Publikationen 2012

Department of Biogeochemistry

Alonso, C., Musat, N., Adam, B., M. Kuypers and R. Amann: HISH–SIMS analysis of bacterial uptake of algal-derived carbon in the Río de la Plata estuary. Systematic and Applied Microbiology, 35 (8), 541 – 548; dx.doi.org/10.1016/j.syapm.2012.08.004 (2012) PubMed

Altabet, M. A., E. Ryabenko, L. Stramma, D. W. R. Wallace, M. Frank, P. Grasse, and G. Lavik: An eddy-stimulated hotspot for fixed nitrogen-loss from the Peru oxygen minimum zone. Biogeosciences 9:4897-4908. (2012) Biogeosciences Full Text

Arnold, G. L., Lyons, T.W., G. G. Gordon, and A. D. Anbar: Extreme change in sulfide concentrations in the Black Sea during the Little Ice Age reconstructed using molybdenum isotopes. Geology, 40, 595-598. doi:10.1130/G32932.1. (2012) Geology

Berndmeyer, C., Birgel, D., Brunner, B., Wehrmann, L.M., Jöns, N., Bach, W., Arning, E.T., K. B. Föllmi, and J. Peckmann: The influence of bacterial activity on phosphorite formation in the Miocene Monterey Formation, California. Palaeogeography, Palaeoclimatology, Palaeoecology, 317–318, 171–181, doi:10.1016/j.palaeo.2012.01.004. (2012) ScienceDirect

Beutler, M., Milucka, J., Hinck, S., Schreiber, F., Brock, J., Mussmann, M., H.N. Schulz-Vogt and D. de Beer: Vacuolar respiration of nitrate coupled to energy conservation in filamentous Beggiatoaceae. Environmental Microbiology 14(11): 2911–2919. doi: 10.1111/j.1462-2920.2012.02851.x (2012) PubMed

Bourbonnais, A., Juniper, S.K., Butterfield, D.A., Devol, A.H., Kuypers, M.M.M., Lavik, G.. Hallam, S.J., Wenk, C.B., Chang, B.X., S. A. Murdock, and M. F. Lehmann: Activity and abundance of denitrifying bacteria in the subsurface biosphere of diffuse hydrothermal vents of the Juan de Fuca Ridge. Biogeosciences, 9, 4661-4678, 2012 (2012) Biogeosciences Full Text

Brunner, B., Einsiedl, F., Arnold, G.L., Müller, I., S. Templer and S. M. Bernasconi: The reversibility of dissimilatory sulphate reduction and the cell-internal multi-step reduction of sulphite to sulphide: insights from the oxygen isotope composition of sulphate Isotopes in Environmental and Health Studies, 48, 33-54. doi:10.1080/10256016.2011.608128 (2012) PubMed Full Text

De Gregorio, F., K. Pengel, and K. Kindler: A comprehensive PIV measurement campaign on a fully equipped helicopter model. Experiments in Fluids 53:37-49. (2012) Springer

Evrard, V., M. Huettel, P. L. M. Cook, K. Soetaert, C. H. R. Heip, and J. J. Middelburg: Importance of phytodetritus and microphytobenthos for heterotrophs in a shallow subtidal sandy sediment. Marine Ecology Progress Series 455:13-31. (2012) MEPS

Füssel, J., Lam, P., Lavik, G., Jensen, M.M., Holtappels, M., M. Günter and M.M.M. Kuypers: Nitrite oxidation in the Namibian oxygen minimum zone. The ISME Journal,6, 1200-1209. doi:10.1038/ismej.2011.178. (2012) PubMed Full Text

Gao, H., Matyka, M., Liu, B., Khalili, A., Kostka, J.E., Collins, G., Jansen, S., Holtappels, M., Jensen, M.M., Badewien, T.H., Beck, M., Grunwald, M., de Beer, D., G. Lavik, and M.M.M. Kuypers: Intensive and extensive nitrogen loss from intertidal permeable sediments of the Wadden Sea. Limnology and Oceanography, 57, 185–198.doi:10.4319/lo.2012.57.1.0185 (2012) ASLO

Großkopf, T., Mohr, Baustian, T., Schunck, H., Gill, D., Kuypers, M.M.M., Lavik, G., Schmitz, R.A., D.W.R. Wallace and J. LaRoche: Doubling of marine dinitrogen-fixation rates based on direct measurements. In: Nature; 488(7411):361-4. doi:10.1038/ismej.2011.178 (2012) PubMed

Halm, H., Lam, P., Lavik, G., Dittmar, T., Ferdelman, T.G., LaRoche, J., S. D′Hondt and M.M.M Kuypers: Heterotrophic organisms dominate nitrogen fixation in the South Pacific Gyre. The ISME Journal,6, 1238-1249. doi:10.1038/ismej.2011.182. (2012) PubMed Full Text

Heindel, K., Birgel, D., Brunner, B., Thiel, V., Westphal, H., Gischler, E., Ziegenbalg, S.B., Cabioch, G., P. Sjovall, and J. Peckmann: Post-glacial microbialite formation in coral reefs of the Pacific, Atlantic, and Indian Oceans. Chemical Geology, 304–305, 117–130. doi:10.1016/j.chemgeo.2012.02.009. (2012) ScienceDirect

Jaekel, U., Musat, N., Adam, B., Kuypers, M., O. Grundmann and F. Musat: Anaerobic degradation of propane and butane by sulfate-reducing bacteria enriched from marine hydrocarbon cold seeps. The ISME Journal, (2012) PubMed Full Text

Kamyshny, A., H. Oduro, and J. Farquhar: Quantification of free and metal-complexed cyanide by tetrathionate derivatization. International Journal of Environmental Analytical Chemistry 92:1506-1517. (2012) T&F

Koenneke, M., J. S. Lipp, and K. U. Hinrichs: Carbon isotope fractionation by the marine ammonia-oxidizing archaeon Nitrosopumilus maritimus. Organic Geochemistry 48:21-24. (2012) ScienceDirect

Lettmann, K. A., Riedinger, N., Ramlau, R., Knab, N., Böttcher, M., Khalili, A., J.O. Wolff, and B.B. Jørgensen: Estimation of biogeochemical rates from concentration profiles: a novel inverse method. Estuarine, Coastal and Shelf Science, 100, 26-37. (2012) ScienceDirect

Liu, B., K. Kindler and A. Khalili: Dynamic solute release from marine aggregates. Limnology and Oceanography: Fluids and Environments, Volume 2: 109-120, doi:10.1215/21573689-2016772 (2012) LaO Full Text

Luo, Y.-W., Doney, S.C., Anderson, L.A., Benavides, M., Berman-Frank, I., Bode, A., Bonnet, S., Boström, K.H., Böttjer, D., Capone, D.G., Carpenter, E.J., Chen, Y.L., Church, M.J., Dore, J.E., Falcón, L.L., Fernández, A., Foster, R.A., Furuya, K., Gómez, F., Gundersen, K., Hynes, A.M., Karl, D.M., Kitajima, S., Langlois, R.J., LaRoche, J., Letelier, R.M., Marañón, E., McGillicuddy Jr, D.J., Moisander, P.H., Moore, C.M., Mouriño-Carballido, B., Mulholland, M.R., Needoba, J.A., Orcutt, K.M., Poulton, A.J., Rahav, E., Raimbault, P., Rees, A.P., Riemann, L., Shiozaki, T., Subramaniam, A., Tyrrell, T., Turk-Kubo, K.A., Varela, M., Villareal, T.A., Webb, W.A., White, A.E., J. Wu and J.P. Zehr: Database of diazotrophs in global ocean: abundance, biomass and nitrogen fixation rates., 4, 47-73, doi:10.5194/essd-4-47-2012. (2012) ESSD Full Text

Milucka, J., Ferdelman, T.G., Polerecky, L., Franzke, D., Wegener, G., Schmid, M., Lieberwirth, I., Wagner, M., F. Widdel and M.M.M Kuypers: Zero-valent sulphur is a key intermediate in marine methane oxidation. Nature, 491, 541-546, doi: 10:1038/nature11656. (2012) PubMed

Milucka J., F. Widdel and S. Shima: Immunological detection of enzymes for sulfate reduction in anaerobic methane-oxidizing consortia. Environmental Microbiology, doi: 10.1111/1462-2920.12003 (2012) PubMed

