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Pub­lic­a­tions 2006

Pub­lic­a­tions 2006

De­part­ment of Biogeo­chem­istry

Arnosti, C. and B. B. Jørgensen: Or­ganic car­bon de­grad­a­tion in Arc­tic mar­ine sed­i­ments, Sval­bard: A com­par­ison of ini­tial and ter­minal steps. Geo­mic­ro­bi­o­logy Journal 23:551-563 (2006). TFO
Blake, R.E., Surkov A.V., Böttcher M.E., Ferdelman T.G. and Jorgensen B.B.: Chapter 7. Oxy­gen iso­tope com­pos­i­tion of dis­solved sulfate in deep-sea sed­i­ments: East­ern Equat­orial Pa­cific Ocean. pp. 1-23 , In: Proc. ODP, Sci. Res. Vol. 201(116), Jør­gensen B.B., D`Hondt S.L. and Miller D.J. (eds.) (2006) ODP Full Text
Böttcher, M.E., Hetzel A., Brumsack H.-J. and Schipper A.: Sul­fur-iron-car­bon geo­chem­istry in sed­i­ments of the Dem­er­ara Rise. pp.1–23, In: Proc. ODP, Sci. Res­ults 207, Col­lege Sta­tion, TX (Ocean Drilling Pro­gram), Mosher, D.C., Erbacher, J., and Malone, M.J. (eds.), doi:10.2973/​odp.proc.sr.207.108.2006 (2006). ODP Full Text
Böttcher, M. E., T. G. Ferdelman, B. B. Jørgensen, R. E. Blake, A. V. Surkov and G. E. Claypool: Sul­fur iso­tope frac­tion­a­tion by the deep bio­sphere within sed­i­ments of the East­ern Equat­orial Pa­cific and Peru Mar­gin. pp. 1-21. In: Proc. ODP, Sci. Res. 201. Ocean Drilling Pro­gram, Texas A and M Uni­versity, Col­lege Sta­tion TX 77845-9547, USA (2006). ODP
Bouillon, S. and Böttcher, M.E.: Pre­face Stable Iso­topes in Biogeosciences. Org. Geo­chem. 37, 1197-1199 (2006). Full Text
Brüchert, V., B. Currie, K. R. Peard, U. Lass, R. Endler, A. Dübecke, E. Julies, T. Leipe and S. Zitzmann: Biogeo­chem­ical and Phys­ical Con­trol on shelf An­oxia and Wa­ter column Hy­dro­gen Sulph­ide in the Benguel a coastal up­welling Sys­tem off Nam­i­bia. pp. 161-193, In: Past and Present Wa­ter Column An­oxia. L. N. Neretin (ed.), Springer, Neth­er­lands (2006). Springer
Ferdelman, T.G., Kano A., Williams T., Cragg B.A., Frank T.D., Gharib J.J., Léonide P., Mangelsdorf K., Sakai S., Samrikin V.A., Spivack A.J., The IODP Expedition 307 Scientific Party: Sci­entific drilling of a cold-wa­ter car­bon­ate mound: Ship­board biogeo­chem­ical res­ults from IODP Ex­ped­i­tion 307, Gold­schmidt Con­fer­ence Ab­stracts 2006:A170, doi: 10.1016/​j.gca.2006.06.341 (2006). Full Text
Hetzel, A., Brumsack H.-J., Schnetger B. and Böttcher M.E.: In­or­ganic geo­chem­ical char­ac­ter­iz­a­tion of li­tho­lo­gic units re­covered dur­ing ODP Leg 207 (Dem­er­ara Rise). pp. 1–37, In: Proc. ODP, Sci. Res­ults, 207: Col­lege Sta­tion, TX (Ocean Drilling Pro­gram), Mosher, D.C., Erbacher, J., and Malone, M.J. (eds.), doi:10.2973/​odp.proc.sr. 207.107.2006 (2006). ODP
Hübscher, C. and Borowski, C.: Seis­mic evid­ence for fluid es­cape from Meso­zoic cuesta type to­po­graphy in the Sk­ager­rak. Mar­ine and Pet­ro­leum Geo­logy 23:17-28 (2006). ScienceDirect
Inagaki, F., T. Nunoura, S. Nakagawa, A. Teske, M. Lever, A. Lauer, M. Suzuki, K. Takai, M. Delwiche, F. S. Colwell, K. H. Nealson, K. Horikoshi, S. D'Hondt and B. B. Jørgensen: Biogeo­graph­ical dis­tri­bu­tion and di­versity of mi­crobes in meth­ane hy­drate-bear­ing deep mar­ine sed­i­ments on the Pa­cific Ocean Mar­gin. Pro­ceed­ings of the Na­tional Academy of Sci­ence, USA 103(8):2815-2820 (2006). PubMed Full Text
Inagaki, F., M.M.M. Kuypers, U. Tsunogai, J. Ishibashi, K. Nakamura, T. Treude, S. Ohkubo, M. Nakaseama, K. Gena, H. Chiba, H. Hirayama, T. Nunoura, K. Takai, B. B. Jørgensen, K. Horikoshi and A. Boetius: Mi­cro­bial com­munity in a sed­i­ment-hos­ted CO2 lake of the south­ern Ok­inawa Trough hy­dro­thermal sys­tem. PNAS 103(38):14164-14169 (2006). PubMed Full Text
Inagaki, Fumio and Nealson Kenneth H.: Mo­lecu­lar Sig­nals from An­cient Ma­ter­i­als: Chal­lenges to Deep-Bio­sphere and Pa­leoen­vir­on­mental Re­search - A Re­sponse to the Com­ments of Sin­ninghe Dam­sté and Coolen, As­tro­bi­o­logy 6(2):303-307 (2006). deepdyve
Jørgensen, B. B. and S. D′Hondt: A starving ma­jor­ity dep be­neath the sea­floor. Sci­ence 314:932-934 (2006). PubMed
Jørgensen, B.B., S.L. D′Hondt and D.J. Miller: Chapter 1. Leg 201 Syn­thesis: Con­trols on mi­cro­bial com­munit­ies in deeply bur­ied sed­i­ments.pp. 1-45, In: Proc. ODP, Sci. Res. 201. Ocean Drilling Pro­gram, Texas < A&M Uni­versity, Col­lege Sta­tion TX 77845-9547, Jør­gensen, B.B., S.L. D′Hondt and D.J. Miller (eds.), USA (2006). ODP Full Text
Jørgensen, B. B. and S. Kasten: Chapter 8. Sul­fur cyc­ling and meth­ane ox­id­a­tion. pp. 271-309, In: Mar­ine Geo­chem­istry, 2nd ed., H. D. Schulz and M. Za­bel (eds.), Springer, Ber­lin (2006). Springer
Jørgensen, B. B.: Chapter 5. Bac­teria and mar­ine biogeo­chem­istry, pp. 169-206. In: Mar­ine Geo­chem­istry, 2nd ed., H. D. Schulz and M. Za­bel (eds.), Springer, Ber­lin (2006). Springer
Lomstein, B. A., B. B. Jørgensen, C. J. Schubert and J. Niggemann: Amino acid biogeo- and ste­reo­chem­istry in coastal Chilean sed­i­ments. Geochim­ica et Cosmochim­ica Acta 70:2970-2989 (2006). ScienceDirect
Niggemann, J., Schubert C.J.: Sources and fate of amino sug­ars in coastal Per­uvian sed­i­ments, Geo­him­ica et Cosmochim­ica Acta 70:2229-2237 (2006). ScienceDirect
Niggemann, J., Schubert C.J.: Fatty acid biogeo­chem­istry of sed­i­ments from the Chilean coastal up­welling re­gion: Sources and dia­gen­etic changes, Or­ganic Geo­chem­istry 37:626-647 (2006). ScienceDirect
Schippers, A. and L.N. Neretin: Quan­ti­fic­a­tion of mi­cro­bial com­munit­ies in near-sur­face and deeply bur­ied mar­ine sed­i­ments on the Peru con­tin­ental mar­gin us­ing real-time PCR, En­vir­on­mental Mi­cro­bi­o­logy 8(7):1251-1260 (2006). PubMed
Vandieken, V., N. Finke and B. B. Jørgensen: Path­ways of car­bon ox­id­a­tion in an Arc­tic fjord sed­i­ment (Sval­bard) and isol­a­tion of psychro­philic and psychro­tol­er­ant Fe(III)-re­du­cing bac­teria. Mar­ine Eco­logy Pro­gress Series 322:29-41 (2006). MEPS
Vandieken, V., M. Nickel and B. B. Jørgensen: Car­bon min­er­al­iz­a­tion in Arc­tic sed­i­ments north­east of Sval­bard: Mn(IV) and Fe(III) re­duc­tion as prin­cipal an­aer­obic res­pir­at­ory path­ways. Mar­ine Eco­logy Pro­gress Series 322:15-27 (2006). PubMed
Vandieken, V., C. Knoblauch and B.B. Jørgensen: Desulfotomaculum arcticum sp. nov., a novel spore-form­ing, mod­er­ately ther­mo­philic, sulfate-re­du­cing bac­terium isol­ated from a per­man­ently cold fjord sed­i­ment of Sval­bard. Journal of Sys­tem­atic and Evol­u­tion­ary Mi­cro­bi­o­logy 56:687-690 (2006). PubMed Full Text
Vandieken, V., C. Knoblauch and B.B. Jørgensen: Desulfovibrio frigidus sp. nov. and Desulfovibrio ferrireducens sp. nov., two psychro­tol­er­ant bac­teria isol­ated from Arc­tic fjord sed­i­ments (Sval­bard) with the abil­ity to re­duce Fe(III). In­ter­na­tional Journal of Sys­tem­atic and Evol­u­tion­ary Mi­cro­bi­o­logy 56:681-685 (2006). PubMed Full Text
Vandieken, V., M. Mußmann, H. Niemann and B.B. Jørgensen: Desulfuromonas svalbardensis sp. nov. and Desulfuromusa ferrireducens sp. nov. psychro­philic Fe(III)-re­du­cing bac­teria isol­ated from Arc­tic sed­i­ments, Sval­bard. In­ter­na­tional Journal of Sys­tem­atic and Evol­u­tion­ary Mi­cro­bi­o­logy 56:1133-1139 (2006). PubMed Full Text
Ph.D. theses
Maren Nickel: Min­er­al­iz­a­tion path­ways and ther­mo­philic sulfate re­duc­tion in Arc­tic sed­i­ments, Sval­bard. PhD thesis, MarMic, Uni­versität Bre­men, Bre­men (2006), 99pp.

