic, Jacobs University Bremen, Bremen (2009).

Fischer, J.: Oxygen dynamics of marine sediments on different spatial scales. Dissertation Universität Bremen, Bremen (2009),155pp.

Hvitfeldt Iversen, Morten: Carbon turnover in sinking particles in the marine environment. PhD thesis, MarMic, Universität Bremen, Bremen (2009), 168pp.

Mathematical Modeling Group

Javadi, K. and A. Khalili: On generating uniform bottom shear stress. Part II: shear stress inducing devices. Recent Patents on Chemical Engineering 2(3):223-229 (2009). BenthamScience Full Text

Koza, Z., M. Matyka and A. Khalili: Finite-size anisotropy in statistically uniform porous media. Physical Review E79:066306-1 (doi: 10.1103/PhysRevE.79.066306)(2009). PubMed Full Text

Liu, B. and A. Khalili: Lattice Boltzmann model for exterior flows with an annealing preconditioning method. Physical Review E. 79:066701 (doi: 10.1103/PhysRevE.79.066701) (2009). PubMed

Stöhr, M., J. Schanze and A. Khalili: Visualization of gas-liquid mass transfer and wake structure of rising bubbles using pH-sensitive PLIF. Experiments in Fluids 47:135-143 (2009). Springer Full Text

Morad, M. R. and A. Khalili: Transition layer thickness in a fluid-porous medium of multi-sized spherical beads. Experiments in Fluids 46(2):323-330 (2009). Springer Full Text

Department of Microbiology

Carvallo, C., Hickey, S., Faivre, D., Menguy, N.: Formation of magnetite in Magnetospirillum gryphiswaldense studied with FORC diagrams. Earth Planets and Space 61(1):143-150 (2009). Full Text

Fraas, S., A.K. Steinbach, A. Tabbert, J. Harder, U. Ermler, K. Tittmann, A. Meyer and P.M.H. Kroneck: Cyclohexane-1,2-dione hydrolase: A new tool to degrade alicyclic compounds. J. Mol. Cat. B: Enzymatic 61:47-49 (2009). KOPS Full Text

Heip, C., H. Hummel, P. van Avesaath, W. Appeltans, C. Arvanitidis, R. Aspden, M. Austen, F. Boero, T.J. Bouma, C. Boxshall, F. Buchholz, T. Crowe, A. Delaney, T. Deprez, C. Embow, J.P. Feral, J.M. Gasol, A. Gooday, J. Harder, A. Ianora, A. Kraberg, B. Mackenzie, H. Ojaveer, D. Paterson, H. Rumohr, D. Schiedek, A. Sokolowski, P. Somerfield, I. Sousa Pinto, M. Vincx, J.M. Weslawski, R. Nash: Marine biodiversity and ecosystem functioning. Róisín Nash (ed.), Printbase, Dublin, Ireland. Marine Biodiversity and Ecosystem Functioning EU Network of Excellence, Sustainable development, global change and ecosystems, GOCE-CT-2003-505446, ISSN 2009-2539 (2009), 100pp. Full Text

Holler, T., G. Wegener, K. Knittel, A. Boetius, B. Brunner, M.M.M. Kuypers and F. Widdel: Substantial ¹³C/¹²C and D/H fractionation during anaerobic oxidation of methane by marine consortia enriched in vitro. Environmental Microbiology Reports 1(5):370-376 (2009). PubMed

Lin, Y. S., Biddle, J. F., Lipp, J. S., Holler, T., Teske, A., Hinrichs, K. U.: Stable carbon isotope probing of intact polar lipids from benthic archaea in marine subsurface sediment. Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A767 (2009). ResearchGate

Lopez, O., Zuddas, P., Faivre, D.: The influence of temperature and seawater composition on calcite crystal growth mechanisms and kinetics: Implications for Mg incorporation in calcite lattice. Geochimica et Cosmochimica Acta 73(2):337-347 (2009). ScienceDirect