Musat, N., Foster, R., Vagner, T., B. Adam and M.M.M. Kuypers: Detecting metabolic activities in single cells, with emphasis on nanoSIMS. FEMS Microbiology Reviews, 36, 2, 486-511.doi:10.1111/j.1574-6976.2011.00303.x (2012) PubMed

Owens, J.D., Lyons, T.W., Li, X., Macleod, K.G., Gordon, G., Kuypers, M.M.M., Anbar, A., W. Kuhnt and S. Severmann: Iron isotope and trace metal records of iron cycling in the proto-North Atlantic during the Cenomanian-Turonian oceanic anoxic event (OAE-2). PALEOCEANOGRAPHY, 27, doi:10.1029/2012PA002328 (2012) SASN

Picard, A., Testemale, D., J-L. Hazemann and I. Daniel: The influence of high hydrostatic pressure on bacterial dissimilatory iron reduction. Geochimica et Cosmochimica Acta, 88, 120-129. doi: 10.1016/j.gca.2012.04.030 (2012) ScienceDirect

Picard, A., and T. G. Ferdelman: Microbial activity in deep marine sediments: does pressure make the difference?, 23rd International Conference on High Pressure Science and Technology, vol. 377. (2012) IOPscience Full Text

Pirlet, H., Wehrmann, L.M., Foubert, A., Brunner, B., Blamart, D., de Mol, L., Van Rooij, D., Dewanckele, J., Cnudde, V., Swennen, R., P. Duyck and J-P. Henriet: Unique authigenic mineral assemblages reveal different diagenetic histories in two neighbouring cold-water coral mounds on Pen Duick Escarpment, Gulf of Cadiz. Sedimentology, 59, 578–604. doi:10.1111/j.1365-3091.2011.01267.x. (2012) Wiley

Polerecky, L., Adam, B., Milucka, J., Musat, N., T. Vagner and M.M.M. Kuypers: [Bitte aktivieren Sie Javascript] – a tool for the analysis of nanoSIMS data in environmental microbiology. Environmental Microbiology, 14, 1009-1023. doi: 10.1111/j.1462-2920.2011.02681.x (2012) PubMed

Risgaard-Petersen, N., Revil, A., P. Meister and L.P. Nielsen: Sulfur, iron-, and calcium cycling associated with natural electric currents running through marine sediment. Geochimica et Cosmochimica Acta, 92, 1-13. doi: 10.1016/j.gca.2012.05.036 (2012) ScienceDirect

Sheik, A.R., Brussaard, C.P.D., Lavik, G., Foster, R.A., Musat, N., B. Adam and M. M. M. Kuypers: Viral infection of Phaeocystis globosa impedes release of chitinous star-like structures: quantification using single cell approaches. Environmental Microbiology, DOI: 10.1111/j.1462-2920.2012.02838.x (2012) PubMed

Sokoll, S., Holtappels, M., Lam, P., Collins, G., Schlüter, M., G. Lavik and M. M. M. Kuypers: Benthic nitrogen loss in the Arabian Sea off Pakistan. Frontiers in Microbiology, doi: 10.3389/fmicb.2012.00395. (2012) PubMed Full Text

Thang, N.M., Brüchert, V., Formolo, M., Wegener, G., Ginters, L., B.B. Joergensen and T.G. Ferdelman: The impact of sediment and carbon fluxes on the biogeochemitry of methane and sulfur in littoral Baltic Sea Sediments (Himmerfjaerden, Sweden). Estuaries and Coasts (28 September 2012), pp. 1-18; doi: 10.1007/s12237-012-9557-0. (2012) Springer

Thompson, A., Foster, R.A., Krupke, A., Carter, B.J., Musat, N., Vaulot, D., M.M.M Kuypers, and J.P. Zehr: Unicellular cyanobacterium symbiotic with a single-celled eukaryotic alga. Science, 337, 1546-1550 doi:10.1126/science.1222700. (2012) PubMed

van de Vossenberg, J., Woebken, D., Maalcke, W.J., Wessels, H.J.C.T., Dutilh, B.E., Kartal, B., Janssen-Megens, E.M., Roeselers, G., Yan, J., Speth, d., Gloerich, J., Geerts, W., van der Biezen, E., Pluk, W., Francoijs, K.-J., Russ, L., Lam, P., Malfatti, S.A., Tringe, S.G., Haaijer, S.C.M., Op den Camp, H.J.M., Stunnenberg, H.G., Amann, R., M.M.M. Kuypers and M.S.M. Jetten: The metagenome of the marine anammox bacterium Candidatus Scalindua profunda illustrates the versatility of this globally important nitrogen cycle bacterium, Environmental Microbiology, doi:10.1111/j.1462-2920.2012.02774.x (2012) PubMed Full Text

Vossmeyer, A., Deusner, C., Kato, C., F. Inagak and T.G. Ferdelman: Substrate-specific pressure-dependence of microbial sulfate reduction in deep-sea cold seep sediments of the Japan Trench. Frontiers in Microbiology, 3, 1-12. doi: 10.3389/fmicb.2012.00253 (2012) PubMed Full Text

Wegener. G., Bausch, M., Holler, T., Thang, N.M., Mollar, X.P., Kellermann, M.Y., K-U. Hinrichs and A. Boetius: Assessing sub-seafloor microbial activity by combined stable isotope probing with deuterated water and 13C-bicarbonate. Environmental Microbiology 14(6), 1517–1527. DOI: 10.1111/j.1462-2920.2012.02739.x (2012) PubMed

Yeung, L.Y., Berelson, W.M., Young, E.D., Prokopenko, M.G., Rollins, N., Coles, V.J., Montoya, J.P., Carpenter, E.J., Steinberg, D.K., R.A. Foster and P.L. Yager: Impact of diatom-diazotroph associations on carbon export in the Amazon River plume. Geophysical Research Letters. 39,18, doi:10.1029/2012GL053356,2012. (2012) AGU

Zhang, Y. C., C. P. Slomp, H. P. Broers, B. Bostick, H. F. Passier, M. E. Boettcher, E. O. Omoregie, J. R. Lloyd, D. A. Polya, and P. Van Cappellen: Isotopic and microbiological signatures of pyrite-driven denitrification in a sandy aquifer. Chemical Geology 300:123-132. (2012) ScienceDirect

Ziebis, W., McManus, J., Ferdelman, T., Schmidt-Schierhorn, F., Bach, W., Muratli, J., K.J. Edwards and H. Villinger: Interstitial fluid chemistry of sediments underlying the North Atlantic gyre and the influence of subsurface fluid flow. Earth and Planetary Science Letters, 323–324, 79–91. doi:10.1016/j.epsl.2012.01.018. (2012) ScienceDirect

Ph.D theses

Heisterkamp, Ines: Microbial nitrous oxide production and nitrogen cycling associated with aquatic invertebrates. Bremen, Univ., Diss., 2012

Kalvelage, Tim: Nitrogen losses and nutrient regeneration in oxygen minimum zones. Bremen, Univ., Diss., 2012

Sheik, Abdul Rahiman: Viral regulation on nutrient assimilation by algae and prokaryotes. Bremen, Univ., Diss., 2012

Microsensor Group

Abed, R. M. M.: Detection and Capturing of C-14 Radioactively-Labeled Small Subunit rRNA from Mixed Microbial Communities of a Microbial Mat Using Magnetic Beads. Indian Journal of Microbiology 52:88-93. (2012) PubMed Full Text

Abed, R.M.M., A. Ramette, V. Huebner, P. De Deckker and D. de Beer: Microbial diversity of eolian dust sources from saline lake sediments and biological soil crusts in arid Southern Australia. Fems Microbiology Ecology; 80(2):294-304. doi: 10.1111/j.1574-6941.2011.01289.x. (2012) PubMed

Al-Najjar, M. A. A., D. de Beer, M. Kuehl and L. Polerecky: Light utilization efficiency in photosynthetic microbial mats. Environmental Microbiology. 14(4):982-92. doi: 10.1111/j.1462-2920.2011.02676.x (2012) PubMed

Farías, M.E., N. Rascovan, D.M. Toneatti, V.H. Albarracín, M.R. Flores, D.G. Poiré, M.M. Collavino, O.M. Aguilar, M.P. Vazquez and L. Polerecky: The discovery of stromatolites developing at 3570 m above sea level in a high-altitude volcanic lake Socompa, Argentinean Andes. PLoS ONE 8(1): e53497. doi:10.1371/journal.pone.0053497 (2012) PubMed Full Text

