Here you find a chronological list of all peer-reviewed publications of the working group Biology of Geological Processes.

Members of our working group are marked in bold:


Klotz F, T Brinkhoff, HM Freese, M Wietz, A Teske, M Simon and HA Giebel 2018. Tritonibacter horizontis gen. nov., sp. nov., a member of the Rhodobacteraceae, isolated from the Deepwater Horizon oil spill. Int J Sys Evol Microbiol. First Published Online: doi: 10.1099/ijsem.0.002573


Wienhausen G, Noriega-Ortega B E, Niggemann J, Dittmar T, Simon M (2017). The Exometabolome of Two Model Strains of the Roseobacter Group: A Marketplace of Microbial Metabolites. Front Microbiol. 8:1985. doi: 10.3389/fmicb.2017.01985

Bakenhus I, Dlugosch L, Billerbeck S, Giebel HA, Milke F and M Simon (2017) Composition of total and cell-proliferating bacterioplankton community in early summer in the North Sea – roseobacters are the most active component. Front Microbiol. 8:1771.

Breider S, Freese H, Spröer K, Simon M, Overmann J, Brinkhoff T (2017) Phaeobacter porticola sp. nov., an antibiotic producing bacterium isolated from a harbor in the southern North Sea. Internat J System Evol Microbiol 67: 2153-2159, doi: 10.1099/ijsem.0.001879

Rahlff J, Stolle C, Giebel HA, Brinkhoff T, Ribas-Ribas M, Hodapp D, Wurl O (2017) High wind speeds prevent formation of a distinct bacterioneuston community in the sea-surface microlayer. FEMS Microbiol Ecol. 93: Article Number: fix041. doi:  10.1093/femsec/fix041 

Simon M, Scheuner C, Meier-Kolthoff JP, Brinkhoff T, Wagner-Döbler I, Ulbrich M, Klenk HP, Schomburg D, Petersen J, Göker M. (2017) Phylogenomics of Rhodobacteraceae reveals evolutionary adaptation to marine and non-marine habitats. ISME J, 11, 1483–1499 DOI:10.1038/ismej.2016.198.

Milici M, Vital M, Tomasch J, Badewien TH, Giebel HA, Plumeier I, Wang H, Pieper DH, Wagner-Döbler I, Simon M (2017). Diversity and community composition of particle-associated and free-living bacteria in mesopelagic and bathypelagic Southern Ocean water masses: evidence of dispersal limitation in the Bransfield strait. Limnol Oceanogr 62:1080–1095 DOI:10.1002/lno.10487.

Beyersmann PG, Tomasch J, Son K, Stocker R, Göker M, Wagner-Döbler I, Simon M, Brinkhoff T (2017) Dual function of tropodithietic acid as antibiotic and signaling molecule in global gene regulation of the probiotic bacterium Phaeobacter inhibens. Scientific Reports 7: 730. doi:10.1038/s41598-017-00784-7

Simon M (2017) RV SONNE SO254 PoriBacNewZ Cruise Report / Fahrtbericht Auckland, New Zealand, January 26th, 2017, Auckland, New Zealand, February 27th, 2017, PTJ (

Djurhuus A, Mikalsen S-O, Giebel HA, Rogers A (2017) Cutting through the smoke: diversity of free-living bacteria in deep-sea hydrothermal plumes. R. Soc. Open sci. 4: 160829.

Fischer R, Giebel HA, Ptacnik R (2017) Identity of the limiting nutrient (N vs. P) affects the competitive success of mixotrophs. Mar Ecol Prog Ser 563:51-63.


Simon M (2016) RV SONNE SO248 BacGeoPac Cruise Report / Fahrtbericht Auckland, New Zealand, May 1st, 2016, Dutch Harbor, USA: June 3rd, 2016, PTJ (

Giebel HA, Klotz F, Voget S, Poehlein A, Grosser K, Teske A, Brinkhoff T (2016) Draft genome sequence of the marine Rhodobacteraceae strain O3.65, cultivated from oil-polluted seawater of the Deepwater Horizon oil spill. Stand Genomic Sci. 11:81. (DOI: 10.1186/s40793-016-0201-7).

Fischer R, Giebel HA, Hillebrand H, Ptacnik R. (2016) Importance of mixotrophic bacterivory can be predicted by light and loss rates. Oikos. DOI:10.1111/oik.03539.

Billerbeck S, Wemheuer B, Voget S, Poehlein A, Giebel HA, Brinkhoff T, Gram L, Jeffrey WH, Daniel R, Simon M (2016) Biogeography and environmental genomics of the Roseobacter-affiliated pelagic CHAB-I-5 lineage. Nature Microbiol. Article no. 16063, DOI: 10.1038/NMICROBIOL.2016.63.

Kanukollu S, Wemheuer B, Herber J, Billerbeck S, Lucas J, Daniel R, Simon M, Cypionka H, Engelen B (2016) Distinct compositions of free-living, particle-associated and benthic communities of the Roseobacter group in the North Sea. FEMS Microbiol Ecol. 92/1: fiv145, doi: 10.1093/femsec/fiv145.

Zhan Y, Huang S, Voget S, Simon M, Chen F (2016) A novel Roseobacter phage possesses features of podoviruses, siphoviruses, prophages and gene transfer agents. Scientific Reports 6: 30372.

Milici M, Deng1 ZL, Tomasch J, Decelle J, Wos-Oxley M, Wang H, Jáuregui R, Plumeier I, Giebel HA, Badewien H, Wurst M, Pieper P, Simon M, Wagner-Doebler I (2016) Co-occurrence analysis of microbial taxa in the Atlantic Ocean reveals high connectivity in the free-living bacterioplankton. Frontiers Microbiol. 7: Article 649.

Milici M, Tomasch J, Wos-Oxley M, Decelle J, Jáuregui R, Wang H, Deng ZL, Plumeier I, Giebel HA, Badewien T, Wurst M, Pieper DH, Simon M, Wagner-Doebler I (2016) Bacterioplankton biogeography in the Atlantic Ocean: a case study of the distance-decay relationship. Frontiers Microbiol. 7: Article 590 (doi:10.3389/fmicb.2016.00590).