Musat, F., Galushko, A., Jacob, J., Widdel, F., Kube, M., Reinhardt, R., Wilkes, H., Schink, B., Rabus, R.: Anaerobic degradation of naphthalene and 2-methylnaphthalene by strains of marine sulfate-reducing bacteria. Environmental Microbiology 11(1):209–219 (2009). PubMed

Strittmatter, A. W., H. Liesegang, R. Rabus, I. Decker, J. Amann, S. Andres, A. Henne, W. F. Fricke, R.Martinez-Arias, D. Bartels, A. Goesmann, L. Krause, A. Pühler, H.-P. Klenk, M. Richter, M. Schüler, F. O. Glöckner, A. Meyerdierks, G. Gottschalk and R. Amann: Genome sequence of Desulfobacterium autotrophicum HRM2, a marine sulfate reducer oxidizing organic carbon completely to carbon dioxide. Environ. Microbiol. 11(5):1038-1055 (2009). PubMed Full Text

Tamang, D.G., R. Rabus, R.D. Barabote and M.H. Saier, Jr.: Comprehensive analyses of transport proteins encoded within the genome of "Aromatoleum aromaticum" strain EbN1. J. Membr. Biol. 229(2):53-90 (2009). PubMed

Wecker, P., C. Klockow, A. Ellrott, C. Quast, P. Langhammer, J. Harder and F. O. Glöckner: Transcriptional response of the model planctomycete Rhodopirellula baltica SH1^T to changing environmental conditions. BMC Genomics 10:410 (doi:10.1186/1471-2164-10-410) (2009). PubMed Full Text

Wietz, M., Hall, M. R., Høj, L.: Effects of seawater ozonation on biofilm development in aquaculture tanks. Systematic and Applied Microbiology 32:266–277 (2009). PubMed

Winkelmann, N. and J. Harder: An improved isolation method for attached-living Planctomycetes of the genus Rhodopirellula. J. Microb. Meth. 77:276-284 (2009). PubMed

Wöhlbrand, L. and Rabus R.: Development of a Genetic System for the Denitrifying Bacterium â€˜ Aromatoleum aromaticum ′ Strain EbN1. J. Mol. Microbiol. Biotechnol. 17:41–52 (2009). PubMed

Yan, S., B.M. Fuchs, S. Lenk, J. Harder, J. Wulf, N.-Z. Jiao and R. Amann: Biogeography and phylogeny of the NOR5/OM60 clade of Gammaproteobacteria. Syst. Appl. Microbiol. 32:124-139 (2009). PubMed

Zech, H., S. Thole, K. Schreiber, D. Kalhöfer, S. Voget, T. Brinkhoff, M. Simon, D. Schomburg and R. Rabus: Growth phase-dependent global protein and metabolite profiles of Phaeobacter gallaeciensis strain DSM 17395, a member of the marine Roseobacter-clade. Proteomics 9:3677-3697 (2009). PubMed

B.Sc theses

Dörries, Marvin: Wachstum des denitrifizierenden Bakteriums Aromatoleum aromaticum Stamm EbN1 im Chemostat: HPLC und membranproteomische Untersuchungen. Bachelor thesis, Universität Oldenburg (2009), 68pp.

Winterling, Saskia: Ganz-Zell-Hybridisierungs- und durchflusszytometrische Untersuchungen von Chemostatenproben des Denitrifizierers "Aromatoleum aromaticum" Stamm EbN1. Bachelor thesis, Universität Oldenburg (2009), 47pp.

M.Sc. theses

Hahnke, Richard: Investigation of the structure and function of microbial populations in the South Pacific sediment. Master Thesis, University of Applied Sciences Gelsenkirchen Recklinghausen (2009), 50pp.

Lahme, Sven: Anaerobe Kultivierung des denitrifizierenden Bakteriums Aromatoleum aromaticum Stamm EbN1 im Chemostaten: Acetat-limitiertes Wachstum und Induktion der Benzoat-Verwertung . Diplomarbeit, Universität Bremen Bremen, Bremen (2009), 109pp.

Ph.D. theses

Basen, Mirko: Biochemie und Physiologie der Sulfatreduktion in der anaeroben Oxidation von Methan. Universität Bremen, Bremen (2009), 166pp.

