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Pu­bli­ka­tio­nen 2005

Pu­bli­ka­tio­nen 2005

De­part­ment of Bio­geo­che­mis­try

Arnosti, C., N. Finke, O. Larsen and S. Ghobria: An­oxic car­bon de­gra­da­ti­on in Arc­tic se­di­ments: Mi­cro­bi­al trans­for­ma­ti­ons of com­plex sub­stra­tes. Geochi­mi­ca et Cos­mochi­mi­ca Acta 69(9):2309-2320 (2005).  ScienceDirect 
Böttcher, M. E. and Jørgensen B. B.: Le­ben an der Gren­ze: Die all­täg­li­che Sinn­flut. Ein­bli­cke (Carl von Os­sietz­ky Uni­ver­si­tät Ol­den­burg) 41:19-21 (2005).  Full Text
Böttcher, M. E., B. Thamdrup, M. Gehre and A. Theune: 34S/​32S and 18O/​16O frac­tio­na­ti­on du­ring sul­fur dis­pro­por­tio­na­ti­on by Des­ul­fo­bul­bus pro­pio­ni­cus. Geo­mi­cro­bio­lo­gy Jour­nal 22:219-226 (2005).  TFO  
Grice, K., C. Cao, G. D. Love, M. E. Böttcher, R. J. Twitchett, E. Grosjean, R. E. Summons, S. C. Turgeon, W. Dunning and Y. Jin: Pho­tic zone eu­xi­nia du­ring the Per­mi­an-Tri­as­sic su­peran­oxic event. Sci­ence 307:706-709 (2005).  PubMed  Full Text
Grice, K., R. E. Summons, E. Grosjean, R. J. Twitchett, S. X. Wang, W. Dunning and M. E. Böttcher: De­po­si­tio­nal con­di­ti­ons of the nort­hern ons­hore Perth ba­sin (Ba­sal Tri­as­sic). Aus­tra­li­an Pe­tro­le­um Pro­duct Ex­plo­ra­ti­on As­so­cia­ti­on Jour­nal 2005:263-273 (2005). 
Jørgensen, B. B., R. N. Glud and O. Holby:  Oxy­gen dis­tri­bu­ti­on and bio­ir­ri­ga­ti­on in Arc­tic fjord se­di­ments (Sval­bard, Ba­rents Sea). Ma­ri­ne Eco­lo­gy Pro­gress Se­ries 292:85-95 (2005).  MEPS 
Jørgensen, B. B., A. Teske and A. Ahmad:  Ge­nus VII. Thio­plo­ca Lau­ter­born 1907, 242 AL. pp. 171-178, In: Ber­gey­'s Ma­nu­al of De­ter­mi­na­ti­ve Bac­te­rio­lo­gy. 2nd ed., Vol. II, Part B, D.J. Bren­ner, N.R. Krieg, J.T. Sta­ley, G.M. Gar­ri­ty (eds.), Sprin­ger, NY, USA (2005).
Kolonic, S., Wagner T., Forster A., Damsté J. S. S., Walsworth-Bell B., Erba E., Turgeon S., Brumsack H. J., Chellai E. I., Tsikos H., Kuhnt W., and Kuypers M. M. M.: Black sha­le de­po­si­ti­on on the nor­thwest Af­ri­can Shelf du­ring the Ce­noma­ni­an/​Turo­ni­an ocea­nic an­oxic event: Cli­ma­te cou­pling and glo­bal or­ga­nic car­bon bu­ri­al. Pa­leo­cea­no­gra­phy 20(1): PA1006, doi:10.1029/​2003PA000950 (2005)  igitur
Nägler, T. F., C. Siebert, H. Lüschen and M. E. Böttcher:  Se­di­men­ta­ry Mo iso­to­pe re­cord across the Ho­lo­ce­ne fresh-bra­ckish wa­ter tran­si­ti­on of the Black Sea. Che­mi­cal Geo­lo­gy 219:283-2959 (2005).  ScienceDirect 
Neumann, T., N. Rausch, T. Leipe, O. Dellwig, Z. Berner and M. E. Böttcher:  In­ten­se py­ri­te for­ma­ti­on un­der low-sul­fa­te con­di­ti­ons in the Ach­ter­was­ser la­goon, SW Bal­tic Sea. Geochi­mi­ca et Cos­mochi­mi­ca Acta 69(14):3619-3630 (2005).  ScienceDirect  
Parkes, R. J., G. Webster, B. A. Cragg, A. J. Weightman, C. J. Newberry, T. G. Ferdelman, J. Kallmeyer, B. B. Jørgensen, I. W. Aiello and J. C. Fry:  Deep sub-seaf­loor pro­ka­ryo­tes sti­mu­la­ted at in­ter­faces over geo­lo­gi­cal time. Na­tu­re 436:390-394 (2005).  PubMed 
Schippers, A., L. N. Neretin, J. Kallmeyer, T. G. Ferdelman, B. A. Cragg, R. J. Parkes and B. B. Jørgensen:  Pro­ka­ryo­tic cells of the deep sub-seaf­loor biophse­re iden­ti­fied as li­ving bac­te­ria. Na­tu­re 433:861-864 (2005).  PubMed  
Schippers, A., L. N. Neretin, G. Lavik, T. Leipe and F. Pollehne:  Man­ga­ne­se(II) oxi­da­ti­on dri­ven by la­te­ral oxy­gen in­tru­si­ons in the wes­tern Black Sea. Geochi­mi­ca et Cos­mochi­mi­ca Acta 69(9):2241-2252 (2005).  ScienceDirect  
Schubert, C. J., J. Niggemann, G. Klockgether and T. G. Ferdelman:  Chlo­rin In­dex: a new pa­ra­me­ter for or­ga­nic mat­ter fresh­ness in se­di­ments. Geo­che­mis­try Geo­phy­sics Geo­sys­tems 6(3), doi: 10.1029/​2004G­C000837 (2005).  Wiley
Schulz, H. N. and B. B. Jørgensen: Ge­nus VI.  Thio­mar­ga­ri­ta Schulz, Brink­hoff, Fer­de­l­man, Hernán­dez Ma­riné, Tes­ke and Jør­gen­sen 1999b, 1325VP . pp. 169-171, In: Ber­gey­'s Ma­nu­al of De­ter­mi­na­ti­ve Bac­te­rio­lo­gy. 2nd ed., Vol. II, Part B, D.J. Bren­ner, N.R. Krieg, J.T. Sta­ley, G.M. Gar­ri­ty (eds.), Sprin­ger, NY, USA (2005).

Master thesis
Robador, Alberto: Re­s­pon­ses in ac­tivi­ty and com­mu­ni­ty com­po­si­ti­on of sul­fa­te-re­du­cing bac­te­ria to mo­dera­te tem­pe­ra­tu­re chan­ges in Sval­bard se­di­ments (Arc­tic Oce­an). Mas­ter The­sis, Mar­Mic, Uni­ver­si­ty of Bre­men, Bre­men (2005), 39pp.

Ph. D. theses
Niggemann, Jutta:  Com­po­si­ti­on and de­gra­da­ti­on of or­ga­nic mat­ter in se­di­ments from the Peru-Chi­le up­wel­ling re­gi­on. Dis­ser­tai­on Uni­ver­si­tät Bre­men, Bre­men (2005), 206pp. 
Nüster, Jochen:  New Me­thods in Bio­geo­che­mis­try: The de­ve­lop­ment of elec­tro­che­mi­cal tools for the mea­su­re­ment of dis­sol­ved and so­lid sta­te com­pounds in na­tu­ral sys­tem. Dis­ser­tai­on Uni­ver­si­tät Bre­men, Bre­men (2005), 199pp.
Preisler, André:  Beggia­toa – the eco­phy­sio­lo­gi­cal si­gni­fi­can­ce of lar­ge, whi­te, fil­amen­tous sul­fur oxi­di­zers wi­t­hin the ni­tro­gen and the sul­fur cy­cle. Dis­ser­ta­ti­on Uni­ver­si­tät Bre­men, Bre­men (2005), 93pp.
Vandieken, Verona:  Mi­cro­bio­lo­gi­cal and bio­geo­che­mi­cal stu­dies of mi­cro­bi­al Mn(IV) and Fe(III) re­duc­tion in Arc­tic se­di­ments (Sval­bard). Dis­ser­tai­on Uni­ver­si­tät Bre­men, Bre­men (2005), 163pp.  

