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page last updated August 2019

2019 Basu, S., Gledhill, M., de Beer, D., Prabhu Matondkar, S. G., & Shaked, Y. (2019). Colonies of marine cyanobacteria Trichodesmium interact with associated bacteria to acquire iron from dust. Communications Biology, 2(1), 284. doi: 10.1038/s42003-019-0534-z
   de Beer, D., Ferdelman, T., MacGregor, BJ, Teske, A., & Schutte, CA (2019). Beggiatoaceae from a Guaymas Basin vent site. In A. Teske (Ed.), (Pp. Accepted): Springer Verlag.
  Eichner, M., Basu, S., Gledhill, M., de Beer, D., & Shaked, Y. (2019). Hydrogen Dynamics in Trichodesmium Colonies and Their Potential Role in Mineral Iron Acquisition. [Original Research]. Frontiers in microbiology, 10 (1565). doi: 10.3389 / fmicb.2019.01565
  Eichner, M., Thoms, S., Rost, B., Mohr, W., Ahmerkamp, ​​S., Ploug, H., Kuypers, MMM, & de Beer, D. (2019). N2 fixation in free-floating filaments of Trichodesmium is higher than in transiently suboxic colony microenvironments. New Phytologist, 222 (2), 852-863. doi: 10.1111 / nph.15621
  Karsten, U., Schaub, I., Woelfel, J., Sevilgen, DS, Schlie, C., Becker, B., Wulff, A., Graeve, M., & Wagner, H. (2019). Living on Cold Substrata: New Insights and Approaches in the Study of Microphytobenthos Ecophysiology and Ecology in Kongsfjorden. In H. Hop & C. Wiencke (Eds.), The Ecosystem of Kongsfjorden, Svalbard (pp. 303-330). Cham: Springer International Publishing.
  Sevilgen, DS, Venn, AA, Hu, MY, Tambutté, E., de Beer, D., Planas-Bielsa, V., & Tambutté, S. (2019). Full in vivo characterization of carbonate chemistry at the site of calcification in coral. Science Advances, 5 (1), eaau7447. doi: 10.1126 / sciadv.aau7447
  Shaked, Y., Subhajit, B., Gledhill, M., & de Beer, D. (2019). The mutual quest of Trichodesmium colonies and associated bacteria for iron from dust. Comm. Biol., Accepted. 
  Stemmer, K., Brey, T., Gutbrod, M., Beutler, M., Schalkhauser, B., & De Beer, D. (2019). In situ measurements of pH, Ca2 + and DIC dynamics in the extrapallial fluid of the ocean quahog Arctica islandica. J Shellfish Research, accepted



Brocke, H. J., Piltz, B., Herz, N., Abed, R. M. M., Palinska, K. A., John, U., Haan, J. d., de Beer, D., & Nugues, M. M. (2018). Nitrogen fixation and diversity of benthic cyanobacterial mats on coral reefs in Curaçao. Coral Reefs, 37(3), 861-874. doi: 10.1007/s00338-018-1713-y
  de Beer, D., Ferdelman, T., MacGregor, B. J., Teske, A., & Schutte, C. A. (2018). Growth patterns of giant deep sea Beggiatoaceae from a Guaymas Basin vent site. In A. Teske (Ed.), Microbiology and Biogeochemistry of Hydrocarbon Seeps. Berlin: Springer Verlag.
  de Beer, D., Meyer, V., Klatt, J. M., & Li, T. (2018). Photosynthesis under very high oxygen concentrations in dense microbial mats and biofilms. BIORXIV, 335299. doi: 10.1101/335299 
  Haas, S., de Beer, D., Klatt, J. M., Fink, A., Rench, R. M., Hamilton, T. L., Meyer, V., Kakuk, B., & Macalady, J. L. (2018). Low-Light Anoxygenic Photosynthesis and Fe-S-Biogeochemistry in a Microbial Mat. [Original Research]. Frontiers in microbiology, 9(858). doi: 10.3389/fmicb.2018.00858
  Hamilton, T. L., Klatt, J. M., de Beer, D., & Macalady, J. L. (2018). Cyanobacterial photosynthesis under sulfidic conditions: insights from the isolate Leptolyngbya sp. strain hensonii. [Original Article]. The Isme Journal, 12, 568. doi: 10.1038/ismej.2017.193
  Hofmann, L. C., Schoenrock, K., & de Beer, D. (2018). Arctic Coralline Algae Elevate Surface pH and Carbonate in the Dark. [Original Research]. Frontiers in Plant Science, 9(1416). doi: 10.3389/fpls.2018.01416
  Li, T., Sharp, C. E., Ataeian, M., Strous, M., & de Beer, D. (2018). Role of Extracellular Carbonic Anhydrase in Dissolved Inorganic Carbon Uptake in Alkaliphilic Phototrophic Biofilm. [Original Research]. Frontiers in microbiology, 9(2490). doi: 10.3389/fmicb.2018.02490
  Molari, M., Guilini, K., Lott, C., Weber, M., de Beer, D., Meyer, S., Ramette, A., Wegener, G., Wenzhöfer, F., Martin, D., Cibic, T., De Vittor, C., Vanreusel, A., & Boetius, A. (2018). CO2 leakage alters biogeochemical and ecological functions of submarine sands. Science Advances, 4(2), eaao2040. doi: 10.1126/sciadv.aao2040
  Schutte, C. A., Ahmerkamp, S., Wu, C. S., Seidel, M., de Beer, D., Cook, P. L. M., & Joye, S. B. (2018). Biogeochemical Dynamics of Coastal Tidal Flats. In E. W. Gerardo M.E. Perillo, Donald R. Cahoon, Mark M. Brinson (Ed.), Coastal Wetlands (pp. in press). Amsterdam: Elsevier.