Milici M, Tomasch J, Wos-Oxley ML, Wang H, Jáuregui R, Camarinha-Silva A, Deng ZL, Plumeier I, Giebel HA, Wurst M, Pieper DH, Simon M, Wagner-Döbler I (2016) Low diversity of planktonic bacteria in the tropical ocean. Scientific Reports 6: 19054 (DOI: 10.1038/srep19054).

Mitulla M, Dinasquet J, Guillemette R, Simon M, Azam F, Wietz M (2016) Response of bacterial communities from California coastal waters to alginate particles and an alginolytic Alteromonas macleodii strain. Environ Microbiol 18(12): 4369-4377.

Osterholz H, Singer G, Wemheuer B, Daniel R, Simon M, Niggemann J, Dittmar T (2016) Deciphering associations between dissolved organic molecules and bacterial communities in a pelagic marine system. ISME J 7: 1717-1730.

Wichmann H, Brinkhoff T, Simon M, Richter-Landsberg C (2016) Dimethylsulfoniopropionate promotes process outgrowth in neural cells and exerts protective effects against tropodithietic acid. Mar. Drugs, 14: 89 (doi:10.3390/md14050089).


Billerbeck S, Orchard J, Tindall BJ, Giebel HA, Brinkhoff T, Simon M (2015) Description of Octadecabacter temperatus sp. nov., isolated from the southern North Sea, emended description of the genus Octadecabacter and reclassification of Octadecabacter jejudonensis Park & Yoon 2014 as Pseudooctadecabacter jejudonensis gen. nov., comb. nov. Internat J System Evol Microbiol 65: 1967–1974. doi: 10.1099/ijs.0.000205.

Gram L, Rasmussen BB, Wemheuer B, Bernbom N, Ng YY, Porsby CH, Breider S, Brinkhoff T (2015) Phaeobacter inhibens from the Roseobacter clade has an environmental niche as a surface colonizer in harbors. System Appl Microbiol 38: 483-493.

Klingner A, Bartsch A, Dogs M, Wagner-Döbler I, Jahn D, Simon M, Brinkhoff T, Becker J, Wittmann C (2015) Large-scale 13C flux profiling reveals conservation of the Entner-Doudoroff pathway as a glycolytic strategy among marine bacteria that use glucose. Appl Environ Microbiol 81/7: 2408-2422.

Neumann AM, Balmonte JP, Berger M, Giebel HA, Arnosti C, Voget S, Simon M, Brinkhoff T, Wietz M (2015) Different utilization of alginate and other algal polysaccharides by marine Alteromonas macleodii ecotypes. Environ Microbiol 17/10: 3857-3868.
doi: 10.1111/1462-2920.12862

Osterholz H, Niggemann J, Giebel HA, Simon M, Dittmar T (2015) Inefficient microbial production of refractory dissolved organic matter in the ocean. Nature Comm 6: 7422. doi:10.1038/ncomms8422.

Schwedt A, Seidel M, Dittmar T, Simon M, Bondarev V, Romano S, Lavik G, Schulz-Vogt HN (2015) Substrate use of Pseudovibrio sp. growing in ultraoligotrophic seawater, PLOS One, 10(3): e0121675 (doi:10.1371/journal.pone.0121675).

Seidel M, Beck M, Greskowiak J, Riedel T, Waska H, Suryaputra IGNA, Schnetger B, Niggemann J, Simon M, Dittmar T (2015) Benthic-pelagic coupling of nutrients and dissolved organic matter composition in an intertidal sandy beach. Mar Chem 176: 150–163.

Voget S, Billerbeck S, Simon M, Daniel R (2015). Closed genome sequence of Octadecabacter temperatus SB1, the first mesophilic species of the genus Octadecabacter. Genome Announc 3(5): e01051-15. doi:10.1128/genomeA.01051-15.

Voget S, Wemheuer B, Brinkhoff T, Vollmers J, Dietrich S, Giebel HA, Beardsley C, Sardemann C, Bakenhus I, Billerbeck S, Daniel R, Simon M (2015) Adaptation of an abundant Roseobacter RCA organism to pelagic systems revealed by genomic and transcriptomic analyses. ISME J 9: 371-384.

Wichmann H, Vocke F, Brinkhoff T, Simon M, Richter-Landsberg C (2015) Cytotoxic effects of tropodithietic acid on mammalian clonal cell lines of neuronal and glial origin. Mar Drugs 13: 7113–7123.

Wietz M, Wemheuer B, Simon H, Giebel HA, Seibt MA, Daniel R, Brinkhoff T, Simon M (2015) Polysaccharides initiate distinct responses of bacterial communities from the Southern and Atlantic Oceans. Environ Microbiol 17/10: 3822-3831.

Ziesche L, Bruns H, Dogs M, Wolter L, Mann F, Wagner-Doebler I, Brinkhoff T, Schulz S (2015) Homoserine lactones, methyl oligohydroxybutyrates, and other extracellular metabolites of macroalgae-associated bacteria of the Roseobacter clade: Identification and functions. ChemBioChem 16: 2094-2107 (ISSN: 1439-4227).


Dogs M, Voget V, Teshima H, Petersen J, Fiebig A, 12 co-authors, Simon M, Klenk HP, Göker M, Brinkhoff T(2013b) Genome sequence of Phaeobacter inhibens type strain (T5T), a secondary metabolite producing representative of the marine Roseobacter clade, and emendation of the species description of Phaeobacter inhibens. Stand Genomic Sci 9 (2): 334-350.

Buddruhs N, Pradella S, Göker M, Päuker O, Michael V, Pukall R, Spröer C, Schumann P, Petersen J, Brinkhoff T (2013) Molecular and phenotypic analyses reveal the non-identity of the Phaeobacter gallaeciensis type strain deposits CIP 105210T and DSM 17395. Int J Syst Evol Microbiol 63: 4340-4349.

Buddruhs N, Chertkov O, Fiebig A, Petersen J, 10 co-authors, Göker M, Brinkhoff T, Klenk HP (2013) Complete genome sequence of the marine methyl-halide oxidizing Leisingera methylohalidivorans type strain (DSM 14336T), a member of the Roseobacter clade. Stand Genomic Sci 9: 128-141.

