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Pub­lic­a­tions 2014

Pub­lic­a­tions 2014

De­part­ment of Biogeo­chem­istry

Arnold, L. G., B. Brunner, I. A. Müller, H. Røy: Mod­ern ap­plic­a­tions for a total sul­fur re­duc­tion dis­til­la­tion method – what´s old is new again. Geo­chem­ical Trans­ac­tions, 15:4. (2014) PubMed Full Text
Berg, J. S., A. Schwedt, A.-C.Kreutzmann, M. M. M. Kuypers and J. Milucka: Poly­sulf­ides as in­ter­me­di­ates in the ox­id­a­tion of sulf­ide to sulfate by Beg­gia­toa spp. Appl. En­viron. Mi­cro­biol. 80, 629-636. (2014) PubMed Full Text
Bonaglia, S., Deutsch, B., Bartoli, M., Marchant, H., Bruchert, V.: Sea­sonal oxy­gen, ni­tro­gen and phos­phorus benthic cyc­ling along an im­pacted Baltic Sea es­tu­ary: reg­u­la­tion and spa­tial pat­terns. Biogeo­chem­istry, Volume 119, Is­sue 1-3, pp 139-160. (2014) Springer Full Text
Canion, A., J.E.Kostka, T.M.Gihring, M.Huettel, J.E.E.vanBeusekom, H.Gao, G.Lavik, and M.M.M.Kuypers: Tem­per­at­ure re­sponse of de­ni­tri­fic­a­tion and anam­mox re­veals the ad­apt­a­tion of mi­cro­bial com­munit­ies to in situ tem­per­at­ures in per­meable mar­ine sed­i­ments that span 50° in lat­it­ude. Biogeosciences, 11, 309-320.doi:10.5194/​bg-11-309-2014. (2014) Biogeosciences Full Text
Canion, A., Overholt, W., Kostka, J., Huettel, M., Lavik, G., Kuypers, M.: Tem­per­at­ure re­sponse of de­ni­tri­fic­a­tion and an­aer­obic am­monium ox­id­a­tion rates and mi­cro­bial com­munity struc­ture in Arc­tic fjord sed­i­ments. En­viron Mi­cro­biol. Oct;16(10):3331-44. doi: 10.1111/​1462-2920.12593. (2014) PubMed
Cardini, U., Bednarz, V., Foster, R., Wild, C.: Benthic N-2 fix­a­tion in coral reefs and the po­ten­tial ef­fects of hu­man- in­duced en­vir­on­mental change. Eco­logy and Evol­u­tion Volume 4, Is­sue 9, pages 1706–1727. (2014) Wiley Full Text
Deusner, C., T. Holler, G. L. Arnold, S. M. Bernasconi, M. J. Formolo, B. Brunner: Sul­fur and oxy­gen iso­tope frac­tion­a­tion dur­ing sulfate re­duc­tion coupled to an­aer­obic ox­id­a­tion of meth­ane is de­pend­ent on meth­ane con­cen­tra­tion, Earth and Plan­et­ary Sci­ence Let­ters, 399, 61-73. (2014) ScienceDirect
Dietzel, M., Leis, A., Abdalla, R., Savarino, J., Morin, S., Böttcher, M., Kohler, S.: O-17 ex­cess traces at­mo­spheric ni­trate in pa­leo-ground­wa­ter of the Saha­ran desert. Biogeosciences, 11, 3149-3161. (2014) Biogeosciences Full Text
Dijkstra, N., P. Kraal, M. M. M. Kuypers, B. Schnetger, and C. P. Slomp: Are Iron-Phos­phate Min­er­als a Sink for Phos­phorus in An­oxic Black Sea Sed­i­ments? PLoS ONE, 9(7): e101139. doi:10.1371/​journal.pone.0101139. (2014) PubMed Full Text
Durham, B., Grote, J., Whittaker, K., Bender, S., Luo, H., Grim, S., Brown, J., Casey, J., Dron, A., Florez-Leiva, L., Krupke, A., Luria, C., Mine, A., Nigro, O., Pather, S., Talarmin, A., Wear, E., Weber, T., Wilson, J., Church, M., DeLong, E., Karl, D., Steward, G., Eppley, J., Kyrpides, N., Schuster, S., Rappé, M.: Draft gen­ome se­quence of mar­ine al­phapro­teo­bac­terial strain HIM­B11, the first cul­tiv­ated rep­res­ent­at­ive of a unique lin­eage within the Ros­eo­bac­ter clade pos­sess­ing an un­usu­ally small gen­ome. Stand Ge­n­omic Sci. 15;9(3):632-45. doi: 10.4056/​sigs.4998989. (2014) PubMed Full Text
Goes, J., Gomes, H., Chekalyuk, A., Carpenter, E., Montoya, J., Coles, V., Yager, P., Berelson, W., Capone, D., Foster, R., Steinberg, D., Subramaniam, A., Hafez, M.: In­flu­ence of the Amazon River dis­charge on the biogeo­graphy of phyto­plank­ton com­munit­ies in the west­ern trop­ical north At­lantic. Pro­gress in Ocean­o­graphy Volume 120, Pages 29–40. (2014) ScienceDirect
Holmkvist, L., A. Kamyshny Jr., V. Brüchert, T. G. Ferdelman, B. B. Jørgensen: Sulf­id­iz­a­tion of la­cus­trine gla­cial clay upon Holo­cene mar­ine trans­gres­sion (Arkona Basin, Baltic Sea), Geochim­ica et Cosmochim­ica Acta, 142, 75-94. (2014) MEU
Holtappels M, Tiano L, Kalvelage T, Lavik G, Revsbech NP, and Kuypers M. M. M.: Aquatic Res­pir­a­tion Rate Meas­ure­ments at Low Oxy­gen Con­cen­tra­tions. PLoS ONE 9(2): e89369. doi:10.1371/​journal.pone.0089369. (2014) PubMed Full Text
Kamyshny, A., Druschel, G., Mansaray, Z., Farquhar, J.: Mul­tiple sul­fur iso­topes frac­tion­a­tions as­so­ci­ated with abi­otic sul­fur trans­form­a­tions in Yel­low­stone Na­tional Park geo­thermal springs. Geo­chem­ical Trans­ac­tions 15:7 doi:10.1186/​1467-4866-15-7. (2014) GT Full Text
Khalili, A., Morad, M. R., Matyka, M., Liu, B., Malekmohammadi, R., Weise, J., & Kuypers, M. M.: Poros­ity vari­ation be­low a fluid–por­ous in­ter­face. Chem­ical En­gin­eer­ing Sci­ence, 107, 311-316. (2014) ScienceDirect
Krupke, A., Lavik, G., Halm, H., Fuchs, B.M., Amann R. I., and Kuypers M.M.M.: Dis­tri­bu­tion of a con­sor­tium between uni­cel­lu­lar al­gae and the N2 fix­ing cy­anobac­terium UCYN–A in the North At­lantic Ocean, En­viron. Mi­crob. DOI: 10.1111/​1462-2920.12431. (2014) Wiley
Loescher, C. R, T. Großkopf, F. D. Desai, D. Gill, H. Schunck, P. L. Croot, C. Schlosser, S. C. Neulinger, N. Pinnow, G. Lavik, M. M. M. Kuypers, J. LaRoche, and R. A. Schmitz: Fa­cets of diazo­trophy in the oxy­gen min­imum zone wa­ters off Peru, The ISME Journal, 1–13. (2014) ISME
Marchant, H. K., G. Lavik, M. Holtappels, M. M. M. Kuypers: The Fate of Ni­trate in In­ter­tidal Per­meable Sed­i­ments,. PLoS ONE 9(8): e104517. doi:10.1371/​journal.pone.0104517(2014) PubMed Full Text
Mohr, W., T. Tang, S. R. Sattin, R. J. Bovee, A. Pearson: Pro­tein Stable Iso­tope Fin­ger­print­ing: Mul­ti­di­men­sional Pro­tein Chro­ma­to­graphy Coupled to Stable Iso­tope-Ra­tio Mass Spec­tro­metry, Anal. Chem. dx.doi.org/​10.1021/​ac502494b. (2014) ACS
Ockert, C., Wehrmann, L., Kaufhold, S., Ferdelman, T., Teichert, B., Gussone, N.: Cal­cium-am­monium ex­change ex­per­i­ments on clay min­er­als us­ing a Ca-45 tracer tech­nique in mar­ine pore wa­ter. Iso­topes En­viron Health Stud. 50(1):1-17. doi: 10.1080/​10256016.2013.806505. (2014) PubMed
Perfumo, A., Elsaesser, A., Littmann, S., Foster, R., Kuypers, M., Cockell, C., Kminek, G.: Epi­fluor­es­cence, SEM, TEM and nanoSIMS im­age ana­lysis of the cold phen­o­type of Clostridium psychro­phi­lum at sub­zero tem­per­at­ures. FEMS Mi­cro­biol Ecol. 90(3):869-82. doi: 10.1111/​1574-6941.12443. (2014) PubMed
Ridame, C., Dekaezemacker, J., Guieu, C., Bonnet, S., L'Helguen, S., Malien, F.: Con­tras­ted Saha­ran dust events in LNLC en­vir­on­ments: im­pact on nu­tri­ent dy­nam­ics and primary pro­duc­tion. Biogeosciences, 11, 4783-4800. (2014) Biogeosciences Full Text
Røy, H., Weber, H., Tarpgaard, I., Ferdelman, T., Jørgensen, B.: De­term­in­a­tion of dis­sim­il­at­ory sulfate re­duc­tion rates in mar­ine sed­i­ment via ra­dio­act­ive S-35 tracer. Lim­no­logy and Ocean­o­graphy: Meth­ods Volume 12, Is­sue 4, pages 196–211. (2014) Wiley
Sheik, A., Brussaard, C., Lavik, G., Lam, P., Musat, N., Krupke, A., Littmann, S., Strous, M., Kuypers, M.: Re­sponses of the coastal bac­terial com­munity to viral in­fec­tion of the al­gae Phae­o­cystis globosa. The ISME Journal (2014) 8, 212–225; doi:10.1038/​is­mej.2013.135. (2014) ISME
Wehrmann, L. M. and T. G. Ferdelman: Biogeo­chem­ical con­sequences of the sed­i­ment­ary sub­sea­floor bio­sphere, De­vel­op­ments in Mar­ine Geo­logy, Volume 7, dx.doi.org/​10.1016/​B978-0-444-62617-2.00009-8. (2014)
Wehrmann, L. M., M. J. Formolo, J. D. Owens, R. Raiswell, T. G. Ferdelman, N. Riedinger, T. W. Lyons: Iron and man­ganese spe­ci­ation and cyc­ling in gla­cially in­fluen­ded high-lat­it­ude fjord sed­i­ments (West Spits­ber­gen, Sval­bard): Evid­ence for a benthic re­cyc­ling-trans­port mech­an­ism, Geochim­ica et Cosmochim­ica Acta, 141, 628-655. (2014) ScienceDirect
Yoshinaga, M. Y.,T. Holler,T.Goldhammer,G. Wegener,J. W. Pohlman,B. Brunner,M. M. M. Kuypers, K.-U. HinrichsandM.Elvert: Car­bon iso­tope equi­lib­ra­tion dur­ing sulph­ate-lim­ited an­aer­obic ox­id­a­tion of meth­ane, Nature Geoscience 7, 190-194. (2014) nature
Ph.D. theses
Jessika Füssel: Im­pacts and im­port­ance of am­mo­nia- and ni­trite ox­id­a­tion in the mar­ine ni­tro­gen cycle, Ph.D. theses, Uni­versität Bre­men (2014)
Hannah Marchant: Ni­tro­gen cyc­ling in coastal per­meable sed­i­ments from eu­trophied re­gions, Ph.D. theses, Uni­versität Bre­men (2014)