Gao, H., M. Matyka, B. Liu, A. Khalili, J.E. Kostka, G. Collins, S. Jansen, M. Holtappels, M.M. Jensen, T.H. Badewien, M. Beck, M. Grunwald, D. de Beer, G. Lavik and M.M.M. Kuypers: Intensive and extensive nitrogen loss from intertidal permeable sediments of the Wadden Sea. Limnol Oceanogr 57: 185-198 (2012) ASLO

Glas, M.S., K.E. Fabricius, D. De Beer and S. Uthicke: The O2, pH and Ca2+ microenvironment of benthic foraminifera in a high CO2 world. PLoS ONE. doi:10.1371/journal.pone.0050010 (2012) PubMed Full Text

Glas, M.S., G. Langer and N. Keul: Calcification acidifies the microenvironment of a benthic foraminifer (Ammonia sp.). Journal of Experimental Marine Biology and Ecology 424-425: 53-58. doi: 10.1016/j.jembe.2012.05.006 (2012) ePIC Full Text

Glas, M.S., Y. Sato, K.E. Ulstrup and D.G. Bourne: Biogeochemical conditions determine virulence of black band disease in corals. ISME J 6: 1526-1534. (2012) PubMed Full Text

Heisterkamp, M., A. Kamp, A.T. Schramm, D. de Beer and P. Stief: Indirect control of the intracellular nitrate pool of intertidal sediment by the polychaete Hediste diversicolor. Marine Ecology-Progress Series 445: 181-192. 10.3354/meps08727 (2012) MEPS Full Text

Heisterkamp, I.M., A. Schramm, L.H. Larsen, N.B. Svenningsen, G. Lavik, D. de Beer and P. Stief: Shell biofilm-associated nitrous oxide production in marine molluscs: processes, precursors, and relative importance. Environmental Microbiology (DOI: 10.1111/j.1462-2920.2012.02823.x) (2012) PubMed

Ionescu, D., C. Siebert, L. Polerecky, Y.Y. Munwes, C. Lott, S. Haeusler, M. Bizic-Ionescu, C. Quast, J. Peplies, F.O. Glöckner, A. Ramette, T. Roediger, T. Dittmar, A. Oren, S. Geyer, H.J. Staerk, M. Sauter, T. Licha, J.B. Laronne and D. de Beer: Microbial and Chemical Characterization of Underwater Fresh Water Springs in the Dead Sea. PLoS ONE 7: e38319 (2012) PubMed Full Text

Janssen, F., M.B. Cardenas, A.H. Sawyer, T. Dammrich, J. Krietsch and D. de Beer: A comparative experimental and multiphysics computational fluid dynamics study of coupled surface–subsurface flow in bed forms. Water Resources Research 48: W08514. doi:10.1029/2012WR011982 (2012) SASN

Kofoed, M.V.W., P. Stief, S. Hauzmayer, A. Schramm and M. Herrmann: Higher nitrate-reducer diversity in macrophyte-colonized compared to unvegetated freshwater sediment. Systematic and Applied Microbiology (2012 Oct;35(7):465-72. doi: 10.1016/j.syapm.2012.08.005. Epub 2012 Oct 5.) PubMed

Lew, B., P. Stief, M. Beliavski, A. Ashkenazi, O. Svitlica, A. Khan, S. Tarre, D de Beer and M. Green: Characterization of denitrifying granular sludge with and without the addition of external carbon source. Bioresource technology 124C: 413-420 (2012) PubMed

Meola, M., N. M. Lee, C. Heim, N. V. Queric, O. Braissant, D. Ionescu, D. de Beer, F. E. Loeffler, V. Thiel, J. Reitner, and W. Liebl: Astrobiological Lessons from the Ancient Iron-Oxidizing Genus Gallionella. Paleontological Journal 46:1071-1072. (2012) Full Text

Milucka, J., T.G. Ferdelman, L. Polerecky, D. Franzke, G. Wegener, M. Schmid, I. Lieberwirth, M. Wagner, F. Widdel and M.M.M. Kuypers: Zerovalent sulfur is a key intermediate in marine methane oxidation. Nature 491, 541-546; (22 November 2012); doi:10.1038/nature11656) (2012) PubMed

Polerecky, L., B. Adam, J. Milucka, N. Musat, T. Vagner and M.M.M. Kuypers: [Bitte aktivieren Sie Javascript] - a tool for the analysis of nanoSIMS data in environmental microbiology. Environmental Microbiology 14: 1009-1023. 10.1111/j.1462-2920.2011.02681.x (2012) PubMed

Rao, A. M. F., L. Polerecky, D. Ionescu, F. J. R. Meysman, and D. de Beer: The influence of pore-water advection, benthic photosynthesis, and respiration on calcium carbonate dynamics in reef sands. Limnology and Oceanography 57:809-825. (2012) ASLO

Rhiel, E., and J. Brock: Lectin binding in Cryptomonas and Chroomonas (Cryptophyceae). Protoplasma 249:759-768. (2012) PubMed

Schwedt, A., A.C. Kreutzmann, L. Polerecky, H.N. Schulz-Vogt: Sulfur respiration in a marine chemolithoautotrophic beggiatoa strain. Front Microbiol.: 276-283 (2012) PubMed Full Text

Svenningsen, N.B., I.M. Heisterkamp, M. Sigby-Clausen, L.H. Larsen, L.P. Nielsen, P. Stief and A. Schramm: Shell biofilm nitrification and gut denitrification contribute to emission of nitrous oxide by the invasive freshwater mussel Dreissena polymorpha (zebra mussel). Appl. Env. Microbiol. 78: 4505-4509 (2012) PubMed Full Text

Volkenborn, N., L. Polerecky, D.S. Wethey, T.H. DeWitt and S.A. Woodin: Hydraulic activities by ghost shrimp Neotrypaea californiensis induce oxic-anoxic oscillations in sediments. Marine Ecology-Progress Series 455: 141-156. 10.3354/meps09645 (2012) MEPS Full Text

Wangpraseurt, D., M. Weber, H. Røy, L. Polerecky, D. de Beer, Suharsono and M.M. Nugues: In situ oxygen dynamics in coral-algal interactions. PLoS ONE (2012) 7(2): e31192. doi:10.1371/journal.pone.0031192 (2012) PubMed

Weber, M., D. de Beer, C. Lott, L. Polerecky, K. Kohls, R.M.M. Abed, T.G. Ferdelman and K.E. Fabricius: Mechanisms of damage to corals exposed to sedimentation. PNAS 109: 1558-1567. (2012) PubMed Full Text

Ph.D theses

Glas. Martin: The importance of microgradients for marine calcifiers Bremen, Univ., Diss., 2012

Department of Microbiology (J.Harder)

Alonso, C., N. Musat, B. Adam, M. Kuypers, and R. Amann: HISH-SIMS analysis of bacterial uptake of algal-derived carbon in the Rio de la Plata estuary. Systematic and Applied Microbiology 35:541-548. (2012) Full Text

Lahme, S., J. Harder and R. Rabus: Anaerobic degradation of 4-methylbenzoate by a new denitrifying bacterium, strain pMbN1. Applied Environmental Microbiology 2012 Mar; 78:1606-1610 (2012) PubMed Full Text

Lahme, S., C. Eberlein, R. Jarling, M. Kube, M. Boll, H. Wilkes, R. Reinhardt, and R. Rabus: Anaerobic degradation of 4-methylbenzoate via a specific 4-methylbenzoyl-CoA pathway. Environmental Microbiology 14:1118-1132. (2012) PubMed

Lenk, S., C. Moraru, S. Hahnke, J. Arnds, M. Richter, M. Kube, R. Reinhardt, T. Brinkhoff, J. Harder, R. Amann, and M. Mußmann: Roseobacter clade bacteria are abundant in coastal sediments and encode a novel combination of sulfur oxidation genes. ISME Journal; 6(12):2178-87. doi: 10.1038/ismej.2012.66. (2012) PubMed Full Text

Lüddeke, F., A. Dikfidan and J. Harder: Physiology of deletion mutants in the anaerobic β-myrcene degradation pathway in Castellaniella defragrans. BMC Microbiology. 12:192. DOI: 10.1186/1471-2180-12-192 (2012) PubMed Full Text