Dogs M, Teshima H, Petersen J, Fiebig A, 13 co-authors, Simon M, Klenk HP, Göker M, Brinkhoff T (2013a) Genome sequence of Phaeobacter daeponensis type strain (DSM 23529T), a facultatively anaerobic bacterium isolated from marine sediment, and emendation of Phaeobacter daeponensis. Stand Genomic Sci 9: 142-159.

Freese H, Dalingault H, Petersen J, Pradella S, Fiebig A, 12 co-authors, Brinkhoff T, Göker M, Overmann J, Klenk HP (2013) Genome sequence of the phage-gene rich marine Phaeobacter arcticus type strain DSM 23566T. Stand Genomic Sci 8: 450-464.

Riedel T, Teshima H, Petersen J, Fiebig A, 16 co-authors, Göker M, Brinkhoff T, Klenk HP (2013) Genome sequence of the Leisingera aquimarina type strain (DSM 24565T), a member of the marine Roseobacter clade rich in extrachromosomal elements. Stand Genomic Sci 8: 398-403.

Giebel HA, Kalhoefer D, Gahl-Janssen R, Choo YJ, Lee K, Cho JC, Tindall BJ, Rhiel E, Beardsley C, Aydogmus ÖO, Voget S, Daniel R, Simon M, Brinkhoff T (2013) Planktomarina temperata gen. nov., sp. nov., belonging to the globally distributed RCA cluster of the marine Roseobacter clade, isolated from the German Wadden Sea. Int J System Evol Microbiol 63: 4207–4217.

Beyersmann PG, Chertkov O, Petersen J, Fiebig A, Chen A, Pati A, Ivanova N, Lapidus A, Goodwin LA, Chain P, Detter JC, Rohde M, Gronow S, Kyrpides NC, Woyke T, Simon M, Göker M, Klenk HP, Brinkhoff T (2013) Genome sequence of Phaeobacter caeruleus type strain (DSM 24564T), a surface-associated member of the marine Roseobacter clade. Stand Gen Sci 8: 403-419.

Penesyan A, Breider S, Schumann P, Tindall BJ, Egan S, Brinkhoff T (2013) Epibacterium ulvae gen. nov., sp. nov., epibiotic bacteria isolated from the surface of a marine alga. Int J Syst Evol Microbiol 63: 1589-1596.

Hahnke S, Sperling M, Langer T, Wichels A, Gerdts G, Beardsley C, Brinkhoff T, Simon M (2013) Distinct seasonal growth patterns of the bacterium Planktotalea frisia in the North Sea and specific interaction with phytoplankton algae. FEMS Microbiol Ecol 86: 185-199. 

Brock NL, Citron CA, Zell C, Berger M, Wagner-Döbler I, Petersen J, Brinkhoff T, Simon M, Dickschat J (2013) Isotopically labeled sulfur compounds and synthetic selenium and tellurium analogues to study sulfur metabolism in marine bacteria. Beilstein J Org Chem 9: 942-950.

Vollmers J, Voget S, Dietrich S, Gollnow K, Smits M, Meyer K, Brinkhoff T, Simon M, Daniel R (2013) Poles apart: Extreme genome plasticity and a new xanthorhodopsin-like gene family in the genomes of Octadecabacter arcticus 238 and Octadecabacter antarcticus 307. PLoS One 8 (5):e63422.

Hahnke S, Tindall BJ, Schumann P, Simon M, Brinkhoff T (2013) Pelagimonas elegans gen. nov., sp. nov., isolated from the southern North Sea. Internat J System Evol Microbiol 63: 835–843.

Kisand V, Gebhardt S, Rullkötter J, Simon M (2013) Significant bacterial transformation of riverine humic matter detected by pyrolysis GC-MS in serial chemostat experiments. Mar Chem 149: 23-31.

Hahnke S, Brock NL, Zell C, Simon M, Dickschat JS, Brinkhoff T (2013) Physiological diversity of Roseobacter clade bacteria co-occurring during a phytoplankton bloom in the North Sea. System Appl Microbiol 36: 39-48.


Rocker D, Kisand V, Scholz-Böttcher B, Kneib T, Lemke A, Rullkötter J, Simon M (2012) Differential decomposition of humic acids by marine and estuarine bacterial communities at varying salinities. Biogeochem 111: 331–346.

Simon M, Billerbeck S, Kessler D, Selje N, Schlingloff A (2012) Bacterioplankton communities in the Southern Ocean: Composition and growth response to various substrate regimes. Aquat Microb Ecol 68: 13–28. 

Thole S, Kalhoefer D, Voget S, Berger M, Engelhardt T, Liesegang H, Wollherr A, Kjelleberg S, Daniel R, Simon M, Thomas T, Brinkhoff T (2012) Genome analysis of two Phaeobacter gallaeciensis strains from globally almost opposite locations reveals high similarity of adaptation to a surface associated lifestyle. ISME J 6/12: 2229-2244.

Lenk S, Moraru C, Hahnke S, Arnds J, Richter M, Kube M, Reinhardt R, Brinkhoff T, Harder J, Amann R, Mußmann M (2012) Roseobacter clade bacteria are abundant in coastal sediments and encode a novel 2 combination of sulfur oxidation genes. ISME J 6: 2178-2187.

Berger M, Brock N, Liesegang H, Dogs M, Preuth I, Simon M, Dickschat J, Brinkhoff T (2012) Genetic Analysis of the Upper Phenylacetate Catabolic Pathway in the Production of Tropodithietic Acid by Phaeobacter gallaeciensis. Appl Environ Microbiol 78(10): 3539-3551. (DOI: 10.1128/AEM.07657-11).

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

Hahnke S, Tindall BJ, Schumann P, Sperling M, Brinkhoff T, Simon M (2012) Planktotalea frisia, gen. nov., sp. nov., isolated from the southern North Sea. Internat J System Evol Microbiol 62: 1619-1624. (DOI 10.1099/ijs.0.033563-0).

Rocker D, Brinkhoff T, Grüner N, Dogs M, Simon M (2012) Composition of humic acid degrading estuarine and marine bacterial communities. FEMS Microbiol Ecol 80/1: 45-63.