Mi­cro­sensor Group

Abed RMM, de Beer D, Stief P.: Func­tional-struc­tural ana­lysis of ni­tro­gen-cycle bac­teria in a hy­per­saline mat from the Omani desert. Geo­mic­ro­bi­o­logy Journal, (2014) TFO
Abed RMM, Polerecky L, Al-Habsi A, Oetjen J, Strous M, de Beer D.: Rapid Re­cov­ery of Cy­anobac­terial Pig­ments in De­sic­cated Bio­lo­gical Soil Crusts fol­low­ing Ad­di­tion of Wa­ter. PLoS ONE 9:e112372. (2014) PubMed Full Text
Al-Najjar MAA, Ramette A, Kühl M, Hamza W, Klatt JM, Polerecky L.: Spa­tial pat­terns and links between mi­cro­bial com­munity com­pos­i­tion and func­tion in cy­anobac­terial mats. Front. Mi­cro­bio. 5:406. (2014) PubMed Full Text
Al-Thani R, Al-Najjar MAA, Al-Raei A, Ferdelman A, Thang NM, Ali I, Al-Ansi M, de Beer D.: Com­munity struc­ture and activ­ity of highly dy­namic and nu­tri­ent lim­ited hy­per­saline mi­cro­bial mat in Um Al­hool Sab­kha, Qatar. PLoS ONE:e92405. (2014) PubMed Full Text
Behrendt A, Tarre S, Beliavski M, Green M, Klatt J, de Beer D, Stief P.: Ef­fect of high elec­tron donor sup­ply on dis­sim­il­at­ory ni­trate re­duc­tion path­ways in a biore­actor for ni­trate re­moval. Biore­source Tech­no­logy 171:7. (2014) PubMed
Beutler M, Heisterkamp IM, Piltz B, Stief P, de Beer D.: Mi­cro­scopic oxy­gen ima­ging based on fluor­es­cein bleach­ing ef­fi­ciency meas­ure­ments. Mi­cro­scopy Re­search and Tech­nique 77:7. (2014) PubMed
Bühring SI, Kamp A, Wörmer L, Ho S, Hinrichs KU.: Func­tional struc­ture of lam­in­ated mi­cro­bial sed­i­ments from a supra­tidal sandy beach of the Ger­man Wad­den Sea (St. Peter-Or­d­ing). Journal of Sea Re­search 85:463-473. (2014) ScienceDirect
Deutzmann JS, Stief P, Brandes J, Schink B.: An­aer­obic meth­ane ox­id­a­tion coupled to de­ni­tri­fic­a­tion is the dom­in­ant meth­ane sink in a deep lake. Pro­ceed­ings of the Na­tional Academy of Sci­ences of the U.S.A. 111:6. (2014) PNAS
Feseker T, Boetius A, Blandin J, Wenzhöfer F, Foucher JP, Harmegnies F, de Beer D.: Erup­tion of the Hí¥kon Mosby mud vol­cano re­cor­ded by the long-term ob­ser­vat­ory on mud-vol­cano erup­tions (LOOME) between 2009 and 2010. , Pangaea. (2014) nature
Häusler S, Holtappel M, de Beer D, Ionescu D.: Sulfate re­duc­tion and sulf­ide ox­id­a­tion in ex­tremely steep sa­lin­ity gradi­ents formed by fresh­wa­ter springs emer­ging into the Dead Sea. FEMS Mi­crob Ecol 90:956-969. (2014) PubMed
Häusler S, Noriega-Ortega BO, Polerecky L, Meyer V, de Beer D, Ionescu D.: Mi­croen­vir­on­ments of re­duced sa­lin­ity har­bour biofilms in Dead Sea un­der­wa­ter springs. En­vir­on­mental Mi­cro­bi­o­logy Re­ports 6:152–158. (2014) Wiley
Häusler S, Weber M, de Beer D, Ionescu D.: Spa­tial dis­tri­bu­tion of di­atom and cy­anobac­terial mats in the Dead Sea is de­term­ined by re­sponse to rapid sa­lin­ity fluc­tu­ations, Ex­tremo­philes 18:1085-1094. (2014) PubMed
Ionescu D, Buchmann B, Heim C, Häusler S, de Beer D, Polerecky L.: Oxy­genic pho­to­syn­thesis as a pro­tec­tion mech­an­ism for cy­anobac­teria against iron-en­crust­a­tion in en­vir­on­ments with high Fe2+ con­cen­tra­tions. Front. Mi­cro­bio. 5. (2014) PubMed Full Text
Keeling PJ, Burki F, Wilcox HM, Allam B, Allen EE, Amaral-Zettler LA, Armbrust EV, Archibald JM, Bharti AK, Bell CJ, Beszteri B, Bidle KD, Cameron CT, Campbell L, Caron DA, Cattolico RA, Collier JL, Coyne K, Davy SK, Deschamps P, Dyhrman ST, Edvardsen B, Gates RD, Gobler CJ, Greenwood SJ, Guida SM, Jacobi JL, Jakobsen KS, James ER, Jenkins B, John U, Johnson MD, Juhl AR, Kamp A, Katz LA, Kiene R, Kudryavtsev A, Leander BS, Lin S, Lovejoy C, Lynn D, Marchetti A, McManus G, Nedelcu AM, Menden-Deuer S, Miceli C, Mock T, Montresor M, Moran MA, Murray S, Nadathur G, Nagai S, Ngam PB, Palenik B, Pawlowski J, Petroni G, Piganeau G, Posewitz MC, Rengefors K, Romano G, Rumpho ME, Rynearson T, Schilling KB, Schroeder DC, Simpson AGB, Slamovits CH, Smith DR, Smith GJ, Smith SR, Sosik HM, Stief P, Theriot E, Twary S, Umale PE, Vaulot D, Wawrik B, Wheeler GL, Wilson WH, Xu Y, Zingone A, Worden AZ.: The Mar­ine Mi­cro­bial Eu­k­a­ryote Tran­scrip­tome Se­quen­cing Pro­ject (MMETSP): Il­lu­min­at­ing the Func­tional Di­versity of Eu­k­a­ryotic Life in the Oceans through Tran­scrip­tome Se­quen­cing. Plos Bio­logy 12(6): e1001889. (2014) PubMed Full Text
Madden P, Al-Raei AM, Enright AM, Chinalia FA, de Beer D, O'Flaherty V, Collins G.: Ef­fect of sulfate on low-tem­per­at­ure an­aer­obic di­ges­tion. Front. Mi­cro­bio. doi: 10.3389/​fm­icb.2014.00376. (2014) PubMed Full Text
Mavromatis, V., Meister, P., Oelkers, E.: Us­ing stable Mg iso­topes to dis­tin­guish dolo­mite form­a­tion mech­an­isms: A case study from the Peru Mar­gin. Chem­ical Geo­logy Volume 385, Pages 84–91. (2014) ScienceDirect
Meister, P., Chapligin, B., Picard, A., Meyer, H., Fischer, C., Rettenwander, D., Amthauer, G., Vogt, C., Aiello, I.: Early dia­gen­etic quartz form­a­tion at a deep iron ox­id­a­tion front in the East­ern Equat­orial Pa­cific - A mod­ern ana­logue for ban­ded iron/​chert form­a­tions? Geochim­ica et Cosmochim­ica Acta Volume 137, Pages 188–207. (2014) ScienceDirect
Melton ED, Stief P, Behrens S, Kappler A, Schmidt C.: High spa­tial res­ol­u­tion of dis­tri­bu­tion and in­ter­con­nec­tions between Fe- and N-redox pro­cesses in pro­fundal lake sed­i­ments. En­vir­on­mental Mi­cro­bi­o­logy 16:17. (2014) PubMed
Mewes, K., Mogollón, J., Picard, A., Rühlemann, C., Kuhn, T., Nöthen, K., Kasten, S.: Im­pact of de­pos­itional and biogeo­chem­ical pro­cesses on small scale vari­ations in nod­ule abund­ance in the Clarion-Clip­per­ton Frac­ture Zone. Deep Sea Re­search Part I: Ocean­o­graphic Re­search Pa­pers, Volume 91, Pages 125–141. (2014) ScienceDirect
Poulsen M, Kofoed MVW, Larsen LH, Schramm A, Stief P.: Chiro­nomus plumosus lar­vae in­crease fluxes of de­ni­tri­fic­a­tion products and di­versity of ni­trate-re­du­cing bac­teria in fresh­wa­ter sed­i­ment. Sys­tem­atic and Ap­plied Mi­cro­bi­o­logy 37:9. (2014) ScienceDirect
Raulf FF, Fabricius K, Uthicke S, de Beer D, Abed RMM, Ramette A.: Changes in mi­cro­bial com­munit­ies in coastal sed­i­ments along nat­ural CO2 gradi­ents at a vol­canic vent in Papua New Guinea. En­viron. Mii­cro­biol. (2014) PubMed
Schreiber F, Stief P, Kuypers MMM, de Beer D.: Nitric ox­ide turnover in per­meable river sed­i­ment. Lim­nol Ocean­ogr 59:1310-1320. (2014)
Schutting S, Klimant I, de Beer D, Borisov SM.: New highly fluor­es­cent pH in­dic­ator for ra­tiomet­ric RGB ima­ging of pCO2. Meth­ods Appl. Fluor­esc. 2 024001 2:024001. (2014) IOPscience
Sevilgen DS, de Beer D, Al-Handal AY, Brey T, Polerecky L.: Oxy­gen budgets in sub­tidal arc­tic (Kongs­f­jorden, Sval­bard) and tem­per­ate (Hel­go­land, North Sea) mi­cro­phyto­benthic com­munit­ies. MEPS 504:27-42. (2014) MEPS
Siebert C, Rödiger T, Mallast U, Gräbe A, Guttman J, Laronne JB, Storz-Peretz Y, Greenman A, Salameh E, Al-Raggad M, Vachtman D, Ben Zvi A, Ionescu D, Brenner A, Merz R, Geyer S.: Chal­lenges to es­tim­ate sur­face- and ground­wa­ter flow in arid re­gions: The Dead Sea catch­ment. Sci­ence of the Total En­vir­on­ment:485–486, 828–841. (2014) ScienceDirect
Stief P, Fuchs-Ocklenburg S, Kamp A, Manohar CS, Houbraken J, Boekhout T, de Beer D, Stoeck T.: Dis­sim­il­at­ory ni­trate re­duc­tion by As­per­gil­lus ter­reus isol­ated from the sea­sonal oxy­gen min­imum zone in the Ar­a­bian Sea. BMC Mi­cro­bi­o­logy 14. (2014) BMC Full Text
Thomas C, Ionescu D, Ariztegui D.: Ar­chaeal pop­u­la­tions in two dis­tinct sed­i­ment­ary fa­cies of the sub­sur­face of the Dead Sea. Mar. Genom. 17:53-62. (2014) PubMed
Wangpraseurt D, Polerecky L, Larkum AWD, Ralph PJ, Nielsen DA.: The in situ light mi­croen­vir­on­ment of cor­als. Lim­nol Ocean­ogr 59:917-926. (2014) ASLO
You, X., Sun, S., Zhu, J.: Sig­ni­fic­ance of fos­sil­ized mi­crobes from the Cam­brian stro­matolites in the Tarim Basin, North­w­est China. Sci­ence China Earth Sci­ences, Volume 57, Is­sue 12, pp 2901-2913. (2014) Springer
Ph.D. theses
Stefan Häusler: The en­vir­on­ment, di­versity and activ­ity of mi­cro­bial com­munit­ies in sub­mar­ine fresh­wa­ter springs in the Dead Sea, Uni­versität Bre­men (2014)
Arjun Chennu: Hy­per­spec­tral map­ping of the mi­cro­scale dy­nam­ics of mi­cro­phyto­benthos, Uni­versität Bre­men (2014)
Duygu Sevilgen: Mi­cro­phyto­benthos in cold-wa­ter sub­lit­oral sys­tems- their eco­lo­gical role and re­sponse to chan­ging en­vir­on­mental con­di­tions, Uni­versität Bre­men (2014)
Hannah Brocke: Little Things Be­come BIG - Drivers and im­pacts of benthic cy­anobac­terial mats on coral reefs, Uni­versität Bre­men (2014)