Lüddeke, F., A. Wülfing, M. Timke, F. Germer, J. Weber, A. Dikfidan, T. Rahnfeld, D. Linder, A. Meyerdierks and J. Harder: Geraniol and geranial dehydrogenases induced in anaerobic monoterpene degradation by Castellaniella defragrans. Applied Environmental Microbiology 78:2128-2136 (2012) PubMed Full Text

Rotaru, A.-E., R. Schauer, C. Probian, M. Mussmann and J.Harder: Visualization of candidate division OP3 cocci in limonene-degrading methanogenic cultures. Journal of Microbiology and Biotechnology 22, 457–461. (2012) PubMed Full Text

Steinbach, A., S. Fraas, J. Harder, E. Warkentin, P. Kroneck, and U. Ermler: Crystal structure of a ring-cleaving cyclohexane-1,2-dione hydrolase, a novel member of the thiamine diphosphate enzyme family. FEBS Journal 279:1209-1219 (2012) PubMed

Trautwein, K., S. Lahme, L. Wöhlbrand, C. Feenders, K. Mangelsdorf, J. Harder, A. Steinbüchel, B. Blasius, R. Reinhardt, and R. Rabus: Physiological and proteomic adaptation of "Aromatoleum aromaticum" EbN1 to low growth rates in benzoate-limited, anoxic chemostats. Journal of Bacteriology 194:2165-80 (2012) PubMed Full Text

B.Sc. And M.Sc. thesis

Disch, E.-M.: Transposon insertion mutants in the monoterpene metabolism in Castellaniella defragrans 65Phen. Master thesis, M. Sc. Biochemistry and Molecular Biology, Universität Bremen (2012)

Khomich, M.: Diversity analyses of Rhodopirellula species in marine sediments. Master thesis, European M.Sc. Marine Biology and Conservation, University Gent (2012)

Koska, A.: Charakterisierung einer Alkoholdehydrogenase aus Castellaniella defragrans Bachelor thesis, B. Sc. Life Science Engineering, HTW Berlin (2012)

Marmulla, R.: A novel purification for, and biochemical studies on linalool dehydratase-isomerase. Master thesis, M. Sc. Marine Microbiology, University Bremen (2012)

Rahane, C.: RND efflux pumps and the metabolism of monoterpenes in Castellaniella defragrans. Master thesis, M. Sc. Biochemistry and Molecular Biology, University Bremen (2012)

Department of Microbiology (F.Widdel)

Alain, K., J. Harder, F. Widdel, K. Zengler: Anaerobic utilization of toluene by marine Alpha- and Gammaproteobacteria reducing nitrate. Microbiology (2012 Dec;158(Pt 12):2946-57. doi: 10.1099/mic.0.061598-0. Epub 2012 Oct 4.) (2012) PubMed Full Text

Enning, D., H. Venzlaff, J. Garrelfs, H.T. Dinh, V. Meyer, K. Mayrhofer , A.W. Hassel, M. Stratmann, F. Widdel: Marine sulfate-reducing bacteria cause serious corrosion of iron under electroconductive biogenic mineral crust. Environ Microbiol 14: 1772-1787. (2012) PubMed Full Text

Jarling, R., M. Sadeghi, M. Drozdowska, S. Lahme, W. Buckel, R. Rabus, F. Widdel, B.T. Golding, H. Wilkes: Stereochemical investigations reveal the mechanism of the bacterial activation of n-alkanes without oxygen. Angew Chem Int Ed Engl 51: 1334-1338. (2012) PubMed

Kube, M., J. Mitrovic, B. Duduk, R. Rabus, E. Seemüller: Current view on phytoplasma genomes and encoded metabolism. ScientificWorldJournal: 185942. (2012) PubMed Full Text

Lahme, S., C. Eberlein, R. Jarling, M. Kube, M. Boll, H. Wilkes, R. Reinhardt, R. Rabus: Anaerobic degradation of 4-methylbenzoate via a specific 4-methylbenzoyl-CoA pathway. Environ Microbiol 14: 1118-1132. (2012) PubMed

Rabus, R.: An overview of 2D DIGE analysis of marine (environmental) bacteria. Methods Mol Biol 854: 355-372. (2012) PubMed

Rabus, R., R. Jarling, S. Lahme, S. Kühner, J. Heider, F. Widdel, H. Wilkes: Co-metabolic conversion of toluene in anaerobic n-alkane-degrading bacteria. Environ Microbiol 13: 2576-2586. (2012) PubMed

Trautwein, K., O. Grundmann, L. Wöhlbrand, C. Eberlein, M. Boll, R. Rabus: Benzoate mediates repression of C4-dicarboxylate utilization in "Aromatoleum aromaticum" EbN1. J Bacteriol 194: 518-528. (2012) PubMed Full Text

Trautwein, K., H. Wilkes, R. Rabus: Proteogenomic evidence for β-oxidation of plant-derived 3-phenylpropanoids in "Aromatoleum aromaticum" EbN1. Proteomics 12: 1402-1413. (2012) PubMed

Venzlaff, H., D. Enning, J. Srinivasan, K. Mayrhofer, A.W. Hassel, F. Widdel, M. Stratmann: Accelerated cathodic reaction in microbial corrosion of iron due to direct electron uptake by sulphate-reducing bacteria. Corros. Sci., doi.org/10.1016/j.corsci.2012.09.006. (2012) PubMed Full Text

Ph.D theses

Enning, Dennis R.: Bioelectrical corrosion of iron by lithotrophic sulphate-reducing bacteria. Bremen, Univ., Diss., 2012

Webner, Kirsten: Die Gene der (1-Methylalkyl) succinat-Synthase im anaeroben /n/- Alkanabbau des Betaproteobakteriums Stamm HxN1, Bremen, Univ., Diss., 2012

Zedelius. Johannes: Anaerobic n-alkane degradation by Gammaproteobacterium strain HdN1 coupled to nitrate respiration. Bremen, Univ., Diss., 2012

Ecophysiology

Beutler, M., J. Milucka, S. Hinck, F. Schreiber, J. Brock, M. Mußmann, H.N. Schulz-Vogt and D. de Beer: Vacuolar respiration of nitrate coupled to energy conservation in filamentous Beggiatoaceae. Environ. Microbiol. (2012 Nov;14(11):2911-9. doi: 10.1111/j.1462-2920.2012.02851.x. Epub 2012 Aug 23.) (2012) PubMed

Brock, J., E. Rhiel, M. Beutler, V. Salman and H.N. Schulz-Vogt: Unusual polyphosphate inclusions observed in a marine Beggiatoa strain. Antonie van Leeuwenhoek. 101: 347-357 (2012) PubMed Full Text

Grünke, S., A. Lichtschlag, D. de Beer, J. Felden, V. Salman, A. Ramette, H.N. Schulz-Vogt and A. Boetius: Mats of psychrophilic thiotrophic bacteria associated with cold seeps oft he Barents Sea. Biogeosciences 9:2947-2960 (2012) Biogeosciences Full Text

Salman, V., R. Amann, D.A. Shub and H.N. Schulz-Vogt: Multiple self-splicing introns in the 16S rRNA genes of giant sulfur bacteria. PNAS. 109, 4203-4208 (2012) PubMed Full Text

Saravanakumar, C., N. Dineshkumar, S. V. Alavandi, V. Salman, M. Poornima, and N. Kalaimani: Enrichment and identification of large filamentous sulfur bacteria related to Beggiatoa species from brackishwater ecosystems of Tamil Nadu along the southeast coast of India. Systematic and Applied Microbiology 35:396-403. (2012) PubMed

Schwedt, A., A.-C. Kreutzmann, L. Polerecky and H.N. Schulz-Vogt: Sulfur respiration in a marine chemolithoautotrophic Beggiatoa strain. Front. Microbio. 2:276. (2012) PubMed Full Text

Ph.D theses

Bondarev, Vladimir: Physiology of Pseudovibrio sp. FO-BEG1 – a facultatively oligotrophic and mebabolically versatile bacterium. Bremen, Univ., Diss., 2012

Molecular Ecology Group

Amann, R., and C. Moraru: Two decades of fluorescence in situ hybridization in systematic and applied microbiology. Systematic and Applied Microbiology 35:483-484. (2012) PubMed