Mi­cro­sensor Group

Abed, R. M. M., A. Al-Thukair, and D. de Beer: Bac­terial di­versity of a cy­anobac­terial mat de­grad­ing pet­ro­leum com­pounds at el­ev­ated sa­lin­it­ies and tem­per­at­ures. FEMS Mi­crob. Ecol. 57:290-301 (2006). PubMed
Abed, R. M. M., L. Polerecky, M. Al Najjar, and D. de Beer: Ef­fect of tem­per­at­ure on pho­to­syn­thesis, oxy­gen con­sump­tion and sulf­ide pro­duc­tion in an ex­tremely hy­per­saline cy­anobac­terial mat. Aq. Mi­crob. Ecol. 44:21-30 (2006). AME
Abed, R.M.M., Palinska K. A., Camoin G.and Golubic S.: Com­mon eco­lutin­ary ori­gin of plank­tonic and benthic ni­tro­gen­fix­ing os­cil­lat­ori­acean cy­anobac­teria from trop­ical oceans. FEMS Mi­cro­biol. Let­ters 260:171-177 (2006). PubMed
Alvarez, M., Gieseke A., Godoy R., Härtel S.: Sur­face – bound phos­phatase activ­ity in ec­to­my­cor­rhizal fungi: a com­par­at­ive study between a col­or­i­met­ric and a mi­cro­scope-based method. Biol. Fer­til Soils 42: 561-568 (2006). Springer
Bissett, A., J. Bowman, and C. Burke: Bac­terial di­versity in or­gan­ic­ally-en­riched fish farm sed­i­ments. FEMS Mi­cro­bi­o­logy Eco­logy 55:48-56 (2006). PubMed
Bissett, A., C. Burke, P. L. M. Cook and J. P. Bowman: Bac­terial com­munity shifts in or­gan­ic­ally per­turbed sed­i­ments. En­vironm. Mi­cro­biol. 9(1):46-60 (2006). PubMed
Cytryn, E., Minz D., Gieseke A. and van Rijn J.: Tran­si­ent de­vel­op­ment of fil­a­ment­ous Thiothrix spe­cies in a mar­ine sulf­ide ox­id­iz­ing, de­ni­tri­fy­ing flu­id­ized bed re­actor. FEMS Mi­cro­biol. Lett. 256:22-29 (2006). PubMed
de Beer, D., E. Sauter, H. Niemann, N. Kaul, J. P. Foucher, U. Witte, M. Schlüter, and A. Boetius: In situ fluxes and zon­a­tion of mi­cro­bial activ­ity in sur­face sed­i­ments of the Håkon Mosby Mud Vol­cano. Lim­nol. Ocean­ogr. 51(3):1315-1331 (2006). PubMed Full Text
Franke, U., L. Polerecky, E. Precht, and M. Huettel: Wave tank study of par­tic­u­late or­ganic mat­ter de­grad­a­tion in per­meable sed­i­ments. Lim­nol. Ocean­ogr. 51(2):1084-1096 (2006). ASLO Full Text
Gieseke, A., S. Tarre, M. Green, and D. de Beer: Ni­tri­fic­a­tion in a biofilm at low pH: The role of in situ mi­croen­vir­on­ments and acid tol­er­ance. Appl En­viron Mi­cro­biol 72(6):4283-4292 (2006). PubMed Full Text
Green, M., M. Beliavski, N. Denekamp, A. Gieseke, D. de Beer, and S. Tarre: High ni­tri­fic­a­tion rate at low pH in a flu­id­ized bed re­actor with either chalk or sintered glass as the biofilm car­rier. Is­rael Journal of Chem­istry 46:53-58 (2006). PubMed
Grossart H.P., Kiørboe T., Tang K.W., Allgaier M., Yam E.M., Ploug H.: In­ter­ac­tions between mar­ine snow and het­ero­trophic bac­teria: ag­greg­ate form­a­tion and mi­cro­bial dy­nam­ics. Aquatic Mi­cro­bial Eco­logy Vol. 42:19-26 (2006). AME
Hall-Stoodley, L., H. F. Ze, Gieseke A., Nistico L., Nguyen D., Hayes J., Forbes M., Greenberg D.P., Dice B., Burrows A., Wackym P.A., Stoodley P., Post J.C., Ehrlich G.D., Kerschner J.E.: Dir­ect De­tec­tion of Bac­terial Biofilms on the Middle-Ear Mu­cosa of Chil­dren With Chronic Ot­itis Me­dia. Jama-Journal of the Amer­ican med­ical As­so­ci­ation296(2):202-211 (2006). PubMed Full Text
Kamp, A.., Stief P. and Schulz-Vogt H.N.: An­aer­obic Sulf­ide Ox­id­a­tion with Ni­trate by a Fresh­wa­ter Beggiatoa En­rich­ment Cul­ture. Ap­plied and En­vir­on­mental Mi­cro­bi­o­logy 72(7):4755-4760 (2006). PubMed Full Text
Ludwig, R., O. Pringault, R. DeWit, D. de Beer, and H. M. Jonkers: Lim­it­a­tion of oxy­genic pho­to­syn­thesis and oxy­gen con­sump­tion by phos­phate and or­ganic ni­tro­gen in a hy­per­saline mi­cro­bial mat: A mi­cro­sensor study. FEMS Mi­cro­bi­o­logy Eco­logy 57:9-17 (2006). PubMed
Musat, N., U. Werner, K. Knittel, S. Kolb, T. Dodenhof, J. E. E. van Beusekom, D. de Beer, N. Dubilier, and R. Amann: Mi­cro­bial com­munity struc­ture of sandy in­ter­tidal sed­i­ments in the North Sea, Sylt-Rømø Basin, Wad­den Sea. Syst. Appl. Mi­cro­biol. 29:333-348 (2006). PubMed
Polerecky, L., N. Volkenborn, and P. Stief: High tem­poral res­ol­u­tion oxy­gen ima­ging in bioir­rig­ated sed­i­ments. En­vir.Sci.Tech­nol. 40:5763-5769 (2006). PubMed
Stief, P. and de Beer D.: Prob­ing the mi­croen­vir­on­ment of fresh­wa­ter sed­i­ment mac­ro­fauna: Im­plic­a­tions of de­posit-feed­ing and bioir­rig­a­tion for ni­tro­gen cyc­ling. Lim­nol Ocean­ogr. 51(6):2538-2548 (2006). Full Text