De­part­ment of Mi­cro­bi­o­logy

Ameryk, A., R.L. Hahnke, S. Gromisz, J. Kownacka, M. Zalewski, L. Szymanek, J. Calkiewicz, J. Dunalska and J. Harder: Bac­terial com­munity struc­ture in­flu­enced by Cos­cinodis­cus sp. in the Vis­tula river plume. Ocean­o­lo­gia 56, 825–856. (2014) ScienceDirect Full Text
Beese-Vasbender, P.F., J.-P. Grote, J. Garrelfs, M. Stratmann and K.J.J. Mayrhofer: Se­lect­ive mi­cro­bial elec­tro­syn­thesis of meth­ane by a pure cul­ture of a mar­ine lithoauto­trophic ar­chaeon. Bio­elec­tro­chem­istry 10.1016/​j.bio­ele­chem.2014.11.004. (2014) PubMed
Bondoso, J., L. Albuquerque, A. Lobo-da-Cunha, M.S. da Costa, J. Harder, and O.M. Lage: Rhodopirellula lus­itana sp. nov. and Rhodopirellula rubra sp. nov., isol­ated from the sur­face of mac­roal­gae. Syst. Appl. Mi­cro­biol. 37, 157–164. (2014) PubMed
Drüppel, K., Hensler, M., Trautwein, K., Koßmehl, S., Wöhlbrand, L., Schmidt-Hohagen, K., Ulbrich, M., Bergen, N., Meier-Kolthoff, J., Göker, M., Klenk, H., Schomburg, D., Rabus, R.: Path­ways and sub­strate-spe­cific reg­u­la­tion of amino acid de­grad­a­tion in Phaeo­bac­ter in­hibens DSM 17395 (ar­che­type of the mar­ine Ros­eo­bac­ter clade). En­viron Mi­cro­biol. 16(1):218-38. doi: 10.1111/​1462-2920.12276. (2014) PubMed
Enning, D., and J. Garrelfs: Cor­ro­sion of iron by sulfate-re­du­cing bac­teria: New views of an old prob­lem. Appl. En­viron. Mi­cro­biol. 80, 1226–1236. (2014) AEM Full Text
Farnelid, H., J. Harder, M. Bentzon-Tilia, and L. Riemann: Isol­a­tion of het­ero­trophic diazo­trophic bac­teria from es­tu­ar­ine sur­face wa­ters. En­viron. Mi­cro­biol. 16, 3072-3082. (2014) Wiley
Hahnke, R.L., C.M. Bennke, B.M. Fuchs, A.J. Mann, E. Rhiel, H. Teeling, R.I. Amann and J. Harder: Di­lu­tion cul­tiv­a­tion of mar­ine het­ero­trophic bac­teria abund­ant after a spring phyto­plank­ton bloom in the North Sea. En­viron. Mi­cro­biol. 10.1111/​1462-2920.12479. (2014) Wiley
Jaekel, U., C. Vogt, A. Fischer, H.H. Richnow, and F. Musat: Car­bon and hy­dro­gen stable iso­tope frac­tion­a­tion as­so­ci­ated with the an­aer­obic de­grad­a­tion of pro­pane and bu­tane by mar­ine sulfate-re­du­cing bac­teria. En­viron. Mi­cro­biol. 16, 130–140. (2014) PubMed
Klindworth, A., M. Richter, T. Richter-Heitmann, C.-E. Wegner, C.S. Frank, F.O. Glöckner, and J. Harder: Per­man­ent draft gen­ome of Rhodopirellula rubra SWK7. Mar­ine Ge­n­om­ics 13, 11–12. (2014) PubMed
Lahme S, Trautwein K, Strijkstra A, Dörries M, Wöhlbrand L, Rabus R: Ben­zoate me­di­ates the sim­ul­tan­eous re­pres­sion of an­aer­obic 4-methyl­ben­zoate and suc­cin­ate util­iz­a­tion in Mag­neto­spir­il­lum sp. strain pMbN1. BMC Mi­cro­biol 14, 269. (2014) PubMed Full Text
Marmulla, R. and J. Harder: Mi­cro­bial monoter­pene trans­form­a­tions-a re­view. Fron­ti­ers in Mi­cro­bi­o­logy 5:346. doi: 10.3389/​fm­icb.2014.00346. (2014) PubMed Full Text
Petasch, J., E. M. Disch, S. Markert, D. Becher, T. Schweder, B. Hüttel, R. Reinhardt and J. Harder: The oxy­gen-in­de­pend­ent meta­bol­ism of cyc­lic monoter­penes in Cas­tel­lani­ella de­fra­grans 65Phen. BMC Mi­cro­bi­o­logy 10.1186/​1471-2180-14–164. (2014) PubMed Full Text
Richter, M., T. Richter-Heitmann, A. Klindworth, C.-E. Wegner, C.S. Frank, J. Harder, and F.O. Glöckner: Per­man­ent draft gen­omes of the three Rhodopirellula balt­ica strains SH28, SWK14 and WH47. Mar­ine Ge­n­om­ics 13, 13–14. (2014) PubMed
Richter, M., T. Richter-Heitmann, A. Klindworth, C.-E. Wegner, C.S. Frank, J. Harder, and F.O. Glöckner: Per­man­ent draft gen­omes of the Rhodopirellula maior­ica strain SM1. Mar­ine Ge­n­om­ics, (2014) PubMed
Richter-Heitmann, T., M. Richter, A. Klindworth, C.-E. Wegner, C.S. Frank, F.O. Glöckner, and J. Harder: Per­man­ent draft gen­omes of the two Rhodopirellula euro­paea strains 6C and SH398. Mar­ine Ge­n­om­ics 13, 19–20. (2014) PubMed
Romano, S., Dittmar, T., Bondarev, V., Weber, R.J.M., Viant, M.R. and Schulz-Vogt, H.N.: Exo-Meta­bolome of Pseudovi­brio sp. FO-BEG1 Ana­lyzed by Ul­tra-High Res­ol­u­tion Mass Spec­tro­metry and the Ef­fect of Phos­phate Lim­it­a­tion. PLOS ONE 9(5): e96038 (2014) PubMed Full Text
Strijkstra A, Trautwein K, Jarling R, Wöhlbrand L, Dörries M, Reinhardt R, Drozdowska M, Golding BT, Wilkes H, Rabus R.: An­aer­obic ac­tiv­a­tion of p-cymene in de­ni­tri­fy­ing beta­pro­teo­bac­teria: methyl group hy­droxyla­tion versus ad­di­tion to fu­marate. Appl. En­viron Mi­cro­biol 80, 7592–7603. (2014) PubMed
Wegner, C.-E., M. Richter, T. Richter-Heitmann, A. Klindworth, C.S. Frank, F.O. Glöckner, and J. Harder: Per­man­ent draft gen­ome of Rhodopirellula sal­lentina SM41. Mar­ine Ge­n­om­ics, 13, 17–18. (2014) PubMed
Wiegmann K, Hensler M, Wöhlbrand L, Ulbrich M, Schomburg D, Rabus R.: Car­bo­hydrate cata­bol­ism in Phaeo­bac­ter in­hibens DSM 17395, a mem­ber of the mar­ine Ros­eo­bac­ter clade. Appl En­viron Mi­cro­biol 80, 4725–4737. (2014) PubMed Full Text
B.Sc. and M.Sc. theses
Barbara Safaric: Puri­fic­a­tion and char­ac­ter­iz­a­tion of the lin­alool iso­merase from Thauera lin­aloolentis 47Lol, Mas­ter thesis, Uni­versity of Bre­men (2014)
Philipp Joachim Renz: Physiolo­gis­che Reak­tion von Rhodopirellula auf Licht Bach­elor thesis, Uni­versity of Ap­plied Sci­ences Bib­er­ach (2014)
Friederike Eisenberg: Am­monium meta­bol­ism of plank­tonic bac­teria Bach­elor thesis, West­fäl­is­che Hoch­schule (2014)
Kim Sara Kippe: Charak­ter­is­ier­ung von TonB-ab­hängigen Rezept­or­pro­teinen aus For­mosa agari­phila, Bach­elor thesis, Fach­hoch­schule Em­den/​Leer (2014)
Mareike Becher: Taxo­nomic char­ac­ter­iz­a­tion of Gramella for­setii and de­grad­a­tion of poly­sac­char­ides by Fla­vobac­teri­aceae, Bach­elor thesis, Hoch­schule Furt­wan­gen (2014)
Patrick Scholl: Se­quence as­sembly and an­nota­tion of the gen­ome of the planc­to­my­cete strain K833, Mas­ter thesis, Uni­versity of Ap­plied Sci­ences Bremer­haven (2014)
Greta Giljan: Poly­phasic tax­onomy of se­lec­ted mar­ine Fla­vobac­teria, Bach­elor thesis, Hoch­schule Darm­stadt (2014)
Iines Salonen: The di­versity of mi­croor­gan­isms in fecal pel­lets of Salpa Cyl­indrica com­pared with as­so­ci­ated wa­ter samples from the East-At­lantic Ocean, Mas­ter thesis, Uni­versity of Hel­sinki (2014)
Ph.D. theses
Stefano Romano: Re­sponse to phos­phate lim­it­a­tion of Pseudovi­brio sp. FO-BEG1, a ver­sat­ile bac­terium with the po­ten­tial for a sym­bi­otic life­style, Uni­versität Bre­men (2014)
Gao Chen: Physiology of the An­aer­obic De­grad­a­tion of Naph­thalene by Mar­ine Sulfate-Re­duct­ing Bac­teria, Uni­versität Bre­men (2014)