Beutler, M., J. Milucka, S. Hinck, F. Schreiber, J. Brock, M. Mußmann, H. N. Schulz-Vogt and D. de Beer: Vacuolar respiration of nitrate coupled to energy conservation in filamentous Beggiatoaceae. Environmental Microbiology 14(11): 2911–2919. (2012) PubMed

Kellermann, M. Y., G. Wegener, M. Elvert, M. Y. Yoshinaga, Y. S. Lin, T. Holler, X. P. Mollar, K. Knittel, and K. U. Hinrichs: Autotrophy as a predominant mode of carbon fixation in anaerobic methane-oxidizing microbial communities. Proceedings of the National Academy of Sciences of the United States of America 109:19321-19326. (2012) PubMed Full Text

Kubo, K., K. G. Lloyd, J. F. Biddle, R. Amann, A. Teske, and K. Knittel: Archaea of the Miscellaneous Crenarchaeotal Group are abundant, diverse and widespread in marine sediments. Isme Journal 6:1949-1965. (2012) PubMed Full Text

Lenk, S., C. Moraru, S. Hahnke, J. Arnds, M. Richter, M. Kube, R. Reinhardt, T. Brinkhoff, J. Harder, R. Amann, and M. Mußmann: Roseobacter clade bacteria are abundant in coastal sediments and encode a novel combination of sulfur oxidation genes. ISME Journal 6(12):2178-87 (2012) PubMed Full Text

Moraru, C., and R. Amann: Crystal ball: Fluorescence in situ hybridization in the age of super-resolution microscopy. Systematic and Applied Microbiology 35:549-552. (2012) PubMed

Rotaru, A., R. Schauer, C. Probian, M. Mußmann and J. Harder: Visualization of candidate division OP3 cocci in limonene degrading methanogenic cultures. J. Microbiol. Biotech. 22(4):457-61 (2012) PubMed Full Text

Sanchez-Andrea, I., K. Knittel, R. Amann, R. Amils, and J. L. Sanz: Quantification of Tinto River Sediment Microbial Communities: Importance of Sulfate-Reducing Bacteria and Their Role in Attenuating Acid Mine Drainage. Applied and Environmental Microbiology 78:4638-4645. (2012) PubMed Full Text

Schmidt, H., T. Eickhorst, and M. Mussmann: Gold-FISH: A new approach for the in situ detection of single microbial cells combining fluorescence and scanning electron microscopy. Systematic and Applied Microbiology 35:518-525. (2012) PubMed

Woehlbrand, L., Jacob, J., Kube, M., Mußmann, M., Jarling, R., Beck, A., Amann, R., Wilkes, H., Reinhardt, and R. Rabus: Complete genome and catabolic sub-proteomes of Desulfobacula toluolica Tol2, a marine aromatic compound-degrading sulfate reducer. Environmental Microbiology 10.1111/j.1462-2920.2012.02885.x. [Epub ahead of print]. (2012) PubMed

Molecular Ecology Group (B. Fuchs)

Brinkhoff, T., D. Fischer, J. Vollmers, S. Voget, C. Beardsley, S. Thole, M. Mussmann, B. Kunze, I. Wagner-Dobler, R. Daniel, and M. Simon: Biogeography and phylogenetic diversity of a cluster of exclusively marine myxobacteria. Isme Journal 6:1260-1272. (2012) PubMed Full Text

Elsabe, M. J., V. Bruchert, and B. M. Fuchs: Vertical shifts in the microbial community structure of organic-rich Namibian shelf sediments. African Journal of Microbiology Research 6:3887-3897. (2012) academicJournals Full Text

Gomez-Pereira, P. R., M. Schüler, B.M. Fuchs, C. Bennke, H. Teeling, J. Waldmann, M. Richter, V. Barbe, E. Bataille, F.O. Glöckner and R. Amann: Genomic content of uncultured Bacteroidetes from contrasting oceanic provinces in the North Atlantic Ocean, Env. Microbiol. 14 : 52-66. (2012) PubMed

Hill, P. G., J.L. Heywood, R.J. Holland, D.A. Purdie, B.M. Fuchs and M.V. Zubkov: Internal and External Influences on Near-Surface Microbial Community Structure in the Vicinity of the Cape Verde Islands, Microbial Ecology 63 : 139-148. (2012) PubMed

Kojima, H., M. Tsutsumi, K. Ishikawa, T. Iwata, M. Mussmann, and M. Fukui: Distribution of putative denitrifying methane oxidizing bacteria in sediment of a freshwater lake, Lake Biwa. Systematic and Applied Microbiology 35:233-238. (2012) PubMed

Oberbeckmann, S., B.M. Fuchs, M. Meiners, A. Wichels, K.H. Wiltshire and G. Gerdts: Seasonal dynamics and modeling of a Vibrio community in coastal waters of the North Sea, Microbial Ecology, 63: 543-551. (2012) PubMed

Pizzetti, I., S. Fazi, B. M. Fuchs, and R. Amann: High abundance of novel environmental chlamydiae in a Tyrrhenian coastal lake (Lago di Paola, Italy). Environmental Microbiology Reports 4:446-452. (2012) PubMed

Teeling, H., B.M Fuchs, D. Becher, C. Klockow, A. Gardebrecht, C.M. Bennke, M. Kassabgy, S. Huang, A.J. Mann, J. Waldmann, M. Weber, A. Klindworth, A. Otto, J. Lange, J. Bernhardt, C. Reinsch, M. Hecker, J. Peplies, F.D. Bockelmann, U. Callies, G. Gerdts, A. Wichels, K.H. Wiltshire, F.O. Glöckner, T. Schweder and R. Amann: Substrate-Controlled Succession of Marine Bacterioplankton Populations Induced by a Phytoplankton Bloom, Science 336 : 608-611. (2012) PubMed

Thiele, S., B. M. Fuchs, N. Ramaiah, and R. Amann: Microbial Community Response during the Iron Fertilization Experiment LOHAFEX. Applied and Environmental Microbiology 78:8803-8812. (2012) PubMed Full Text

Ph.D theses

Huang, Chia-I: Molecular Ecology of Free-Living Chemoautotrophic Microbial Communities at a Shallow-sea Hydrothermal Vent. Bremen, Univ., Diss., 2012

Kleindienst, Sara: Hydrocarbon-degrading sulphate-reducing bacteria in marine hydrocarbon seep sediments. Bremen, Univ., Diss., 2012

Svitlica; Olivera: Studies on aerobic ammonia oxidation and denitrification in stratified habitats . Bremen, Univ., Diss., 2012

Symbiosis Group

Gaudron, S. M., S. Lefebvre, A. N. Jorge, F. Gaill, and F. Pradillon: Spatial and temporal variations in food web structure from newly-opened habitat at hydrothermal vents. Marine Environmental Research 77:129-140. (2012) PubMed

Gros, O., Elisabeth, N.H., Gustave, S.D.D., A. Caro and N. Dubilier: Plasticity of symbiont acquisition throughout the life cycle of the shallow-water tropical lucinid Codakia orbiculata (Mollusca: Bivalvia). Environmental Microbiology 14, 1584-1595, doi:10.1111/j.1462-2920.2012.02748.x (2012) PubMed

Kellermann, M.Y., Schubotz, F., Elvert, M., Lipp, J.S., Birgel, D., Prieto-Mollar, X., N. Dubilier and K.-U. Hinrichs: Symbiont-host relationships in chemosynthetic mussels: A comprehensive lipid biomarker study. Organic Geochemistry 43, 112-124. doi:10.1016/j.orggeochem.2011.10.005 (2012) ScienceDirect

Kleiner, M., J.M. Petersen and N. Dubilier: Convergent and divergent evolution of metabolism in sulfur-oxidizing symbionts and the role of horizontal gene transfer. Current Opinion in Microbiology 15:621–631. http://dx.doi.org/10.1016/j.mib.2012.09.003 (2012) PubMed

Kleiner, M., Wentrup, C., Lott, C., Teeling, H., Wetzel, S., Young, J., Chang, Y.-J., Shah, M., VerBermoes, N. C., Zarzycki, J., Fuchs, G., Markert, S., Hempel, K., Voigt, B., Becher, D., Liebeke, M., Lalk, M., Albrecht, D., Hecker, M., T. Schweder and N. Dubilier: Metaproteomics of a gutless marine worm and its symbiotic microbial community reveal unusual pathways for carbon and energy use. Proceedings of the National Academy of Sciences. doi: 10.1073/pnas.1121198109 (2012) PubMed Full Text