  Schutte, C. A., Teske, A., MacGregor, B. J., Salman-Carvalho, V., Lavik, G., Hach, P., & de Beer, D. (2018). Filamentous Giant Beggiatoaceae from the Guaymas Basin Are Capable of both Denitrification and Dissimilatory Nitrate Reduction to Ammonium. Applied and Environmental Microbiology, 84(15), e02860-02817. doi: 10.1128/aem.02860-17
2017 Abed, R. M. M., Kohls, K., Leloup, J., & de Beer, D. (2017). Abundance and diversity of aerobic heterotrophic microorganisms and their interaction with cyanobacteria in the oxic layer of an intertidal hypersaline cyanobacterial mat. FEMS Microbiology Ecology, 94(2). doi: 10.1093/femsec/fix183
  Ahmerkamp, S., Winter, C., Krämer, K., Beer, D. d., Janssen, F., Friedrich, J., Kuypers, M. M. M., & Holtappels, M. (2017). Regulation of benthic oxygen fluxes in permeable sediments of the coastal ocean. Limnology and Oceanography, 62(5), 1935-1954. doi: 10.1002/lno.10544
  Chennu, A., Färber, P., De’ath, G., de Beer, D., & Fabricius, K. E. (2017). A diver-operated hyperspectral imaging and topographic surveying system for automated mapping of benthic habitats. Scientific Reports, 7(1), 7122. doi: 10.1038/s41598-017-07337-y
  de Beer, D., Weber, M., Chennu, A., Hamilton, T., Lott, C., Macalady, J., & M. Klatt, J. (2017). Oxygenic and anoxygenic photosynthesis in a microbial mat from an anoxic and sulfidic spring. Environmental Microbiology, 19(3), 1251-1265. doi: 10.1111/1462-2920.13654
  Fink, A., den Haan, J., Chennu, A., Uthicke, S., & de Beer, D. (2017). Ocean Acidification Changes Abiotic Processes but Not Biotic Processes in Coral Reef Sediments. [Original Research]. Frontiers in Marine Science, 4(73). doi: 10.3389/fmars.2017.00073
  Guilini, K., Weber, M., de Beer, D., Schneider, M., Molari, M., Lott, C., Bodnar, W., Mascart, T., De Troch, M., & Vanreusel, A. (2017). Response of Posidonia oceanica seagrass and its epibiont communities to ocean acidification. PLOS ONE, 12(8), e0181531. doi: 10.1371/journal.pone.0181531
  Humanes, A., Fink, A., Willis, B. L., Fabricius, K. E., de Beer, D., & Negri, A. P. (2017). Effects of suspended sediments and nutrient enrichment on juvenile corals. Marine Pollution Bulletin, 125(1), 166-175. doi:
  Menapace, W., Kopf, A., Zabel, M., & de Beer, D. (2017). Mud volcanism as dynamic sedimentary phenomenon to host marine ecosystems. In J. Kallmeier (Ed.), Life at seeps and vents (Vol. 6). Berlin: De Gruyter.
  Wankel, S. D., Ziebis, W., Buchwald, C., Charoenpong, C., de Beer, D., Dentinger, J., Xu, Z., & Zengler, K. (2017). Evidence for fungal and chemodenitrification based N2O flux from nitrogen impacted coastal sediments. [Article]. Nature communications, 8, 15595. doi: 10.1038/ncomms15595
2016 Hassenrück, C., Fink, A., Lichtschlag, A., Tegetmeyer, H. E., de Beer, D., & Ramette, A. (2016). Quantification of the effects of ocean acidification on sediment microbial communities in the environment: the importance of ecosystem approaches. FEMS Microbiology Ecology, 92(5). doi: 10.1093/femsec/fiw027
  Heisterkamp, I. M., Schramm, A., de Beer, D., & Stief, P. (2016). Direct Nitrous Oxide Emission from the Aquacultured Pacific White Shrimp (<span class="named-content genus-species" id="named-content-1">Litopenaeus vannamei</span>). Applied and Environmental Microbiology, 82(13), 4028. doi: 10.1128/aem.00396-16
  Hofmann, L. C., Koch, M., & de Beer, D. (2016). Biotic Control of Surface pH and Evidence of Light-Induced H+ Pumping and Ca2+-H+ Exchange in a Tropical Crustose Coralline Alga. PLOS ONE, 11(7), e0159057. doi: 10.1371/journal.pone.0159057
  Klatt, J. M., de Beer, D., Häusler, S., & Polerecky, L. (2016). Cyanobacteria in Sulfidic Spring Microbial Mats Can Perform Oxygenic and Anoxygenic Photosynthesis Simultaneously during an Entire Diurnal Period. [Original Research]. Frontiers in microbiology, 7(1973). doi: 10.3389/fmicb.2016.01973
  Li, T., Piltz, B., Podola, B., Dron, A., de Beer, D., & Melkonian, M. (2016). Microscale profiling of photosynthesis-related variables in a highly productive biofilm photobioreactor. Biotechnology and Bioengineering, 113(5), 1046-1055. doi: 10.1002/bit.25867
  Loudon, C. M., Matthews, B., Sevilgen, D. S., & Ibelings, B. W. (2016). Experimental evidence that evolution by niche construction affects dissipative ecosystem dynamics. Evolutionary Ecology, 30(2), 221-234. doi: 10.1007/s10682-015-9802-7
  Teske, A., de Beer, D., McKay, L. J., Tivey, M. K., Biddle, J. F., Hoer, D., Lloyd, K. G., Lever, M. A., Røy, H., Albert, D. B., Mendlovitz, H. P., & MacGregor, B. J. (2016). The Guaymas Basin Hiking Guide to Hydrothermal Mounds, Chimneys, and Microbial Mats: Complex Seafloor Expressions of Subsurface Hydrothermal Circulation. Frontiers in microbiology, 7, 75-75. doi: 10.3389/fmicb.2016.00075
  Wall, M., Fietzke, J., Schmidt, G. M., Fink, A., Hofmann, L. C., de Beer, D., & Fabricius, K. E. (2016). Internal pH regulation facilitates in situ long-term acclimation of massive corals to end-of-century carbon dioxide conditions. [Article]. Scientific Reports, 6, 30688. doi: 10.1038/srep30688
2015 Abed, R. M. M., de Beer, D., & Stief, P. (2015). Functional-Structural Analysis of Nitrogen-Cycle Bacteria in a Hypersaline Mat from the Omani Desert. Geomicrobiology Journal, 32(2), 119-129. doi: 10.1080/01490451.2014.932033