Mo­lecu­lar Eco­logy Group

Bizic-Ionescu M., Zeder M., Ionescu D., Orlic S., Fuchs B. M., Grossart H.-P. and Amann R.: Com­par­ison of bac­terial com­munit­ies on lim­nic versus coastal mar­ine particles re­veals pro­found dif­fer­ences in col­on­iz­a­tion. En­vir­on­mental Mi­cro­bi­o­logy , in press. (2014) Wiley
Bizic-Ionescu, M., R. Amann, and H.-P. Grossart: Massive re­gime shifts and high activ­ity of het­ero­trophic bac­teria in an ice-covered lake. PLoS ONE 9:e113611. doi:10.1371/​journal.pone.0113611 (2014) PubMed Full Text
Emil Ruff S, Probandt D, Zinkann A-C, Iversen MH, Klaas C, Würzberg L, Krombholz N, Wolf-Gladrow D, Amann R, Knittel K.: In­dic­a­tions for al­gae-de­grad­ing benthic mi­cro­bial com­munit­ies in deep-sea sed­i­ments along the Ant­arc­tic Po­lar Front. Deep Sea Re­search Part II: Top­ical Stud­ies in Ocean­o­graphy 108:6–16. (2014) PubMed
Hahnke RL, Bennke CM, Fuchs BM, Mann AJ, Riehl E, Teeling H, Amman R, Harder J: Di­lu­tion cul­tiv­a­tion of mar­ine het­ero­trophic bac­teria abund­ant after a spring phyto­plank­ton bloom in the North Sea. En­viron. Mi­cro­biol., doi: 10.1111/​1462-2920.12479. [Epub ahead of print]. PMID: 24725270 (2014) Wiley
Kabisch A, Otto A, König S, Becher D, Albrecht D, Schüler M, Teeling H, Amann RI, Schweder T.: Func­tional char­ac­ter­iz­a­tion of poly­sac­char­ide util­iz­a­tion loci in the mar­ine Bac­teroid­etes Gramella forsetii KT0803. ISME J., doi: 10.1038/​is­mej.2014.4. [Epub ahead of print]. PMID: 24522261 (2014) PubMed
Kleindienst, S., Herbst, F.A., Stagars, M., von Netzer, F., von Bergen, M., Seifert, J., Peplies, J., Amann, R., Musat, F., Lueders, T., Knittel, K.: Di­verse sulfate-re­du­cing bac­teria of the Des­ulfosar­cina/​Des­ul­fo­coc­cus clade are the key al­kane de­graders at mar­ine seeps. ISME J. 8: 2029-2044 (2014) nature
Krupke A, Mohr W, LaRoche J, Fuchs BM, Amann RI, Kuypers MM.: The ef­fect of nu­tri­ents on car­bon and ni­tro­gen fix­a­tion by the UCYN-A–hapto­phyte sym­bi­osis. ISME J. in press (2014) PubMed
Krupke A., Lavik G., Halm H., Fuchs B. M., Amann R. I. and Kuypers M. M. M.: Dis­tri­bu­tion of a con­sor­tium between uni­cel­lu­lar al­gae and the N2 fix­ing cy­anobac­terium UCYN-A in the North At­lantic Ocean. En­vir­on­mental Mi­cro­bi­o­logy 16, 3153–3167. (2014) Wiley
Kyrpides, N.C., P. Hugenholtz, J.A. Eisen, T. Woyke, M. Göker, C.T. Parker, R. Amann, [56 authors], and H.P. Klenk.: Ge­n­omic en­cyc­lo­pe­dia of Bac­teria and Ar­chaea: Se­quen­cing a myriad of type strains. PLoS Bio­logy 12: e1001920 (DOI: 10.371/​journal.pbio.1001920) (2014) PubMed Full Text
Pjevac, P., A. Kamyshny, S. Dyksma and M. Mußmann: Mi­cro­bial con­sump­tion of zero-valence sul­fur (S0) in mar­ine benthic hab­it­ats. En­vir­on­mental Mi­cro­bi­o­logy 16(11)3416-3430. (2014) PubMed
Pjevac, P., M. Korlević, J. Berg, E. Bura-Nakic, I. Ciglenecki, R. Amann, and S. Orlić: Com­munity shift from pho­to­trophic to chemo­trophic sulf­ide ox­id­a­tion fol­low­ing an­oxic holo­mixis in a strat­i­fied sea­wa­ter lake. Appl. En­viron. Mi­cro­biol. (in press). (2014) AEM
Reeves, E.P., M.Y. Yoshinaga, P. Pjevac, N.I. Goldenstein, J. Peplies, A. Meyerdierks, R. Amann, W. Bach, and K.U. Hinrichs: Mi­cro­bial lip­ids re­veal car­bon as­sim­il­a­tion pat­terns on hy­dro­thermal sulf­ide chim­neys. En­viron. Mi­cro­biol. 16:3515-32. (2014) PubMed
Samant S., Amann R.I., and Hahn D.: Eval­u­ation of the 23S rRNA gene as tar­get for qPCR based quan­ti­fic­a­tion of Frankia in soils. Sys­tem. Appl. Mi­cro­biol. 37:229-234. [PMID:24315016] (2014) PubMed
Thiele S, Fuchs BM, Amann R, Iversen MH.: Col­on­iz­a­tion in the photic zone and sub­sequent changes dur­ing sink­ing de­term­ines bac­terial com­munity com­pos­i­tion in mar­ine snow. Appl. En­viron. Mi­cro­biol. AEM.02570–14. (2014) AEM
Thiele S., Wolf C., Schulz I. K., Assmy P., Metfies K. and Fuchs B. M.: Stable Com­pos­i­tion of the Nano- and Pi­co­plank­ton Com­munity dur­ing the Ocean Iron Fer­til­iz­a­tion Ex­per­i­ment LO­HAFEX. PLoS ONE 9, e113244. (2014) PubMed Full Text