Sperling M, Giebel HA, Rink B, Grayek S, Staneva J, Stanev E, Simon M (2012) Differential effect of hydrographic and biogeochemical properties on SAR11 and Roseobacter RCA populations in the southern North Sea. Aquat Microb Ecol 67: 25-34.


Berger M, Neumann A, Schulz S, Simon M, Brinkhoff T (2011) Tropodithietic acid production in Phaeobacter gallaeciensis is regulated by N-acyl homoserine lactone-mediated quorum sensing. J Bacteriol 193/23: 6576-6585.

Kalhoefer D, Thole S, Voget S, Lehmann R, Liesegang H, Wollher A, Daniel R, Simon M, Brinkhoff T (2011) Comparative genome analysis and enhanced physiological description of Roseobacter litoralis. BMC Genomics 12: 324.

Giebel HA, Kalhoefer D, Lemke A, Thole S, Gahl-Janssen R, Simon M, Brinkhoff T (2011) Distribution of Roseobacter RCA and SAR11 lineages in the North Sea and characteristics of an abundant RCA isolate, ISME J 5: 8-19 (doi:10.1038/ismej.2010.87).

Kattner G, Simon M, Koch BP (2011) Molecular characterization of dissolved organic matter and constraints for prokaryotic utilization. In Microbial Carbon Pump in the Ocean, N. Jiao, F. Azam, S. Sanders, (Eds.) (Science/AAAS, Washington, DC), pp 60-61 (pdf).

Petersen J, Brinkmann H, Berger M, Brinkhoff T, Päuker O, Pradella S (2011) Origin and evolution of a novel DnaA-like plasmid replication type in Rhodobacterales. Mol. Biol. Evol. 28:1229-1240.

Rink B, Grüner N, Brinkhoff T, Ziegelmüller K, Simon M (2011) Regional patterns of bacterial community composition and biogeochemical properties in the southern North Sea. Aquat. Microb. Ecol. 63: 207-222.


Lemke A, Lunau M, Badewien TH, Simon M (2010) Short-term and seasonal dynamics of bacterial biomass production and amino acid turnover in the water column of an intertidal ecosystem, the Wadden Sea. Aquat. Microb. Ecol. 61: 205-218 (doi 10.3354/ame01453).

Zhao C, Burchardt M, Brinkhoff T, Simon M, Wittstock G (2010) Microfabrication of patterns of adherent marine bacterium Phaeobacter inhibens using soft lithography and scanning probe lithography. Langmuir: 26/11: 8641-8647.

Thiel V, Brinkhoff T, Dickschat J, Wickel S, Grunenberg J, Wagner-Döbler I, Simon M, Schulz S (2010) Identification and biosynthesis of tropone derivatives and sulfur volatiles produced by bacteria of the marine Roseobacter clade. Org Biomol Chem 8: 234-246.

Wagner-Döbler I, Baumgart B, Brinkhoff T, Buchholz I, Bunk B, Cypionka H, Daniel R, Drepper T, Gerdts G, Hahnke S, Han C, Jahn D, Kalhoefer D, Kiss H, Klenk HP, Kyrpides N, Liebl W, Liesegang H, Meincke L, Pati A, Petersen J, Piekarski T, Pommerenke C, Pradella S, Pukall R, Rabus R, Stackebrandt E, Thole S, Thompson S, Tielen P, Tomasch J, von Jan M, Wanphrut N, Wichels A, Zech H, Simon M. 2010. The complete genome sequence of the algal symbiont Dinoroseobacter shibae - a hitchhiker`s guide to life in the sea. ISME J 4: 61-77, doi:10.1038/ismej.2009.94.


Giebel, H.A., Brinkhoff, T., Zwisler, W., Selje, N., Simon, M. 2009. Distribution of Roseobacter RCA and SAR11 lineages and distinct bacterial communities from the subtropics to the Southern Ocean. Environ. Microbiol. 11/8:2164-2178 (doi:10.1111/j.1462-2920.2009.01942.x).

Grossart HP, Thorwest M, Plitzko I, Brinkhoff T, Simon M, Zeeck A (2009) Production of a blue pigment (Glaukothalin) by marine Rheinheimera spp. Int. J. Microbiol, Article ID 701735, 7 pages, doi:10.1155/2009/701735.

Lemke, A., Lunau, M., Stone, J., Dellwig, O., Simon, M. 2009. Spatio-temporal dynamics of suspended matter properties and bacterial communities in the back-barrier tidal flat system of Spiekeroog Island. Ocean Dyn. 59/2: 277-290.

Zhao, C., Brinkhoff, T., Burchardt, M., Simon M., Wittstock, G. 2009. Surface selection, adhesion and retention behaviour of marine bacteria on synthetic organic surfaces using self-assembled monolayers and atomic force microscopy. Ocean Dyn. 59/2: 305-315.

Stevens, H., Simon, M., Brinkhoff, T. 2009. Cultivable bacteria from bulk water, aggregates and surface sediments of a tidal flat ecosystem. Ocean Dyn. 59/2: 291-309.

Zech H, Thole S, Schreiber K, Kalhöfer D, Voget S, Brinkhoff T, Simon M, Schomburg D, Rabus R (2009) Growth phase-dependent global protein and metabolite profiles of Phaeobacter gallaeciensis strain DSM 17395, a member of the marine Roseobacter clade. Proteomics 9: 3677-3697 (DOI 10.1002/pmic.200900120).


Kisand, V., Rocker, D., Simon, M. 2008. Significant decomposition of riverine humic-rich DOC by marine but not estuarine bacteria assessed in sequential chemostat experiments. Aquat. Microb. Ecol. 53: 151-160.

Scherr, C., Simon, M., Spranger, J., Baumgartner, S. 2008. Test System Stability and Natural Variability of a Lemna Gibba L. Bioassay. PloS One 3(9): e3133. doi:10.1371/journal.

Rink, B., Martens, T., Fischer, D., Lemke, A., Grossart, H.P., Simon, M., Brinkhoff, T. 2008. Short-term dynamics of bacterial communities in a tidally affected coastal ecosystem. FEMS Microbiol. Ecol. 66: 306-319.

Gasol, J.M., Pinhassi, J., Alonso-Sáez, L., Ducklow, H., Herndl, G.J., Koblížek, M., Labrenz, M., Luo, Y., Morán, X.A.G., Reinthaler, T., Simon, M. 2008. Towards a better understanding of the microbial carbon flux in the sea. Aquat. Microb. Ecol. 53: 21-38.