Petersen, J.M., Wentrup, C., Verna, C., K. Knittel and N. Dubilier: Origins and evolutionary flexibility of chemosynthetic symbionts from deep-sea animals. Biological Bulletin 223:123-137 (2012) PubMed Full Text

Raggi, L., Schubotz, F., Hinrichs, K.-U., N. Dubilier and J.M. Petersen: Bacterial symbionts of Bathymodiolus mussels and Escarpia tubeworms from Chapopote, an asphalt seep in the southern Gulf of Mexico. Environmental Microbiology (2012 Nov 23. doi: 10.1111/1462-2920.12051. (2012) PubMed

Santangelo, G., Bramanti, L., Rossi, S., Tsounis, G., Vielmini, I., C. Lott and J.M. Gili: Patterns of variation in recruitment and post-recruitment processes of the Mediterranean precious gorgonian coral Corallium rubrum, JEMBE, 411 (2012) 7–13 (2012) ScienceDirect

Tosin, M., Weber, M., Siotto, M., C. Lott and F. Degli Innocenti: Laboratory test methods to determine the degradation of plastics in marine environmental conditions. Front. Microbiol. 2012; 3: 225. doi: 10.3389/fmicb.2012.00225 (2012) PubMed Full Text

van der Heijden, K., Petersen, J.M., N. Dubilier and C. Borowski: Genetic connectivity between North and South Mid-Atlantic Ridge chemosynthetic bivalves and their symbionts. PLoS One 7(7): e39994. doi:10.1371/journal.pone.0039994 (2012) PubMed Full Text

Weber, M., de Beer, D., Lott, C., Polerecky, L., Kohls, K., Abed, R.M.M., T.G. Ferdelman and K.E. Fabricius: Mechanisms of damage to corals exposed to sedimentation PNAS, (109) 24, June 12, 2012, E1558-E1567. doi: 10.1073/pnas.1100715109 (2012) PubMed Full Text

Wendeberg, A., Zielinski, F.U., C. Borowski and N. Dubilier: Expression patterns of mRNAs for methanotrophy and thiotrophy in symbionts of the hydrothermal vent mussel Bathymodiolus puteoserpentis. ISME Journal 6, 104-112. doi:10.1038/ismej.2011.81 (2012) PubMed Full Text

Ph.D theses

Kleiner, Manuel: Metabolism and evolutionary ecology of chemosynthetic symbionts from marine invertebrates. Bremen, Univ., Diss., 2012

Wentrup, Cecilia: Acquisition and activity of bacterial symbionts in marine invertebrates. Bremen, Univ., Diss., 2012

Microbial Genomics Group

Arnone, M.I., C. Verde, C. Bowler and F.O. Glöckner: A new Editorial Team and Scope for Marine Genomics. Marine Genomics, 5, III-IV. (2012) Full Text

Bulgarelli, D., M. Rott, K. Schlaeppi, E. Ver Loren van Themaat, N. Ahmadinejad, F. Assenza, P. Rauf, B. Huettel, R. Reinhardt, E. Schmelzer, Joerg Peplies, Frank Oliver Glöckner, Rudolf Amann, Thilo Eickhorst & Paul Schulze-Lefert: Revealing structure and assembly cues for Arabidopsis root-inhabiting bacterial microbiota. Nature, 488, 91-95 (2012) PubMed

Davies, N., D. Field, F.O. Glöckner and The Genomic Observatories: Sequencing data: A genomic network to monitor Earth. Nature, 481, 145-145 (2012) PubMed

Ferrer, M., J. Werner, T. N. Chernikova, R. Bargiela, L. Fernandez, V. La Cono, J. Waldmann, H. Teeling, O. V. Golyshina, F. O. Glöckner, M. M. Yakimov, and P. N. Golyshin: Unveiling microbial life in the new deep-sea hypersaline Lake Thetis. Part II: a metagenomic study. Environmental Microbiology 14:268-281. (2012) PubMed

García-Aljaro, C., Ballesté, E., Rosselló-Móra, R., Cifuentes, A., M. Richter and A. R. Blanch: Neoscardovia arbecensis gen. nov., sp nov., isolated from porcine slurries. MicrobiologyVol.:35: 374-379. 2012 PubMed

Grote, J., T. Schott, C.G. Bruckner, F.O. Glöckner, G. Jost, H. Teeling, M. Labrenz and K. Juergens: Genome and physiology of a model Epsilonproteobacterium responsible for sulfide detoxification in marine oxygen depletion zones. Proc. Natl. Acad. Sci. USA, 109, 506-510. (2012) PubMed Full Text

Ionescu, D., C. Siebert, L. Polerecky, Y.Y. Munwes, C. Lott, S. Haeusler, M. Bizic-Ionescu, C. Quast, J. Peplies, F.O. Glöckner, et al.: Microbial and chemical characterization of underwater fresh water springs in the Dead Sea. PLoS One, 7, e38319 (2012) PubMed Full Text

Jogler, C., J. Waldmann, X. Huang, M. Jogler, F.O. Glöckner, T. Mascher and R. Kolter: Planctomycetes Comparative Genomics: Identification of Proteins Likely Involved in Morphogenesis, Cell Division and Signal Transduction. J Bacteriol, ;194(23):6419-30. doi: 10.1128/JB.01325-12. (2012) PubMed Full Text

Klindworth, A., E. Pruesse, T. Schweer, J. Peplies, C. Quast, M. Horn and F.O. Glöckner: Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies. Nucleic Acids Res, online, doi:10.1093/nar/gks1808. (2012) PubMed Full Text

Lampert, K. P., H. Fricke, K. Hissmann, J. Schauer, K. Blassmann, B. P. Ngatunga, and M. Schartl: Population divergence in East African coelacanths. Current Biology 22:R439-R440. (2012) PubMed Full Text

Pruesse, E., J. Peplies and F.O. Glöckner: SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes. Bioinformatics, 28, 1823-1829. (2012) PubMed Full Text

Quast C., Pruesse E., Yilmaz P., Gerken J., Schweer T., Yarza P., Peplies J. and F.O. Glöckner: The SILVA ribosomal RNA gene database project: improved data processing and web-based tools. Nucleic Acids Research online (2012) PubMed Full Text

Radom M., Rybarczyk A., Kottmann R., Formanowicz P., Szachniuk M., Glöckner F.O., Rebholz-Schuhmann D. and J. Blazewicz: Poseidon: An information retrieval and extraction system for metagenomic marine science. Ecological Informatics 12:10-15 (2012) ScienceDirect

Teeling, H., B.M. Fuchs, D. Becher, C. Klockow, A. Gardebrecht, C.M. Bennke, M. Kassabgy, S. Huang, A.J. Mann, J. Waldmann, Marc Weber, Anna Klindworth, Andreas Otto, Jana Lange, Jörg Bernhardt, Christine Reinsch, Michael Hecker, Jörg Peplies, Frank D. Bockelmann, Ulrich Callies, Gunnar Gerdts, Antje Wichels, Karen H. Wiltshire, Frank Oliver Glöckner, Thomas Schweder, Rudolf Amann: Substrate-controlled succession of marine bacterioplankton populations induced by a phytoplankton bloom. Science, 336, 608-611. (2012) PubMed

Teeling, H., and F.O. Glöckner: Current opportunities and challenges in microbial metagenome analysis - a bioinformatic perspective. Brief. Bioinform., 10.1093/bib/bbs1039. (2012) PubMed Full Text

Tuama, E. O., J. Deck, G. Droge, M. Doring, D. Field, R. Kottmann, J. C. Ma, H. Mori, N. Morrison, P. Sterk, H. Sugawara, J. Wieczorek, L. H. Wu, and P. Yilmaz: Meeting Report: Hackathon-Workshop on Darwin Core and MIxS Standards Alignment (February 2012). Standards in Genomic Sciences 7:166-170. (2012) PubMed Full Text

Voigt, B., C.X. Hieu, K. Hempel, D. Becher, R. Schluter, H. Teeling, F.O. Glöckner, R. Amann, M. Hecker and T. Schweder: Cell surface proteome of the marine planctomycete Rhodopirellula baltica. Proteomics, 12, 1781-1791. (2012) PubMed