Werner J, Ferrer M, Michel G, Mann AJ, Huang S, Juarez S, Ciordia S, Albar JP, Alcaide M, La Cono V, Yakimov MM, Antunes A, Taborda M, da Costa MS, Hai T, Glöckner FO, Golyshina OV, Golyshin PN, Teeling H: The MAMBA con­sor­tium: Hal­orhab­dus tiam­atea: Pro­teo­ge­n­om­ics and glyc­osi­dase activ­ity meas­ure­ments identify the first cul­tiv­ated euryar­chaeon from a deep-sea an­oxic brine lake as po­ten­tial poly­sac­char­ide de­grader. En­viron. Mi­cro­biol., doi: 10.1111/​1462-2920.12393. [Epub ahead of print]. PMID: 24428220 (2014) PubMed
Winkel, M., De Beer, D., Lavik, G., Peplies J. and M. Mußmann: Close as­so­ci­ation of act­ive ni­tri­fi­ers with Beg­gia­toa mats cov­er­ing deep-sea hy­dro­thermal sed­i­ments En­vir­on­mental Mi­cro­bi­o­logy 16(6): 1612-1626. (2014) PubMed
Winkel, M., Pjevac, P., Kleiner, M., Meyerdierks, A., Littmann, S., Amann, R., and M. Mußmann: Iden­ti­fic­a­tion and activ­ity of acet­ate-as­sim­il­at­ing mi­croor­gan­isms in dif­fuse vent­ing flu­ids from two hy­dro­thermal sys­tems. FEMS Mi­cro­bi­o­logy Eco­logy 90(3): 731-746. (2014) PubMed
Xing P, Hahnke RL, Unfried F, Markert S, Huang S, Barbeyron T, Harder J, Becher D, Schweder T, Glöckner FO, Amann RI, Teeling H.: Niches of two poly­sac­char­ide-de­grad­ing Po­laribac­ter isol­ates from the North Sea dur­ing a spring di­atom bloom. ISME J., in press (2014) PubMed
Yarza, P., P. Yilmaz, E. Pruesse, F.O. Glöckner, W. Ludwig, K.-H. Schleifer, W.B. Whitman, J. Euzeby, R. Amann, and R. Rossello-Mora: Unit­ing the clas­si­fic­a­tion of cul­tured and un­cul­tured bac­teria and ar­chaea us­ing 16S rRNA gene se­quences, Nat. Rev. Mi­cro­biol. 12:635-645. (2014) PubMed
Ph.D. theses
Wenjin Hao: Bac­terial com­munit­ies as­so­ci­ated with Jelly­fish, Uni­versität Bre­men (2014)
Christin Bennke: Dis­tri­bu­tion and func­tion of mar­ine Bac­teroid­etes, Uni­versität Bre­men (2014)
Mina Bižić-Ionescu: Poly­phasic com­par­ison of lim­nic and mar­ine particle-as­so­ci­ated bac­teria, Uni­versität Bre­men (2014)
Petra Pjevac: Co-ex­ist­ence and niche dif­fer­en­ti­ation of sul­fur ox­id­iz­ing bac­teria in mar­ine en­vir­on­ments, Uni­versität Bre­men (2014)

Sym­bi­osis Group

Beinart, R.; Nyholm, S.; Dubilier, N.; Girguis, P.: In­tra­cel­lu­lar Oceano­s­pir­illales in­habit the gills of the hy­dro­thermal vent snail Alviniconcha with chemo­syn­thetic, gamma-Pro­teo­bac­terial sym­bionts, En­vir­on­mental Mi­cro­bi­o­logy Re­ports, 656–664. (2014) PubMed
Fagervold, S., Romano, C., Kalenitchenko, D., Borowski, C., Nunes-Jorge, A., Martin, D., Galand, P.: Mi­cro­bial Com­munit­ies in Sunken Wood Are Struc­tured by Wood-Bor­ing Bi­valves and Loc­a­tion in a Sub­mar­ine Canyon. PLoS One. 7;9(5):e96248. doi: 10.1371/​journal.pone.0096248. (2014) PubMed Full Text
Koschinsky, A., Kausch, M., Borowski, C.: Metal con­cen­tra­tions in the tis­sues of the hy­dro­thermal vent mus­sel Ba­thymo­di­olus: Re­flec­tion of dif­fer­ent metal sources. Mar­ine En­vir­on­mental Re­search Volume 95, Pages 62–73. (2014) ScienceDirect
Mora-Lugo, R., Zimmermann, J., Rizk, A., Fernandez-Lahore, M.: De­vel­op­ment of a trans­form­a­tion sys­tem for As­per­gil­lus so­jae based on the Agrobac­terium tume­fa­ciens-me­di­ated ap­proach. Mi­cro­bial ge­net­ics, ge­n­om­ics and pro­teo­m­ics, Volume 14, (2014) BMC Full Text
Ott, J., Gruber-Vodicka, H., Leisch, N., Zimmermann, J.: Phylo­gen­etic con­firm­a­tion of the genus Rob­bea (Nem­at­oda: Des­modor­idae, Stil­bonemat­inae) with the de­scrip­tion of three new spe­cies. Sys­tem­at­ics and Biod­iversity Volume 12, Is­sue 4. (2014) PubMed
Ott, J., Leisch, N., Gruber-Vodicka, H.: Eu­bostrichus fer­tilis sp n., a new mar­ine nem­at­ode (Des­modor­idae: Stil­bonemat­inae) with an ex­traordin­ary re­pro­duct­ive po­ten­tial from Bel­ize, Cent­ral Amer­ica. Nemat­o­logy 00:1-11. DOI: 10.1163/​15685411-00002807. (2014) RescearchGate Full Text
Pende, N., Leisch, N., Gruber-Vodicka, H., Heindl, N., Ott, J., den Blaauwen, T., Bulgheresi, S.: Size-in­de­pend­ent sym­met­ric di­vi­sion in ex­traordin­ar­ily long cells. Nature Com­mu­nic­a­tions 5, Art­icle num­ber: 4803 doi:10.1038/​ncomms5803. (2014) Nature
Petersen, J., Dubilier, N.: Gene swap­ping in the dead zone. eLife. 3: e04600. (2014) PubMed Full Text
Russell, J., Dubilier, N., Rudgers, J.: Nature's mi­cro­bi­ome: in­tro­duc­tion. Mol Ecol. (6):1225-37. doi: 10.1111/​mec.12676. (2014) PubMed
B.Sc. and M.Sc. theses
Oliver Jäckle.: Ex­per­i­mental mo­lecu­lar and bio­chem­ical char­ac­ter­iz­a­tion of the Para­catenula sym­bi­osis. Mas­ter thesis 69 pp. Uni­versity of Bre­men (2014)