Brodkorb, Danny: Die Linalool-Dehydratase-Isomerase aus dem nitratreduzierenden Betaproteobakterium Castellaniella defragrans 65Phen. University of Bremen, Bremen (2009), 113pp.

Meyer, Birte: Die dissimilatorische APS-Reduktase – Vorkommen, Phylogenie, Struktur und Anwendung in der funktionellen Genanalyse. Dissertation Universität Bremen, Bremen (2009), 346pp.

Rotaru, Amelia: Anaerobic degradation of limonene and p-xylene in freshwater enrichment cultures. PhD thesis, MarMic, University of Bremen, Bremen (2009), 155pp.

Werner, Insa: Untersuchungen zum Stoffwechsel des anaeroben Alkanabbaus. Dissertation Universität Bremen, Bremen (2009), 133pp.

Winkelmann, Nadine: Isolierung und genetische Charakterisierung von Stämmen des Planctomycetengenus Rhodopirellula und die Biogeographie in europäischen Gewässern. University of Bremen, Bremen (2009), 161pp.

Microsensor Group

Beck, A.J., Janssen F., Polerecky .L, Herlory O. and de Beer D.: Phototrophic biofilm activity and dynamics of diurnal Cd cycling in a freshwater stream. Env. Sci. Technol. 43:7245-7251 (2009). PubMed

Beutler, M., Hinck S. and de Beer D.: A method for imaging of low pH in live cells based on excited state saturation. J. Microb. Meth. 77:98-101 (2009). PubMed

Boetius, A., de Beer, D., Haeckel, M., Mertens, C., Inagaki, F., Nakamura, K., Rehder, G.: CO₂ leakage in the deep ocean and its effect on benthic fauna. Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A132 (2009). ResearchGate

Brown, M.V., G.K. Philip, J.A. Bunge, M.C. Smith, A. Bissett, F.M. Lauro, J.A. Fuhrman and S.P. Donachie: Microbial community structure in the North Pacific ocean. The ISME Journal 3:1374-1386 (2009). PubMed Full Text

de Beer, D., Haeckel, M., Boetius, A.: In situ measurements of porewater chemistry in extremely CO₂ rich sediments from a hydrothermal vent. Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A270 (2009). Full Text

Jansen, S., Walpersdorf E., Werner U., Billerbeck M., Böttcher M., and de Beer D.: Functioning of intertidal flats inferred from temporal and spatial dynamics of O₂, H₂S and pH in their surface sediments. Ocean Dynamics 59:317-332 (2009). Springer Full Text

Leblanc, K., Hare, C. E., Feng, Y., Berg, G. M., DiTullio, G. R., Neeley, A., Benner, I., Sprengel, C., Beck, A., Sanudo-Wilhelmy, S. A., Passow, U., Klinck, K., Rowe, J. M., Wilhelm, S. W., Brown, C. W., Hutchins, D. A.: Distribution of calcifying and silicifying phytoplankton in relation to environmental and biogeochemical parameters during the late stages of the 2005 North East Atlantic Spring Bloom. Biogeosciences 6:2155–2179 (2009). Trace Full Text

Nielsen, M., Gieseke A., de Beer D., and Revsbech N.P.: Nitrate, nitrite, and nitrous oxide transformations in sediments along a salinity gradient in the Weser Estuary. Aq. Microb. Ecol. 55:39-52 (2009). AME

Polerecky, L., Bissett A., Al-Najjar M., Faerber P., Osmers H., Suci P.A., Stoodley P. and de Beer D.: Modular spectral imaging system for discrimination of pigments in cells and microbial communities. Appl. Environm. Microbiol. 75(3):758-771 (2009). PubMed Full Text

Polerecky, L., J.M. Klatt, M. Al-Najjar, and D. de Beer: Hyper-spectral imaging of biofilm growth dynamics. First Workshop on Hyperspectral Image and Signal Processing: Evolution in Remote Sensing, Whispers (doi:10.1109/WHISPERS.2009.5288974):1-4 (2009). IeeExplore