Stief, P. and Hölker F.: Trait-Me­di­ated in­dir­ect ef­fects of pred­at­ory fish on mi­cro­bial min­er­al­iz­a­tion in Aquatic sed­i­ments. Eco­logy 87(12):3152-3159 (2006). PubMed
Stief, P. and Eller G.: The gut mi­croen­vir­on­ment of sed­i­ment – dwell­ing Chironomus plumosus lar­vae as har­ac­ter­ized with O, pH, and redox mi­cro­sensors. J Comp Physiol B 176:673-683 (2006). PubMed
Van Gaever, S., Moodley L., de Beer D., Vanreusel A.: Meiobenthos at the Ar­tic Håkon Mosby Mud Vol­cano, with a par­ental-caring nem­at­ode thriv­ing in sulph­ide-rich sed­i­ments. Mar­ine Eco­logy Pro­gress Series 321:143-155 (2006). PubMed
Green, M., M. Beliavski, N. Denekamp, A. Gieseke, D. de Beer, and S. Tarre: High ni­tri­fic­a­tion rate at low pH in a flu­id­ized bed re­actor with either chalk or sintered glass as the biofilm car­rier. Is­rael Journal of Chem­istry 46:53-58 (2006). PubMed
Grossart H.P., Kiørboe T., Tang K.W., Allgaier M., Yam E.M., Ploug H.: In­ter­ac­tions between mar­ine snow and het­ero­trophic bac­teria: ag­greg­ate form­a­tion and mi­cro­bial dy­nam­ics. Aquatic Mi­cro­bial Eco­logy Vol. 42:19-26 (2006). AME
Hall-Stoodley, L., H. F. Ze, Gieseke A., Nistico L., Nguyen D., Hayes J., Forbes M., Greenberg D.P., Dice B., Burrows A., Wackym P.A., Stoodley P., Post J.C., Ehrlich G.D., Kerschner J.E.: Dir­ect De­tec­tion of Bac­terial Biofilms on the Middle-Ear Mu­cosa of Chil­dren With Chronic Ot­itis Me­dia. Jama-Journal of the Amer­ican med­ical As­so­ci­ation296(2):202-211 (2006). PubMed Full Text
Kamp, A.., Stief P. and Schulz-Vogt H.N.: An­aer­obic Sulf­ide Ox­id­a­tion with Ni­trate by a Fresh­wa­ter Beg­gia­toa En­rich­ment Cul­ture. Ap­plied and En­vir­on­mental Mi­cro­bi­o­logy 72(7):4755-4760 (2006). PubMed Full Text
Ludwig, R., O. Pringault, R. DeWit, D. de Beer, and H. M. Jonkers: Lim­it­a­tion of oxy­genic pho­to­syn­thesis and oxy­gen con­sump­tion by phos­phate and or­ganic ni­tro­gen in a hy­per­saline mi­cro­bial mat: A mi­cro­sensor study. FEMS Mi­cro­bi­o­logy Eco­logy 57:9-17 (2006). PubMed
Musat, N., U. Werner, K. Knittel, S. Kolb, T. Dodenhof, J. E. E. van Beusekom, D. de Beer, N. Dubilier, and R. Amann: Mi­cro­bial com­munity struc­ture of sandy in­ter­tidal sed­i­ments in the North Sea, Sylt-Rømø Basin, Wad­den Sea. Syst. Appl. Mi­cro­biol. 29:333-348 (2006). PubMed
Polerecky, L., N. Volkenborn, and P. Stief: High tem­poral res­ol­u­tion oxy­gen ima­ging in bioir­rig­ated sed­i­ments. En­vir.Sci.Tech­nol. 40:5763-5769 (2006). PubMed
Stief, P. and de Beer D.: Prob­ing the mi­croen­vir­on­ment of fresh­wa­ter sed­i­ment mac­ro­fauna: Im­plic­a­tions of de­posit-feed­ing and bioir­rig­a­tion for ni­tro­gen cyc­ling. Lim­nol Ocean­ogr. 51(6):2538-2548 (2006). Full Text
Stief, P. and Hölker F.: Trait-Me­di­ated in­dir­ect ef­fects of pred­at­ory fish on mi­cro­bial min­er­al­iz­a­tion in Aquatic sed­i­ments. Eco­logy 87(12):3152-3159 (2006). PubMed
Stief, P. and Eller G.: The gut mi­croen­vir­on­ment of sed­i­ment – dwell­ing Chironomus plumosus lar­vae as har­ac­ter­ized with O, pH, and redox mi­cro­sensors. J Comp Physiol B 176:673-683 (2006). PubMed
Van Gaever, S., Moodley L., de Beer D., Vanreusel A.: Meiobenthos at the Ar­tic Håkon Mosby Mud Vol­cano, with a par­ental-caring nem­at­ode thriv­ing in sulph­ide-rich sed­i­ments. Mar­ine Eco­logy Pro­gress Series 321:143-155 (2006). PubMed
Weber, M., C. Lott, and K. E. Fabricius: Sed­i­ment­a­tion stress in a scler­ac­tinian coral ex­posed to ter­restrial and mar­ine sed­i­ments with con­trast­ing phys­ical, or­ganic and geo­chem­ical prop­er­ties. J. Exp. Mar. Biol. Ecol. 336:18-32 (2006). ScienceDirect
Werner, U., M. Billerbeck, L. Polerecky, U. Franke, M. Huettel, J. E. E. van Beusekom, and D. de Beer: Spa­tial and tem­poral pat­terns of min­er­al­iz­a­tion rates and oxy­gen dis­tri­bu­tion in a per­meable in­ter­tidal sand flat (Sylt, Ger­many). Lim­nol Ocean­ogr 51(6):2549-2563 (2006). UQeSpace Full Text
Werner, U., P. Bird, C. Wild, T. Ferdelman, L. Polerecky, G. Eickert, R. Jonstone, O. Hoegh-Guldberg, and D. de Beer: Spa­tial pat­terns of aer­obic and an­aer­obic min­er­al­iz­a­tion rates and oxy­gen pen­et­ra­tion dy­nam­ics in coral reef sed­i­ments. Mar. Ecol. Prog. Series 309:93-105 (2006). UQeSpace