Mi­cro­bi­al Ha­bi­tat Group

Boetius, A.:  Mi­cro­fau­na - ma­cro­fau­na in­ter­ac­tion in the seaf­loor: les­sons from the tu­be­worm. PLOS Bio­lo­gy 3(3):0375-0378 (2005).  PubMed  Full Text
Boetius, A.:  Lost City Life. Sci­ence 307:1420-1422 (2005).  Sciencemag  
Bühring, S. I., M. Elvert and U. Witte:  The mi­cro­bi­al com­mu­ni­ty struc­tu­re of dif­fe­rent per­me­able san­dy se­di­ments cha­rac­te­ri­zed by the in­ves­ti­ga­ti­on of bac­te­ri­al fat­ty acids and fluo­re­scence in situ hy­bri­di­za­t­i­on. En­vi­ron­men­tal Mi­cro­bio­lo­gy 7(2):281-293 (2005).  PubMed  
Elvert, M., E. C. Hopmans, T. Treude, A. Boetius, E. Suess: Spa­ti­al va­ria­ti­ons of me­tha­notro­phic con­sor­tia at cold me­tha­ne seeps: im­pli­ca­ti­ons from a high-re­so­lu­ti­on mole­cu­lar and iso­to­pic ap­proach. Geo­bio­lo­gy 3(3):195-209 (2005).  Wiley 
Glud, R. N., F. Wenzhöfer, A. Tengberg, M. Middelboe, K. Oguri and H. Kitazato:  Dis­tri­bu­ti­on of oxy­gen in sur­face se­di­ments from cen­tral Sa­ga­mi Bay, Ja­pan: In situ mea­su­re­ments by mi­cro­elec­tro­des and pla­nar op­to­des. Deep-Sea Re­se­arch I 52:1974-1987 (2005).  ScienceDirect  
Hoffmann, F., O. Larsen, H. T. Rapp and R. Osinga:  Oxy­gen dy­na­mics in cho­a­no­so­mal spon­ge ex­plants. Ma­ri­ne Bio­lo­gy Re­se­arch 1:160-163 (2005).  WageningenUR  
Hoffmann, F., O. Larsen, V. Thiel, H. T. Rapp, T. Pape, W. Michaelis and J. Reitner:  An an­ae­ro­bic world in spon­ges. Geo­mi­cro­bio­lo­gy Jour­nal 22:1-10 (2005).  ResearchGate  
Janssen, F., P. Faerber, M. Huettel, V. Meyer and U. Witte:  Pore-wa­ter ad­vec­tion and so­lu­te flu­xes in per­me­able ma­ri­ne se­di­ments (I): ca­li­bra­ti­on and per­for­mance of the no­vel bent­hic cham­ber sys­tem San­dy. Lim­no­lo­gy and Ocea­no­gra­phy 50(3):768-778 (2005).  ASLO   Full Text
Janssen, F., M. Huettel and U. Witte: Pore-wa­ter ad­vec­tion and so­lu­te flu­xes in per­me­able ma­ri­ne se­di­ments (II): Bent­hic re­spi­ra­ti­on at three san­dy sites with dif­fe­rent per­me­a­bi­li­ties (Ger­man Bight, North Sea). Lim­no­lo­gy and Ocea­no­gra­phy 50(3):779-792 (2005).  ASLO  Full Text
Niemann, H., M. Elvert, M. Hovland, B. Orcutt, A. Judd, I. Suck, J. Gutt, S. Joye, E. Damm, K. Finster and A. Boetius:  Me­tha­ne emis­si­on and con­sump­ti­on at a North Sea gas seep (Tom­me­li­ten area). Bio­geo­sci­en­ces 2:335-351 (2005).  Biogeosciences  Full Text
Orcutt, B., A. Boetius, M. Elvert, V. Samarkin and S. B. Joye:  Mole­cu­lar bio­geo­che­mis­try of sul­fa­te re­duc­tion, me­tha­no­ge­ne­sis and the an­ae­ro­bic oxi­da­ti­on of me­tha­ne at Gulf of Me­xi­co cold seeps. Geochi­mi­ca et Cos­mochi­mi­ca Acta 69(17):4267-4281 (2005).  ScienceDirect  
Røy, H., M. Huettel and B. B. Jørgensen:  The in­flu­ence of to­po­gra­phy on the func­tio­nal ex­ch­an­ge sur­face of ma­ri­ne soft se­di­ments, as­ses­sed from se­di­ment to­po­gra­phy mea­su­red in situ. Lim­no­lo­gy and Ocea­no­gra­phy 50(1):106–112 (2005).  ASLO  Full Text
Tarpgaard, I.H., A. Boetius and K. Finster: Des­ul­fo­bac­ter psy­chro­to­le­rans sp. nov., a new psy­chro­to­le­rant sul­fa­te-re­du­cing bac­te­ri­um and de­scrip­ti­ons of its phy­sio­lo­gi­cal re­s­pon­se to tem­pe­ra­tu­re chan­ges. An­to­nie van Lee­uwen­ho­ek (doi 10.1007/​s10482-005-9014-1) (2005).  PubMed  
Treude, T., K. Knittel, M. Blumenberg, R. Seifert and A. Boetius: Sub­sur­face mi­cro­bi­al me­tha­notro­phic mats in the Black Sea. Ap­p­lied and En­vi­ron­men­tal Mi­cro­bio­lo­gy 71(10):6375-6378 (2005).  PubMed  Full Text
Treude, T., M. Krüger, A. Boetius and B. B. Jørgensen: En­vi­ron­men­tal con­trol on an­ae­ro­bic oxi­da­ti­on of me­tha­ne in the gas­sy se­di­ments of Eckern­för­de Bay (Ger­man Bal­tic). Lim­no­lo­gy and Ocea­no­gra­phy 50(6):1771-1786 (2005).  ASLO  Full Text
Treude, T., J. Niggemann, J. Kallmeyer, P. Wintersteller, C. J. Schubert, A. Boetius and B. B. Jørgensen: An­ae­ro­bic oxi­da­ti­on of me­tha­ne and sul­fa­te re­duc­tion along the Chi­le­an con­ti­nen­tal mar­gin. Geochi­mi­ca et Cos­mochi­mi­ca Acta 69(11):2767-2779 (2005).  ScienceDirect
Vopel, K., D. Thistle, J. Ott, M. Bright and H. Røy: Wave-in­du­ced H2S flux susta­ins a che­mo­a­u­to­tro­phic sym­bio­sis. Lim­no­lo­gy and Ocea­no­gra­phy 50(1):128-133 (2005).  AUT  Full Text
Wild, C., M. Rasheed, C. Jantzen, P. Cook, U. Struck, M. Huettel and A. Boetius: Bent­hic me­ta­bo­lism and de­gra­da­ti­on of na­tu­ral par­ti­cu­la­te or­ga­nic mat­ter in car­bo­na­te and si­li­ca­te reef sands of the nort­hern Red Sea. Ma­ri­ne Eco­lo­gy Pro­gress Se­ries 298:69-78 (2005).  MEPS  
Wild, C., H. Røy and M. Huettel: Role of pel­le­tiza­t­i­on in mi­ne­ra­liza­t­i­on of fine grai­ned co­as­tal se­di­ments. Ma­ri­ne Eco­lo­gy Pro­gress Se­ries 291:23–33 (2005).  MEPS  
Wild, C., H. Woyt and M. Huettel: In­flu­ence of co­ral mu­cus on nut­ri­ent flu­xes in car­bo­na­te sands. Ma­ri­ne Eco­lo­gy Pro­gress Se­ries 287:87–98 (2005).  MEPS 

Diploma and  M.Sc theses
Duarte, Joana: Pro­ces­ses re­la­ted to geo-bio­s­phe­re in­ter­ac­tions in ma­ri­ne se­di­ments of the Gulf of Ca­diz (2005).
Dunker, Rita: Mi­cro­sen­sor stu­dies on a Beggia­toa mat un­der chan­ging oxy­gen con­cen­tra­ti­ons. Mas­ter The­sis, Mar­Mic, Uni­ver­si­ty of Bre­men, Bre­men (2005), 51pp. 
Felden, Janine: Tra­c­ing chan­ges in the com­mu­ni­ty struc­tu­re in se­di­ments of the Haa­kon Mos­by Mud Vol­ca­no (HMMV) by mole­cu­lar and bio­geo­che­mi­cal me­thods. Mas­ter The­sis Uni­ver­si­ty of Bre­men, Bre­men (2005), 63pp.  
Naumann, Malik: The role of co­ral mu­cus in sca­ven­ging pi­co­plank­ton as a food sour­ce for bent­hic pas­si­ve sus­pen­si­on fee­ders (2005). Sho­vi­tri, Maya: Bio­geo­che­mis­try and mole­cu­lar eco­lo­gy of san­dy se­di­ment from a North Sea gas seep. Mas­ter The­sis, Mar­Mic, Uni­ver­si­ty of Bre­men, Bre­men (2005), 42pp. 