Robinson, N. J., Thatje, S., Osseforth, C.: Heartbeat sensors under pressure: a new method for assessing hyperbaric physiology. High Pressure Research 29(3):422-430 (2009). TFO

Schreiber, F., Loeffler B., Polerecky L., Kuypers M.M.M., and de Beer D.: Mechanisms of transient nitric oxide and nitrous oxide production in a complex biofilm. ISME J 3:1301-1313 (2009). PubMed Full Text

Stoodley, P., de Beer D., Longwell M., Nistico L., Hall-Stoodley L., Wenig B., and Krespi Y.P.: Tonsillolith: Not just a stone but a living biofilm. Otolaryngology - Head and Neck Surgery 141:316-321 (2009). PubMed

Yanagawa, K., Sunamura, M., Morono, Y., Futagami, T., de Beer, D., Urabe, T., Boetius, A., Inagaki, F.: Distribution of metabolically active microbial communities in CO₂-rich marine sediments. Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A1472 (2009). ResearchGate

M.Sc theses

Carstensen, Rebecca: Photophysiological responses of the calcifying, green macroalga Halimeda opuntia to shifting pH regimes. Master thesis, MarMic, University of Bremen, Bremen (2009), 37pp.

Hohmann, Tine: Einfluss von Licht auf das Migrationsverhalten eines marinen Beggiatoa Stammes. Diplomarbeit Universität Bremen, Bremen (2009), 89pp.

Klatt, J. M.: Role of Light in Oxygen and Carbon Cycling by Anoxygenic Phototrophs in Microbial Mats. Master thesis, MarMic, University of Bremen, Bremen (2009), 91pp.

Ph.D. theses

Bachar, Ami: Phototrophic Chloroflexus-like bacteria and their role in hypersaline microbial mats. Dissertation University of Bremen, Bremen (2009), 120pp.

Lichtschlag, Anna: In situ quantification of biogeochemical processes at cold seeps. Dissertation Universität Bremen, Bremen (2009), 211pp.

Schreiber, Frank: Detecting and Understanding Nitric Oxide Formation during Nitrogen Cycling in Microbial Biofilms. PhD thesis, MarMic, Universität Bremen, Bremen (2009), 154pp.

Weber, Miriam: How sediment damages corals. Dissertation Universität Bremen, Bremen (2009), 186pp.

Department of Molecular Ecology

Buck, U., H.-P. Grossart, R. Amann and J. Pernthaler: Substrate incorporation patterns of bacterioplankton populations in stratified and mixed waters of a humic lake. Environ. Microbiol. 11(7):1854-1865 (2009). PubMed

Holler, T., G. Wegener, K. Knittel, A. Boetius, B. Brunner, M.M.M. Kuypers and F. Widdel: Substantial ¹³C/¹²C and D/H fractionation during anaerobic oxidation of methane by marine consortia enriched in vitro. Environmental Microbiology Reports 1(5):370-376 (2009). PubMed

Jogler, C., W. Lin, A. Meyerdierks, M. Kube, E. Katzmann, C. Flies, Y.X. Pan, R. Amann, R. Reinhardt and D. Schüler: Toward cloning of the magnetotactic metagenome: Identification of magnetosome island gene clusters in uncultivated magnetotactic bacteria from different aquatic sediments. Appl. Environ. Microbiol. 75(12):3972-3979 (2009). PubMed Full Text

Knittel, K. and A. Boetius: Anaerobic oxidation of methane: progress with an unknown process. Annual Review of Microbiology 63:311-334 (2009).

