*In Press*	Musat, N., R. Foster, T. Vagner, B. Adam and M.M.M. Kuypers (2011) Detecting metabolic activities in single cells, with emphasis on nanoSIMS. FEMS Microbiology Reviews, doi: 10.1111/j.1574-6976.2011.00303.x
2011	Abed, R.M.M., N. Musat, F. Musat and M. Mußmann (2011). Structure of microbial communities and hydrocarbon-dependent sulfate reduction in the anoxic layer of a polluted microbial mat. Marine Pollution Bulletin, 62, p. 539-546.
	Foster R.A., M.M.M. Kuypers, T. Vagner, R.W. Pearl, N. Musat, and J.P. Zehr (2011). Nitrogen fixation and transfer in open ocean diatom-cyanobacterial symbioses. The ISME Journal, doi:10.1038/ismej.2011.26. Open Access
	Holtappels, M. , M. M.M. Kuypers, M. Schlüter, and V. Brüchert. Measurement and interpretation of solute concentration gradients in the benthic boundary layer, Limnology and Oceanography Methods, 9, 1-13.
	Holtappels, M., G. Lavik, M. M. Jensen, and M. M. M. Kuypers (2011) 15N-Labeling Experiments to Dissect the Contributions of Heterotrophic Denitrification and Anammox to Nitrogen Removal in the OMZ Waters of the Ocean. In: Methods in Enzymology, Vol 486, pp 223-251. Ed: Martin G. Klotz
	Holtappels, M. and A. Lorke. Estimating turbulent diffusion in a benthic boundary layer. Limnology and Oceanography methods, 9, 29-41.
	Jensen, M. M., Lam, P., Revsbech, N. P., Nagel, B., Gaye, B., Jetten, M. S. M. and Kuypers, M. M. M. (2011). Intensive nitrogen loss over the Omani Shelf due to anammox coupled with dissimilatory nitrite reduction to ammonium. ISME J., doi:10.1038/ismej.2011.44.
	Lam, P., Jensen, M. M., Kock, A., Lettmann, K. A., Plancherel, Y., Lavik, G., Bange, H. W. and Kuypers, M. M. M. (2011). Origin and fate of the secondary nitrite maximum in the Arabian Sea. Biogeosciences, 8, 1565-1577.
	Lam, P. and Kuypers, M. M. M. (2011) Microbial Nitrogen Cycling Processes in Oxygen Minimum Zones. Annual Reviews of Marine Science, 3, 317–345.
	Lenk, S., J. Arnds, K. Zerjatke, N. Musat, R. Amann, and M. Mußmann (2011). Novel groups of Gammaproteobacteria catalyse sulfur oxidation and carbon fixation in a coastal, intertidal sediment. Environmental Microbiology, 13 (3), p. 758-774.
	Ploug, H., B. Adam, N. Musat, T. Kalvelage, G. Lavik, D. Wolf-Gladrow and M.M.M. Kuypers (2011). Carbon, nitrogen and O2 fluxes associated with the cyanobacterium Nodularia spumigena in the Baltic Sea, The ISME Journal, doi:10.1038/ismej.2011.20.
2010	Contreras, S. S. Pantoja, C.B. Lange, G. Lavik, D. Rincón-Martínez and M.M.M. Kuypers (2010) A rainy northern Atacama Desert during the last interglacial, Geophysical Research Letters, doi: 10.1029/2010GL045728.
	Ettwig, K. F., M. K. Butler, D. Le Paslier, E. Pelletier, S. Mangenot, M.M.M. Kuypers, F. Schreiber, B. E. Dutilh, J. Zedelius, D. de Beer, J. Gloerich, H.J.C.T. Wessels, T. van Alen, F. Luesken, M.L. Wu, K.T. van de Pas-Schoonen, H.J.M. Op den Camp, E.M. Janssen-Megens, K.-J. Francoijs, H. Stunnenberg, J. Weissenbach, M.S.M. Jetten, M. Strous (2010) Nitrite-driven anaerobic methane oxidation by oxygenic bacteria, Nature, 464, 543-548.
	Gao, H., F. Schreiber, G. Collins, M. M. Jensen, J. E Kostka, G. Lavik, D. de Beer, H.-Y. Zhou, M. M. M. Kuypers (2010) Aerobic denitrification in permeable Wadden Sea sediments, The ISME Journal, 4, 417-426.
	Gihring, T. M., G. Lavik, M. M. M. Kuypers, J. E. Kostka (2010) Direct determination of nitrogen cycling rates and pathways in Arctic fjord sediments (Svalbard, Norway), Limnology and Oceanography, 55, 740–752.