Mi­cro­bial Hab­itat Group

Alain, K., T. Holler, F. Musat, M. Elvert, T. Treude, and M. Krüger: Mi­cro­bi­o­lo­gical in­vest­ig­a­tion of meth­ane- and hy­dro­car­bon-dis­char­ging mud vol­ca­noes in the Carpath­ian moun­tains, Ro­mania. En­viron. Mi­cro­biol. 8(4):574-590 (2006). PubMed
Billerbeck, M., U. Werner, K. Bosselmann, E. Walpersdorf, and M. Huettel: Nu­tri­ent re­lease from an ex­posed in­ter­tidal sand flat. Mar. Ecol. Prog. Ser. 316:35-51 (2006). MEPS
Billerbeck, M., U. Werner, L. Polerecky, E. Walpersdorf, D. de Beer, and M. Huettel: Sur­fi­cial and deep pore wa­ter cir­cu­la­tion gov­erns spa­tial and tem­poral scales of nu­tri­ent re­cyc­ling in in­ter­tidal sand flat sed­i­ment. Mar. Ecol. Prog. Ser. 326:61-76 (2006). MEPS
Boetius, A.: Mik­roor­gan­is­men des Tief­see­bodens: Viel­falt, Ver­teilung und Funk­tion. pp. 279-287, In: Fasz­in­a­tion Meeres­forschung. Ein Lesebuch.G. and I. Hempel and S. Schiel (eds.), Hauschild Ver­lag, Bre­men (2006).
Bühring, S. I., N. Lampadariou, L. Moodley, A. Tselepides, and U. Witte: Benthic mi­cro­bial and whole-com­munity re­sponses to dif­fer­ent amounts of 13C-en­riched al­gae: In situ ex­per­i­ments in the deep Cretan Sea (East­ern Medi­ter­ranean). Lim­nol. Ocean­ogr. 51(1):157-165 (2006). CiteSeerX Full Text
Bühring, S. I., Ehrenhauss S., Kamp A., Moodley L., and Witte U.: En­hanced benthic activ­ity in sandy sub­lit­toral sed­i­ments: Evid­ence from 13C-tracer ex­per­i­ments. Mar­ine Bio­logy Re­search 2:120-129 (2006). ResearchGate Full Text
Chain, P.S.G., Denef V.J., Konstantinidis K.T., Vergez L.M., Agulló L., Reyes V. Latorre, Hauser L., Córdova M., Gómez L., Gonzáles M., Land M., Lao V., Larimer F., LiPuma J.J., Mahenthiralingam E., Malfatti S.A., Marx C.J., Parnell J.J., Ramette A., Richardson P., Seeger M., Smith D., Spilker T., Sul W.J., Tsoi T.V., Ulrich L.E., Zhulin I.B., and Tiedje J.M.: Burkholderia xenovorans LB400 har­bors a multi-rep­l­icon, 9.73-Mbp gen­ome shaped for ver­sat­il­ity. PNAS 103(42):15280-15287 (2006). PubMed Full Text
Cook, P. L. M., and H. Røy: Ad­vect­ive re­lief of CO2 lim­it­a­tion in mi­cro­phyto­benthos in highly pro­duct­ive sandy sed­i­ments. Lim­nol. Ocean­ogr. 51(4):1594-1601 (2006). Refdoc
Cook, P. L. M., F. Wenzhöfer, S. Rysgaard, O. S. Galaktionov, F. J. R. Meysman, B. D. Eyre, J. Cornwell, M. Huettel, and R. N. Glud: Quan­ti­fic­a­tion of de­ni­tri­fic­a­tion in per­meable sed­i­ments: In­sights from a two di­men­sional sim­u­la­tion ana­lysis and ex­per­i­mental data. Lim­nol. Ocean­ogr.: Meth. 4:294-307 (2006). KNAW
de Beer, D., E. Sauter, H. Niemann, N. Kaul, J.-P- Foucher, U. Witte, M. Schlüter, and A. Boetius: In situ fluxes and zon­a­tion of mi­cro­bial activ­ity in sur­face sed­i­ments of the Håkon Mosby Mud Vol­cano. Lim­nol. Ocean­ogr. 51(3):1315-1331 (2006). ASLO Full Text
Hoffmann, F., H. T. Rapp, and J. Reitner: Mon­it­or­ing mi­cro­bial com­munity com­pos­i­tion by fluor­es­cence in situ hy­brid­iz­a­tion dur­ing cul­tiv­a­tion of the mar­ine cold-wa­ter sponge Geodia barretti. Mar. Bi­o­tech­nol. 8:373-379 (2006). PubMed
Huettel, M., C. Wild, and S. Gonelli: Mu­cus trap in coral reefs: form­a­tion and tem­poral evol­u­tion of particle ag­greg­ates caused by coral mu­cus. Mar. Ecol. Prog. Ser. 307:69-84 (2006). MEPS
Ianora, A., M. Boersma, R. Casotti, A. Fontana, J. Harder, F. Hoffmann, H. Pavia, P. Potin, S. A. Poulet, and G. Toth: New trends in mar­ine chem­ical eco­logy. Es­tu­ar­ies Coasts. 29:531-551 (2006). Springer Full Text
Inagaki, F., M. M. M. Kuypers, U. Tsunogai, J. Ishibashi, K. Nakamura, T. Treude, S. Ohkubo, M. Nakaseama, K. Gena, H. Chiba, H. Hirayama, T. Nunoura, K. Takai, B. B. Jørgensen, K. Horikoshi, and A. Boetius: Mi­cro­bial com­munity in a sed­i­ment-hos­ted CO2 lake of the south­ern Ok­inawa Trough hy­dro­thermal sys­tem. PNAS 103(38):14164-14169 (2006). PubMed Full Text
Jonsson, P.R., van Duren L.A., Amielh M., Asmus R., Aspden R.J., Daunys D., Friedrichs M., Friend P.L., Olivier F., Pope N., Precht E., Sauriau P.-G., Schaaff E.: Mak­ing wa­ter flow: a com­par­ison of the hy­dro­dynamic char­ac­ter­ist­ics of 12 dif­fer­ent benthic bio­lo­gical flumes. Aquat Ecol 40:409-438, DOI 10.1007/​s10452-006-9049-z (2006). Springer
Meysman, F. J. R., O. S. Galaktionov, P. L. M. Cook, F. Janssen, M. Huettel, and J. J. Middelburg: Quan­ti­fy­ing bio­lo­gic­ally and phys­ic­ally in­duced flow and tracer dy­nam­ics in per­meable sed­i­ments. Biogeosciences Dis­cuss. 3:1809-1858 (2006). Full Text
Middelboe, M., R.N. Glud, F. Wenzhöfer, K. Oguri, and H. Kitazato: Spa­tial dis­tri­bu­tion and activ­ity of vir­uses in the deep-sea sed­i­ments of Sagami Bay, Ja­pan. Deep-Sea Res. I 53:1-13 (2006). ScienceDirect
Niemann, H., J. Duarte, C. Hensen, E. Omoregie, V. H. Magalhães, M. Elvert, L. M. Pinheiro, A. Kopf, and A. Boetius: Mi­cro­bial meth­ane turnover at mud vol­ca­noes of the Gulf of Cadiz. Geochim. Cosmochim. Ac. 70:5336-5355 (2006). ScienceDirect
Niemann, H., T. Lösekann, D. de Beer, M. Elvert, T. Nadalig, K. Knittel, R. Amann, E. J. Sauter, M. Schlüter, M. Klages, J. P. Foucher, and A. Boetius: Novel mi­cro­bial com­munit­ies of the Haakon Mosby mud vol­cano and their role as a meth­ane sink. Nature 443:854-858 (2006). PubMed
Pape, T., F. Hoffmann, N. V. Quéric, K. von Juterzenka, J. Reitner, and W. Michaelis: Dense pop­u­la­tions of Ar­chaea as­so­ci­ated with the demo­sponge Tentorium semisuberites Schmidt, from Arc­tic deep-wa­ters. Po­lar Biol. 29:662-667 (2006). Springer
Precht, E., F. Janssen, and M. Huettel: Near-bot­tom per­form­ance of the Acous­tic Dop­pler Ve­loci­meter (ADV) - a com­par­at­ive study. Aquat. Ecol.40:481-492 (2006). Springer
Rasheed, M., C. Wild, C. Jantzen, and M. Badran: Min­er­al­iz­a­tion of par­tic­u­late or­ganic mat­ter de­rived from coral-reef or­gan­isms in reef sed­i­ments of the Gulf of Aqaba. Chem. Ecol. 22(1):13-20 (2006).
Rusch, A., M. Huettel, C. Wild, and C. E. Reimers: Benthic oxy­gen con­sump­tion and or­ganic mat­ter turnover in or­ganic-poor, per­meable shelf sands. Aquat. Geo­chem. 12:1-19 (2006). Springer
Sauter, E.J., S. I. Muyakshin, J.-L. Charlou, M. Schlüter, A. Boetius, K. Jerosch, E. Damm, J.-P. Foucher, and M. Klages: Meth­ane dis­charge from a deep-sea sub­mar­ine mud vol­cano into the up­per wa­ter column by gas hy­drate-coated meth­ane bubbles. Earth. Planet. Sc. Lett. 243:354-365 (2006). ScienceDirect
Vandieken, V., M. Mußmann, H. Niemann, and B. B. Jørgensen: Desulfuromonas svalbardensis sp. nov. and Desulfuromusa ferrireducens sp. nov., psychro­philic, Fe(III)-re­du­cing bac­teria isol­ated from Arc­tic sed­i­ments, Sval­bard. Int. J. Syst. Evol. Mi­cro­biol. 56:1133-1139 (2006). PubMed Full Text
Werner, U., M. Billerbeck, L. Polerecky, U. Franke, M. Huettel, J. E. E. van Beusekom, and D. de Beer: Spa­tial and tem­poral pat­terns of min­er­al­iz­a­tion rates and oxy­gen dis­tri­bu­tion in a per­meable in­ter­tidal sand flat (Sylt, Ger­many). Lim­nol. Ocean­ogr. 51:2549-2563 (2006). UQeSpace Full Text
Werner, U., P. Bird, C. Wild, T. Ferdelman, L. Polerecky, G. Eickert, R. Jonstone, O. Hoegh-Guldberg, and D. de Beer: Spa­tial pat­terns of aer­obic and an­aer­obic min­er­al­iz­a­tion rates and oxy­gen pen­et­ra­tion dy­nam­ics in coral reef sed­i­ments. Mar. Ecol. Prog. Ser. 309:93-105 (2006). UQeSpace
Wild, C., C. Laforsch, and M. Huettel: De­tec­tion and enu­mer­a­tion of mi­cro­bial cells within highly por­ous cal­careous reef sands. Mar. Fresh­wa­ter Res. 57:415-420 (2006). MFR
Diploma theses
Kirf, M. K.: In­vest­ig­at­ing small scale ad­vect­ive pro­cesses at a sandy sed­i­ment wa­ter in­ter­face from a dif­fus­ive ap­proach. Dip­loma thesis, Uni­versität Olden­burg in co­oper­a­tion with Max Planck In­sti­tute for Mar­ine Mi­cro­bi­o­logy, Bre­men (2006).