Mi­cro­bial Ge­n­om­ics Group

Davies, N., D. Field, L. Amaral-Zettler, M. Bicak, S. Bourlat, J. Coddington, J. Deck, A. Drummond, J. A. Gilbert, and F. O. Glöckner: Re­port of the 14th Ge­n­omic Stand­ards Con­sor­tium Meet­ing, Ox­ford, UK, Septem­ber 17-21, 2012. SIGS 9:1236-1250. (2014) PubMed Full Text
Davies, N., D. Field, L. Amaral-Zettler, M. Clark, J. Deck, A. Drummond, D. Faith, J. Geller, J. Gilbert, F. Glöckner, P. Hirsch, J.-A. Leong, C. Meyer, M. Obst, S. Planes, C. Scholin, A. Vogler, R. Gates, R. Toonen, V. Berteaux-Lecellier, M. Barbier, K. Barker, S. Bertilsson, M. Bicak, M. Bietz, J. Bobe, L. Bodrossy, A. Borja, J. Coddington, and J. Fuhrman: The found­ing charter of the Ge­n­omic Ob­ser­vat­or­ies Net­work. GigaS­cience 3:2. (2014) PubMed Full Text
Field, D., P. Sterk, R. Kottmann, J. W. De Smet, L. Amaral-Zettler, G. Cochrane, J. R. Cole, N. Davies, P. Dawyndt, G. M. Garrity, J. A. Gilbert, F. O. Glöckner, L. Hirschman, H. P. Klenk, R. Knight, N. Kyrpides, F. Meyer, I. Karsch-Mizrachi, N. Morrison, R. Robbins, I. San Gil, S. Sansone, L. Schriml, T. Tatusova, D. Ussery, P. Yilmaz, O. White, J. Wooley, and G. Caporaso: Ge­n­omic stand­ards con­sor­tium pro­jects. SIGS 9:599-601. (2014) PubMed Full Text
Glass, E. M., Y. Dribinsky, P. Yilmaz, H. Levin, R. Van Pelt, D. Wendel, A. Wilke, J. A. Eisen, S. Huse, A. Shipanova, M. Sogin, J. Stajich, R. Knight, F. Meyer, and L. M. Schriml: MIxS-BE: a MIxS ex­ten­sion de­fin­ing a min­imum in­form­a­tion stand­ard for se­quence data from the built en­vir­on­ment. Isme J. 8:1-3. (2014) ISME Full Text
Harrington, C., F. J. Reen, M. J. Mooij, F. A. Stewart, J.-B. Chabot, A. F. Guerra, F. O. Glöckner, K. F. Nielsen, L. Gram, and A. D. Dobson: Char­ac­ter­isa­tion of Non-Autoin­du­cing Tro­pod­ith­i­etic Acid (TDA) Pro­duc­tion from Mar­ine Sponge Pseudovi­brio Spe­cies. Mar­ine drugs 12:5960-5978. (2014) PubMed
Jan, C., J. M. Petersen, J. Werner, H. Teeling, S. Huang, F. O. Glöckner, O. V. Golyshina, N. Dubilier, P. N. Golyshin, M. Jebbar, and M.-A. Cambon-Bonavita: The gill cham­ber epi­bi­osis of deep-sea shrimp Rimi­caris exocu­lata: an in-depth meta­ge­n­omic in­vest­ig­a­tion and dis­cov­ery of Zeta­pro­teo­bac­teria. En­viron. Mi­cro­biol. 16:2723-2738. (2014) PubMed
Klindworth, A., A. J. Mann, S. Huang, A. Wichels, C. Quast, J. Waldmann, H. Teeling, and F. O. Glöckner: Di­versity and activ­ity of mar­ine bac­terioplank­ton dur­ing a di­atom bloom in the North Sea as­sessed by total RNA and pyrotag se­quen­cing. Mar Ge­n­om­ics 18:185-192. (2014) PubMed
Klindworth, A., J. Schnetzer, I. Kostadinov, R. Kottmann, and F. Glöckner: Ocean Sampling Day: Ge­n­omis­che Schatz­suche im Meer. BIOspek­trum 20:351-353. (2014) micro3
Klindworth, A., M. Richter, T. Richter-Heitmann, C.-E. Wegner, C. S. Frank, J. Harder, and F. O. Glöckner: Per­man­ent draft gen­ome of Rhodopirellula rubra SWK7. Mar­ine Ge­n­om­ics 13:11-12. (2014) PubMed
Kolinko, S., M. Richter, F. O. Glöckner, A. Brachmann, and D. Schüler: Single cell ge­n­om­ics re­veals po­ten­tial for mag­netite and greigite bio­m­in­er­al­iz­a­tion in an un­cul­tiv­ated mul­ti­cel­lu­lar mag­netotactic proka­ryote. En­vir­on­mental mi­cro­bi­o­logy re­ports 6:524-531. (2014) Wiley
Kopf, A., I. Kostadinov, A. Wichels, C. Quast, and F. O. Glöckner: Meta­tran­scrip­tome of mar­ine bac­terioplank­ton dur­ing winter time in the North Sea as­sessed by total RNA se­quen­cing. Mar­ine Ge­n­om­ics:on­line. (2014) ScienceDirect Full Text
Kyrpides, N. C., P. Hugenholtz, J. A. Eisen, T. Woyke, M. Goker, C. T. Parker, R. Amann, B. J. Beck, P. S. Chain, J. Chun, R. R. Colwell, A. Danchin, P. Dawyndt, T. Dedeurwaerdere, E. F. DeLong, J. C. Detter, P. De Vos, T. J. Donohue, X. Z. Dong, D. S. Ehrlich, C. Fraser, R. Gibbs, J. Gilbert, P. Gilna, F. O. Glöckner, J. K. Jansson, J. D. Keasling, R. Knight, D. Labeda, A. Lapidus, J. S. Lee, W. J. Li, J. Ma, V. Markowitz, E. R. Moore, M. Morrison, F. Meyer, K. E. Nelson, M. Ohkuma, C. A. Ouzounis, N. Pace, J. Parkhill, N. Qin, R. Rossello-Mora, J. Sikorski, D. Smith, M. Sogin, R. Stevens, U. Stingl, K. Suzuki, D. Taylor, J. M. Tiedje, B. Tindall, M. Wagner, G. Weinstock, J. Weissenbach, O. White, J. Wang, L. Zhang, Y. G. Zhou, D. Field, W. B. Whitman, G. M. Garrity, and H. P. Klenk: Ge­n­omic en­cyc­lo­pe­dia of bac­teria and ar­chaea: se­quen­cing a myriad of type strains. PLoS Biol 12:e1001920. (2014) PubMed Full Text
Medema, M. H., Y. Paalvast, D. D. Nguyen, A. Melnik, P. C. Dorrestein, E. Takano, and R. Breitling: Pep2Path: Auto­mated Mass Spec­tro­metry-Guided Gen­ome Min­ing of Pep­tidic Nat­ural Products. PLoS Com­put. Biol. 10:1-7. (2014) PubMed Full Text
Richter, M., T. Richter-Heitmann, A. Klindworth, C.-E. Wegner, C. S. Frank, J. Harder, and F. O. Glöckner: Per­man­ent draft gen­omes of the three Rhodopirellula balt­ica strains SH28, SWK14 and WH47. Mar­ine Ge­n­om­ics 13:13-14. (2014) PubMed
Richter, M., T. Richter-Heitmann, A. Klindworth, C.-E. Wegner, C. S. Frank, J. Harder, and F. O. Glöckner: Per­man­ent draft gen­omes of the Rhodopirellula maior­ica strain SM1. Mar­ine Ge­n­om­ics 13:19-20. (2014) PubMed
Richter-Heitmann, T., M. Richter, A. Klindworth, C.-E. Wegner, C. S. Frank, F. O. Glöckner, and J. Harder: Per­man­ent draft gen­omes of the two Rhodopirellula euro­paea strains 6C and SH398. Mar­ine Ge­n­om­ics 13:15-16. (2014) PubMed
Waldmann, J., J. Gerken, W. Hankeln, T. Schweer, and F. O. Glöckner: FastaVal­id­ator: an open-source Java lib­rary to parse and val­id­ate FASTA format­ted se­quences. BMC re­search notes 7:365. (2014) PubMed Full Text
Wegner, C.-E., M. Richter, T. Richter-Heitmann, A. Klindworth, C. S. Frank, F. O. Glöckner, and J. Harder: Per­man­ent draft gen­ome of Rhodopirellula sal­lentina SM41. Mar­ine Ge­n­om­ics 13:17-18. (2014) PubMed
Werner, J., M. Ferrer, G. Michel, A. J. Mann, S. Huang, S. Juarez, S. Ciordia, J. P. Albar, M. Alcaide, V. La Cono, M. M. Yakimov, A. Antunes, M. Taborda, M. S. da Costa, T. Hai, F. O. Glöckner, O. V. Golyshina, P. N. Golyshin, H. Teeling, and The MAMBA Consortium: Hal­orhab­dus tiam­atea: pro­teo­ge­n­om­ics and glyc­osi­dase activ­ity meas­ure­ments identify the first cul­tiv­ated euryar­chaeon from a deep-sea an­oxic brine lake as po­ten­tial poly­sac­char­ide de­grader. En­viron. Mi­cro­biol. 16:2525-2537. (2014) PubMed
Wieczorek, J., O. Banki, S. Blum, J. Deck, M. Doring, G. Droge, D. Endresen, P. Goldstein, P. Leary, L. Krishtalka, E. O. Tuama, R. J. Robbins, T. Robertson, and P. Yilmaz: Meet­ing Re­port: GBIF hack­a­thon-work­shop on Dar­win Core and sample data (22-24 May 2013). SIGS 9:614-627. (2014) PubMed
Xing, P., R. L. Hahnke, F. Unfried, S. Markert, S. Huang, T. Barbeyron, J. Harder, D. Becher, T. Schweder, F. O. Glöckner, R. I. Amann, and H. Teeling: Niches of two poly­sac­char­ide-de­grad­ing Po­laribac­ter isol­ates from the North Sea dur­ing a spring di­atom bloom. ISME J:on­line. (2014) PubMed Full Text
Yarza, P., P. Yilmaz, E. Pruesse, F. O. Glöckner, W. Ludwig, K. H. Schleifer, W. B. Whitman, J. Euzeby, R. Amann, and R. Rossello-Mora: Unit­ing the clas­si­fic­a­tion of cul­tured and un­cul­tured bac­teria and ar­chaea us­ing 16S rRNA gene se­quences. Nature Rev. Mi­cro­biol. 12:635-645. (2014) PubMed
Yilmaz, P., L. W. Parfrey, P. Yarza, J. Gerken, E. Pruesse, C. Quast, T. Schweer, J. Peplies, W. Ludwig, and F. O. Glöckner: The SILVA and "All-spe­cies Liv­ing Tree Pro­ject (LTP)" taxo­nomic frame­works. Nuc­leic Acid Res. 42:D643-D648. (2014) NAR Full Text