	Grünke, S., A. Lichtschlag, D. de Beer, M.M.M. Kuypers, T. Lösekann-Behrens, A. Ramette, A. Boetius (2010) Novel observations of Thiobacterium, a sulfur-storing Gammaproteobacterium producing gelatinous mat, The ISME Journal, 4, 1031–1043, doi:10.1038/ismej.2010.23
	Holtappels, M., G. Lavik, M.M. Jensen and M.M.M. Kuypers (2010) 15N-labeling experiments to dissect the contributions of heterotrophic denitrification and anammox to nitrogen removal in the OMZ waters of the ocean. Ed. M. Klotz, In Methods in Microbiology, 486, pp. 223-251.
	Kraal, P. C. P. Slomp, A. Forster and M.M.M. Kuypers (2010) Phosphorus cycling from the margin to abyssal depths in the proto-Atlantic during oceanic anoxic event 2. Palaeogeography, Palaeoclimatology, Palaeoecology, 295, 42-54.
	Lam, P. and M.M.M. Kuypers (2010) Microbial Nitrogen Cycling Processes in Oxygen Minimum Zones, Annual Review of Marine Science, doi:10.1146/annurev-marine-120709-142814
	Moraru, C., P. Lam, B. M. Fuchs, M. M. M. Kuypers and R. Amann (2010) GeneFISH – an in situ technique for linking gene presence and cell identity in environmental microorganisms, Environmental Microbiology, 12, 3057–3073.
	Musat, N., B. Adam, M.M.M. Kuypers (2010) NanoSIMS coupled with in situ hybridization for ecological research in Stable Isotope Probing in Microbial Molecular Ecology (eds: J.Colin Murell and Andrew S. Whiteley), ASM press (pp: 295-303).
	Ploug H., Musat N., Adam B., Moraru C.L., Lavik G., Vagner T., Bergman B, M.M.M. Kuypers (2010) Carbon and nitrogen fluxes associated with the cyanobacterium Aphanizomenon sp. in the Baltic Sea. The ISME Journal, 4, 1215–1223.
	Rattray, J. E., J. van de Vossenberg, A. Jaeschke, E. C. Hopmans, S. G. Wakeham, G. Lavik, M.M.M. Kuypers, M. Strous, M. S.M. Jetten, S. Schouten, J. S. Sinninghe Damsté (2010) Impact of Temperature on Ladderane Lipid Distribution in Anammox Bacteria, Applied and Environmental Microbiology, 76, 1596-1603.
	Schläppy, M.-L., S. I. Schöttner, G. Lavik, M. M. M. Kuypers, D. de Beer, F. Hoffmann (2010) Evidence for nitrification and denitrification in high and low microbial abundance sponges, Marine Biology, 157, 593-602.
2009	Galan A, V. Molina=, B. Thamdrup, D. Woebken, G. Lavik, M.M.M. Kuypers, O. Ulloa (2009) Anammox bacteria and the anaerobic oxidation of ammonium in the oxygen minimum zone off northern Chile. Deep-Sea Research Part II-Topical Studies in Oceanography, 56, 1125-1135.
	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 (2009) Co-occurrence of denitrification and nitrogen fixation in a meromictic lake, Lake Cadagno (Switzerland). Environmental Microbiology, 11, 1945-1958.
	Hamersley, M.R., D. Woebken, B. Boehrer, M. Schultze, G. Lavik, and M. M. M. Kuypers. (2009) Water column anammox and denitrification in a temperate permanently stratified lake (Lake Rassnitzer, Germany). Systematic and Applied Microbiology 32, 571-582.
	Hoffmann, F., R. Radax, D. Woebken, M. Holtappels, G. Lavik, H.T. Rapp, M.-L. Schläppy, C. Schleper, M.M.M. Kuypers (2009) Complex nitrogen cycling in the sponge Geodia barrette, Environmental Microbiology, 11, 2228-2243.
	Holler, T., G. Wegener, K. Knittel, A. Boetius, B. Brunner, M. M. M. Kuypers, F. Widdel (2009) Substantial 13C/12C and D/H fractionation during anaerobic oxidation of methane by marine consortia enriched in vitro, Environmental Microbiology Reports, 1, 370-376.
	Holtappels, M., M. Stubbe, J. Gimsa (2009). AC-field-induced fluid pumping in microsystems with asymmetric temperature gradients. Physical Review E, 79, 026309.
	Jensen, M. M., Petersen, J., Dalsgaard, T. and B. Thamdrup. (2009). Pathways, rates, and regulation of N2 production in the chemocline of an anoxic basin, Mariager Fjord, Denmark. Marine Chemistry, 113, 102-113.
	Kraal, P., C.P. Slomp, A. Forster, M.M.M. Kuypers, A. Sluijs (2009) Pyrite oxidation during sample storage determines phosphorus fractionation in carbonate-poor anoxic sediments. Geochimica et Cosmochimica Acta, 73, 3277-3290.