Yilmaz, P., M.H. Iversen, W. Hankeln, R. Kottmann, C. Quast and F.O. Glöckner: Ecological structuring of bacterial and archaeal taxa in surface ocean waters. FEMS Microbiol Ecol, 81, 373-385. (2012) PubMed

Ph.D theses

Klindworth; Anna: RNA based research – development, application and analysis within the MIMAS project. Bremen, Jacobs Univ., Diss., 2012

Weber, Marc: Capturing Biodiversity in Metagenomic Data – Design, Implementation and Evaluation of a Bioinformatic Method for Binning and Classification of DNA Sequences. Bremen, Jacobs Univ., Diss., 2012

Marine Geochemistry Group

Dittmar, T., Paeng, J., Gihring, T.M., Suryaputra, IGNA and M. Huettel: Discharge of dissolved black carbon from a fire-affected intertidal system. Limnology and Oceanography 47, 1171-1181. (2012) ASLO Full Text

Dittmar, T., C.E. Rezende, M. Manecki, J. Niggemann, A.R.C. Ovalle, A. Stubbins and M.C. Bernardes: Continuous flux of dissolved black carbon from a vanished tropical forest biome. Nature Geoscience 5, 618-622. (2012) Nature

Franz, J.M.S., H. Hauss, U. Sommer, T. Dittmar and U. Riebesell: Production, partitioning and stoichiometry of organic matter under variable nutrient supply during mesocosm experiments in the tropical Pacific and Atlantic Ocean. Biogeosciences, in press. (2012) Biogeosciences Full Text

Franz, J.M.S., G. Krahmann, G. Lavik, P. Grasse, T. Dittmar and U. Riebesell: Dynamics and stoichiometry of nutrients and phytoplankton in waters influenced by the oxygen minimum zone in the eastern tropical Pacific. Deep Sea Research I 62, 20-31. (2012) ScienceDirect

Halm, H., P. Lam, T.G. Ferdelman, G. Lavik, T. Dittmar, J. LaRoche, S. D′Hondt and M.M.M. Kuypers: Heterotrophic organisms dominate nitrogen fixation in the South Pacific Subtropical Gyre. The ISME Journal 6, 1238–1249. (2012) PubMed Full Text

Ionescu, D., C. Siebert, L. Polerecky, Y.Y. Munwes, C. Lott, S. Haeusler, M. Bižić-Ionescu, C. Quast, J. Peplies, F.O. Glöckner, A. Ramette, T. Roediger, T. Dittmar, A. Oren, S. Geyer, H.-J. Stärk, M. Sauter, T. Licha, J.B. Laronne and D. de Beer: Microbial and Chemical Characterization of underwater fresh water springs in the Dead Sea. PLoS One 7 (6), e38319. doi:10.1371/journal.pone.0038319 (2012) PubMed Full Text

Jaffé, R., Y. Yamashita, N. Maie, W.T. Cooper, T. Dittmar, W.K. Dodds, J.B. Jones, T. Myoshi, J.R. Ortiz-Zayas, D.C. Podgorski and A. Watanabe: Dissolved organic matter in headwater streams: compositional variability across climatic regions. Geochimica et Cosmochimica Acta 94, 95-108. (2012) ScienceDirect

Riedel, T., H. Biester and T. Dittmar: Molecular fractionation of dissolved organic matter with metal salts. Environmental Science and Technology 46, 4419âˆ’4426. (2012) PubMed

Singer, G.A., C. Fasching, L. Wilhelm, J. Niggemann, P. Steier, T. Dittmar and T.J. Battin: Biogeochemically diverse organic matter in Alpine glaciers and its downstream fate. Nature Geoscience 5, 710-714. (2012) Nature

Seidel, M., J. Graue, B. Engelen, J. Koester, H. Sass and J. Rullkötter: Advection and diffusion determine vertical distribution of microbial communities in intertidal sediments as revealed by combined biogeochemical and molecular biological analysis. Org. Geochem. 10.1016/j.orggeochem.2012.08.015. (2012) ScienceDirect

Stubbins, A., J. Niggemann and T. Dittmar: Photo-lability of deep ocean dissolved black carbon. Biogeosciences 9, 1661-1670. (2012) Biogeosciences Full Text

Stubbins, A. and T. Dittmar: Low volume quantification of dissolved organic carbon and dissolved nitrogen. Limnology and Oceanography: Methods 10, 347-352. (2012) ASLO

Taucher, J., K.G. Schulz, T. Dittmar, U. Sommer, A. Oschlies and U. Riebesell: Enhanced carbon overconsumption in response to increasing temperatures during a mesocosm experiment. Biogeosciences 9, 3531-3545. (2012) Biogeosciences Full Text

Ph.D theses

Suryaputra, I Gusti N.A.: Fluorescent dissolved organic matter (FDOM) in the coastal ocean: characterization, biogeochemical processes, and the possibility of in situ monitoring. Oldenburg, Univ., Diss., 2012

HGF MPG Deep-Sea Ecology and Technology Group

Abed, R.M.M., A. Ramette, V. Hübner, P. De Deckker and D. de Beer: Microbial diversity of eolian dust sources from saline lake sediments and biological soil crusts in arid Southern Australia. FEMS Microbiology Ecology 80, 294-304. (2012) PubMed

Amend, A.S., Oliver, T.A., Amaral-Zettler, L.A., Boetius, A., Fuhrman, J.A., Horner-Devine, M.C., Huse, S.M., Welch, D.B.M., Martiny, A.C., Ramette, A., Zinger, L., M.L. Sogin and J.B.H. Martiny: Macroecological patterns of marine bacteria on a global scale. Journal of Biogeography, doi: 10.1111/jbi.12034. (2012) PubMed

Bauermeister, J., A. Ramette and S. Dattagupta: Repeatedly evolved host-specific ectosymbioses between sulfur-oxidizing bacteria and amphipods living in a cave ecosystem. PLoS One 7, e50254. (2012) PubMed Full Text

Bernardello, R., J. G. Cardoso, N. Bahamon, D. Donis, I. Marinov, and A. Cruzado: Factors controlling interannual variability of vertical organic matter export and phytoplankton bloom dynamics - a numerical case-study for the NW Mediterranean Sea. Biogeosciences 9:4233-4245. (2012) Biogeosciences Full Text

Biddle, J.F., Z. Cardman, H. Mendlovitz, D.B. Albert, K.G. Lloyd, A. Boetius and A. Teske: Anaerobic oxidation of methane at different temperature regimes in Guaymas Basin hydrothermal sediments. The ISME Journal 6, 1018-1031. (2012) PubMed Full Text

Bienhold, C., A. Boetius and A. Ramette: The energy-diversity relationship of complex bacterial communities in Arctic deep-sea sediments. The ISME Journal 6, 724-732. (2012) PubMed Full Text

Böggemann, M., C. Bienhold and S.M. Gaudron: A new species of Glyceridae (Annelida: "Polychaeta") recovered from organic substrate experiments at cold seeps in the eastern Mediterranean Sea. Marine Biodiversity 42, 47-54. (2012) Springer

Borda, E., J.D. Kudenov, C. Bienhold and G. Rouse: Towards a revised Amphinomidae (Annelida, Amphinomida): description and affinities of a new genus and species from the Nile Deep-sea Fan, Mediterranean Sea. Zoologica Scripta 41, 307-325. (2012) Wiley

Chipman, L., M. Huettel, P. Berg, V. Meyer, I. Klimant, R.N. Glud and F. Wenzhoefer: Oxygen optodes as fast sensors for eddy correlation measurements in aquatic systems. Limnology and Oceanography: Methods 10, 304-316. (2012) ASLO Full Text

Decker, C., M. Morineaux, S. Van Gaever, J.-C. Caprais, A. Lichtschlag, O. Gauthier, A.C. Andersen and K. Olu: Habitat heterogeneity influences cold-seep macrofaunal communities within and among seeps along the Norwegian margin. Part 1: macrofaunal community structure. Marine Ecology 33, 205-230. (2012) Wiley

Fischer, J. and K. Koop-Jakobsen: The multi fiber optode (MuFO): A novel system for simultaneous analysis of multiple fiber optic oxygen sensors. Sensors and Actuators B 168, 354-359. (2012) ScienceDirect