HGF MPG Deep-Sea Eco­logy and Tech­no­logy Group

Allen K.D., Wegener G. and White R.H.: Dis­cov­ery of mul­tiple mod­i­fied F430 coen­zymes in meth­ano­gens and an­aer­obic meth­an­o­trophic Ar­chaea sug­gests pos­sible new roles for F430 in nature. Ap­plied and En­vir­on­mental Mi­cro­bi­o­logy 80(20): 6403-6412. doi:10.1128/​AEM.02202-14. (2014) PubMed
Al-Najjar M.A.A., Ramette A., Kühl M., Hamza W., Klatt J.M. and Polerecky L.: Spa­tial pat­terns and links between mi­cro­bial com­munity com­pos­i­tion and func­tion in cy­anobac­terial mats. Front. Mi­cro­biol. 5: 406. doi: 10.3389/​fm­icb.2014.00406. (2014) PubMed Full Text
Buttigieg, P.L. and Ramette, A.: A guide to stat­ist­ical ana­lysis in mi­cro­bial eco­logy: a com­munity-fo­cused, liv­ing re­view of mul­tivari­ate data ana­lyses. FEMS Mi­cro­bi­o­logy Eco­logy, 90: 543–550. doi: 10.1111/​1574-6941.12437. (2014) Wiley
Cherkasheva A., Bracher A., Melsheimer C., Köberle C., Gerdes R., Nöthig E.-M., Bauerfeind E., Boetius A.: In­flu­ence of the phys­ical en­vir­on­ment on po­lar phyto­plank­ton blooms: a case study in the Fram Strait. Journal of Mar­ine Sys­tems doi: 10.1016/​j.jmarsys.2013.11.008. (2014) ScienceDirect
Felden J., Ruff S.E., Ertefai T., Inagaki F., Hinrichs K.-U. and Wenzhöfer F.: An­aer­obic meth­an­o­trophic com­munity of a 5346 m-deep vesico­myid clam colony in the Ja­pan Trench. Geo­bi­o­logy, 12: 183-199. doi: 10.1111/​gbi.12078. (2014) Wiley
Fernández-Méndez M., Wenzhöfer F., Peeken I., Sorensen H.L., Glud R.N. and Boetius A.: Com­pos­i­tion, buoy­ancy reg­u­la­tion and fate of ice algal ag­greg­ates in the Cent­ral Arc­tic Ocean. PLoS ONE 9(9): e107452. doi:10.1371/​journal.pone.0107452. (2014) PubMed Full Text
Feseker T., Boetius A., Wenzhöfer F., Blandin J., Olu K., Yoerger D.R., Camilli R., German C.R., de Beer D.: Erup­tion of a deep-sea mud vol­cano trig­gers rapid sed­i­ment move­ment. 5: 5385. doi: 10.1038/​ncomms6385. (2014) nature Full Text
Friedrich J., Janssen F., Aleynik D., Bange H.W., Boltacheva N., Cagatay M.N., Dale A.W., Etiope G., Erdem Z., Geraga M., Gilli A., Gomoiu M.T., Hall P.O.J., Hansson D., He Y., Holtappels M., Kirf M.K., Kononets M., Konovalov S., Lichtschlag A., Livingstone D.M., Marinaro G., Mazlumyan S., Naehr S., North R.P., Papatheodorou G., Pfannkuche O., Prien R., Rehder G., Schubert C.J., Soltwedel T., Sommer S., Stahl H., Stanev E.V., Teaca A., Tengberg A., Waldmann C., Wehrli B., Wenzhöfer F.: In­vest­ig­at­ing hyp­oxia in aquatic en­vir­on­ments: di­verse ap­proaches to ad­dress­ing a com­plex phe­nomenon. Biogeosciences 11: 1215-1259. doi:10.5194/​bg-11-1215-2014. (2014) Biogeosciences Full Text
Gobet, A., Boetius, A., Ramette, A.: Eco­lo­gical co­her­ence of di­versity pat­terns de­rived from clas­sical fin­ger­print­ing and Next Gen­er­a­tion Se­quen­cing tech­niques. En­viron Mi­cro­biol. 16(9):2672-81. doi: 10.1111/​1462-2920.12308. (2014) PubMed
Koop-Jakobsen K. and Wenzhöfer F.: The Dy­nam­ics of Plant-Me­di­ated Sed­i­ment Oxy­gen­a­tion in Spar­tina anglica Rhizo­spheres - a Planar Op­tode Study. Es­tu­ar­ies and Coasts. doi: 10.1007/​s12237-014-9861-y. (2014) Springer Full Text
Pop Ristova P., Wenzhöfer F., Ramette A., Felden J. and Boetius A.: Spa­tial scales of bac­terial com­munity di­versity at cold seeps (East­ern Medi­ter­ranean Sea). ISME Journal. doi: 10.1038/​is­mej.2014.217. (2014) ISME
Ramette A. and Buttigieg P.L.: The R pack­age otu2ot for im­ple­ment­ing the en­tropy de­com­pos­i­tion of nuc­le­otide vari­ation in se­quence data. Front. Mi­cro­biol. 5:601. doi: 10.3389/​fm­icb.2014.00601. (2014) PubMed Full Text
Raulf F.F., Fabricius K., Uthicke S., de Beer D., Abed R.M.M., Ramette A.: Changes in mi­cro­bial com­munit­ies in coastal sed­i­ments along nat­ural CO2 gradi­ents at a vol­canic vent in Papua New Guinea. En­vir­on­mental Mi­cro­bi­o­logy. doi: 10.1111/​1462-2920.12729. (2014) PubMed
Römer M., Sahling H., Pape T., dos Santos Ferreira C., Wenzhöfer F., Boetius A. and Bohrmann G.: Meth­ane fluxes and car­bon­ate de­pos­its at a cold seep area of the Cent­ral Nile Deep Sea Fan, East­ern Medi­ter­ranean Sea. Mar­ine Geo­logy 347: 27-42. (2014) PubMed
Ruff S. E., Probandt D., Zinkann A.-C., Iversen M., Klaas C., Würzberg L., Rödiger-Krombholz N., Wolf-Gladrow D., Amann R. and Knittel K.: In­dic­a­tions for al­gae-de­grad­ing benthic mi­cro­bial com­munit­ies in the deep-sea sed­i­ments along the Ant­arc­tic Po­lar Front. Deep-Sea Re­search Part II, 108: 6-16. doi: 10.1016/​j.dsr2.2014.05.011. (2014) ScienceDirect
Turnewisch R., Falahat S., Stehlikova J., Oguri K., Glud R.N., Middelboe M., Kitazato H., Wenzhöfer F., Ando K., Fujio S., Yanagimoto D.: Re­cent sed­i­ment dy­nam­ics in hadal trenches: evid­ence for the in­flu­ence of higher fre­quency (tidal, near-in­er­tial) fluid dy­nam­ics. Deep Sea Re­search I 90: 125 – 138. (2014) ScienceDirect
Zimmermann J., Lott C., Weber M., Ramette A., Bright M., Dubilier N. and Petersen J.M.: Dual sym­bi­osis with co-oc­cur­ring sul­fur-ox­id­iz­ing sym­bionts in ves­ti­men­ti­feran tube­worms from a Medi­ter­ranean hy­dro­thermal vent. En­vir­on­mental Mi­cro­bi­o­logy. doi:10.1111/​1462-2920.12427. (2014) Wiley
Zinger L., Boetius A., Ramette A.: Bac­terial taxa-area and dis­tance-de­cay re­la­tion­ships in mar­ine en­vir­on­ments. Mo­lecu­lar Eco­logy 23(4): 954-964. doi: 10.1111/​mec.12640. (2014) Wiley
Katlein C., Fernández-Méndez M., Wenzhöfer F. and Nicolaus M.: Dis­tri­bu­tion of algal ag­greg­ates un­der sum­mer sea ice in the Cent­ral Arc­tic. Po­lar Bio­logy. (2014) ePIC
Yoshinaga M.Y., Holler T., Goldhammer T., Wegener G., Pohlman J.P., Brunner B., Kuypers M.M.M., Hinrichs K.-U. and Elvert M.: Car­bon iso­tope equi­lib­ra­tion dur­ing sulph­ate-lim­ited an­aer­obic ox­id­a­tion of meth­ane. Nature Geoscience. (2014) nature
B.Sc. and M.Sc. theses
Harding, Katie Jean: Ther­mo­philic con­sor­tia in­volving Hot­Seep-1. Uni­versity of Bre­men/ Max Planck In­sti­tute for Mar­ine Mi­cro­bi­o­logy. (2014).
Rapp, Josephine. Z.: Bac­terial di­versity in sea ice, melt ponds, wa­ter column, ice algal ag­greg­ates and deep-sea sed­i­ments of the Cent­ral Arc­tic Ocean. 99 pp. Uni­versity of Bre­men/ Max Planck In­sti­tute for Mar­ine Mi­cro­bi­o­logy. (2014).
Becker, S.: Ef­fects of or­ganic car­bon en­rich­ment on benthic bac­terial com­munit­ies from the Arc­tic deep sea (HAUS­GARTEN, Fram Strait). Hoch­schule Bremer­haven (2014).