Math­em­at­ical Mod­el­ing Group

Bera, P., Khalili A.: In­flu­ence of Prandtl num­ber on sta­bil­ity of mixed con­vect­ive flow in a ver­tical chan­nel filled with a por­ous me­dium. Phys­ics of Flu­ids 18:124103, DOI 10.1063/​1.2405321 (2006). AIP
Goharzadeh A., A. Saidi, D. Wang, W. Merzkirc and A. Khalili: An ex­per­i­mental in­vest­ig­a­tion of the Brink­man layer thick­ness at a fluid-por­ous in­ter­face. pp.445-454, In: IUTAM Sym­posium on One Hun­dred Years of Bound­ary Layer Re­search. Part 7. G.E.A. Meier and K.R. Sreenivasan (eds.) , Solid Mech­an­ics and Its Ap­plic­a­tions Book Series, Springer, Neth­er­lands (2006). Springer
Bhattacharyya, S., Maiti D. K. and Dhinakaran, S.: In­flu­ence of buoy­ancy on vor­tex shed­ding and heat trans­fer from a square cyl­in­der in prox­im­ity to a Wall. Nu­mer­ical Heat Trans­fer, Part A 50:585-606 (2006). TFO
Stöhr, M. and Khalili, A.: Dy­namic re­gimes of buoy­ancy-af­fected two-phase flow in un­con­sol­id­ated por­ous me­dia. Phys. Rev. E. 73:036301, DOI 10.1103/​Phys­RevE.73.036301 (2006). PubMed