Ph.D. theses
Billerbeck, Markus: Pore Wa­ter Trans­port and Mi­cro­bi­al Ac­tivi­ty in In­terti­dal Wad­den Sea Se­di­ments. Dis­ser­ta­ti­on Uni­ver­si­tät Bre­men, Bre­men (2005), 203pp.  
Niemann, Helge: Ra­tes and si­gna­tu­res of me­tha­ne tur­no­ver in se­di­ments of con­ti­nen­tal mar­gins. PhD the­sis, Mar­Mic, Uni­ver­si­tät Bre­men, Bre­men (2005), 305pp . 
   

Ma­the­ma­ti­cal Mo­de­ling Group

Goharzadeh, A., A. Khalili and B. B. Jørgensen: Tran­si­ti­on lay­er thick­ness at a flu­id-po­rous in­ter­face. Phy­sics of Fluids 17:057102 (2005).  AIP  
Stöhr, M. and K. Roth: Gra­di­ent-Ba­sed Esti­ma­ti­on of Lo­cal Pa­ra­me­ters for Flow and Trans­port in He­te­ro­ge­neous Po­rous Me­dia. Wa­ter Re­sour­ces Re­se­arch 41:W08401 (2005).  Wiley  Full Text
 

Mi­cro­sen­sor Group

Abed, R. M. M. and S. Grötzschel: Ap­p­li­ca­ti­ons of de­na­tu­ring gra­di­ent gel elec­tro­pho­re­sis and mi­cro­sen­sor tech­ni­ques in oil bio­de­gra­da­ti­on stu­dies. pp. 75-91, In: Oil Pol­lu­ti­on and its En­vi­ron­men­tal Im­pact in the Ara­bi­an Gulf Re­gi­on. Al Azab, M., W. El-Shor­ba­gy and S. Al-Ghais (eds.), El­se­vier (2005).  ScienceDirect
Abed, R. M. M. and J. Köster: The di­rect role of ae­ro­bic he­te­ro­tro­phic bac­te­ria as­so­cia­ted with cya­no­bac­te­ria in the de­gra­da­ti­on of oil com­pounds. In­ter­na­tio­nal Bio­de­te­rio­ra­ti­on and Bio­de­gra­da­ti­on 55:29-37 (2005).  ScienceDirect  
Al-Horani, F.A., T. Ferdelman, S. M. Al-Moghrabi and D. de Beer: Spa­ti­al dis­tri­bu­ti­on of cal­ci­fi­ca­ti­on and pho­to­syn­the­sis in the scle­r­ac­ti­ni­an co­ral Ga­la­xea fa­sci­cu­la­ris. Co­ral Reefs 24:173-180 (2005).  Springer 
Blue, R., N. Kent, L. Polerecky, H. McEvoy, D. Gray and B. D. MacCraith: Plat­form for en­han­ced de­tec­tion ef­fi­ci­en­cy in lu­mi­ne­scence-ba­sed sen­sors. Elec­tro­nics Let­ters 41(12):682-684 (2005).  IEEexplore 
Collins, G., L. O'Connor, T. Mahony, A. Gieseke, D. de Beer and V. O'Flaherty: Dis­tri­bu­ti­on, lo­ca­liza­t­i­on and phy­lo­ge­ny of ab­un­dant po­pu­la­ti­ons of Cren­ar­chaeo­ty in an­ae­ro­bic gra­nu­lar sludge. Ap­p­lied and En­vi­ron­men­tal Mi­cro­bio­lo­gy 71(11):7523-7527 (2005).  PubMed  Full Text
Cytryn, E., D. Minz, I. Gelfand, A. Neori, A. Gieseke, D. de Beer and J. van Rijn: Sul­fi­de oxi­di­zing ac­tivi­ty and bac­te­ri­al com­mu­ni­ty struc­tu­re in a flui­di­zed bed re­ac­tor from a zero-di­sch­ar­ge ma­ri­cul­tu­re sys­tem. En­vi­ron­men­tal Sci­ence and Tech­no­lo­gy 39:1802-1810 (2005).  PubMed  Full Text
Cytryn, E., J. van Rijn, A. Schramm, A. Gieseke, D. de Beer and D. Minz: Iden­ti­fi­ca­ti­on of bac­te­ria po­ten­ti­al­ly re­s­pon­si­ble for oxic and an­oxic sul­fi­de oxi­da­ti­on in bio­fil­ters of a re­cir­cu­la­ting ma­ri­cul­tu­re sys­tem. Ap­p­lied and En­vi­ron­men­tal Mi­cro­bio­lo­gy 71:6134-6141 (2005).  PubMed   Full Text
Gieseke, A., J. Nielsen, R. Amann, P.H. Nielsen and D. de Beer: In situ sub­stra­te con­ver­si­on and as­si­mi­la­ti­on by ni­tri­fy­ing bac­te­ria in a mo­del bio­film. En­vi­ron­men­tal Mi­cro­bio­lo­gy 7(9):1392–1404 (2005).  PubMed 
Hölker F. and Stief, P.: Ad­ap­ti­ve be­ha­viour of chi­ro­no­mid lar­vae (Chi­ro­no­mus ri­pa­ri­us) in re­s­pon­se to che­mi­cal sti­mu­li from pre­da­tors and re­sour­ce den­si­ty. Be­ha­vioral Eco­lo­gy and So­cio­bio­lo­gy 58:256-263 (2005).  Springer  
Köhler-Rink, S. and M. Kühl: The che­mi­cal mi­cro­en­vi­ron­ment of the sym­bio­tic plank­to­nic fo­ra­mi­ni­fer Or­bu­li­na uni­ver­sa. Mar. Biol. Res. 1:68-78 (2005).  UTSePress  
Ludwig, R., F. A. Al-Horani, D. de Beer and H. M. Jonkers: Pho­to­syn­the­sis con­trol­led cal­ci­fi­ca­ti­on in a hy­per­sa­li­ne mi­cro­bi­al mat. Lim­no­lo­gy and Ocea­no­gra­phy 50(6):1836-1843 (2005).  ASLO  Full Text
McEvoy H. M. , R. Blue, N. Kent, L. Polerecky, C. Mc Donagh, B.D. Mc Craith: No­vel po­ly­mer plat­form for en­han­ced bio­chip per­for­mance. Proc. SPIE 5826(512):512-519 (2005).  SPIE  
Polerecky, L., U. Franke, U. Werner, B. Grunwald and D. de Beer: High spa­ti­al re­so­lu­ti­on mea­su­re­ment of oxy­gen con­sump­ti­on ra­tes in per­me­able se­di­ments. Lim­no­lo­gy and Ocea­no­gra­phy Me­thods 3:75-85 (2005).  ASLO  Full Text
Stief, P. and G. Becker: Struc­tu­ring of epi­li­thic bio­films by the cad­dis­fly Tin­odes ros­to­cki: pho­to­syn­the­tic ac­tivi­ty and pho­to­pig­ment dis­tri­bu­ti­on in and be­si­de lar­val re­tre­ats. Aqua­tic Mi­cro­bi­al Eco­lo­gy 38:71-79 (2005).  AME  
Stief, P., L. Nazarova and D. de Beer: Chim­ney con­struc­tion by Chi­ro­no­mus ri­pa­ri­us lar­vae in re­s­pon­se to hy­po­xia:Mi­cro­bi­al im­pli­ca­ti­ons for freshwa­ter se­di­ments. JN­ABS 24(4):858-871 (2005).  BioOne  
Stoodley, P., I. Dodds, D. de Beer, H. Lappin Scott and J. D. Boyle: Flo­wing bio­films as a trans­port me­cha­nism for bio­mass through po­rous me­dia un­der la­mi­nar and tur­bu­lent con­di­ti­ons in a la­bo­ra­to­ry re­ac­tor sys­tem. Bio­fou­ling 21(3/​4):161–168 (2005).  PubMed    

Diploma and M.Sc theses
Kohls, Katharina: Mole­cu­lar cha­rac­te­riza­t­i­on of bac­te­ri­al com­mu­nities in mi­cro­bi­al mats from an ex­tre­me en­vi­ron­ment (2005). da Pu­ri­fi­cação, Ro­d­ri­go C.: Dia­toms and green al­gae in an in­terti­dal area: sea­so­nal and are­al dis­tri­bu­ti­on and re­s­pon­se to sul­fi­de (2005).