  Brocke, H. J., Polerecky, L., de Beer, D., Weber, M., Claudet, J., & Nugues, M. M. (2015). Organic Matter Degradation Drives Benthic Cyanobacterial Mat Abundance on Caribbean Coral Reefs. PLOS ONE, 10(5), e0125445. doi: 10.1371/journal.pone.0125445
  Brocke, H. J., Wenzhoefer, F., de Beer, D., Mueller, B., van Duyl, F. C., & Nugues, M. M. (2015). High dissolved organic carbon release by benthic cyanobacterial mats in a Caribbean reef ecosystem. [Article]. Scientific Reports, 5, 8852. doi: 10.1038/srep08852
  Chennu, A., Grinham, A., Polerecky, L., de Beer, D., & Al-Najjar, M. A. A. (2015). Rapid Reactivation of Cyanobacterial Photosynthesis and Migration upon Rehydration of Desiccated Marine Microbial Mats. Frontiers in microbiology, 6, 1472-1472. doi: 10.3389/fmicb.2015.01472
  Chennu, A., Volkenborn, N., de Beer, D., Wethey, D. S., Woodin, S. A., & Polerecky, L. (2015). Effects of Bioadvection by Arenicola marina on Microphytobenthos in Permeable Sediments. PLOS ONE, 10(7), e0134236. doi: 10.1371/journal.pone.0134236
  Heim, C., Simon, K., Ionescu, D., Reimer, A., De Beer, D., Quéric, N.-V., Reitner, J., & Thiel, V. (2015). Assessing the utility of trace and rare earth elements as biosignatures in microbial iron oxyhydroxides. [Original Research]. Frontiers in Earth Science, 3(6). doi: 10.3389/feart.2015.00006
  Hofmann, L. C., Fink, A., Bischof, K., & de Beer, D. (2015). Microsensor studies on Padina from a natural CO2 seep: implications of morphology on acclimation to low pH. Journal of Phycology, 51(6), 1106-1115. doi: 10.1111/jpy.12347
  Ionescu, D., Bizic-Ionescu, M., Khalili, A., Malekmohammadi, R., Morad, M. R., de Beer, D., & Grossart, H.-P. (2015). A new tool for long-term studies of POM-bacteria interactions: overcoming the century-old Bottle Effect. [Article]. Scientific Reports, 5, 14706. doi: 10.1038/srep14706
  Ionescu, D., Heim, C., Polerecky, L., Ramette, A., Haeusler, S., Bizic-Ionescu, M., Thiel, V., & de Beer, D. (2015). Diversity of Iron Oxidizing and Reducing Bacteria in Flow Reactors in the Äspö Hard Rock Laboratory. Geomicrobiology Journal, 32(3-4), 207-220. doi: 10.1080/01490451.2014.884196
  Ionescu, D., Heim, C., Polerecky, L., Thiel, V., & de Beer, D. (2015). Biotic and abiotic oxidation and reduction of iron at circumneutral pH are inseparable processes under natural conditions. Geomicrobiology Journal, 32(3-4), 221-230. doi: 10.1080/01490451.2014.887393
  Ionescu, D., Spitzer, S., Reimer, A., Schneider, D., Daniel, R., Reitner, J., de Beer, D., & Arp, G. (2015). Calcium dynamics in microbialite-forming exopolymer-rich mats on the atoll of Kiritimati, Republic of Kiribati, Central Pacific. Geobiology, 13(2), 170-180. doi: 10.1111/gbi.12120
  Klatt, J. M., Al-Najjar, M. A. A., Yilmaz, P., Lavik, G., de Beer, D., & Polerecky, L. (2015). Anoxygenic Photosynthesis Controls Oxygenic Photosynthesis in a Cyanobacterium from a Sulfidic Spring. Applied and Environmental Microbiology, 81(6), 2025. doi: 10.1128/aem.03579-14
  Klatt, J. M., Haas, S., Yilmaz, P., de Beer, D., & Polerecky, L. (2015). Hydrogen sulfide can inhibit and enhance oxygenic photosynthesis in a cyanobacterium from sulfidic springs. Environmental Microbiology, 17(9), 3301-3313. doi: 10.1111/1462-2920.12791
  Klatt, J. M., Meyer, S., Häusler, S., Macalady, J. L., de Beer, D., & Polerecky, L. (2015). Structure and function of natural sulphide-oxidizing microbial mats under dynamic input of light and chemical energy. [Original Article]. The Isme Journal, 10, 921. doi: 10.1038/ismej.2015.167
  Klatt, J. M., & Polerecky, L. (2015). Assessment of the stoichiometry and efficiency of CO2 fixation coupled to reduced sulfur oxidation. [Hypothesis and Theory]. Frontiers in microbiology, 6(484). doi: 10.3389/fmicb.2015.00484
  Li, T., Podola, B., de Beer, D., & Melkonian, M. (2015). A method to determine photosynthetic activity from oxygen microsensor data in biofilms subjected to evaporation. Journal of Microbiological Methods, 117, 100-107. doi:
  Raulf, F. F., Fabricius, K., Uthicke, S., de Beer, D., Abed, R. M. M., & Ramette, A. (2015). Changes in microbial communities in coastal sediments along natural CO2 gradients at a volcanic vent in Papua New Guinea. Environmental Microbiology, 17(10), 3678-3691. doi: 10.1111/1462-2920.12729
  Schutting, S., Jokic, T., Strobl, M., Borisov, S. M., Beer, D. d., & Klimant, I. (2015). NIR optical carbon dioxide sensors based on highly photostable dihydroxy-aza-BODIPY dyes. [10.1039/C5TC00346F]. Journal of Materials Chemistry C, 3(21), 5474-5483. doi: 10.1039/c5tc00346f
  Sigwart, J. D., Lyons, G., Fink, A., Gutowska, M. A., Murray, D., Melzner, F., Houghton, J. D. R., & Hu, M. Y.-a. (2015). Elevated pCO2 drives lower growth and yet increased calcification in the early life history of the cuttlefish Sepia officinalis (Mollusca: Cephalopoda). ICES Journal of Marine Science, 73(3), 970-980. doi: 10.1093/icesjms/fsv188
  Spitzer, S., Brinkmann, N., Reimer, A., Ionescu, D., Friedl, T., de Beer, D., & Arp, G. (2015). Effect of Variable pCO2 on Ca2+ Removal and Potential Calcification of Cyanobacterial Biofilms —An Experimental Microsensor Study. Geomicrobiology Journal, 32(3-4), 304-315. doi: 10.1080/01490451.2014.885617
  Wu, C. S., Røy, H., & de Beer, D. (2015). Methanogenesis in sediments of an intertidal sand flat in the Wadden Sea. Estuarine, Coastal and Shelf Science, 164, 39-45. doi:
2014 Behrendt, A., Tarre, S., Beliavski, M., Green, M., Klatt, J., de Beer, D., & Stief, P. (2014). Effect of high electron donor supply on dissimilatory nitrate reduction pathways in a bioreactor for nitrate removal. Bioresource Technology, 171, 291-297. doi:
  Beutler, M., Heisterkamp, ​​IM, Piltz, B., Stief, P., & De Beer, D. (2014). Microscopic oxygen imaging based on fluorescein bleaching efficiency measurements. Microscopy Research and Technique, 77 (5), 341-347. doi: 10.1002 / jemt.22350
  Feseker, T., Boetius, A., Wenzhöfer, F., Blandin, J., Olu, K., Yoerger, D., Camilli, R., German, CR, & de Beer, D. (2014) Eruption of the Håkon Mosby mud volcano recorded by the long-term observatory on mud-volcanic eruptions (LOOME) between 2009 and 2010. Supplement to: Feseker, T et al. (2014): Eruption of a deep-sea mud volcano triggers rapid sediment movement. Nature Communications, 5, 5385, PANGEA.
  Feseker, T., Boetius, A., Wenzhöfer, F., Blandin, J., Olu, K., Yoerger, DR, Camilli, R., German, CR, & de Beer, D. (2014). Eruption of a deep-sea mud volcano triggers rapid sediment movement. Nature communications, 5, 5385-5385. doi: 10.1038 / ncomms6385
  Häusler, S., Noriega-Ortega, BE, Polerecky, L., Meyer, V., de Beer, D., & Ionescu, D. (2014). Microenvironments of reduced salinity harbor biofilms in Dead Sea underwater springs. Environmental Microbiology Reports, 6 (2), 152-158. doi: 10.1111 / 1758-2229.12140
  Häusler, S., Weber, M., de Beer, D., & Ionescu, D. (2014). Spatial distribution of diatom and cyanobacterial mats in the dead sea. Extremophiles, 18 (6), 1085-1094. doi: 10.1007 / s00792-014-0686-1
  Häusler, S., Weber, M., Siebert, C., Holtappels, M., Noriega-Ortega, BE, De Beer, D., & Ionescu, D. (2014). Sulfate reduction and sulfide oxidation in extremely steep gradients formed by freshwater springs into the Dead Sea. FEMS Microbiology Ecology, 90 (3), 956-969. doi: 10.1111 / 1574-6941.12449
  Ionescu, D., Buchmann, B., Heim, C., Häusler, S., de Beer, D., & Polerecky, L. (2014). Oxygenic photosynthesis as a protection mechanism for cyanobacteria against iron encrustation in environments with high Fe (2+) concentrations. Frontiers in microbiology, 5, 459-459. doi: 10.3389 / fmicb.2014.00459
  Madden, P., Al-Raei, AM, Enright, AM, Chinalia, FA, Beer, D., O'Flaherty, V., & Collins, G. (2014). Effect of sulfate on low-temperature anaerobic digestion. [Original Research]. Frontiers in microbiology, 5 (376). doi: 10.3389 / fmicb.2014.00376
  Poulsen, M., Kofoed, M. V. W., Larsen, L. H., Schramm, A., & Stief, P. (2014). Chironomus plumosus larvae increase fluxes of denitrification products and diversity of nitrate-reducing bacteria in freshwater sediment. Systematic and Applied Microbiology, 37(1), 51-59. doi:
  Schreiber, F., Stief, P., Kuypers, MMM, & de Beer, D. (2014). Nitric oxide turnover in permeable river sediment. Limnology and Oceanography, 59 (4), 1310-1320. doi: 10.4319 / lo.2014.59.4.1310
  Schutting, S., Klimant, I., de Beer, D., & Borisov, SM (2014). New highly fluorescent pH indicator for ratiometric RGB imaging of pCO2. Methods and Applications in Fluorescence, 2 (2), 024001. doi: 10.1088 / 2050-6120 / 2/2/024001
  Sevilgen, D., de Beer, D., Al-Handal, A., Brey, T., & Polerecky, L. (2014). Oxygen budgets in subtidal arctic (Kongsfjorden, Svalbard) and temperate (Helgoland, North Sea) microphytobenthic communities. Marine Ecology Progress Series, 504, 27-42. doi: 10.3354 / meps10672
  Stief, P., Fuchs-Ocklenburg, S., Kamp, A., Manohar, C.S., Houbraken, J., Boekhout, T., de Beer, D., & Stoeck, T. (2014). Dissimilatory nitrate reduction by Aspergillus terreus isolated from the annual minimum oxygen zone in the Arabian Sea. [journal article]. BMC Microbiology, 14 (1), 35. doi: 10.1186 / 1471-2180-14-35
  Winkel, M., de Beer, D., Lavik, G., Peplies, J., & Mußmann, M. (2014). Close association of active nitrifiers with Beggiatoa mats covering deep-sea hydrothermal sediments. Environmental Microbiology, 16 (6), 1612-1626. doi: 10.1111 / 1462-2920.12316
2013 Abed, RMM, Lam, P., de Beer, D., & Stief, P. (2013). High rates of denitrification and nitrous oxide emission in arid biological soil crusts from the Sultanate of Oman. [Original article]. The Isme Journal, 7, 1862. doi: 10.1038 / ismej.2013.55
  Behrendt, A., de Beer, D., & Stief, P. (2013). Vertical activity distribution of dissimilatory nitrate reduction in coastal marine sediments. Biogeosciences, 10(11), 7509-7523. doi: 10.5194/bg-10-7509-2013
  Chennu, A., Dyer, P., Volkenborn, N., Al-Najjar, MAA, Janssen, F., de Beer, D., & Polerecky, L. (2013). Hyperspectral imaging of the microscale distribution and dynamics of microphytobenthos in intertidal sediments. Limnology and Oceanography: Methods, 11 (10), 511-528. doi: 10.4319 / lom.2013.11.511
  de Beer, D., Haeckel, M., Neumann, J., Wegener, G., Inagaki, F., & Boetius, A. (2013). Saturated CO2 inhibits microbial processes in CO2-vented deep-sea sediments. Biogeosciences, 10 (8), 5639-5649. doi: 10.5194 / bg-10-5639-2013
  Heim C, Quéric NV, Ionescu D, Simon K, Thiel V. 2013. Chemolithotrophic microbial mats in an open pond in the continental subsurface - implications for microbial biosignatures, p. 175-188. In Meadow F, Reich M, Arp G (ed.), Göttingen Contributions to Geosciences, vol. 77th Geoscience Center of the Georg-August University of Göttingen, Germany, Goettingen.