De­part­ment of Mi­cro­bi­o­logy

Amann, R., J. Peplies, D. Schüler: Di­versity and Tax­onomy of Mag­netotactic Bac­teria. pp.25-36, In: Mag­netore­cep­tion and Mag­neto­somes in Bac­teria. D. Schüler(ed.), Springer Ver­lag Ber­lin Heidel­berg (2006). Springer
Blumenberg, M., Krüger M., Nauhaus K., Talbott H. M., Oppermann B. I., Seifert R., Pape T. and Michaelis W.: Bio­syn­thesis of ho­panoids by sulfate-re­du­cing bac­teria (genus Desulfovibrio), En­vir­on­mental Mi­cro­bi­o­logy (doi 10.1111/​j.1462-2920.2006.01014.x) (2006). PubMed
Ceyhan, B., Alhorn P., Lang C., Schüler D., Niemeyer C.M.: Semi­syn­thetic bio­genic mag­neto­some nan­o­particles for the de­tec­tion of pro­teins and nuc­leic acids. Small 2(11): 1251-1255 (2006). PubMed
Dalisay, D.S., Webb J.S., Scheffel A. Svenson C., James S., Holmström C., Egan S. and Kjelleberg S.: A man­nose-sens­it­ive haemag­glu­tinin (MSHA)-like pilus pro­motes at­tach­ment of Pseudoalteromonas tunicata cells to the sur­face of the green alga Ulva australis. Mi­cro­bi­o­logy 152:2875-2883 (2006). PubMed Full Text
Faivre, D. and Zuddas P.: Min­er­alo­gical and iso­topic prop­er­ties of bio­genic nano­crys­tal­line mag­netites. pp.175-196, In: Mi­cro­bi­o­logy Mono­graphs (Vol. 3), Mag­netore­cep­tion and Mag­neto­somes in Bac­teria, D. Schüler (ed.), Springer, Ber­lin, Heidel­berg (2006). PubMed
Grabovich, M., Gavrish E., Kuever J., Lysenko A.M., Podkopaeva D.and Dubinina G.: Pro­posal of Giesbergeria voronezhensis gen. nov., sp. nov. and G. kuznetsovii sp. nov. and re­clas­si­fic­a­tion of (Aquaspirillum) anulus, (A.) sinuosum and (A.) giesbergeri as Giesbergeria anulus comb.nov., G., sinuosa comb. nov. and G. giesbergeri com. nov., and (Aquaspirillum) metamorphum and (A.) psychrophilum as Simplicispira metamorpha gen. nov., nov. and S. psychrophila comb. nov.. In­ter­na­tional Journal of Sys­tem­atic and Evol­u­tion­ary Mi­cro­bi­o­logy 56:569-576 (2006). PubMed Full Text
Hirt, A.M., Brem F., Hanzlik M., and Faivre D.: An­om­al­ous mag­netic prop­er­ties of brain tis­sue at low tem­per­at­ure: The 50 K an­om­aly. Journal of Geo­phy­ical Re­search 111:B12S06 (doi 10.1029/​2006JB004570) (2006). Wiley Full Text
Höffken, H.W., Duong M., Friedrich T., Breuer M., Hauer B., Reinhardt R., Rabus R., Heider J.: Crys­tal struc­ture and en­zyme kin­et­ics of the (S)-spe­cific 1-phenyleth­anol de­hyd­ro­genase of the de­ni­tri­fy­ing bac­terium strain EbN1. Bio­chem­istry 45: 82-93 (2006). PubMed
Hufnagel, P., Rabus R.: Mass spec­tro­met­ric iden­ti­fic­a­tion of pro­teins in com­plex post-ge­n­omic pro­jects. Sol­uble pro­teins of the meta­bol­ic­ally ver­sat­ile, de­ni­tri­fy­ing 'Aromatoleum' sp. strain EbN1. Journal of Mo­lecu­lar Mi­cro­bi­o­logy and Bi­o­tech­no­logy 11:53-81 (2006). PubMed
Ianora, A., Boersma M., Casotti R., Fontana A., Harder J., Hoffman F., Pavia H., Potin P., Poulet S.A., Toth G.: New trends in mar­ine chem­ical eco­logy. Es­tu­ar­ies and Coasts 29:531-551 (2006). Springer Full Text
Jogler, C., D. Schüler: Ge­netic Ana­lysis of Mag­neto­some Bio­m­in­er­al­iz­a­tion. pp.133-161, In: Mag­netore­cep­tion and Mag­neto­somes in Bac­teria. D. Schüler: (ed.), Springer Ver­lag Ber­lin, Heidel­berg (2006). PubMed
Lang, C., and D. Schüler: Bio­genic nan­o­particles: pro­duc­tion, char­ac­ter­iz­a­tion, and ap­plic­a­tion of bac­terial mag­neto­somes. Journal of Phys­ics: Con­densed Mat­ter 18:S2815-S2828 (2006). IOPscience
Lang, C., Schüler, D.: Chapter 5. Bio­m­in­er­al­iz­a­tion of mag­neto­somes in bac­teria: Nan­o­particles with po­ten­tial ap­plic­a­tions. pp. 107-124, In: Mi­cro­bial bion­a­n­o­tech­no­logy: Bio­lo­gical self-as­sembly sys­tems and bi­opoly­mer-based nano­struc­tures. Rehm B (ed.), Ho­ri­zon bios­ciences, Wymond­ham (2006).
Musat, F., Harder J., Widdel F.: Study of ni­tro­gen fix­a­tion in mi­cro­bial com­munit­ies of oil-con­tam­in­ated mar­ine sed­i­ment mi­cro­cosms. En­vir­on­mental Mi­cro­bi­o­logy 8(10):1834-1843 (2006). PubMed
Pósfai, M., Moskowitz, B.M., Arató, B., Schüler, D., Flies, C., Bazylinski, D.A., Frankel, R.B.: Prop­er­ties of in­stra­cel­lu­lar mag­netite crys­tals pro­duced by Desulfovibrio magneticus strain RS-1. Earth and Plan­et­ary Sci­ence Let­ters 249:444-455 (2006). Full Text
Rabus, R. T. Hansen and F. Widdel: Dis­sim­il­at­ory sulfate- and sul­fur-re­du­cing proka­ryotes. In: The proka­ryotes, elec­tronic edi­tion. pp. 659-768, M. Dwor­kin, S. Falkow, E. Rosen­berg, K.-H. Schleifer, E. Stack­ebrandt (eds.), Springer, New York (2006). Springer
Scheffel, A., Gruska M., Faivre D., Linaroudis A., Plitzko J.M., Schüler D.: An acidic pro­tein aligns mag­neto­somes along a fil­a­ment­ous struc­ture in mag­netotactic bac­teria. Nature 440:110-114 (2006). PubMed
Scheffel, A. and D. Schüler: Mag­neto­somes of mag­netotactic bac­teria. pp.167-191. In: Com­plex In­tre­cel­lu­lar Struc­tures in Proka­ryotes. Vol. 1, J. M. Shively (ed.), Springer, Heidel­berg (2006). Springer
Schübbe, S., Würdemann C., Peplies J., Heyen U., Wawer C., Glöckner F.O., Schüler D.: Tran­scrip­tional or­gan­iz­a­tion and reg­u­la­tion of mag­neto­some op­er­ons in Magnetospirillum gryphiswaldense. Ap­plied and En­vir­on­mental Mi­cro­bi­o­logy 72(9):5757-5765 (2006). PubMed Full Text
Seifert, R., Nauhaus K., Blumenberg M., Krüger M., Michaelis W.: Meth­ane dy­nam­ics in a mi­cro­bial com­munity of the Black Sea traced by stable car­bon iso­topes in vitro. Or­ganic Geo­chem­istry 37:1411-1419 (2006). ScienceDirect
Würdemann, C., Peplies J., Schübbe S., Ellrott A., Schüler D., Glöckner F.O.: Eval­u­ation of gene ex­pres­sion ana­lysis us­ing RNA-tar­geted par­tial gen­ome ar­rays. Sys­tem­atic and Ap­plied Mi­cro­bi­o­logy 29:349-357 (2006). PubMed
Diploma, M.Sc and B.Sc theses
Bienhold, Christina: Ver­gleichende Charak­ter­is­ier­ung der mik­robi­el­len Sed­i­ment­ge­meinsch­aften der drei abyssalen Becken, Kapbecken, An­golabecken und Guineabecken, des Süd­at­lantiks mit­tels Ter­minalem Re­striktions Frag­ment Län­gen-Poly­morph­is­mus (T-RFLP). Dip­loma thesis, Uni­versität Bre­men, Bre­men (2006),122pp.
Germer, Frauke: Charak­ter­is­ier­ung eines DNA-Ab­schnitts des an­aer­oben Myr­cenab­baus und Ver­suche zur Iso­lier­ung der Lin­alool-De­hyd­ratase aus Castellaniella (ex Alcaligenes) defragrans 65Phen. Dip­loma thesis, Uni­versität Bre­men, Bre­men (2006), 110pp.
Jaekel, Ulrike: Mod­i­fied isol­a­tion meth­ods and MLSA design for the Planctomycetes spe­cies Rhodopirellula baltica. Bach­elor thesis, FH Bonn-Rhein-Sieg (2006), 66pp.
Klatt, Judith Marlene: T-RFLP ana­lysis of Planctomycetes in mar­ine sed­i­ment. Bach­elor thesis, Uni­versität Han­nover (2006), 52pp.
Trautwein, Kathleen: Stress re­sponse of the de­ni­tri­fy­ing, aro­matic-de­grad­ing bac­terium strain EbN1 to sub­lethal con­cen­tra­tions of aro­matic solvents. Dip­loma thesis, Friedrich-Schiller-Uni­versität Jena (2006), 132pp.