Ph.D. theses
Franke, Ulrich: Ap­p­li­ca­ti­ons of pla­nar oxy­gen op­to­des in bio­lo­gi­cal aqua­tic sys­tems. Dis­ser­ta­ti­on Uni­ver­si­tät Bre­men, Bre­men (2005), 183pp. 
Werner, Ursula: Mi­cro­bi­al ac­tivi­ty and trans­port pro­ces­ses in near-shore, per­me­able se­di­ments. Dis­ser­ta­ti­on Uni­ver­si­tät Bre­men, Bre­men (2005), 233pp.    

De­part­ment of Mi­cro­bio­lo­gy

Albrecht, M., V. Janke, S. Sievers, U. Siegner, D. Schüler, and U. Heyen: Scan­ning Force Mi­cro­sco­py Stu­dy of Bio­ge­nic Na­no­par­ti­cles for Me­di­cal Ap­p­li­ca­ti­ons. J. Ma­gne­tism Ma­gne­tic Ma­te­ri­als 290-291:269-271 (2005).  ScienceDirect  
Arató, B., Z. Szányi, C. Flies, D. Schüler, R. B. Frankel, P. R. Buseck, and M. Pósfai: Crys­tal-size and shape dis­tri­bu­ti­ons of ma­gne­ti­te from un­cul­tu­red ma­gne­tot­ac­tic bac­te­ria as a po­ten­ti­al bio­mar­ker. Ame­ri­can Mi­ne­ra­lo­gist 90:1233-1241 (2005).  AM  
Brinkhoff, T., Kuever J., Muyzer G. and H.W. Jannasch: Ge­nus VI. Thio­mi­cro­s­pi­ra Kue­nen and Veld­kamp 1927, 253AL . pp. 193-199,  In: Ber­gey­'s Ma­nu­al of De­ter­mi­na­ti­ve Bac­te­rio­lo­gy. 2nd ed., Vol. II, Part B, D.J. Bren­ner, N.R. Krieg, J.T. Sta­ley, G.M. Gar­ri­ty (eds.), Sprin­ger, NY, USA (2005).
Eller, G., P. Deines, J. Grey, H.-H. Richnow and M. Krüger: Me­tha­ne cy­cling in lake se­di­ments and its in­flu­ence on chi­ro­no­mid lar­vae δ13C. FEMS Mi­cro­bio­lo­gy Eco­lo­gy 54:339-350 (2005).  PubMed  
Eberbeck, D., V. Janke, S. Hartwig, U. Heyen, D. Schüler, M. Albrecht, and L. Trahms: Blo­cking of Ma­gne­tic Mo­ments of Ma­gne­to­so­mes Mea­su­red by Ma­gne­tore­la­xo­me­try and Di­rect Ob­ser­va­ti­on by Ma­gne­tic Force Mi­cro­sco­py. J. Ma­gne­tism Ma­gne­tic Ma­te­ri­als 289:70-73 (2005).  ScienceDirect  
Flies, C.B., J. Peplies and D. Schüler: Com­bi­ned ap­proach for cha­rac­te­riza­t­i­on of un­cul­ti­va­ted ma­gne­tot­ac­tic bac­te­ria from va­rious aqua­tic en­vi­ron­ments. Ap­p­lied and En­vi­ron­men­tal Mi­cro­bio­lo­gy 71(5):2723-2731 (2005).  PubMed  Full Text
Flies, C., H.M. Jonkers, D. deBeer, K. Bosselmann, M.E. Böttcher, and D. Schüler: Di­ver­si­ty and ver­ti­cal dis­tri­bu­ti­on of ma­gne­tot­ac­tic bac­te­ria along che­mi­cal gra­di­ents in freshwa­ter mi­cro­cosms. FEMS Mi­cro­bi­ol. Ecol. 52:185-195 (2005).  PubMed 
Gade, D., J. Gobom and R. Rabus: Pro­teo­mic ana­ly­sis of car­bo­hy­dra­te ca­t­a­bo­lism and re­gu­la­ti­on in the ma­ri­ne bac­te­ri­um Rho­do­pi­rel­lu­la bal­ti­ca. Pro­teo­mics 5:3672-3683 (2005) .  PubMed  
Gade, D., Stührmann, T., Reinhardt, R. and R. Rabus: Growth pha­se de­pen­dent re­gu­la­ti­on of pro­te­in com­po­si­ti­on in Rho­do­pi­rel­lu­la bal­ti­ca. En­vi­onmen­tal Mi­cro­bio­lo­gy 7(8):1074-1084 (2005) .  PubMed 
Gade, D., D. Theiss, D. Lange, E. Mirgorodskaya, T. Lombardot, F.O. Glöckner, M. Kube, R. Reinhardt, R. Amann, H. Lehrach, R. Rabus and J. Gobom: Towards the pro­teo­me of the ma­ri­ne bac­te­ri­um Rho­do­pi­rel­lu­la bal­ti­ca: map­ping the solub­le pro­te­ins. Pro­teo­mics 5:3654-3671 (2005) . style="co­lor: black;"  PubMed  
Hergt, R., R. Hiergeist, M. Zeisberger, D. Schüler, U. Heyen, I. Hilger, and W. A. Kaiser: Ma­gne­tic pro­per­ties of bac­te­ri­al ma­gne­to­so­mes as po­ten­ti­al dia­gnostic and the­ra­peu­tic tools. J. Ma­gne­tism Ma­gne­tic Ma­te­ri­als 293:80-86 (2005).  ScienceDirect  
Koch, B.P., J. Harder, R. J. Lara and G.Kattner: The ef­fect of selec­tive mi­cro­bi­al de­gra­da­ti­on on the com­po­si­ti­on of man­gro­ve de­ri­ved pen­ta­cy­clic tri­ter­pe­nols in sur­face se­di­ments. Or­ga­nic Geo­che­mis­try 36:273-285 (2005) .  ScienceDirect 
Krüger, M. and T. Treude: New in­sights into the phy­sio­lo­gy and re­gu­la­ti­on of the an­ae­ro­bic oxi­da­ti­on of me­tha­ne. pp. 303-320, In: Mi­cro­or­ga­nisms and earth sys­tems - Ad­van­ces in Geo­mi­cro­bio­lo­gy. Gadd, G. M., Semp­le, K. T. and Lap­pin-Scott, H. M. (eds.), SGM Mi­cro­bio­lo­gy 65, G. M. Gadd, K. T. Temp­le and H. M. Lap­pin-Scott (eds.), Cam­bridge Uni­ver­si­ty Press (2005).
Krüger, M., T. Treude, H. Wolters, K. Nauhaus and A. Boetius: Mi­cro­bi­al me­tha­ne tur­no­ver in dif­fe­rent ma­ri­ne ha­bi­tats. Pa­laeo­geo­gra­phy, Pa­laeo­cli­ma­to­lo­gy, Pa­laeo­e­co­lo­gy 227:6-17 (2005).  ScienceDirect  
Kube, M., A. Beck, A. Meyerdierks, R. Amann, R. Reinhardt and R. Rabus: A ca­t­a­bo­lic gene clus­ter for an­ae­ro­bic ben­zoa­te de­gra­da­ti­on in me­tha­notro­phic mi­cro­bi­al Black Sea mats. Sys­te­ma­tic and Ap­p­lied Mi­cro­bio­lo­gy 28:287-294 (2005) .  PubMed 
Kuehner, S., L. Wöhlbrand, I. Fritz, W. Wruck, C. Hultschig, P. Hufnagel, M. Kube, R. Reinhardt and R. Rabus: Sub­stra­te-de­pen­dent re­gu­la­ti­on of an­ae­ro­bic de­gra­da­ti­on pa­thways for to­lue­ne and ethyl­ben­ze­ne in a de­ni­tri­fy­ing bac­te­ri­um, strain EbN1. Jour­nal of Bac­te­rio­lo­gy 187(4):1493-1503 (2005) .  PubMed  Full Text
Nauhaus, K., T. Treude, A. Boetius and M. Krüger: En­vi­ron­men­tal re­gu­la­ti­on of the an­ae­ro­bic oxi­da­ti­on of me­tha­ne: A com­pa­ri­son of ANME-I or -II com­mu­nities. En­vi­ron­men­tal Mi­cro­bio­lo­gy 7(1):98-106 (2005). 
Rabus, R.: Bio­de­gra­da­ti­on of hy­dro­c­ar­bons un­der an­oxic con­di­ti­ons. pp. 277-299, In: Pe­tro­le­um Mi­cro­bio­lo­gy, Ol­li­vier, B. and M. Ma­got (eds.), ASM Press, Wa­shing­ton, D.C. (2005).  ScienceDirect
Rabus, R.: Func­tio­nal ge­no­mics of an an­ae­ro­bic aro­ma­tic-de­gra­ding de­ni­tri­fy­ing bac­te­ri­um, strain EbN1. Ap­p­lied Mi­cro­bio­lo­gy and Bio­tech­no­lo­gy 68:580-587 (2005).  PubMed  
Rabus, R., M. Kube, J. Heider, A. Beck, K. Heitmann, F. Widdel and R. Reinhardt: The ge­no­me se­quence of an an­ae­ro­bic aro­ma­tic-de­gra­ding de­ni­tri­fy­ing bac­te­ri­um, strain EbN1. Ar­chi­ves of Mi­cro­bio­lo­gy 183:27-36 (2005).  PubMed  Full Text
Schüler, D.: Na­no­kris­tal­le für die Ma­gnet­fel­dori­en­tie­rung: Bio­mi­ne­ra­li­sa­ti­on von Ma­gne­to­so­men in Bak­te­ri­en. Bio­spek­trum 3/​11:291-294 (2005). 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. AEM 72(9):5757-5765 (2005).  PubMed  Full Text
Schultheiss, D., R. Handrick, D. Jendrossek, M. Hanzlik and D. Schüler: The pres­ump­ti­ve ma­gne­to­so­me pro­te­in Mms16 is a poly(3-hy­droxy­bu­ty­ra­te) gra­nu­le-bound pro­te­in (pha­sin) in Ma­gne­to­spi­ril­lum gry­phis­wal­den­se. Jour­nal of Bac­te­rio­lo­gy 187(7):2416-2425 (2005).  PubMed  Full Text
Schultheiss, D., R. Handrick, D. Jendrossek, M. Hanzlik and D. Schüler: The pres­ump­ti­ve ma­gne­to­so­me pro­te­in Mms 16 is a poly(3-hy­droxy­bu­ty­ra­te) gra­nu­le-bound pro­te­in (pha­sin) in Ma­gne­to­spi­ril­lum gry­phis­wal­den­se. Jour­nal of Bac­te­rio­lo­gy 187:2416-2425 (2005).  PubMed  Full Text
Ullrich, S., M. Kube, S. Schübbe, R. Reinhardt and D. Schüler: A hy­per­va­ria­ble 130-ki­lo­ba­se ge­no­mic re­gi­on of Ma­gne­to­spi­ril­lum gry­phis­wal­den­se com­pri­ses a ma­gne­to­so­me is­land which un­der­goes fre­quent re­ar­ran­ge­ments du­ring sta­tio­na­ry growth. Jour­nal of Bac­te­rio­lo­gy 187(21):7176-7184 (2005).  PubMed  Full Text