  Heisterkamp IM, Schramm A, Larsen LH, Svenningsen NB, Lavik G, de Beer D, Stief P. 2013. Shell biofilm-associated nitrous oxide production in marine molluscs: processes, precursors and relative importance. Environmental Microbiology 15: 1943-1959.
  Kamp A, Step P, Squire J, de Beer D. 2013. Response of the ubiquitous pelagic diatom Thalassiosira weissflogii to darkness and anoxia. PLoS ONE 8 (12): e82605. doi: 82610.81371 / journal.pone.0082605.
  Knappe J. 2013. The pelagic diatom Thalassiosira weissfogii is capable of dissimilatory nitrate reduction to ammonium (DNRA) Master Thesis. Linköping University, Sweden.
  Neumann J, Ramette A, de Beer D, Haeckel M, Inagaki F, Boetius A. 2013. Effects of subsurface CO2 leakage on deep-sea bacterial communities of the Yonaguni Knoll IV hydrothermal sediments (Okinawa Trough, 1350 m). Env. preparation.
  Schutting S, Borisov SM, Klimant I. 2013. Diketo-pyrrolo-pyrrole dyes as new colorimetric and fluorescent pH indicators for optical carbon dioxide sensors. J. Anal. Chem. 85: 3271-3279.
  Stief, P. (2013). Stimulation of microbial nitrogen cycling in aquatic ecosystems by benthic macrofauna: mechanisms and environmental implications. Biogeosciences, 10 (12), 7829-7846. doi: 10.5194 / bg-10-7829-2013
  Stief, P., Kamp, A., & de Beer, D. (2013). Role of Diatoms in the Spatial Temporal Distribution of Intracellular Nitrates in Intertidal Sediment. PLOS ONE, 8 (9), e73257. doi: 10.1371 / journal.pone.0073257
  Step P, Camp A, de Beer D. 2013. Role of diatoms in the spatial-temporal distribution of intracellular nitrates in intertidal sediment. PLoS ONE 8 (9): e73257. doi: 73210.71371 / journal.pone.0073257.
2012 Abed, R. M. M., Ramette, A., Hübner, V., De Deckker, P., & de Beer, D. (2012). 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
  Al-Najjar, M. A. A., de Beer, D., Kühl, M., & Polerecky, L. (2012). Light utilization efficiency in photosynthetic microbial mats. Environmental Microbiology, 14(4), 982-992. doi: 10.1111/j.1462-2920.2011.02676.x
  Beutler M, Milucka J, Hinck S, Schreiber F, Brock J, Mußmann M, Schulz-Vogt HN, de Beer D. 2012. Vacuolar respiration of nitrate coupled to energy conservation in filamentous Beggiatoaceae. Environmental Microbiology 14:2911–2919.
  Glas MS, Sato Y, Ulstrup K, Bourne D. 2012. Biogeochemical conditions determine virulence of Black Band Disease in corals. ISME J 6 1526–1534.
  Heisterkamp IM, Kamp A, Schramm AT, de Beer D, Stief P. 2012. Indirect control of the intracellular nitrate pool of intertidal sediment by the polychaete Hediste diversicolor. Marine Ecology-Progress Series 445:181-192.
  Ionescu D, Siebert C, Polerecky L, Munwes YY, Lott C, Hausler S, Bizic-Ionescu M, Quast C, Peplies J, Glockner FO, Ramette A, Rodiger T, Dittmar T, Oren A, Geyer S, Stark HJ, Sauter M, Licha T, Laronne JB, de Beer D. 2012. Microbial and Chemical Characterization of Underwater Fresh Water Springs in the Dead Sea. PLoS ONE 7:e38319.
  Kofoed MVW, Stief P, Hauzmayer S, Schramm A, Herrmann M. 2012. Higher nitrate-reducer diversity in macrophyte-colonized compared to unvegetated freshwater sediment. Systematic and Applied Microbiology 35:8.
  Lew B, Stief P, Beliavski M, Ashkenazi A, Svitlica O, Khan A, Tarre S, de Beer D, Green M. 2012. Characterization of denitrifying granular sludge with and without the addition of external carbon source. Bioresource Technology 124:8.
  Lichtschlag A, Kamyshny A, Ferdelman TG, de Beer D. 2012. Intermediate Sulfur Oxidation State Compounds in the Euxinic Surface Sediments of the Dvurechenskii Mud Volcano (Black Sea). Geochimica et Cosmochimica Acta:accepted.
  Long MH, Berg P, de Beer D, Zieman JC. 2012. In Situ Coral Reef Oxygen Metabolism: an Eddy Correlation Study. PLoS ONE:accepted.
  Polerecky L, Adam B, Milucka J, Musat N, Vagner T, Kuypers MMM. 2012. [Bitte aktivieren Sie Javascript] – a tool for the analysis of nanoSIMS data in environmental microbiology. Environmental Microbiology.