Lam, P., G. Lavik, M.M. Jensen, J. van de Vossenberg, M. Schmid, D. Woebken, D. Guitérrez, R. Amann, M.S.M. Jetten and M.M.M. Kuypers: Revising the nitrogen cycle in the Peruvian oxygen minimum zone. PNAS 106(12):4752-4757 (2009). PubMed

Lavik, G., T. Stührmann, V. Brüchert, A. Van der Plas, V. Mohrholz, P. Lam, M. Mußmann, B.M. Fuchs, R. Amann, U. Lass and M.M.M. Kuypers: Detoxification of sulphidic African shelf waters by blooming chemolithotrophs. Nature 457:581-585 (2009). PubMed

Liebner, S., Rublack, K., Stührmann, T., Wagner, D.: Diversity of Aerobic Methanotrophic Bacteria in a Permafrost Active Layer Soil of the Lena Delta, Siberia. Microb. Ecol. 57:25–35 (2009). PubMed Full Text

Schattenhofer, M., B. Fuchs, R. Amann, G. Tarran, M. Zubkov and J. Pernthaler: Latitudinal distribution of prokaryotic picoplankton populations in the Atlantic Ocean. Environ. Microbiol. 11(8):2078-2093 (2009). PubMed

Serrano, W., R. Amann and U. Fischer: A new moderately thermophilic and high sulfide tolerant biotype of Marichromatium gracile, isolated from tidal sediments of theGerman Wadden Sea: Marichromatium gracile biotype thermosulfidiphilum. Syst. Appl. Microbiol. 32:1-7 (2009). PubMed

Spring, S., H. Lünsdorf, B. M. Fuchs and B. J. Tindall: The photosynthetic apparatus and its regulation in the aerobic Gammaproteobacterium Congregibacter litoralis gen. nov., sp. nov. PLoS ONE 4(3):e4866 (doi:10.1371/journal.pone.0004866) (2009). PubMed Full Text

Strittmatter, A. W., H. Liesegang, R. Rabus, I. Decker, J. Amann, S. Andres, A. Henne, W. F. Fricke, R.Martinez-Arias, D. Bartels, A. Goesmann, L. Krause, A. Pühler, H.-P. Klenk, M. Richter, M. Schüler, F. O. Glöckner, A. Meyerdierks, G. Gottschalk and R. Amann: Genome sequence of Desulfobacterium autotrophicum HRM2, a marine sulfate reducer oxidizing organic carbon completely to carbon dioxide. Environ. Microbiol. 11(5):1038-1055 (2009). PubMed Full Text

Yan, S., B. M. Fuchs, S. Lenk, J. Harder, J. Wulf, N.-Z. Jiao and R. Amann: Biogeography and phylogeny of the NOR5/OM60 clade of Gammaproteobacteria. Syst. Appl. Microbiol. 32:124-139 (2009). PubMed

Diploma, B.Sc and M.Sc theses

Thiele, Stefan: Changes in the bacterial community during the iron fertilization experiment LOHAFEX. Master thesis, Universität Osnabrück, Osnabrück (2009), 75pp.

Winkel, Matthias: Nitrifizierende Mikroorganismen in hydrothermalen Systemen des Guaymas Beckens. Diplomarbeit Universität Bremen, Bremen (2009), 100pp.

Zerjatke, Katrice: Mikroautoradiographie und Genexpression von Bakterien im Oberflächensediment der Gezeitenzone des Wattenmeeres. Diplomarbeit Universität Bremen, Bremen (2009), 103pp.

Ph.D. theses

Arnds, Julia: Molecular characterization of microbial populations in methane-rich marine habitats. PhD thesis, MarMic, Universität Bremen, Bremen (2009).

Schattenhofer, Martha: Distribution of major bacterioplankton groups in the Atlantic Ocean. Universität Bremen, Bremen (2009), 184pp.

Stührmann, Torben: Der bakterielle Schwefelkreislauf im Benguela-Auftriebsgebiet. Dissertation, MarMic, Universität Bremen, Bremen (2009).

Serrano, Wilbert: A multi-gene approach in the systematics of the phototrophic purple sulfur bacteria genera Marichromatium and Allochromatium with description of the new species Allochromatium humboldtianum and the new biotype Marichromatium gracile biotype thermosulfidiphilum. PhD thesis, MarMic, Universität Bremen, Bremen (2009), 158pp.

Yan, Shi: Molecular Ecology of the NOR5/OM60 group of Gammaproteobacteria. PhD thesis, MarMic, Universität Bremen, Bremen (2009), 131pp.