Contribution in collected edition
Kuever, J., Rainey, F.A., Widdel, F.: Class IV. Del­ta­pro­te­ob­ac­te­ria. ,  pp. 922; Or­der I. Des­ul­fu­r­el­la­les.  pp. 922; Fa­mi­ly I. Des­ul­fu­r­el­la­ceae.  pp. 923-924; Or­der II. Des­ul­fo­vi­brio­na­les.  pp. 925-926;  Fa­mi­ly I.. Des­ul­fo­vi­brio­naceae.  pp. 926; Ge­nus I. Des­ul­fo­vi­brio.  pp. 926-938; Fa­mi­ly II.. Des­ul­fo­mi­cro­bi­aceae.  pp. 944;  Fa­mi­ly III. Des­ul­fo­halo­bi­aceae.  pp. 948-949; Ge­nus III. Des­ul­fo­ther­mus.  pp. 955-956;  Fa­mi­ly IV. Des­ul­fo­na­tro­nu­maceae.  pp. 956;  Or­der III Des­ul­fo­bac­te­ra­les. pp. 959; Fa­mi­ly I. Des­ul­fo­bac­ter­a­ceae. pp. 959-960; Ge­nus I. Des­ul­fo­bac­ter. pp. 961-964; Ge­nus II. Des­ul­fo­bac­te­ri­um. pp. 965-967; Ge­nus III. Des­ul­fo­ba­cu­la. pp. 968-969; Ge­nus IV. Des­ul­fo­bo­tu­lus. pp. 970-971; Ge­nus VI. Des­ul­fo­coc­cus. pp. 972-974; Ge­nus VII. Des­ul­fo­fa­ba. pp. 975-976; Ge­nus VIII. Des­ul­fof­ri­gus. pp. 976-977; Ge­nus IX. Des­ul­fo­ne­ma. pp. 977-981­Ge­nus X. Des­ul­fo­sar­ci­na. pp. 981-984; Ge­nus XII. Des­ul­fo­ti­gnum. pp. 987-988; Fa­mi­ly II. Des­ul­fo­bul­baceae. pp. 988; Ge­nus I. Des­ul­fo­bul­bus. pp. 988-992; Ge­nus II. Des­ul­fo­cap­sa. pp. 992-994; Ge­nus IV. Des­ul­forho­pa­lus. pp. 995-997; Ge­nus V. Des­ul­fo­ta­lea. pp. 997-999; Or­der IV. Des­ul­far­ca­les. pp. 1003; Fa­mi­ly I. Des­ul­far­cu­la­ceae.  pp. 1003; Ge­nus I. Des­ul­far­cu­lus. pp. 1004-1005; Or­der V. Des­ul­fu­ro­mo­na­les. pp. 1005-1006; Fa­mi­ly I. Des­ul­fu­ro­mo­naceae. pp. 1006; Ge­nus I. Des­ul­fu­ro­mo­nas. pp. 1007-1010; Or­der VI. Syn­tro­pho­bac­te­ra­les. pp. 1021; Fa­mi­ly I. Syn­tro­pho­bac­ter­a­ceae. pp. 1021; Ge­nus III. Des­ul­for­hab­dus. pp. 1029-1030; Ge­nus IV. Des­ul­fo­vir­ga. pp. 1030-1031; Fa­mi­ly II. Syn­tro­phaceae. pp. 1033; Ge­nus I. Syn­tro­phus. pp. 1033-1035; In: D.J. Bren­ner, N.R. Krieg, J.T. Sta­ley and G. M. Gar­ri­ty (eds), Ber­gey­’s Ma­nu­al of Sys­te­ma­tic Bac­te­rio­lo­gy, se­cond edi­ti­on, Vol. 2 (The Pro­te­ob­ac­te­ria), part C (The Al­pha-, Beta-, Del­ta-, and Ep­si­lon­pro­te­ob­ac­te­ria), Sprin­ger, New York, (2005).  Full Text
Kuever, J. and B. Schink: Ge­nus III. Ma­lono­mo­nas. pp. 1012-1013, In: D.J. Bren­ner, N.R. Krieg, J.T. Sta­ley and G. M. Gar­ri­ty (eds), Ber­gey­’s Ma­nu­al of Sys­te­ma­tic Bac­te­rio­lo­gy, se­cond edi­ti­on, Vol. 2 (The Pro­te­ob­ac­te­ria), part C (The Al­pha-, Beta-, Del­ta-, and Ep­si­lon­pro­te­ob­ac­te­ria), Sprin­ger, New York, (2005).  Full Text
Schüler, D., and K.H. Schleifer: Ge­nus IV.  The ge­nus Ma­gne­to­spi­ril­lum Schlei­fer, Schü­ler and Lud­wig 1992, 291VP. pp. 28-31, In: D.J. Bren­ner, N.R. Krieg, J.T. Sta­ley and G. M. Gar­ri­ty (eds.), Ber­gey­’s Ma­nu­al of Sys­te­ma­tic Bac­te­rio­lo­gy, se­cond edi­ti­on, Vol. 2 (The Pro­te­ob­ac­te­ria), part C (The Al­pha-, Beta-, Del­ta-, and Ep­si­lon­pro­te­ob­ac­te­ria), Sprin­ger, New York, (2005).   Full Text  