  Rao AMF, Polerecky L, Ionescu D, Meysman FJR, de Beer D. 2012. The influence of porewater advection, benthic photosynthesis and respiration on calciumcarbonate dynamics in reef sands. Limnol Oceanogr 57:809-825.
  Schwedt A, Kreutzmann A-C, Polerecky L, Schulz-Vogt HN. 2012. Sulfur respiration in a marine chemolithoautotrophic Beggiatoa strain. Front. Microbio. 2:276.
  Svenningsen NB, Heisterkamp IM, Sigby-Clausen M, Larsen LH, Nielsen LP, Stief P, Schramm A. 2012. Shell biofilm nitrification and gut denitrification contribute to emission of nitrous oxide by the invasive freshwater mussel Dreissena polymorpha (zebra mussel). Applied and Environmental Microbiology 78:5.
  Wangpraseurt D, Weber M, Røy H, Polerecky L, de Beer D, Suharsono, Nugues MM. 2012. In situ oxygen dynamics in coral-algal interactions. PLoS ONE 7:1-8.
  Weber M, de Beer D, Lott C, Polerecky L, Kohls K, Abed RMM, Ferdelman TG, Fabricius KE. 2012. Mechanisms of damage to corals exposed to sedimentation. PNAS 109:1558-1567.
2011Bissett A, Neu TR, De Beer D. 2011. Dissolution of Calcite in the Twilight Zone: Bacterial Control of Dissolution of Sinking Planktonic Carbonates Is Unlikely. PLoS ONE 6:e26404.
Grunke S, Felden J, Lichtschlag A, Girnth AC, de Beer D, Wenzhofer F, Boetius A. 2011. Niche differentiation among mat-forming, sulfide-oxidizing bacteria at cold seeps of the Nile Deep Sea Fan (Eastern Mediterranean Sea). Geobiology 9:330-348.
Hinck S, Mussmann M, Salman V, Neu TR, de Beer D, Jonkers H. 2011. Vacuolated Beggiatoa-like filaments from different hypersaline environments form a new genus. Environm. Microbiol. 13:3194-3205.
Schreiber F, Beutler M, Enning D, Lamprecht-Grandio M, Zafra O, Gonzalez-Pastor J, de Beer D. 2011. The role of nitric-oxide-synthase-derived nitric oxide in multicellular traits of Bacillus subtilis 3610: biofilm formation, swarming, and dispersal. BMC Microbiology 11:111.
de Beer, D. 2011. Microsensors for sediments, microbial mats, and biofilms. In V. Thiele (ed.), Encyclopedia of Geobiology, vol. 1. Springer Verlag.
Beck AJ, Janssen F, and de Beer D. 2011. The influence of phototrophic benthic biofilms on Cd, Cu, Ni, and Pb transport in permeable sediments. Biogeochemistry:102: 167-181.
Beck, M., T. Riedel, J. Graue, J. Köster, N. Kowalski, C. S. Wu, G. Wegener, Y. Lipsewers, H. Freund, M. E. Böttcher, H.-J. Brumsack, H. Cypionka, J. Rullkötter, and B. Engelen. 2011. Imprint of past and present environmental conditions on microbiology and biogeochemistry of coastal Quaternary sediments. Biogeosciences, 8, 55-68.
Girnth, A.-C., S. Grünke, A. Lichtschlag, J. Felden, K. Knittel, F. Wenzhöfer, D. de Beer, and A. Boetius. 2011. A novel, mat-forming Thiomargarita population associated with a sulfidic fluid flow from a deep-sea mud volcano. Environm. Micobiol.13:495-505. doi: 10.1111/j.1462-2920.2010.02353.x.
Kamp, A., de Beer, D., Nitsch, J.L., Lavik, G., and Stief, P. 2011. Diatoms respire nitrate to survive dark and anoxic conditions. PNAS 108 (14): 5649-5654.
Zedelius, J., R. Rabus, O. Grundmann, I. Werner, D. Brodkorb, F. Schreiber, P. Ehrenreich, A. Behrends, H. Wilkes, M. Kube, R. Reinhardt, and F. Widdel. 2011. Alkane degradation by a new type of denitrifying bacterium with possible involvement of the electron acceptor in substrate activation. Environmental Microbiology Reports 3:125–135.
2010Al-Najjar, M. A. A. 2010. Flow of light energy in benthic photosynthetic microbial mats. University of Bremen, Bremen, Germany.
Al-Najjar M.A.A., D. de Beer, B.B. Jørgensen, M. Kühl, and L. Polerecky. 2010. Conversion and conservation of light energy in a photosynthetic microbial mat ecosystem. The ISME Journal:4: 440-449 doi:10.1038/ismej.2009.121.
Barak, Y., F. Schreiber, S.H. Thorne, C.H. Contag, D. de Beer, and A.C. Matin. 2010. Role of nitric oxide in Salmonella typhimurium-mediated cancer cell killing. BMC Cancer 10:146.
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.
Glas, M. S., C. A. Motti, A. P. Negri, Y. Sato, S. Froscio, A. R. Humpage, B. Krock, A. Cembella, and D. G. Bourne. 2010. Cyanotoxins are not implicated in the etiology of coral black band disease outbreaks on Pelorus Island, Great Barrier Reef. Fems Microbiology Ecology 73:43-54.
Grünke, S., A. Lichtschlag, D. de Beer, M. Kuypers, T. Lösekann, A. Ramette, and A. Boetius. 2010. Novel observations of Thiobacterium, a sulfur-storing Gammaproteobacterium producing gelatinous mats. ISME-Journal 4:1031-1043.
Ionescu, D., M. Hindiyeh, H. Malkawi, and A. Oren. 2010. Biogeography of thermophilic cyanobacteria: insights from the Zerka Ma'in hot springs (Jordan). Fems Microbiology Ecology 72:103-113.
Ionescu, D., B. Voss, A. Oren, W. R. Hess, and A. M. Muro-Pastor. 2010. Heterocyst-Specific Transcription of NsiR1, a Non-Coding RNA Encoded in a Tandem Array of Direct Repeats in Cyanobacteria. Journal of Molecular Biology 398:177-188.