Brinkhoff, T., Giebel, H.A., Simon, M. 2008. Diversity, ecology, and genomics of the Roseobacter clade: a short overview. Arch. Microbiol. 189: 531-539.


Dellwig, O., Beck, M., Lemke, A., Lunau, M. Schnetger, B., Brumsack, H.J. 2007. Non-conservative behaviour of molybdenum in coastal waters: Coupling geochemical, biological, and sedimentological processes. Geochim. Cosmochim. Acta 71 2745-2761

Sabdono, A., Kang., S., Hur., H-G, Grossart., H-P., Simon, M. , Radjasa, O.K. 2007. Organophosphate residues in coral tissues of Indonesian coastal waters. Pak. J. Biol. Sci. 7: 239-246.

Stevens, H., Brinkhoff, T., Rink, B, Vollmers, J., Simon, M. 2007. Diversity and abundance of gram-positive bacteria in a tidal flat ecosystem. Environ. Microb. 9(7): 1810-1822.

Rink, B., Seeberger, S., Martens, T., Duerselen, C., Simon, M., Brinkhoff, T. 2007. Effects of a phytoplankton bloom in a coastal ecosystem on the composition of bacterial communities. Aquat. Microb. Ecol. 48: 47-60.

Radjasa, O.K., Martens, T., Grossart, H.P., Brinkhoff, T., Sabdono, A., Simon, M. 2007. Antagonistic activity of a marine bacterium Pseudoalteromonas luteoviolacea TAB 4.2 associated with coral Acropora sp. J. Biol. Sci. 7: 239-246.

Grossart, H.P., Simon, M. 2007. Interactions of planktonic algae and bacteria: Effects on algal growth and organic matter dynamics. Aquat. Microb. Ecol. 47: 163-176.

Martens T, Gram L, Grossart HP, Kessler D, Müller, R, Simon M, Wenzel SC, Brinkhoff T. 2007. Bacteria of the Roseobacter clade show potential for secondary metabolite production. Microb Ecol. 54: 31-42.

Simon, M., Rosenstock, B. 2007. Different coupling of dissolved amino acid, protein, and carbohydrate turnover to heterotrophic picoplankton production in the Southern Ocean in austral summer and fall. Limnol. Oceanogr. 52: 85-95.

Winter, C., Becker, M., Ernstsen, V.B., Hebbeln, D, Port, A., Bartholomä, A., Flemming, B., Lunau, M. 2007. In-situ observation of aggregate dynamics in a tidal channel using acoustics, laser diffraction and optics. J. Coast. Res. SI 50: 1173-1177.


Wang, L., Große, T., Stevens, H., Brinkhoff, T., Simon, M., Liang, L., Bitzer, J., Bach, G., Zeeck, A., Tokuda, H., Lang, S. 2006. Bioactive hydroxyphenylpyrrole-dicarboxylic acids from a new marine Halomonas sp.: production and structure elucidation. Appl. Microbiol. Biotechnol. 72: 816-822.

Martens T, Heidorn T, Pukall R, Simon M, Tindall BJ, Brinkhoff T. 2006. Reclassification of Roseobacter gallaeciensis Ruiz-Ponte et al. 1998 as Phaeobacter gallaeciensis gen. nov., comb. nov., description of Phaeobacter inhibens sp. nov., antibiotic-producing members of the Roseobacter clade, reclassification of Ruegeria algicola (Lafay et al. 1995) Uchino et al. 1998 as Marinovum algicola gen. nov., comb. nov., and consequences for the circumscription of the genera Roseobacter, Ruegeria, and Leisingera. J. System. Evol. Microbiol. 56: 1293-1304.

Grossart, H.P., Czub, G., Simon, M. 2006. Algae-bacteria interactions and their effects on aggregation and organic matter flux in the sea. Environ. Microb. 8: 1074-1084.

Lunau, M., Lemke, A., Dellwig, O., Simon, M. 2006. Physical and biogeochemical controls of microaggregate dynamics in a tidally affected coastal ecosystem. Limnol. Oceanogr. 51: 847-859.


Bhaskar, P.V., Grossart, H.P., Bhosle, N.B., Simon, M. 2005. Production of macroaggregates from dissolved exopolymeric substances (EPS) of bacterial and diatom origin. FEMS Microbiol. Ecol. 53: 255-264.

Brinkhoff, T., Kuever, J., Muyzer, G., Jannasch, H.W. 2005. The genus Thiomicrospira. Bergey's Manual of Systematic Bacteriology, 2nd edition, Vol. 2. Brenner DJ, Krieg NR, Staley JT (eds), 193-199, Springer, New York.

Dickschat, J. S., Martens, T., Brinkhoff, T., Simon, M., Schulz. S. 2005. Volatiles released by a Streptomyces species isolated from the North Sea. Chemistry and Biodiversity 2: 837-865.

Grossart, H.P., Levold, F., Allgaier, M., Simon, M., Brinkhoff T. 2005. Composition of bacterial communities associated with marine diatoms. Environ. Microbiol. 7: 860-873.

Knittel, K., J. Kuever, A. Meyerdierks, R. Meinke, R. Amann, and T. Brinkhoff. 2005. Thiomicrospira arctica sp. nov. and Thiomicrospira psychrophila sp. nov., psychrophilic obligately chemolithoautotrophic sulfur-oxidizing bacteria isolated from marine Arctic sediments. Int. J. Syst. Evol. Microbiol. 55: 781-786.

Lunau, M., Lemke, A., Walther, K., Martens-Habbena, W., Simon, M. 2005. An improved method for counting bacteria in samples with high proportions of particle-associated cells by epifluorescence microscopy: Environ. Microbiol. 7: 961-968.

Rosenstock, B., Zwisler, W., Simon, M. 2005. Bacterial consumption of humic and non-humic low and high molecular weight DOM and the effect of solar irradiation on the turnover of amino acids and carbohydrates in the Southern Ocean. Microb. Ecol. 50: 90-101.

Selje, N., Brinkhoff, T. Simon, M. 2005. Detection of abundant bacteria in the Weser estuary by culture-dependent and culture independent approaches. Aquat. Microb. Ecol. 39: 17-34.