	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 (2009) Detoxification of sulphidic African shelf waters by blooming chemolithotrophs. Nature, 457, 581-584.
	Lam, P., G. Lavik, M. M. Jensen, J. van de Vossenberg, M. Schmid, D. Gutiérrez, R. Amann, M.S M. Jetten and M.M.M. Kuypers (2009) Revising the nitrogen cycle in the Peruvian oxygen minimum zone, PNAS, 104, 7104–7109.
	Paulmier, A., Kriest, I. and Oschlies, A. (2009). Stoichiometries of remineralisation and denitrification in global biogeochemical ocean models. Biogeosciences, 6, 923-935.
	Schreiber, F., B. Loeffler, L. Polerecky, M.M.M. Kuypers, D. de Beer (2009) Mechanisms of Transient Nitric Oxide and Nitrous Oxide Production in a Complex Biofilm, The ISME Journal, 3, 1301-1313.
2008	Damsté, J.S.S., M. M. M. Kuypers, R.D. Pancost, and S. Schouten (2008) The carbon isotopic response of algae, (cyano)bacteria, archaea and higher plants to the late Cenomanian perturbation of the global carbon cycle: Insights from biomarkers in black shales from the Cape Verde Basin (DSDP Site 367), Organic Geochemistry, 39, 1703–1718.
	Duce, R.A., J. LaRoche, K. Altieri, K.R. Arrigo, A.R. Baker, D.G. Capone, S. Cornell, F. Dentener, J. Galloway, R.S. Ganeshram, R.J. Geider, T. Jickells, M.M.M. Kuypers, R. Langlois, P.S. Liss, S.M. Liu, J.J. Middelburg, C.M. Moore, S. Nickovic, A. Oschlies, T. Pedersen, J. Prospero, R. Schlitzer, S. Seitzinger, L.L. Sorensen, M. Uematsu, O. Ulloa, M. Voss, B. Ward, L. Zamora (2008) Impacts of atmospheric anthropogenic nitrogen on the open ocean, Science, 320, 893-897.
	Forster, A., M. M. M. Kuypers, S.C. Turgeon, H.-J. Brumsack, M.R. Petrizzo, J.S. Sinninghe Damsté (2008) The Cenomanian/Turonian oceanic anoxic event in the South Atlantic: New insights from a geochemical study of DSDP Site 530A, Palaeogeography, Palaeoclimatology, Palaeoecology, 267, 256–283.
	Galán, A., V. Molina, B. Thamdrup, D. Woebken, G. Lavik, M. M. M. Kuypers and O. Ulloa (2008) Anammox bacteria and the anaerobic oxidation of ammonium in the oxygen minimum zone off northern Chile, Deep Sea Research Part II: Topical Studies in Oceanography, 56, 1021-1031.
	Jensen, M.M., M.M.M. Kuypers, G. Lavik, and B. Thamdrup (2008) Rates and regulation of anaerobic ammonium oxidation and denitrification in the Black Sea, Limnology and Oceanography, 53, 23–36
	Lam, P., Cowen, J. P., Popp, B. N. & Jones, R. D. (2008). Microbial Ammonia Oxidation and Enhanced Nitrogen Cycling in the Endeavour Hydrothermal Plume. Geochimica et Cosmochimica Acta, 72, 2268-2286.
	Musat, N., H. Halm, B. Winterholler, P. Hoppe, S. Peduzzi, F. Hillion, F. Horreard, R. Amann, B.B. Jørgensen, and M.M.M. Kuypers (2008) A single cell view on the ecophysiology of anaerobic phototrophic bacteria, PNAS, 105, 17861–17866.
	Schmid, M.C., A.B. Hooper, M.G. Klotz, D. Woebken, P. Lam, M.M.M. Kuypers, A. Pommerening-Roeser, H.J.M. op den Camp, M.S.M. Jetten (2008) Environmental detection of the octaheme cyctochrome c hydroxylamine/hydrazine oxidoreductase genes of aerobic and anaerobic ammonium-oxidizing bacteria, Environmental Microbiology, 10, 3140–3149.
	Schwermer, C.U., G. Lavik, R. M. M. Abed, B. Dunsmore, T. G. Ferdelman, P. Stoodley, et al. (2008) Impact of nitrate on the structure and function of bacterial biofilm communities in pipelines used for injection of seawater into oil fields. Applied and Environmental Microbiology, 74, 2841-2851.
	Woebken, D., P. Lam, M.M.M. Kuypers, S.W.A. Naqvi, B. Kartal, M. Strous, M.S.M. Jetten, B.M. Fuchs, and R. Amann (2008) A microdiversity study of anammox bacteria reveals a novel Candidatus Scalindua phylotype in marine oxygen minimum zones, Environmental Microbiology, 10, 3106–3119.