Heisterkamp, I. M., A. Schramm, D. de Beer, P. Stief. 2010. Nitrous oxide production associated with coastal marine invertebrates. Mar Ecol Prog Ser 415: 1-9.
Jogler, C., M. Niebler, W. Lin, M. Kube, G. Wanner, S. Kolinko, P. Stief, A. Beck, D. de Beer, N. Petersen, Y. Pan, R. Amann, R. Reinhardt, D. Schüler. 2010. Cultivation-independent characterization of "Candidatus Magnetobacterium bavaricum" via ultrastructural, geochemical, ecological and metagenomic methods. Environmental Microbiology, 12: 2466-2478.
Kohls K, Abed RM, Polerecky L, Weber ME, and de Beer D. 2010. Halotaxis of cyanobacteria in an intertidal hypersaline microbial mat. Environmental Microbiology: 3: 567-575.
Larsen, L. H. 2010. Microbiology of nitrous oxide production from the marine mussel Mytilus edulis (Linnaeus). Master thesis:81 pages.
Lichtschlag A, Felden J, Brüchert V, Boetius A, and de Beer D. 2010. Geochemical processes and chemosynthetic primary production in different thiotrophic mats of the Håkon Mosby Mud Volcano (Barents Sea). Limnol Oceanogr:55, 931–949.
Nitsch, J. L. 2010. Nitrataufnahme, -speicherung und -verbrauch von Diatomeen. Diploma thesis:105 pages.
Pellicer i Nàcher, C., S. Sun, S. Lackner, A. Terada, F. Schreiber, Qi Zhou, and B.F. Smets. 2010. Sequential aeration of membrane-aerated biofilm reactors for high-rate autotrophic nitrogen removal. Environmental Science and Technology 44 (19), 7628-7643.
Schläppy, M.-L., M. Weber, D. Mendola, F. Hoffmann, and D. de Beer. 2010. Heterogeneous oxygenation resulting from active and passive flow in two Mediterranean sponges, Dysidea avara and Chondrosia reniformis. Limnol. Oceanogr. 55:1289-1300.
Schläppy, M. L., S. I. Schöttner, G. Lavik, M. M. M. Kuypers, D. de Beer, and F. Hoffmann. 2010. Evidence of nitrification and denitrification in high and low microbial abundance sponges. Mar Biol 157:593-602.
Schoon, R., A. Bissett, and D. de Beer. 2010. Resilience of pore-water chemistry and calcification in photosynthetic zones of calcifiying sediments. Limnol Oceanogr 55:377-385.
Schreiber, F. 2010. Bakterien bilden Stickstoffmonoxid und Lachgas im Zahnbelag. Zahnarzt und Praxis 5:350-352.
Schreiber, F., P. Stief, A. Gieseke, I. M. Heisterkamp, W. Verstraete, D. de Beer, P. Stoodley. 2010. Denitrification in human dental plaque. BMC Biology, 8: Art. No. 24.
Schwermer, C. U., T. G. Ferdelman, P. Stief, A. Gieseke, N. Rezakhani, J. van Rijn, D. de Beer, and A. Schramm. 2010. Effect of nitrate on sulfur transformations in sulfidogenic sludge of a marine aquaculture biofilter. Fems Microbiology Ecology 72:476-484.
Stief, P., A. Behrendt, G. Lavik, D. de Beer. 2010. Combined gel probe and isotope labeling technique for measuring Dissimilatory Nitrate Reduction to Ammonium in sediments at millimeter-level resolution. Applied and Environmental Microbiology, 76: 6239-6247.
Stief P, Polerecky L, Poulsen M, and Schramm A. 2010. Control of nitrous oxide emission from Chironomus plumosus larvae by nitrate and temperature. Limnol Oceanogr 55:872-884.
Stief P, and Schramm A. 2010. Regulation of nitrous oxide emission associated with benthic invertebrates. Freshwater Biology:55: 1647-1657.
Volkenborn N, Polerecky L, Wethey D, and Woodin SA. 2010. Oscillatory porewater bioadvection in marine sediments induced by hydraulic activities of Arenicola marina. Limnology and Oceanography: 55: 1231-1247
von Ohle C, Gieseke A, Nistico L, Decker EM, de Beer D, and Stoodley P. 2010. Real time microsensor measurement of local metabolic activities in ex vivo dental biofilms treated with chlorhexidine. Appl Environ Microbiol: 76: 2326-2334.
Wangpraseurt, D. 2010. In situ Characterization of Oxygen Microenvironments in Coral-algal Interactions. University of Bremen.
Wiedling, J. 2010. Biogeochemical investigations on a shallow-water methane seep in the Mediterranean Sea. University of Greifswald
Zedelius, J., and F. Schreiber. 2010. Anaerobe Methanoxidation durch oxygene Bakterien. Bioforum 33:28-30.
2009Beck A, Janssen F, Polerecky L, Herlory O, and de Beer D. 2009. Phototrophic biofilm activity and dynamics of diurnal Cd cycling in a freshwater stream. Env Sci Technol 43:7245-7251.
Beutler M, Hinck S, and de Beer D .2009. A method for imaging of low pH in live cells based on excited state saturation. J. Microb. Meth. 77:98-101.
Duperron S, de Beer D, Zbinden M, Boetius A, Schipani V, Kahil N, and Gaill F. 2009. Molecular characterization of bacteria associated with the trophosome and the tube of Lamellibrachia sp., a sibloglinid annelid from cold seeps in the eastern Mediiteranean. FEMS Microb Ecol: 69: 395-409.
Jansen S, Walpersdorf E, Werner U, Billerbeck M, Böttcher M, and de Beer D. 2009. Functioning of intertidal flats inferred from temporal and spatial dynamics of O2, H2S and pH in their surface sediments. Ocean Dynamics 59:317-332.
Nielsen M, Gieseke A, de Beer D, and Revsbech NP. 2009. Nitrate, nitrite, and nitrous oxide transformations in sediments along a salinity gradient in the Weser Estuary. Aq. Microb. Ecol. 55:39-52.