Stevens, H., Brinkhoff, T., Simon, M. 2005. Composition and seasonal dynamics of free-living, aggregate- and sediment surface-associated bacterial communities in the German Wadden Sea. Aquat. Microb. Ecol. 38: 15-30.

Stevens, H., Stuebner, M., Simon, M., Brinkhoff, T. 2005. Phylogeny of Proteobacteria and Bacteroidetes from oxic habitats of a tidal flat ecosystem. FEMS Microbiol. Ecol. 54: 351-365.


Brinkhoff, T., Bach, G., Heidorn, T., Liang, L., Schlingloff, A., Simon, M. 2004. Antibiotic production by a Roseobacter clade affiliated species from the German Wadden Sea and its antagonistic effects on indigenous isolates. Appl. Environ. Microbiol. 70: 2560-2565.

Grossart, H.P., Schlingloff, A., M. Bernhard, Simon, M., Brinkhoff, T. 2004. Antagonistic activity of bacteria isolated from organic aggregates of the German Wadden Sea. FEMS Microbiol. Ecol. 47: 387-396.

Grossart, H.P., Brinkhoff, T., Martens, T., Duerselen, C., Liebezeit, G., Simon, M. 2004. Tidal dynamics of dissolved and particulate matter and bacteria in the German Wadden Sea in spring and fall. Limnol. Oceanogr. 49: 2212-2222.

Lunau, M., A. Sommer, A., Grossart, H.P., Simon. M. 2004. A new sampling device for microaggregates in turbid aquatic systems. Limnol. Oceanogr. Methods 2: 387-397.

Selje, N., Simon, M., Brinkhoff, T. 2004. A newly discovered Roseobacter cluster in temperate and polar oceans. Nature 427: 445-448.

Simon, M. 2004. Die Roseobacter-Gruppe: Wichtiges Strukturelement mariner Bakteriengemeinschaften. Biospektrum 10/5: 633-635.

Simon, M., Rosenstock, B., Zwisler, W. 2004. Coupling of epipelagic and mesopelagic heterotrophic picoplankton production to phytoplankton biomass in the Antarctic polar frontal region. Limnol. Oceanogr: 49: 1035-1043.


Bruns, A., H. Philipp, H. Cypionka, and T. Brinkhoff. 2003. Aeromicrobium marinum sp. nov., an abundant pelagic bacterium isolated from the German Wadden Sea. Int. J. Syst. Evol. Microbiol. 53: 1917 - 1923.

Grossart, H.P., Hietanen, S., Ploug, H. 2003. Microbial dynamics on diatom aggregates in Øresund, Denmark. Mar. Ecol. Progr. Ser. 249: 69-78.

Grossart, H.P., Kiørboe, T., Kam, T., Ploug, H. 2003. Bacterial colonization of marine particles: growth and inter-specific interactions. Appl. Environ. Microbiol. 69: 3500-3509.

Kiørboe, T., Grossart, H.P., Ploug, H., Kam, T. 2003. Microbial dynamics on particles: colonization, growth, detachment, and grazing mortality of attached bacteria. Appl. Environ. Microbiol. 69: 3036-3047.

Rosenstock, B., Simon, M. 2003. Consumption of dissolved amino acids and carbohydrates by limnetic bacterioplankton according to molecular weight fractions and proportions bound to humic matter. Microb. Ecol. 45: 433-443.

Zwisler, W. Selje, N, Simon, M. 2003. Seasonal patterns of the bacterioplankton community composition in a large mesotrophic lake. Aquat. Microb. Ecol. 31: 211-225.

Selje, N., Simon, M. 2003. Composition and dynamics of particle-associated and free-living bacterial communities in the Weser estuary, Germany. Aquat. Microb. Ecol. 30: 221-236.


Gram, L., Grossart, H.-P., Schlingloff, A., Kiørboe, T. 2002. Production of acylated homoserine lactones by Roseobacter strains isolated from marine snow. Appl. Eviron. Microbiol. 68:4111-4116.

Grossart, H.P., Simon, M. 2002. Bacterioplankton dynamics in the Golf of Aqaba and the northern Red Sea in early spring, Mar. Ecol. Prog. Ser. 239: 263-276.

Kiørboe, T., Grossart, H.P., Ploug, H., Kam, T. 2002. Bacterial colonization of sinking aggregates: mechanisms and rates. Appl. Environm. Microbiol. 68: 3996-4006.

Kuever J., S. M. Sievert, H. Stevens, T. Brinkhoff, and G. Muyzer. 2002. Microorganisms of the oxidative and reductive part of the sulphur cycle at a shallow-water hydrothermal vent in the Aegean Sea (Milos, Greece). Cah. Biol. Mar. 43: 413-416.

Simon, M., Grossart, H.P., Schweitzer, B. Ploug, H. 2002. Microbial ecology of organic aggregates in aquatic ecosystems. Aquat. Microb. Ecol. 28: 175-211.


Brachvogel, T., Schweitzer, B., Simon, M. 2001. Dynamics and bacterial colonization of microaggregates in a large mesotrophic lake. Aquat. Microb. Ecol. 26: 23-35.

Brinkhoff, T., and E. J. van Hannen. 2001. Use of silicone grease to avoid "smiling effect" in denaturing gradient gel electrophoresis. J. Rapid Meth. Aut. Mic. 9: 259-261.

Grossart, H.P., Ploug, H. 2001. Microbial degradation of organic carbon and nitrogen on diatom aggregates. Limnol. Oceanogr. 46: 267-277.

Grossart H.P., Riemann L., Azam F. 2001. Bacterial motility in the sea and its ecological implications. Aquat. Microb. Ecol. 25: 247-258.

Knoll, S., Zwisler, W., Simon, M. 2001. Bacterial colonization of early stages of limnetic diatom microaggregates. Aquat. Microb. Ecol. 25: 141-150.

Rosenstock, B., Simon, M. 2001. Sources and Sinks of dissolved amino acids and proteins in a large and deep mesotrophic lake. Limnol. Oceanogr. 46: 644-654.