Grünke, S., A. Lichtschlag, D. de Beer, J. Felden, V. Salman, A. Ramette, H.N. Schulz-Vogt and A. Boetius: Mats of psychrophilic thiotrophic bacteria associated with cold seeps of the Barents Sea. Biogeosciences 9, 2947-2960. (2012) Biogeosciences Full Text

Ionescu, D., C. Siebert, L. Polerecky, Y.Y. Munwes, C. Lott, S. Häusler, M. Bižić-Ionescu, C. Quast, J. Peplies, F.O. Glöckner, A. Ramette, T. Rödiger, T. Dittmar, A. Oren, S. Geyer, H.-J. Stärk, M. Sauter, T. Licha, J.B. Laronne and D. de Beer: Microbial and chemical characterization of underwater fresh water springs in the Dead Sea. PLoS One 7, e38319. (2012) PubMed Full Text

Kellermann, M.Y., G. Wegener, M. Elvert, M.Y. Yoshinaga, Y.-S. Lin, T. Holler, X. Prieto Mollar, K. Knittel, and K.-U. Hinrichs: Autotrophy as predominant mode of carbon fixation in anaerobic methane-oxidizing communities. Proceedings of the National Academy of Sciences, vol. 109 no. 47; 19321-19326; doi: 10.1073/pnas.1208795109. (2012) PubMed Full Text

Kleindienst, S., A. Ramette, R. Amann and K. Knittel: Distribution and in situ abundance of sulfate-reducing bacteria in diverse marine hydrocarbon seep sediments. Environmental Microbiology 14, 2689-2710. (2012) PubMed

Mau, S., M. B. Heintz, and D. L. Valentine: Quantification of CH4 loss and transport in dissolved plumes of the Santa Barbara Channel, California. Continental Shelf Research 32:110-120. (2012) ScienceDirect

Milucka, J., T.G Ferdelman, L. Polerecky, D. Franzke, G. Wegener, M. Schmid, I. Lieberwirth, M. Wagner, F. Widdel and M.M.M. Kuypers: Zero-valent sulphur is a key intermediate in marine methane oxidation. Nature, Vol. 491, 541–546 ;doi: 10.1038/nature11656. (2012) PubMed

Pop Ristova, P., Wenzhoefer, F., Ramette, A., Zabel, M., Fischer, D., S. Kasten and A. Boetius: Bacterial diversity and biogeochemistry of different chemosynthetic habitats of the REGAB cold seep (West African margin, 3160 m water depth). Biogeosciences 9, 5031-5048. (2012) Biogeosciences Full Text

Radax, R., F. Hoffmann, H. T. Rapp, S. Leininger, and C. Schleper: Ammonia-oxidizing archaea as main drivers of nitrification in cold-water sponges. Environmental Microbiology 14:909-923. (2012) PubMed

Schoettner, S., C. Wild, F. Hoffmann, A. Boetius and A. Ramette: Spatial scales of bacterial diversity in cold-water coral reef ecosystems. PLoS One 7, e32093. (2012) PubMed Full Text

Wegener, G., M. Bausch, T. Holler, N.M. Thang (Nguyen Manh Thang), X. Prieto Mollar, M.Y. Kellermann, K.-U. Hinrichs and A. Boetius: Assessing sub-seafloor microbial activity by combined stable isotope probing with deuterated water and 13C-bicarbonate. Environmental Microbiology 14, 1517-1527. (2012) PubMed

Yanagawa, K., Y. Morono, D. de Beer, M. Haeckel, M. Sunamura, T. Futagami, T. Hoshino, T. Terada, K. Nakamura, T. Urabe, G. Rehder, A. Boetius and F. Inagaki: Metabolically active microbial communities in marine sediment under high-CO2 and low-pH extremes. The ISME Journal, doi: 10.1038/ismej.2012.124. (2012) PubMed Full Text

Zinger, L., A. Gobet and T. Pommier: Two decades of describing the unseen majority of aquatic microbial diversity. Molecular Ecology 21, 1878-1896 (2012) PubMed

Other publications (book chapters)

Sergeeva, N.G., A.J. Gooday, S.A. Mazlumyan, E.A. Kolesnikova, A. Lichtschlag, T.N., Kosheleva and O.V. Anikeeva: Meiobenthos of the oxic/anoxic interface in the south-western region of the Black Sea: abundance and taxonomic composition. In A.V. Altenbach, J.M. Bernhard and J. Seckbach (eds). Anoxia: Evidence for eukaryote survival and paleontological strategies, Springer Netherlands, pp. 369-401. (2012) Full Text

Youle, M., F. Rohwer, A. Stacy, M. Whiteley, B.C. Steel, N.J. Delalez, A.L. Nord, R.M. Berry, J.P. Armitage, S. Kamoun, S. Hogenhout, S.P. Diggle, J. Gurney, E.J.G. Pollitt, A. Boetius and S.C. Cary: The Microbial Olympics. Nature Reviews Microbiology 10, 583-588. (2012) Full Text

Ph.D. theses

Pop Ristova, P.: Biogeochemical activity and associated biodiversity at reduced deep-sea hotspot ecosystems. Bremen, Univ., Diss., 2012

Neumann, J.: Effect of high CO2 and low pH on benthic communities of the deep sea. Bremen, Univ., Diss., 2012

Microbial Fitness Group

Luesken, F. A., Wu, M. L., den Camp, H. J. M. O., Keltjens, J. T., Stunnenberg, H., Francoijs, K. J., M. Strous and M. S. M. Jetten: Effect of oxygen on the anaerobic methanotroph 'Candidatus Methylomirabilis oxyfera': kinetic and transcriptional analysis. Environ Microbiol. 2012 Apr;14(4):1024-34. doi: 10.1111/j.1462-2920.2011.02682.x. (2012) PubMed

Nolla-Ardevol, V., Strous, M., Sorokin, D. Y., A. Y. Merkel and H. E. Tegetmeyer: Activity and diversity of haloalkaliphilic methanogens in Central Asian soda lakes. J Biotechnol. 2012 Oct 15;161(2):167-73. doi: 10.1016/j.jbiotec.2012.04.003. (2012) PubMed

Schlegel, S., Lofblom, J., Lee, C., Hjelm, A., Klepsch, M., Strous, M., Drew, D., D. J. Slotboom and J. W. de Gier: Optimizing Membrane Protein Overexpression in the Escherichia coli strain Lemo21(DE3) J Mol Biol. 2012 Nov 2;423(4):648-59. doi: 10.1016/j.jmb.2012.07.019. (2012) PubMed

Strous, M., Kraft, B., R. Bisdorf and H. E. Tegetmeyer: The binning of metagenomic contigs for microbial physiology of mixed cultures. Frontiers in Microbial Physiology and Metabolism fmicb.2012.00410 (2012) PubMed Full Text

Winkler, M. K. H., Kleerebezem, R., Strous, M., K. Chandran and M. C. M. Van Loosdrecht: Factors influencing the density of aerobic granular sludge. Applied Microbiology and Biotechnology 10.1007/s00253-012-4459-4. (2012) PubMed

Wu, M. L., van Alen, T. A., van Donselaar, E. G., Strous, M., M. S. M. Jetten and L. van Niftrik.: Co-localization of particulate methane monooxygenase and cd(1) nitrite reductase in the denitrifying methanotroph 'Candidatus Methylomirabilis oxyfera'. FEMS Microbiol Lett. 2012 Sep;334(1):49-56. doi: 10.1111/j.1574-6968.2012.02615.x. (2012) PubMed

Wu, M. L., van Teeseling, M. C. F., Willems, M. J. R., van Donselaar, E. G., Klingl, A. Rachel, R., Geerts, W. J. C., Jetten, M. S. M., M. Strous and L. van Niftrik: Ultrastructure of the Denitrifying Methanotroph "Candidatus Methylomirabilis oxyfera," a Novel Polygon-Shaped Bacterium. J. Bacteriol. January 2012 vol. 194 no. 2 284-291 (2012) PubMed Full Text

Group for Marine Isotope Geochemistry

Pahnke, K., T. van de Flierdt, K. M. Jones, M. Lambelet, S. R. Hemming, and S. L. Goldstein: GEOTRACES intercalibration of neodymium isotopes and rare earth element concentrations in seawater and suspended particles. Part 2: Systematic tests and baseline profiles. Limnology and Oceanography-Methods 10:252-269. (2012) ASLO Full Text