Mi­cro­bial Fit­ness Group

Hahnke, S., Moosmann, P., Erb, T., Strous, M.: An im­proved me­dium for the an­aer­obic growth of Para­coc­cus de­ni­tri­fic­ans Pd1222. Front Mi­cro­biol. doi: 10.3389/​fm­icb.2014.00018. (2014) PubMed Full Text
Hanke, A., Hamann, E., Sharma, R., Geelhoed, J., Hargesheimer, T., Kraft, B., Meyer, V., Lenk, S., Osmers, H., Wu, R., Makinwa, K., Hettich, R., Banfield, J., Tegetmeyer, H., Strous, M.: Re­cod­ing of the stop codon UGA to gly­cine by a BD1-5/​SN-2 bac­terium and niche par­ti­tion­ing between Al­pha- and Gammapro­teo­bac­teria in a tidal sed­i­ment mi­cro­bial com­munity nat­ur­ally se­lec­ted in a labor­at­ory che­mo­stat. Front Mi­cro­biol. doi: 10.3389/​fm­icb.2014.00231. (2014) PubMed Full Text
Kraft, B., Tegetmeyer, H., Meier, D., Geelhoed, J., Strous, M.: Rapid suc­ces­sion of un­cul­tured mar­ine bac­terial and ar­chaeal pop­u­la­tions in a de­ni­tri­fy­ing con­tinu­ous cul­ture. En­viron Mi­cro­biol. 16(10):3275-86. doi: 10.1111/​1462-2920.12552. (2014) PubMed
Kraft, B., Tegetmeyer, H., Sharma, R., Klotz, M., Ferdelman, T., Hettich, R., Geelhoed, J., Strous, M.: The en­vir­on­mental con­trols that gov­ern the end product of bac­terial ni­trate res­pir­a­tion. Sci­ence Vol. 345 no. 6197 pp. 676-679 DOI: 10.1126/​sci­ence.1254070. (2014) Science
Rodrí­guez-Dí­az, M., Cerrone, F., Sánchez-Peinado, M., SantaCruz-Calvo, L., Pozo, C., López, J.: Massilia um­bonata sp nov., able to ac­cu­mu­late poly-beta-hy­droxy­bu­tyr­ate, isol­ated from a sewage sludge com­post-soil mi­cro­cosm. Int J Syst Evol Mi­cro­biol. 64(Pt 1):131-7. doi: 10.1099/​ijs.0.049874-0. (2014) PubMed
Ph.D. theses
Beate Kraft: Com­pet­i­tion in ni­trate-re­du­cing mi­cro­bial com­munit­ies, Uni­versität Bre­men (2014)
Anna Hanke: Con­tinu­ouos Cul­tiv­a­tion of Jans­sand Mi­cro­bial Com­munit­ies Re­sponse to Vary­ing Oxy­gen Con­cen­tra­tions and Tem­per­at­ures, Uni­versität Bre­men (2014)

Mi­cro­bial Hab­itat Group

Ph.D. theses
Mar Fernandez Mendez: Primary pro­ductiv­ity in Arc­tic sea ice and ocean, Uni­versität Bre­men (2014)
Marianne Jacob: In­flu­ence of Global Change on mi­cro­bial com­munit­ies in Arc­tic sed­i­ments, Uni­versität Bre­men (2014)

Mar Mic

B.Sc. and M.Sc. theses
Karen Krüger: Abund­ance and Ar­range­ments of Car­bo­hyrate-Act­ive En­zymes in Mar­ine Pela­gic Fla­vobac­teria. Mas­ter thesis 63 pp. Uni­versity of Bre­men (2014)
Nadine Lehnen: The role of Spir­o­chetes in het­ero­trophic dinitro­gen fix­a­tion. Mas­ter thesis 58 pp. Uni­versity of Bre­men (2014)
Edinson Andrés Puentes Cala: Trans­po­son muta­gen­esis tar­get­ing the lin­alool meta­bol­ism in Thauera lin­aloolentis 47Lol. Mas­ter thesis 78 pp. Uni­versity of Bre­men (2014)
Martijin J. Karreman: Bac­terial di­versity in sa­lin­ity gradi­ents of the Baltic Sea. Mas­ter thesis 35 pp. Uni­versity of Bre­men (2014)
Jennifer Bachmann: Tran­scrip­tomic re­sponse of Chaeto­ceros de­bilis to ocean acid­i­fic­a­tion and dy­namic light. Mas­ter thesis 64 pp. Uni­versity of Bre­men (2014)
Anny Cárdenas: Bac­terial com­munity shifts and im­pact on ag­greg­ate form­a­tion in coral and mac­roal­gae meso­cosms un­der el­ev­ated or­ganic car­bon and pCO2 con­cen­tra­tions. Mas­ter thesis 65 pp. Uni­versity of Bre­men (2014)
Tanja Fischer: Ex­tra­cel­lu­lar struc­tures of Fla­vobac­teria. Mas­ter thesis 101 pp. Uni­versity of Bre­men (2014)
Sebastian Haas: A biofilm in a sulf­idic un­der­wa­ter cave: Evid­ence for low-light ad­ap­ted an­oxy­genic pho­to­syn­thesis and pre­lim­in­ary in­sights into sul­fur biogeo­chem­istry. Mas­ter thesis 67 pp. Uni­versity of Bre­men (2014)
Rebecca Ansorge: Strain di­versity and gen­ome evol­u­tion in chemoauto­trophic sym­bionts of Ba­thymo­di­olus mus­sels. Mas­ter thesis 78 pp. Uni­versity of Bre­men (2014)
Burak Avci: Eco­physiolo­gical Role of Reinekea spe­cies dur­ing a Phyto­plank­ton Bloom in the North Sea. Mas­ter thesis 50 pp. Uni­ver­ity of Bre­men (2014)
Ph.D. theses
Gabriela Alfaro Espinoza: A bac­teria-plant model sys­tem to study ni­tro­gen fix­a­tion in man­grove eco­sys­tems, Ph.D theses, Jac­obs Uni­versity (2014)

MPI-ICBM-Brück­en­gruppe für mar­ine Geo­chemie

Ph.D. theses
Sven Lahme: Physiolo­gical and mo­lecu­lar in­vest­ig­a­tion of the an­aer­obic 4-methyl­ben­zoate and ben­zoate de­grad­a­tion in Mag­neto­spir­il­lum sp.strain pMbN1, Ph.D. theses, Uni­versität Olden­burg (2014)
Helena Osterholz: From freshly pro­duced com­pounds to re­fract­ory mo­lecules – tra­cing sources and fate of dis­solved or­ganic mat­ter in the ocean. Ph.D. theses, Uni­versität Olden­burg (2014)
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