Schweitzer B, Huber, I., Amann, R., Ludwig, W., Simon, M. 2001. Alpha- and beta-proteobacteria control the consumption and release of amino acids on lake snow aggregates. Appl. Environ. Microbiol. 67: 632-645.


Grossart, H.P., Ploug, H. 2000. Bacterial production and growth efficiencies: Direct measurements on riverine aggregates. Limnol. Oceanogr. 45: 436-445.

Grossart, H.P., Steward, G.F., Martinez, J., Azam, F. 2000. A simple, rapid method for demonstrating bacterial flagella. Appl. Environ. Microbiol. 66:3632-3636.

Ploug, H., Grossart, H.P. 2000. Bacterial growth and grazing on diatom aggregates: Respiratory carbon turnover as a function of aggregate size and sinking velocity. Limnol. Oceanogr. 45: 1467-1475.

Simon, M., Jontofsohn, M., Parparov, A., Berman, T. 2000. Turnover of combined amino acids and carbohydrates on organic aggregates and in the bulk water in Lake Kinneret and other pelagic ecosystems. Arch. Hydrobiol. Spec. Issues Adv. Limnol. 55: 365-377.

Teske, A., T. Brinkhoff, G. Muyzer, D. P. Moser, J. Rethmeier, and H. W. Jannasch. 2000. Diversity of thiosulfate-oxidizing bacteria from marine sediments and hydrothermal vents. Appl. Environ. Microbiol. 66:3125-3133.


Berman, T., Parparov, A., Simon, M. 1999. Carbon fluxes in limnetic seston: relative significance of respiration, solubilization control of bacterioplankton and non-photosynthetic formation. Arch. Hydrobiol. Spec. Ser. Adv. Limnol. 54: 77-90.

Brinkhoff, T., S. M. Sievert, J. Kuever, and G. Muyzer. 1999. Distribution and diversity of sulfur-oxidizing Thiomicrospira spp. at a shallow-water hydrothermal vent in the Aegean Sea (Milos, Greece). Appl. Environ. Microbiol. 65:3843-3849.

Brinkhoff, T., G. Muyzer, C. O. Wirsen, and J. Kuever. 1999. Characterization of Thiomicrospira kuenenii sp. nov. and Thiomicrospira frisia sp. nov., two mesophilic oligately chemolithoautotrophic sulfur-oxidizing bacteria isolated from an intertidal mud flat. Int. J. Syst. Bacteriol. 49:385-392.

Brinkhoff, T., G. Muyzer, C. O. Wirsen, and J. Kuever. 1999. Characterization of Thiomicrospira chilensis sp. nov., a mesophilic obligately chemolithoautotrophic sulfur-oxidizing bacterium isolated from a Thioploca mat. Int. J. Syst. Bacteriol. 49:875-879.

Bunte, C., Simon, M. 1999. Bacterioplankton turnover of dissolved free monosaccharides in a mesotrophic lake. Limnol. Oceanogr. 44: 1862-1870.

Ploug, H., Grossart, H.P. 1999. Bacterial production and respiration in suspended aggregates -a matter of the incubation method. Aquat. Microb. Ecol. 20: 21-29.

Schulz, H. N., T. Brinkhoff, T. G. Ferdelman, M. Hernández Mariné, A. Teske, and B. B. Jørgensen. 1999. Dense populations of a giant sulfur bacterium in Namibian shelf sediments. Science 284:493-495.

Simon, M., Glöckner, F.O., Amann, R. 1999. Differences in the community structure are reflected by a different temperature adaptation of bacterioplankton growth in the Southern Ocean. Aquat. Microb. Ecol. 18: 275-284.

Weiss, M., Simon, M. 1999. Consumption of labile dissolved organic matter by limnetic bacterioplankton: the relative significance of amino acids and carbohydrates. Aquat. Microb. Ecol. 17: 1-12.


Brinkhoff, T., C. M. Santegoeds, K. Sahm, J. Kuever, and G. Muyzer. 1998. A polyphasic approach to study the diversity and vertical distribution of sulfur-oxidizing Thiomicrospira species in coastal sediments of the German Wadden Sea. Appl. Environ. Microbiol. 64: 4650-4657.

Grossart, H.P., Berman, T., Simon, M., Pohlmann, K. 1998. Occurrence and microbial dynamics of macroscopic organic aggregates (lake snow) in Lake Kinneret in fall. Aquat. Microb. Ecol. 14: 59-67.

Grossart, H.P., Simon, M. 1998. Significance of limnetic organic aggregates (lake snow) for the sinking flux of particulate organic matter in a large lake. Aquat. Microb. Ecol. 15: 115-125.

Grossart, H.P., Simon, M. 1998. Bacterial colonization and microbial decomposition of limnetic organic aggregates (lake snow). Aquat. Microb. Ecol. 15: 127-140.

Muyzer, G., T. Brinkhoff, U. Nübel, C. Santegoeds, H. Schäfer, and C. Wawer. 1998. Denaturing gradient gel electrophoresis (DGGE) in microbial ecology, p. 3.4.4: 1-27. In A. D. L. Akkermans, J. D. van Elsas, and F. J. de Bruijn (ed.), Molecular microbial ecology manual, 3rd ed. Kluwer Academic Publishers, Dordrecht, The Netherlands.

Parparov, A., Berman, T., Grossart, H.P., Simon, M. 1998. The metabolic activity of seston-associated microorganisms in Lake Kinneret. Aquat. Microb. Ecol. 15: 77-78.

Simon, M. 1998. Bacterioplankton dynamics in a large mesotrophic lake: II. concentrations and turnover of dissolved amino acids. Arch. Hydrobiol. 144: 1-23.

Simon, M., Bunte, C., Schulz, M., Weiss, M., Wünsch, C. 1998. Bacterioplankton dynamics in Lake Constance (Bodensee): Substrate utilization, growth control, and long-term trends. Arch. Hydrobiol. Spec. Issues Advanc. Limnol. 53: 195-221.

Simon, M., Wünsch, C. 1998. Temperature control of bacterioplankton growth in a large temperate lake. Aquat. Microb. Ecol. 16: 119-130.

Simon, M., Tilzer, M.M, Müller, H. 1998. Bacterioplankton dynamics in a large mesotrophic lake: I. abundance, growth and relationships to phytoplankton growth. Arch. Hydrobiol. 143: 385-407.