Nutrient Group

Ettwig, K. F., Pol, A., Butler, M. K., Le Paslier, D., Kuypers, M. M. M., op den Camp, H. J. M., Jetten, M. S. M., Strous, M.: What is extreme? Methanotrophy at pH 1 or without oxygen? Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A342 (2009). Full Text

Galán, A., V. Molina, B. Thamdrup, D. Woebken, G. Lavik, M.M.M. Kuypers and O. Ulloa: Anammox bacteria and the anaerobic oxidation of ammonium in the oxygen minimum zone off northern Chile. Deep Sea Research Part II 56:1021-1031. ScienceDirect

Halm, H., N. Musat, P. Lam, R. Langlois, F. Musat, S. Peduzzi, G. Lavik, C.J. Schubert, B. Sinha, J. LaRoche and M.M.M. Kuypers: Co-occurrence of denitrification and nitrogen fixation in a meromictic lake, Lake Cadagno (Switzerland). Environmental Microbiology 11:1945-1958 (2009). PubMed

Hamersley, M.R., Woebken, D., Boehrer, B., Schultze, M., Lavik, G. and Kuypers, M.M.M.: Water column anammox and denitrification in a temperate permanently stratified lake (Lake Rassnitzer, Germany). Systematic and Applied Microbiology 32:571-582 (2009). PubMed

Hoffmann, F., R. Radax, D. Woebken, M. Holtappels, G. Lavik, H.T. Rapp, M.-L. Schläppy, C. Schleper, M.M.M. Kuypers: Complex nitrogen cycling in the sponge Geodia barretti. Environmental Microbiology 11(9):2228-2243 (2009). PubMed

Holler, T., G. Wegener, K. Knittel, A. Boetius, B. Brunner, M.M.M. Kuypers and F. Widdel: Substantial ¹³C/¹²C and D/H fractionation during anaerobic oxidation of methane by marine consortia enriched in vitro. Environmental Microbiology Reports 1(5):370-376 (2009). PubMed

Holtappels, M., M. Stubbe, J. Gimsa: ac-field-induced fluid pumping in microsystems with asymmetric temperature gradients. Physical Review E 79:026309 (doi: 10.1103/PhysRevE.79.026309) (2009). PubMed

Kraal, P., C.P. Slomp, A. Forster, M.M.M. Kuypers, A. Sluijs: Pyrite oxidation during sample storage determines phosphorus fractionation in carbonate-poor anoxic sediments. Geochimica et Cosmochimica Acta 73:3277-3290 (2009). ScienceDirect

Naqvi, S. W. A., Naik, H., Pratihary, A. K., Narvenkar, G., Roy, R., Thorat, B. R., Kurian, S., Gauns, M., Narvekar, P. V.: Intensification of seasonal oxygen-deficient zone over the western Indian shelf. Geochimica et Cosmochimica Acta, Goldschmidt Conference Abstracts 73 (13,Suppl. S): A930 (2009). ResearchGate

Schreiber, F., B. Loeffler, L. Polerecky, M.M.M. Kuypers, D. de Beer: Mechanisms of transient nitric oxide and nitrous oxide production in a complex biofilm. The ISME Journal 3:1301-1313 (2009). PubMed Full Text

Diploma and M.Sc theses

Adam, Birgit: Baltic cyanobacteria Aphanizomenon sp. and the nature of their associates. Diploma Thesis TU Bergakademie Freiberg: Institut für Biowissenschaften (2009), 98pp.

Kalvelage, Tim: Nitrogen losses and nutrient regeneration in oxygen deficient waters. MarMic, Master Thesis/ PhD proposal (2009), 29pp.

Sheik, Abdul Rahiman: The effect of viruses on prokaryotic and eukaryotic nutrient assimilation. MarMic, Master thesis, University of Bremen, Bremen (2009), 43pp.

Sokoll, Sarah: Processes of Nitrogen Loss on the Makran Shelf in the Arabian Sea. Diploarbeit, Universität Rostock (2009), 84pp.