Diploma and M.Sc theses
Bakr, Alaa Eldin Ali Nour Ali: Bac­te­ri­al com­mu­nities in co­as­tal sur­face wa­ters along the Egyp­ti­an Me­di­ter­ra­ne­an co­ast (2005).
Basen, Mirko: Ar­chae­al and bac­te­ri­al po­pu­la­ti­ons in the Ska­ger­rak seep (2005).
Gärdes, Astrid: De­le­ti­ons­mu­ta­ge­ne­se ei­nes Ma­gne­to­so­men­pro­te­ins in Ma­gne­to­spi­ril­lum gry­phis­wal­den­se un­ter Eta­blie­rung des Cre-loxP-Sys­tems. Di­plom­ar­beit. Fach­hoch­schu­le Em­den (2005).
Hube, Annina E.:  Un­ter­su­chun­gen zur Zu­sam­men­set­zung der Bak­te­ri­en­ge­mein­schaft auf der ant­ark­ti­schen Eis­dia­to­mee Am­phi­pro­ra kuf­fera­thi­iMAN­GU­IN (2005).
Käne, Layla l: Cha­rac­te­riza­t­i­on and iso­la­ti­on of key en­zy­mes from an­ae­ro­bi­cal­ly me­tha­ne-oxi­di­zing mats (2005).
Liebner, Susanne: Dy­na­mic, Ad­ap­ta­ti­on and Phy­lo­ge­ne­tic Cha­rac­te­ri­sa­ti­on of Me­tha­notro­phic Com­mu­nities in Si­be­ri­an Per­ma­frost Soils. Mar­Mic, MSc and PhD pro­po­sal, Uni­ver­si­ty of Bre­men (2005), 45pp. 
Neogi, Sucharit Basu: Oc­cur­rence, sur­vi­val and di­ver­si­ty of vi­bri­os along a gra­di­ent of bra­ckish to freshwa­ter in Kar­na­phu­li ri­ver es­tua­ry, Ban­gla­desh (2005). 
Schauer, Regina: Mo­le­ku­la­re Cha­rak­te­ri­sie­rung der Se­di­ment­mi­kro­or­ga­nis­men der drei abys­sa­len Be­cken, Kap­be­cken, An­gola­be­cken und Gui­ne­abe­cken, des Süd­at­lan­tiks (2005).

Ph.D. theses
Grünberg, Karen: Bio­che­mi­sche und mo­le­ku­lar­bio­lo­gi­sche Un­ter­su­chung der Ma­gne­to­so­men­mem­bran von Ma­gne­to­spi­ril­lum gry­phis­wal­den­se. Dis­ser­ta­ti­on Uni­ver­si­tät Bre­men, Bre­men (2005), 101pp.
Kühner, Simon : Un­ter­su­chun­gen zur Re­gu­la­ti­on der an­ae­ro­ben Ver­wer­tung von Al­kyl­ben­zo­len im de­ni­tri­fi­zie­ren­den Stamm EbN1. Dis­ser­ta­ti­on Uni­ver­si­tät Bre­men, Bre­men (2005), 230pp. 
Musat, Florin: Phy­sio­lo­gi­cal in­ves­ti­ga­ti­ons of ae­ro­bic pe­tro­le­um de­gra­da­ti­on in ma­ri­ne se­di­ment mi­cro­cosms. Dis­ser­ta­ti­on Uni­ver­si­tät Bre­men, Bre­men (2005), 134pp. 
Schübbe, Sabrina: Un­ter­su­chun­gen zur mo­le­ku­la­ren Or­ga­ni­sa­ti­on und Re­gu­la­ti­on der mam-Gene in Ma­gne­to­spi­ril­lum gry­phis­wal­den­se MSR-1. Dis­ser­ta­ti­on Uni­ver­si­tät Bre­men, Bre­men (2005), 167pp. 
   