Sorokin, D. Y., G. Muyzer, T. Brinkhoff, J. G. Kuenen, and M. S. M. Jetten. 1998. Isolation and characterization of a novel facultatively alkaliphilic Nitrobacter species, N. alkalicus sp. nov. Arch. Microbiol. 170: 345-352.

Wichels, A., S. S. Biel, H. R. Gelderblom, T. Brinkhoff, G. Muyzer, and C. Schütt. 1998. Bacteriophage diversity in the North Sea. Appl. Environ. Microbiol. 64: 4128-4133.

Wirsen, C. O., T. Brinkhoff, J. Kuever, G. Muyzer, S. Molyneaux, and H. W. Jannasch. 1998. Comparison of a new Thiomicrospira strain from the Mid-Atlantic Ridge with known hydrothermal vent isolates. Appl. Environ. Microbiol. 64: 4057-4059.

1997 und früher

Brinkhoff, T., and G. Muyzer. 1997. Increased species diversity and extended habitat range of sulfur-oxidizing Thiomicrospira spp. Appl. Environ. Microbiol. 63: 3789-3796.

Grossart, H.P., Simon, M., Logan, B. 1997. Formation of macroscopic organic aggregates (lake snow) in a large lake: The significance of transparent exopolymer particles (TEP), phyto- and zooplankton. Limnol. Oceanogr. 42: 1651-1659.

Hanisch, K., Schweitzer, B., Simon, M. 1996. Utilization of dissolved carbohydrates by planktonic bacteria in Lake Constance. Microb. Ecol. 31: 41-55.

Reichart, I., Simon, M. 1996. Horizontal variability of bacterioplankton growth dynamics in a large lake. Aquat. Microb. Ecol. 11: 31-41.

Weiss, P., Schweitzer, B., Amann, R., Simon, M. 1996. Identification in situ and dynamics of bacteria on limnetic organic aggregates (lake snow). Appl. Environ. Microbiol. 62: 1998-2005.

Hennes, K., Simon, M. 1995. Significance of bacteriophages for controlling bacterioplankton growth in a mesotrophic lake. Appl. Environ. Microbiol. 61: 333-340.

Logan, B.E., Passow, U., Alldredge, A.L., Grossart, H.P., Simon, M. 1995. Mass sedimentation of diatom blooms as large aggregates is driven by coagulation of transparent exopolymer particles (TEP). Deep Sea Res. 42: 203-214.

Schweitzer, B., Simon, M. 1995. Limiting nutrients for bacterioplankton growth in a mesotrophic temperate large lake, Microb. Ecol. 30: 89-104.

Logan, B.E., Grossart, H.P., Simon, M. 1994. Direct observation of phytoplankton and aggregates on polycarbonate filters using brightfield microscopy, J. Plankton Res. 16: 1811-1815.

Simon, M. 1994. Diel variability of bacterioplankton biomass production and cell multiplication in Lake Constance. Arch. Hydrobiol. 130: 283-302.

Simon, M., Lenhard, A., M.M. Tilzer. 1993. Bacterial production and the sinking flux of particulate organic carbon in a large and deep lake in comparison to oceanic environments. Mar. Microb. Food Webs 7: 161-176.

Grossart, H.P., Simon, M. 1993. Limnetic macroscopic organic aggregates (lake snow): abundance, characteristics, and bacterial dynamics in Lake Constance. Limnol. Oceanogr. 38: 532-546.

Kirchman, D.L., Keil, R.G., Simon, M., Welschmeyer, N.A. 1993. Biomass and production of heterotrophic bacterioplankton in the oceanic subarctic Pacific. Deep-Sea Res. 40: 967-988.

Rosenstock, B., Simon, M. 1993. Use of dissolved combined and free amino acids by planktonic bacteria in Lake Constance. Limnol. Oceanogr. 38: 1521-1531.

Simon, M., Cho, B.C., Azam, F. 1992. Significance of bacterial biomass in lakes and the ocean: comparison to phytoplankton biomass and biogeochemical implications. Mar. Ecol. Prog. Ser. 86: 103-110.

Simon, M., Welschmeyer, N.A., Kirchman, D.L. 1992. Bacterial production and the sinking flux of particulate organic matter in the subarctic Pacific. Deep-Sea Res. 39: 1997-2008.

Simon, M., Rosenstock, B. 1992. Carbon and nitrogen sources of planktonic bacteria in Lake Constance studied by the composition and isotope dilution of intracellular amino acids. Limnol. Oceanogr. 37: 1496-1511.

Smith, D.C., Simon, M., Alldredge, A.L., Azam, F. 1992. Intense hydrolytic enzyme activity on marine aggregates and implications for rapid particle dissolution. Nature 359: 139-142.


Simon H, Lipsewers YA, Giebel HA, Wiltshire KH, Simon M (2014) Temperature effects on aggregation during a spring diatom bloom. Limnol Oceanogr. Limnol Oceanogr. 59 (6): 2089-2100.

Seidel M, Beck M, Riedel T, Waska H, Suryaputra IGNA, Schnetger B, Niggemann, Simon M, Dittmar T (2014) Biogeochemistry of dissolved organis matter in an anoxic intertidfal creek bank. Geochim Cosmochim Acta 140: 418-434.

Breider S, Scheuner C, Schumann P, Fiebig A, Petersen J, Pradella S, Klenk H, Brinkhoff T and Göker M (2014) Genome-scale data suggest reclassifications in the Leisingera-Phaeobacter cluster including proposals for Sedimentitalea gen. nov. and Pseudophaeobacter gen. nov.. Front. Microbiol. 5:416. doi:10.3389/fmicb.2014.00416

Osterholz H, Simon H, Beck M, März J, Rackebrand S, Brumsack HJ, Feudel U, Simon M (2014) Impact of diatom growth on trace metal dynamics (Mn, Mo, V, U). J Sea Res 87: 35-45.

Wemheuer B, Güllert S, Billerbeck S, Giebel HA, Voget S, Simon M, Daniel R (2014) Impact of a phytoplankton bloom on the diversity of the active bacterial community in the southern North Sea as revealed by metatranscriptomic approaches. FEMS Micro Ecol 87 (2): 378-89.