Ph.D. theses

Halm, Hannah: Nitrogen Assimilation by Aquatic Prokaryotes. Dissertation Universität Bremen, Bremen (2009), 99pp.

Microbial Fitness Group

Dutilh, B.E. , M.A. Huynen and M. Strous: Increasing the coverage of a metapopulation consensus genome by iterative read mapping and assembly. Bioinformatics 25(21):2878–2881 (2009). PubMed Full Text

van Niftrik, L., Geerts, W. J. C., van Donselaar, E. G., Humbel, B. M., Webb, R. I., Harhangi, H. R., den Camp, H. J. M. O., Fuerst, J. A., Verkleij, A. J., Jetten, M. S. M., Strous, M.: Cell division ring, a new cell division protein and vertical inheritance of a bacterial organelle in anammox planctomycetes. Molecular Microbiology 73(6):1009–1019 (2009). PubMed

Marine Geochemistry

Dittmar, T.: Dem Kohlenstoff im Meer auf der Spur. Nachrichten aus der Chemie 57:387-391 (2009). Wiley

Dittmar, T. and Paeng J.: A heat-induced molecular signature in marine dissolved organic matter. Nature Geoscience 2:175-179 (2009). Nature

Dittmar, T., Koch B.P. and Jaffé R.: Chapter 12. Tools for studying biogeochemical connectivity among tropical coastal ecosystems. pp. 425-456 In: Ecological interactions among tropical coastal ecosystems. Nagelkerken I. (ed.), Springer (2009). Springer

Dittmar, T., Cherrier J. and Ludwichowski K.U.: Chapter 4. The analysis of amino acids in seawater. pp. 67-78 In: Practical guidelines for the analysis of seawater. Wurl O. (ed.) , CRC Press (2009). CRCnetBASE

Feseker, T., Pape T., Wallmann K., Klapp S.A., Schmidt-Schierhorn F., Bohrmann G.: The thermal structure of the Dvurechenskii mud volcano and its implications for gas hydrate stability and eruption dynamics. Marine and petroleum geology 26(9):1812-1823 (2009). ScienceDirect

Wöhlbrand, L. and Rabus R.: Development of a Genetic System for the Denitrifying Bacterium Aromatoleum aromaticum Strain EbN1. J. Mol. Microbiol. Biotechnol. 17:41–52 (2009). PubMed

Symbiosis Group

Haase, K.M. , A. Koschinsky, S. Petersen, C.W. Devey, C. German, K.S. Lackschewitz, B. Melchert, R. Seifert, C. Borowski, O. Giere, H. Paulick and M64/1, M68/1 and M78/2 Scientific Parties: Diking, young volcanism and diffuse hydrothermal activity on the southern Mid-Atlantic Ridge: The Lilliput field at 9°33'S. Marine Geology 266: 52–64 (2009). ScienceDirect

Petersen, S., Kuhn, K., Kuhn, T., Augustin, N., Hékinian, R., Franz, L., Borowski, C.: The geological setting of the ultramafic-hosted Logatchev hydrothermal field (14 degrees 45 ' N, Mid-Atlantic Ridge) and its influence on massive sulfide formation. Lithos 112:40–56 (2009). ResearchGate Full Text

Petersen, J.M. and Dubilier N.: Methanotrophic symbioses in marine invertebrates. Environ. Microbiol. Reports 1(5): 319-335 (2009). PubMed

Zielinski, F. U., Pernthaler, A., Duperron, S., Raggi, L., Giere, O., Borowski, C., Dubilier, N.: Widespread occurrence of an intranuclear bacterial parasite in vent and seep bathymodiolin mussels. Environmental Microbiology 11(5):1150–1167 (2009). PubMed

Ph.D. theses

Bergin, Claudia: Phylogenetic diversity and metabolic versatility of the bacterial endosymbionts in marine gutless oligochaete worms. Dissertation, MarMic, University of Bremen, Bremen (2009), 203pp.

Petersen, Jillian M.: Diversity and ecology of chemosynthetic symbioses in deep-sea invertebrates. Dissertation, MarMic, University of Bremen, Bremen (2009), 230pp.