De­part­ment of Mole­cu­lar Eco­lo­gy

Amann, R. and K. H. Schleifer: Nu­cleic acid pro­bes and their ap­p­li­ca­ti­on in En­vi­ron­men­tal Mi­cro­bio­lo­gy. pp.67-82, In: Ber­gey­’s Ma­nu­al for Sys­te­ma­tic Bac­te­rio­lo­gy. Vol. 1, 2nd edi­ti­on, D.R. Boo­ne, R.W. Cas­ten­holz (eds.), Sprin­ger, New York, Ber­lin, Hei­del­berg (2005).  Springer
Alonso, C. and J. Pernthaler: In­cor­po­ra­ti­on of Glu­co­se un­der An­oxic Con­di­ti­ons by Bac­te­rio­plank­ton from Co­as­tal North Sea Sur­face Wa­ters. Ap­p­lied and En­vi­ron­men­tal Mi­cro­bio­lo­gy 71(4):1709-1716 (2005).  PubMed  Full Text
Beardsley, C., K. Knittel, R. Amann and J. Pernthaler: Quan­ti­fi­ca­ti­on and dis­tinc­tion of aplas­ti­dic and plas­ti­dic ma­ri­ne na­no­plank­ton by fluo­re­scence in situ hy­bri­di­za­t­i­on. Aqua­tic Mi­cro­bi­al Eco­lo­gy 41:163-169 (2005).  AME
Blazejak, A., C. Erséus, R. Amann and N. Dubilier: Co­exis­tence of bac­te­ri­al sul­fi­de oxi­di­zers, sul­fa­te re­du­cers, and spi­ro­che­tes in a gut­less worm (Oli­gochae­ta) from the Peru Mar­gin. Ap­p­lied and En­vi­ron­men­tal Mi­cro­bio­lo­gy 71(3):1553-1561 (2005).  PubMed  Full Text
Duperron, S., T. Nadalig, J.-C. Caprais, M. Sibuet, A. Fiala-Médioni, R. Amann and N. Dubilier: Dual sym­bio­sis in a Ba­thy­mo­dio­lus mus­sel from a me­tha­ne seep on the Ga­bon con­ti­nen­tal mar­gin (Sou­theast At­lan­tic): 16S rRNA phy­lo­ge­ny and dis­tri­bu­ti­on of the sym­bi­onts in gills. Ap­p­lied and En­vi­ron­men­tal Mi­cro­bio­lo­gy 71(4):1694-1700 (2005).  PubMed  Full Text
Fuchs, B. M., D. Woebken, M. V. Zubkov, P. Burkill and R. Amann: Mole­cu­lar iden­ti­fi­ca­ti­on of pi­co­plank­ton po­pu­la­ti­ons in con­tras­ting wa­ters of the Ara­bi­an Sea. Aqua­tic Mi­cro­bi­al Eco­lo­gy 39:145-157 (2005).  AME
Herndl, G. J., T. Reinthaler, E. Teira, H. van Aken, C. Veth, A. Pernthaler and J. Pernthaler: Cont­ri­bu­ti­on of Ar­chaea to To­tal Pro­ka­ryo­tic Pro­duc­tion in the Deep At­lan­tic Oce­an. Ap­p­lied and En­vi­ron­men­tal Mi­cro­bio­lo­gy 71(5):2303-2309 (2005).  PubMed  Full Text
Kämpfer, P., R. Schulze, U. Jäckel, K. A. Malik, R. Amann and S. Spring: Hy­dro­geno­pha­ga de­flu­vii sp. nov. and Hy­dro­geno­pha­ga aty­pi­ca sp. nov., iso­la­ted from ac­tiva­ted sludge. In­ter­na­tio­nal Jour­nal of Sys­te­ma­tic and Evo­lu­tio­na­ry Mi­cro­bio­lo­gy 55:341-344 (2005).  PubMed  Full Text
Knittel, K., J. Kuever, A. Meyerdierks, R. Meinke, R. Amann and T. Brinkhoff: Thio­mi­cro­s­pi­ra arc­tica sp. nov. and Thio­mi­cro­s­pi­ra psy­chro­phi­la sp. nov., psy­chro­phi­lic, ob­li­ga­te­ly che­mo­li­tho­au­to­tro­phic, sul­fur-oxi­di­zing bac­te­ria iso­la­ted from ma­ri­ne Arc­tic se­di­ments. In­ter­na­tio­nal Jour­nal of Sys­te­ma­tic and Evo­lu­tio­na­ry Mi­cro­bio­lo­gy 55:781-786 (2005).  PubMed  Full Text
Knittel, K., T. Lösekann, A. Boetius, R. Kort and R. Amann: Di­ver­si­ty and dis­tri­bu­ti­on of me­tha­notro­phic ar­chaea at cold seeps. Ap­p­lied and En­vi­ron­men­tal Mi­cro­bio­lo­gy 71(1):467-479 (2005).  PubMed  Full Text
Kube, M., A. Beck, A. Meyerdierks, R. Amann, R. Reinhardt and R. Rabus: A ca­t­a­bo­lic gene clus­ter for an­ae­ro­bic ben­zoa­te de­gra­da­ti­on in me­tha­notro­phic mi­cro­bi­al Black Sea mats. Sys­te­ma­tic and Ap­p­lied Mi­cro­bio­lo­gy 28:287-294 (2005).  PubMed
Kumar, Y., R. Westram, S. Behrens, B. Fuchs, F. O. Glöckner, R. Amann, H. Meier and W. Ludwig: Gra­phi­cal re­pre­sen­ta­ti­on of ri­bo­so­mal RNA pro­be ac­ces­si­bi­li­ty data using ARB soft­ware pa­cka­ge. BMC Bio­in­for­ma­tics 6: 61 (doi:10.1186/​1471-2105-6-61) (2005).  PubMed  Full Text
Meyerdierks, A., M. Kube, T. Lombardot, K. Knittel, M. Bauer, F. O. Glöckner, R. Reinhardt and R. Amann: In­sights into the ge­no­mes of ar­chaea me­dia­ting the an­ae­ro­bic oxi­da­ti­on of me­tha­ne. En­vi­ron­men­tal Mi­cro­bio­lo­gy 7(12):1937-1951 (2005).  PubMed  
Mindl, B., B. Sonntag, J. Pernthaler, J. Vrba, R. Psenner and T. Posch: Ef­fects of phos­pho­rus loa­ding on in­ter­ac­tions of al­gae and bac­te­ria: re­inves­ti­ga­ti­on of the ‘phy­to­plank­ton–bac­te­ria pa­ra­do­x’ in a con­ti­nuous cul­ti­va­ti­on sys­tem. Aqua­tic Mi­cro­bi­al Eco­lo­gy 38:203-213 (2005).  AME 
Mußmann, M., K. Ishii, R. Rabus, and R. Amann: Di­ver­si­ty and ver­ti­cal dis­tri­bu­ti­on of cul­tu­red and un­cul­tu­red Del­ta­pro­te­ob­ac­te­ria in an in­terti­dal mud flat of the Wad­den Sea. En­vi­ron­men­tal Mi­cro­bio­lo­gy 7(3):405-418 (2005).  PubMed  
Mußmann, M., M. Richter, T. Lombardot, A. Meyerdierks, J. Kuever, M. Kube, F. O. Glöckner and R. Amann: Clus­te­red ge­nes re­la­ted to sul­fa­te re­spi­ra­ti­on in un­cul­tu­red pro­ka­ryo­tes sup­port the theo­ry of their con­co­mitant ho­ri­zon­tal trans­fer. Jour­nal of Bac­te­rio­lo­gy 187(20):7126–7137 (2005).  PubMed  Full Text
Peña, A., M. Valens, F. Santos, S. Buczolits, J. Antón, P. Kämpfer, H.-J. Busse, R. Amann and R. Rosselló-Mora: In­tras­pe­ci­fic com­pa­ra­ti­ve ana­ly­sis of the spe­cies Sa­li­ni­bac­ter ru­ber. Ex­tremo­phi­les 9:151-161 (2005).  PubMed 
Pernthaler, J.: Pre­da­ti­on on pro­ka­ryo­tes in the wa­ter co­lumn and its eco­lo­gi­cal im­pli­ca­ti­ons. Nat. Rev. Mi­cro. 3:537-546 (2005).  PubMed
Pernthaler, J. and R. Amann: Fate of he­te­ro­tro­phic mi­cro­bes in pel­agic ha­bi­tats: fo­cus on po­pu­la­ti­ons. Mi­cro­bi­ol. Mol. Biol. Rev. 69(3):440-461 (2005).  PubMed  Full Text
Pernthaler, A. and J. Pernthaler: Di­ur­nal va­ria­ti­on of cell pro­li­fe­ra­ti­on in three bac­te­ri­al taxa from co­as­tal North Sea wa­ters. Ap­p­lied and En­vi­ron­men­tal Mi­cro­bio­lo­gy 71(8):4638-4644 (2005).  PubMed  Full Text
Salcher, M. M., J. Pernthaler, R. Psenner and T. Posch: Suc­ces­si­on of bac­te­ri­al gra­zing de­fen­se me­cha­nisms against pro­tis­tan pre­da­tors in an ex­pe­ri­men­tal mi­cro­bi­al com­mu­ni­ty. Aqua­tic Mi­cro­bi­al Eco­lo­gy 38:215–229 (2005).  AME 
Urakawa, H., N. Dubilier, Y. Fujiwara, D. E. Cunningham, S. Kojima and D. A. Stahl: Hydro­ther­mal vent gastro­pods from the same fa­mi­ly (Pro­van­n­i­dae) har­bour ε- and γ-pro­te­ob­ac­te­ri­al en­do­sym­bi­onts. En­vi­ron­men­tal Mi­cro­bio­lo­gy 7: 750-754 (2005).  PubMed 
Warnecke, F., R. Sommaruga, R. Sekar, J. S. Hofer and J. Pernthaler: Ab­un­dan­ces, Iden­ti­ty, and Growth Sta­te of Ac­tino­bac­te­ria in Moun­tain Lakes of Dif­fe­rent UV Trans­pa­ren­cy. Ap­p­lied and En­vi­ron­men­tal Mi­cro­bio­lo­gy 71(1):5551-5559 (2005).  PubMed  Full Text

Diploma and M.Sc theses
Rotaru , Amelia: Ge­no­mic ana­ly­sis of the en­do­sym­bio­tic com­mu­nities of a gut­less ma­ri­ne worm (Ola­vi­us al­gar­ven­sis). Mas­ter the­sis, Mar­Mic, Uni­ver­si­tät Bre­men, Bre­men (2005), 59pp.
Serrano , Wilbert: Cha­rac­te­riza­t­i­on of a pur­p­le sul­fur bac­te­ri­um, strain SW26 iso­la­ted from Sylt (Wad­den Sea). Mas­ter the­sis, Mar­Mic, Uni­ver­si­tät Bre­men, Bre­men (2005).  Sho­vi­tri, Maya: Bio­geo­che­mis­te­ry and mole­cu­lar eco­lo­gy of san­dy se­di­ment from a North Sea gas seep. Mas­ter the­sis, Mar­Mic, Uni­ver­si­tät Bre­men, Bre­men (2005), 42pp. 