De­part­ment of Mo­lecu­lar Eco­logy

Alonso, C. and Pernthaler J.: Con­cen­tra­tion-De­pend­ent Pat­terns of Leu­cine In­cor­por­a­tion by Coastal Pi­co­plank­ton. Ap­plied and En­vir­on­mental Mi­cro­bi­o­logy 72(3):2141-2147 (2006). PubMed Full Text
Bauer, M., M. Kube, H. Teeling, M. Richter, T. Lombardot, E. Allers, C.A. Würdemann, C. Quast, H. Kuhl, F. Knaust, D. Woebken, K. Bischof, M. Mussmann, J.V. Choudhuri, F. Meyer, R. Reinhardt, R.I. Amann, and F.O. Glöckner: Whole gen­ome ana­lysis of the mar­ine Bac­teroid­etes Gramella forsetii re­veals ad­apt­a­tions to de­grad­a­tion of poly­meric or­ganic mat­ter. En­viron. Mi­cro­biol. 8:2201-2213 (2006). PubMed
Blazejak, A., J. Kuever, C. Erseus, R. Amann, and N. Dubilier: Phylo­geny of 16S rRNA, Ribu­lose 1,5-Bi­sphos­phate Carboxylase/​Oxy­genase, and Ad­en­osine 5′-Phos­pho­sulfate Re­ductase genes from gamma- and al­phapro­teo­bac­terial sym­bionts in gut­less mar­ine worms (Oli­go­chaeta) from Ber­muda and the Ba­hamas. Appl. En­viron. Mi­cro­biol. 72(8):5527-5536 (2006). PubMed Full Text
Cypionka, H., H.-D. Babenzien, F. O. Glöckner, and R. Amann: Chapter 3.3.46. The genus Nevskia. pp. 1152-1155, In: The Proka­ryotes. Third Edi­tion. Volume 6: Pro­teo­bac­teria: Gamma Sub­class,M. Dwor­kin, S. Falkow, E. Rosen­berg, K. H. Schleifer and E. Stack­ebrandt (eds.), Springer Sci­ences+Busi­ness Me­dia, LLC (2006). Full Text
Da Silva S.G., Gillan D.C., Dubilier N., De Ridder, C.: Char­ac­ter­iz­a­tion by 16S rRNA gene ana­lysis and in situ hy­brid­iz­a­tion of bac­teria liv­ing in the hindgut of a de­posit-feed­ing ech­in­oid (Ech­in­o­der­mata). J. Mar. Biol. As­soc. 86:1209-1213 (2006). CUP
Dubilier, N., A. Blazejak, C. Rühland: Sym­bi­oses between bac­teria and gut­less mar­ine oli­go­chaetes. pp. 251-275, In: Mo­lecu­lar Basis of Sym­bi­osis. Pro­gress in Mo­lecu­lar and Sub­cel­lu­lar Bio­logy Book Series. J. Over­mann (ed.), Springer-Ver­lag, Ber­lin, Heidel­berg (2006). PubMed
Duperron, S., C. Bergin, F. Zielinski, A. Blazejak, A. Pernthaler, Z.P. McKiness, E. DeChaine, C.M. Cavanaugh, and N. Dubilier: A dual sym­bi­osis shared by two mus­sel spe­cies, Bathymodiolus azoricus and B. puteoserpentis (Bi­valvia: Mytil­idae), from hy­dro­thermal vents along the north­ern Mid-At­lantic Ridge. En­viron. Mi­cro­biol. 8(8):1441-1447 (2006). Full Text
Heywood, J.L., M.V. Zubkov, G.A. Tarran, B.M. Fuchs, and P.M. Holligan: Proka­ryoplank­ton stand­ing stocks in oli­go­trophic gyre and equat­orial provinces of the At­lantic Ocean: Eval­u­ation of inter-an­nual vari­ab­il­ity. Deep Sea Re­search Part II: Top­ical Stud­ies in Ocean­o­graphy 53:1530-1547 (2006). ScienceDirect
MacGregor, B. J. and R. Amann: Single-stran­ded con­form­a­tional poly­morph­ism for sep­ar­a­tion of mixed rRNAs (rRNA-SSCP), a new method for pro­fil­ing mi­cro­bial com­munit­ies. Syst. Appl. Mi­cro­biol. 29:661-670 (2006). PubMed
MacGregor, B. J., H.T.S. Boschker, and R. Amann: Com­par­ison of rRNA and po­lar-lipid-de­rived fatty acid bio­mark­ers for as­sess­ment of 13C-sub­strate in­cor­por­a­tion by mi­croor­gan­isms in mar­ine sed­i­ments. Appl. En­viron. Mi­cro­biol. 72(8):5246-5253 (2006). PubMed Full Text
Mary, I., J. L. Heywood, B. M. Fuchs, R. Amann, G. A. Tarran, P. H. Burkill, and M. V. Zubkov: SAR11 dom­in­ance among meta­bol­ic­ally act­ive low nuc­leic acid bac­terioplank­ton in sur­face wa­ters along an At­lantic me­ri­di­onal tran­sect. Aquat. Mi­crob. Ecol. 45:107-113 ( 2006). PubMed
Musat, N., U. Werner, K. Knittel, S. Kolb, T. Dodenhof, J. E. E. van Beusekom, D. de Beer, N. Dubilier, and R. Amann: Mi­cro­bial com­munity struc­ture of sandy in­ter­tidal sed­i­ments in the North Sea, Sylt-Rømø Basin, Wad­den Sea. Syst. Appl. Mi­cro­biol. 29:333-348 (2006). PubMed
Niemann, H., T. Lösekann, D. de Beer, M. Elvert, T. Nadalig, K. Knittel, R. Amann, E.J. Sauter, M. Schlüter, M. Klages, J.P. Foucher, and A. Boetius: Novel mi­cro­bial com­munit­ies of the Haakon Mosby mud vul­cano and their role as a meth­ane sink. Nature (Lon­don) 443:854-858 (2006). PubMed
Rühland, C., C. Bergin, C. Lott, and N. Dubilier: Darm­lose mar­ine Würmer. Sym­bi­osen mit mik­robi­el­len Kon­sor­tien. BIOSpek­trum 6:600-602 (2006). Full Text
Tujula, N.A., Holmström C., Mussmann M., Amann R., Kjelleberg S., Crocetti G.R.: A CARD-FISH pro­tocol for the iden­ti­fic­a­tion and enu­mer­a­tion of epi­phytic bac­teria on mar­ine al­gae, Journal of Mi­cro­bi­o­lo­gical Meth­ods 65:604-607 (2006). PubMed
Woyke, T., H. Teeling, N.N. Ivanova, M. Huntemann, M. Richter, F.O. Glöckner, D. Boffelli, I.J. Anderson, K.W. Barry, H.J. Shapiro, E. Szeto, N.C. Kyrpides, M. Mussmann, R. Amann, C. Bergin, C. Ruehland, E.M. Rubin, and N. Dubilier: Sym­bi­osis in­sights through meta­ge­n­omic ana­lysis of a mi­cro­bial con­sor­tium. Nature 443:950-955 (2006). PubMed
M.Sc theses
Lenk, Sabine: Di­versity and Abund­ance of Sul­fur-Ox­id­iz­ing Bac­teria in Wad­den Sea Sed­i­ments Re­vealed by DsrAB Phylo­geny and dsrAB-Tar­geted Real-Time PCR. MarMic, MSc, Uni­versity of Bre­men (2006), 72pp.
Yan, Shi: Biogeo­graphy of NOR5 clade, a wide-spread group of Gammapro­teo­bac­teria. MarMic, MSc, Uni­versity of Bre­men (2006), 61pp.
Ph.D. theses
Lösekann, Tina: Mo­lecu­lar char­ac­ter­iz­a­tion of meth­an­o­trophic and chemoauto­trophic com­munit­ies at cold seeps. PhD thesis, MarMic, Uni­versität Bre­men, Bre­men (2006), 201pp.
Musat, Niculina: Mo­lecu­lar char­ac­ter­iz­a­tion of sym­bi­otic as­so­ci­ations between chemoauto­trophic sul­fur-ox­id­iz­ing mi­croor­gan­isms and nem­at­odes in shal­low mar­ine sed­i­ments. PhD thesis, MarMic, Uni­versität Bre­men, Bre­men (2006), 132pp.