Polerecky L, Bissett A, Al-Najjar M, Faerber P, Osmers H, Suci PA, Stoodley P, and de Beer D. 2009. Modular spectral imaging system for discrimination of pigments in cells and microbial communities. Appl. Environm. Microbiol. 75:758-771.
Schreiber F, Loeffler B, Polerecky L, Kuypers MMM, and de Beer D. 2009. Mechanisms of transient nitric oxide and nitrous oxide production in a complex biofilm. ISME J 3:1301-1313.
Stief P, Poulsen M, Nielsen LP, Brix H, and Schramm A. 2009. Nitrous oxide emission by aquatic macrofauna. PNAS 106:4296-4300.
Stoodley P, de Beer D, Longwell M, Nistico L, Hall-Stoodley L, Wenig B, and Krespi YP. 2009. Tonsillolith: Not just a stone but a living biofilm. Otolaryngology–Head and Neck Surgery 141:316-321.
Weber, M. 2009. How sediment damages corals. University of Bremen.
2008Abed RMM, Kohls K, Schoon R, Scherf A, Schacht AK, Palinska AK, Al-Hassani H, Hamza W, Rullkötter J, and Golobic S. 2008. Lipid biomarkers, pigments and cyanobacterial diversity of microbial mats across intertidal flats of the arid coast of the Arabian Gulf (Abu Dhabi, UAE). FEMS Microb Ecol 65.
Beutler M, Makrogianneli K, Vermeij RJ, Keppler M, Ng T, Jovin TM, and Heintzmann R. 2008. satFRET: estimation of Förster resonance energy transfer by acceptor saturation. Eur. Biophys. J 38:69-82.
Bissett A, de Beer D, Schoon R, Reimer A, and Arp G. 2008. Microbial mediation of stromatolite formation in karst-water creeks. Limnol Oceanogr 53:1159-1168.
Bissett A, Reimer A, de Beer D, Shiraishi F, and Arp G. 2008. Metabolic microenvironmental control by photosynthetic biofilms under changing macroenvironmental temperature and pH conditions. Appl. Environm. Microbiol. 74:6306-6312.
de Beer D, Bissett A, de Wit R, Jonkers H, Köhler-Rink S, Nam H, Kim BH, Eickert G, and Grinstain M. 2008. A microsensor for carbonate ions suitable for microprofiling in freshwater and saline environments. Limnol Oceanogr Methods 6:532-541.
De Deckker P, Abed RMM, de Beer D, Hinrichs K, O'Loingsigh T, Schefuß E, Stuut JW, Tapper NJ, and van der Kaars S. 2008. Geochemical and microbiological fingerprinting of airborne dust that fell in Canberra, Australia, in October 2002. Geochem. Geophys. Geosyst. 9:doi:10.1029/2008GC002091.
Foesel BU, Gieseke A, Schwermer CU, Stief P, Koch L, Cytryn E, de la Torre JR, van Rijn J, Minz D, Drake HL, and Schramm A. 2008. Nitrosomonas Nm143-like ammonia oxidizers and Nitrospira marina-like nitrite oxidizers dominate the nitrifier community in a marine aquaculture biofilm. FEMS Microb Ecol 63:192-204.
Hoffmann F, Roy H, Bayer K, Hentschel U, Pfannkuchen M, Bruemmer F, and de Beer D. 2008. Oxygen dynamics and transport in the mediterranean sponge Aplysina aerophoba. Mar Biol 153:1257-1264.
Humphrey C, Weber M, Lott C, Cooper T, and Fabricius KE. 2008. Effects of different types of sediment, dissolved inorganic nutrients and salinity on fertilisation and embryo development in the coral Acropora millepora (Ehrenberg, 1834). Coral Reefs 27:837-850.
Kühl M, and Polerecky L. 2008. Functional and structural imaging of phototrophic microbial communities and symbioses. Aquatic Microbial Ecology 53:99-118.
Martinez-Garcia M, Stief P, Diaz-Valdes M, Wanner G, Ramos-Espla A, Dubilier N, and Anton J. 2008. Ammonia-oxidizing Crenarchaeota and nitrification inside the tissue of a colonial ascidian. Environmental Microbiology 10:2991-3001.
Polerecky L, Lott C, and Weber M. 2008. In situ measurement of gross photosynthesis using a microsensor-based light-shade shift method. Limnology and Oceanography-Methods 6:373-383.
Schreiber F, Polerecky L, and de Beer D. 2008. Nitric oxide microsensor for high spatial resolution measurements in biofilms and sediments. Anal. Chem. 80:1152-1158.
Schreiber, F., and U. Szewzyk. 2008. Environmentally relevant concentrations of pharmaceuticals influence the initial adhesion of bacteria. Aquatic Toxicology 87:227-233.
Shiraishi F, Bisset A, de Beer D, Reimer A, and Arp G. 2008. Photosynthesis, respiration and exopolymer calcium-binding in biofilm calcification (Westerhöfer and Deinschwanger Creek, Germany). Geomicrobiol. J.: 25: 83-94.
Schwermer CU, Lavik G, Abed RMM, Dunsmore B, Ferdelman TG, Stoodley P, Gieseke A, and de Beer D. 2008. Impact of nitrate on the structure and function of bacterial biofilm communities in pipelines used for injection of seawater into oil fields. Appl. Environm. Microbiol. 74:2841-2851.
Sher Y, Schneider K, Schwermer CU, and van Rijn J. 2008. Sulfide induced nitrate reduction in the sludge of an anaerobic digester of a zero-discharge recirculating mariculture system. Water Research 42:4386-4392.
Shiraishi F, Reimer A, Bisset A, de Beer D, and Arp G. 2008. Microbial effects on biofilm formation, ambient water chemistry and stable sotope records in a highly supersaturated setting (Westerhöfer Bach, Germany). Palaeogeography Palaeoclimatology Palaeoecology 262:91-106.
Werner U, Blazejak A, Bird P, Eickert G, Schoon R, Abed RMM, Bissett A, and de Beer D. 2008. Microbial photosynthesis in coral reef sediments (Heron Reef, Australia). Estuarine, Coastal and Shelf Science 76:876 – 888.
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