Ph.D. theses 
Alonso, Cecilia: Iden­ti­ty and ac­tivi­ty of ma­ri­ne mi­cro­bi­al po­pu­la­ti­ons as re­vea­led by sin­gle cell tech­ni­ques. PhD the­sis, Mar­Mic, Uni­ver­si­tät Bre­men, Bre­men (2005), 151pp.
Blazejak, Anna: Phy­lo­ge­ne­tic and func­tio­nal cha­rac­te­riza­t­i­on of sym­bio­tic bac­te­ria in gut­less ma­ri­ne worms (An­ne­l­i­da, Oli­gochae­ta). Dis­ser­ta­ti­on Uni­ver­si­tät Bre­men, Bre­men (2005), 167pp. 
Burkert, Ulrike: Mi­kro­bi­el­le Ak­ti­vi­tät in dem hu­m­in­stoff­rei­chen Moor­see Gro­ße Fuchs­kuh­le. Dis­ser­ta­ti­on Uni­ver­si­tät Bre­men, Bre­men (2005), er­schie­nen 2006, 119pp. 
Duperron, Sebastien: Sym­bio­ses bac­té­ri­en­nes de bi­val­ves my­ti­li­dés as­so­ciés aux sour­ces de flui­des en do­mai­ne océa­ni­que pro­fond : di­ver­sité, rôle nut­ri­ti­on­nel et in­flu­ence de l’en­vi­ron­ne­ment. (Bac­te­ri­al sym­bio­ses in my­ti­lid bi­val­ves as­so­cia­ted with cold seeps and hydro­ther­mal vents: di­ver­si­ty, nut­ri­tio­nal role, and in­flu­ence of the en­vi­ron­ment.) PhD the­sis, Mar­Mic, Uni­ver­si­tät Bre­men (2005), 226pp. 
Mi­cro­bi­al Ge­no­mics Group
Babenzien, H.-D., F. O. Glöckner and I. M. Head:Ge­nus II.  Ge­nus Ach­ro­ma­ti­um Sche­wia­koff 1893, 1AL. pp. 142-147, In: Ber­gey­'s Ma­nu­al of De­ter­mi­na­ti­ve Bac­te­rio­lo­gy. 2nd ed., Vol. II, Part B, D.J. Bren­ner, N.R. Krieg, J.T. Sta­ley, G.M. Gar­ri­ty (eds.), Sprin­ger, NY, USA (2005). Gade, D., D. Theiss, D. Lan­ge, E. Mir­go­rods­ka­ya, T. Lom­bar­dot, F. O. Glöck­ner, M. Kube, R. Rein­hardt, R. Amann, H. Lehrach, R. Ra­bus and J. Go­bom: Towards the pro­teo­me of the ma­ri­ne bac­te­ri­um Rho­do­pi­rel­lu­la bal­ti­ca: Map­ping the solub­le pro­te­ins. Pro­teo­mics 5:3654-3671 (2005).  PubMed  
Gernert, C., F. O. Glöckner, G. Krohne and U. Hentschel: Mi­cro­bi­al di­ver­si­ty of the freshwa­ter spon­ge Spon­gil­la la­custris. Mi­cro­bio­lo­gy Eco­lo­gy 50:206-212 (2005).  PubMed  
Kumar, Y., R. Westram, S. Behrens, B. Fuchs, F. O. Glöckner, R. Amann, H. Meier and W. Ludwig: Gra­phi­cal re­pre­sen­ta­ti­on of ri­bo­so­mal RNA pro­be ac­ces­si­bi­li­ty data using ARB soft­ware pa­cka­ge. BMC Bio­in­for­ma­tics 6:61 (2005).  PubMed  Full Text
Lombardot, T., M. Bauer, H. Teeling, R. Amann and F. O. Glöckner: The tran­scrip­tio­nal re­gu­la­tor pool of the ma­ri­ne bac­te­ri­um Rho­do­pi­rel­lu­la bal­ti­ca SH1T as re­vea­led by who­le ge­no­me com­pa­ri­sons. FEMS Mi­cro­bio­lo­gy Let­ters 242:137-145 (2005).  PubMed 
Meyerdierks, A., M. Kube, T. Lombardot, K. Knittel, M. Bauer, F. O. Glöckner, R. Reinhardt and R. Amann: In­sights into the ge­no­mes of ar­chaea me­dia­ting the an­ae­ro­bic oxi­da­ti­on of me­tha­ne. En­vi­ron­men­tal Mi­cro­bio­lo­gy7(12):1937-1951(2005).  PubMed   
Wallner, S. R., M. Bauer, C. Würdemann, P. Wecker, F. O. Glöckner and K. Faber: High­ly en­an­tio­selec­tive sec-Al­kyl Sul­fa­ta­se ac­tivi­ty of the ma­ri­ne Planc­to­my­ce­te Rho­do­pi­rel­lu­la bal­ti­ca shows re­ten­ti­on of con­fi­gu­ra­ti­on. An­ge­wand­te Che­mie,. In­ter­na­tio­nal Edi­ti­on 44:6381-6384 (2005).  PubMed 

M.Sc theses
Kottmann, Renzo: Data Ac­qui­si­ti­on, De­sign and Im­ple­men­ta­ti­on of an In­te­gra­ti­ve Da­ta­ba­se for Me­ta­ge­no­mics. Mas­ter the­sis, Mar­Mic, Uni­ver­si­ty of Bre­men, Bre­men (2005), 47pp.

Nut­ri­ent Group

Hamersley, M. R. and B. L. Howes: Cou­p­led ni­tri­fi­ca­ti­on-de­ni­tri­fi­ca­ti­on mea­su­red in situ in a Spar­ti­na al­ter­nif­lo­ra mar­sh with a 15NH4+tra­cer. Ma­ri­ne Eco­lo­gy Pro­gress Se­ries 299:123-135 (2005).  MEPS  
Hamersley, M. R. and B. L. Howes: An Eva­lua­ti­on of the N2 flux ap­proach for mea­su­ring se­di­ment de­ni­tri­fi­ca­ti­on. Es­tua­ri­ne, Co­as­tal, and Shelf Sci­ence 62:711-723 (2005).  ScienceDirect  
Kolonic S., T. Wagner, A. Forster, J. S. S. Damsté, B. Walsworth- Bell, E. Erba, S. Turgeon, H. J. Brumsack, E. H. Chellai, H. Tsikos, W. Kuhnt and M. M. M. Kuypers: Black sha­le de­po­si­ti­on on the nor­thwest Af­ri­can Shelf du­ring the Ce­noma­ni­an/​Turo­ni­an ocea­nic an­oxic event: Cli­ma­te cou­pling and glo­bal or­ga­nic car­bon bu­ri­al. Pa­leo­cea­no­gra­phy 20(1) PA1006 10.1029/​2003PA000950 (2005).  UU  Full Text
Kuypers, M. M. M., G. Lavik, D. Woebken, M. Schmid, B. M. Fuchs, R. Amann, B. Barker Jørgensen and M. S. M. Jetten: Mas­si­ve ni­tro­gen loss from the Ben­gue­la up­wel­ling sys­tem through an­ae­ro­bic am­mo­ni­um oxi­da­ti­on. PNAS 102(18):6478-6483 (2005).  PubMed  Full Text
Manske, A. K., J. Glaeser, M. M. M. Kuypers and J. Overmann: Phy­sio­lo­gy and phy­lo­ge­ny of green sul­fur bac­te­ria for­ming a mo­no­s­pe­ci­fic pho­to­tro­phic as­sem­bla­ge at a depth of 100 me­ters in the Black Sea. Ap­p­lied and En­vi­ron­men­tal Mi­cro­bio­lo­gy 71(12):8049-8060 (2005).  PubMed  Full Text
Schippers, A., L. N. Neretin, G. Lavik, T. Leipe and F. Pollehne: Man­ga­ne­se(II) oxi­da­ti­on dri­ven by la­te­ral oxy­gen in­tru­si­ons in the wes­tern Black Sea. Geochi­mi­ca Et Cos­mochi­mi­ca Acta 69(9):2241-2252 (2005).  ScienceDirect 
Schmid M.C., B. Maas, A. Dapena, K. van de Pas-Schoonen, J. van de Vossenberg, B. Kartal, L. van Niftrik, I. Schmidt, I. Cirpus, J. G. Kuenen, M. Wagner, J. S. S. Damsté, M. Kuypers, N. P. Revsbech, R. Mendez, M. S. M. Jetten and M. Strous: Bio­mar­kers for in situ de­tec­tion of an­ae­ro­bic am­mo­ni­um-oxi­di­zing (anam­m­ox) bac­te­ria. Ap­p­lied and En­vi­ron­men­tal Mi­cro­bio­lo­gy 71(4):1677-1684 (2005).  PubMed  Full Text
Stuut, J.-B. W., M. Zabel, V. Ratmeyer, E. Schefuß, G. Lavik, P. Helmke and R. Schneider: Pro­ven­an­ce of pre­sent-day eo­li­an dust collec­ted off NW Af­ri­ca. JGR – At­mo­s­phe­res 110:D04202 (2005).  Wiley  Full Text 
Tengberg, A., P.O.J. Hall, U. Andersson, B. Lindén, O. Styrenius, G. Boland, F. de Bovee, B. Carlsson, S. Ceradini, A. Devol, G. Duineveld, J.-U. Friemann, R.N. Glud, A. Khripounoff, J. Leather, P. Linke, L. Lund-Hansen, G. Rowe, P. Santschi, P. de Wilde and U. Witte: In­ter­ca­li­bra­ti­on of bent­hic flux cham­bers II. Hydro­dy­na­mic cha­rac­te­riza­t­i­on and flux com­pa­ri­sons of 14 dif­fe­rent de­signs. Ma­ri­ne Che­mis­try 94: 147-173 (2005).  ScienceDirect 
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