Mi­cro­bial Ge­n­om­ics Group

Bauer, M., M. Kube, H. Teeling, M. Richter, T. Lombardot, E. Allers, C. A. Würdemann, C. Quast, H. Kuhl, F. Knaust, D. Woebken, K. Bischof, M. Mussmann, J. V. Choudhuri, F. Meyer, R. Reinhardt, R. I. Amann, and F. O. Glöckner: Whole gen­ome ana­lysis of the mar­ine Bac­teroid­etes 'Gramella forsetii' re­veals ad­apt­a­tions to de­grad­a­tion of poly­meric or­ganic mat­ter. En­viron. Mi­cro­biol. 8(12):2201-2213 (2006). PubMed
Glöckner, F. O.: Meta­gen­ome Ana­lysis. In: Mo­lecu­lar Iden­ti­fic­a­tion, Sys­tem­at­ics, and Pop­u­la­tion Struc­ture of Proka­ryotes. E. Stack­ebrandt (ed.), Springer-Ver­lag, Heidel­berg (2006).
Glöckner, F. O.: Um­welt­ge­n­omik: Schlüs­sel zum Ver­ständ­nis mar­iner mik­robi­eller Di­versität und Funk­tion. Jahr­buch der Max Planck Gesell­schaft (2006), 6pp. Full Text
Lombardot, T., R. Kottmann, H. Pfeffer, M. Richter, H. Teeling, C. Quast, and F. O. Glöckner: Megx.net-data­base re­sources for mar­ine eco­lo­gical ge­n­om­ics. Nuc­leic Acids Res. 34:D390-D393 (2006). PubMed Full Text
Peplies, J., C. Lachmund, F. O. Glöckner, and W. Manz: A DNA mi­croar­ray plat­form based on dir­ect de­tec­tion of rRNA for char­ac­ter­iz­a­tion of fresh­wa­ter sed­i­ment-re­lated proka­ryotic com­munit­ies. Appl. En­viron. Mi­cro­biol. 72(7):4829-4838 (2006). PubMed Full Text
Schübbe, S., C. Würdemann, J. Peplies, U. Heyen, C. Wawer, F. O. Glöckner, and D. Schüler: Tran­scrip­tional or­gan­iz­a­tion and reg­u­la­tion of mag­neto­some op­er­ons in Magnetospirillum gryphiswaldense. Appl. En­viron. Mi­cro­biol. 72(9):5757-5765 (2006). PubMed Full Text
Teeling, H., and F. O. Gloeckner: Rib­A­lign: a soft­ware tool and data­base for eu­bac­terial phylo­geny based on con­cat­en­ated ri­bosomal pro­tein sub­units. BMC Bioin­form­at­ics 7:66 (2006). PubMed Full Text
Woyke, T., H. Teeling, N. N. Ivanova, M. Huntemann, M. Richter, F. O. Glöckner, D. Boffelli, I. J. Anderson, K. W. Barry, H. J. Shapiro, E. Szeto, N. C. Kyrpides, M. Mussmann, R. Amann, C. Bergin, C. Ruehland, E. M. Rubin, and N. Dubilier: Sym­bi­osis in­sights through meta­ge­n­omic ana­lysis of a mi­cro­bial con­sor­tium. Nature 443:950-955 (2006). PubMed
Würdemann, C., J. Peplies, S. Schübbe, A. Ellrott, D. Schüler, and F. O. Glöckner: Eval­u­ation of gene ex­pres­sion ana­lysis us­ing RNA-tar­geted par­tial gen­ome ar­rays. Syst. Appl. Mi­cro­biol. 29:349-357 (2006). PubMed
Zaunmüller, T., D. J. Kelly, F. O. Glöckner, and G. Unden: Suc­cin­ate de­hyd­ro­genase func­tion­ing by a re­verse redox loop mech­an­ism and fu­marate re­ductase in sulph­ate-re­du­cing bac­teria. Mi­cro­bi­o­logy 152:2443-2453 (2006). PubMed Full Text

Nu­tri­ent Group

Inagaki, F., Kuypers, M.M.M., Tsunogai, U., Ishibashi, J., Nakamura, K., Treude, T., Ohkubo, S., Nakaseama, M., Gena, K., Chiba, H., Hirayama, H., Nunoura, T., Takai, K., Jørgensen, B.B., Horikoshi, K., and Boetius, A.: Mi­cro­bial com­munity in a sed­i­ment-hos­ted CO2 lake of the south­ern Ok­inawa Trough hy­dro­thermal sys­tem. PNAS 103(38):14164-14169 (2006). PubMed Full Text
Kuypers, M.M.M., G. Lavik and B. Thamdrup: An­aer­obic am­monium ox­id­a­tion in the mar­ine en­vir­on­ment. pp.311-335, In: Past and Present Mar­ine Wa­ter Column An­oxia, L. N. Neretin (ed.), Springer (2006). Springer
Op den Camp, H.J.M., B. Kartal, D. Guven, L.A.M.P. van Niftrik, S.C.M. Haaijer, W.R.L. van der Star,K.T. van de Pas-Schoonen, A. Cabezas, Z. Ying, M.C. Schmid, M.M.M. Kuypers, J. van de Vossenberg, H.R. Harhangi, C. Picioreanu, M.C.M. van Loosdrecht, J.G. Kuenen, M. Strous and M.S.M. Jetten: Global im­pact and ap­plic­a­tion of the an­aer­obic am­monium-ox­id­iz­ing (anam­mox) bac­teria, Bio­chem­ical So­ci­ety Trans­ac­tions 34(1):174-178 (2006). PubMed Full Text
Schubert, C.J., Coolen, M.J.L., Neretin, L.N., Schippers, A., Abbas, B., Durisch-Kaiser, E., Wehrli, B., Hopmans, E.C., Damste, J.S.S., Wakeham, S., and Kuypers, M.M.M.: Aer­obic and an­aer­obic meth­an­o­trophs in the Black Sea wa­ter column, En­vir­on­mental Mi­cro­bi­o­logy 8(19):1844-1856 (2006). PubMed
Schubert, C.J., Durisch-Kaiser, E., Wehrli, B., Thamdrup, B., Lam, P., and Kuypers, M.M.M.: An­aer­obic am­monium ox­id­a­tion in a trop­ical fresh­wa­ter sys­tem (Lake Tan­ga­nyika), En­vir­on­mental Mi­cro­bi­o­logy 8(10):1857-1863 (2006). PubMed
Schubert, C.J., E. Durisch-Kaiser, L. Klauser, F. Vazquez, B. Wehrli, C.P. Holzner, R. Kipfer, O. Schmale, J. Greinert and M.M.M. Kuypers: Re­cent stud­ies on sources and sinks of meth­ane in the Black Sea. pp.419-441, In: Past and Present Mar­ine Wa­ter Column An­oxia, L. N. Neretin (ed.), Springer (2006). Springer
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