Regional patterns of bacterial community composition and biogeochemical properties in the southern North Sea

Aquatic Microbial Ecology

Volumn 63, Issue 3, 2011, Pages 207-222

  Rink, Beate ^a   Grüner, Nico ^a   Brinkhoff, Thorsten ^a   Ziegelmüller, Katja ^a   Simon, Meinhard ^a  

^a UNIVERSITY OF OLDENBURG   (Germany)

Author keywords

Chlorophyll; DGGE; Free living and attached bacteria; MDS analysis; Phytoplankton; Suspended matter

Indexed keywords

ALPHAPROTEOBACTERIA; BACTERIA (MICROORGANISMS); BACTEROIDETES; ROSEOBACTER;

EID: 79956293297     PISSN: 09483055     EISSN: None     Source Type: Journal    
DOI: 10.3354/ame01493     Document Type: Article

References (55)

1. Alonso-Gutiérrez J, Lekunberri I, Teira E, Gasol JM, Figueras A, Novoa B (2009) Bacterioplankton composition of the coastal upwelling system of 'Ría deVigo', NW Spain. FEMS Microbiol Ecol 70:493-505
2. Alonso-Sáez L, Balagué V, Sá EL, Sánchez O and others (2007) Seasonality in bacterial diversity in north-west Mediterranean coastal waters: assessment through clone libraries, fingerprinting and FISH. FEMS Microbiol Ecol 60:98-112 (Pubitemid 46426580)
3. Amann R, Fuchs B (2008) Single-cell identification in microbial communities by improved fluorescence in situ hybridization techniques. Nature Rev Microbiol 6:339-348 (Pubitemid 351552655)
4. Baldwin AJ, Moss JA, Pakulski JD, Catala P, Joux F, Jeffrey WH (2005) Microbial diversity in a Pacific Ocean transect from the Arctic to Antarctic circles. Aquat Microb Ecol 41:91-102 (Pubitemid 41784256)
5. Becker GA, Dick S, Dippner JW (1992) Hydrography of the German Bight. Mar Ecol Prog Ser 91:9-18 (Pubitemid 24429523)
6. Brinkhoff T, Bach G, Heidorn T, Liang L, Schlingloff A, Simon M (2004) Antibiotic production by a Roseobacter clade affiliated species from the German Wadden Sea and its antagonistic effects on indigenous isolates. Appl Environ Microbiol 70:2560-2565 (Pubitemid 38500568)
7. Cotner JB, Biddanda BA (2002) Small players, large role: Microbial influence on biogeochemical processes in pelagic aquatic ecosystems. Ecosystems 5:105-121 (Pubitemid 35464771)
8. Cottrell MT, Kirchman DL (2000) Natural assemblages of marine Proteobacteria and members of the Cytophaga-Flavobacteria cluster consuming low- and high-molecular-weight dissolved organic matter. Appl Environ Microbiol 66:1692-1697 (Pubitemid 30185652)
9. Covert JS, Moran MA (2001) Molecular characterization of estuarine bacterial communities that use high- and low molecular-weight fractions of dissolved organic carbon. Aquat Microb Ecol 25:127-139 (Pubitemid 34253485)
10. Crump BC, Armbrust EV, Baross JA (1999) Phylogenetic analysis of particle-attached and free-living bacterial communities in the Columbia River, its estuary and the adjacent coastal ocean. Appl Environ Microbiol 65:3192-3204 (Pubitemid 29315598)
11. Crump BC, Hopkinson CS, Sogin ML, Hobbie JE (2004) Microbial biogeography along an estuarine salinity gradient: the combined influences of bacterial growth and residence time. Appl Environ Microbiol 70:1494-1505 (Pubitemid 38365131)
12. Dang HY, Lovell CR (2002) Seasonal dynamics of particle associated and 18 free-living marine Proteobacteria in a salt marsh tidal creek as determined using fluorescence in situ hybridization. Environ Microbiol 4:287-295
13. Drebes G (1974) Marines Phytoplankton. Georg-Thieme-Verlag, Stuttgart
14. Eilers H, Pernthaler J, Glöckner FO, Amann R (2000) Culturability and in situ abundance of pelagic bacteria from the North Sea. Appl Environ Microbiol 66:3044-3051 (Pubitemid 30497616)
15. Eilers H, Pernthaler J, Peplies J, Glöckner FO, Gerdts G, Amann R (2001) Isolation of novel pelagic bacteria from the German Bight and their seasonal contributions to surface picoplankton. Appl Environ Microbiol 67:5134-5142 (Pubitemid 33701281)
16. Fandino LB, Riemann L, Steward GF, Long RA, Azam F (2001) Variations in bacterial community structure during a dinoflagellate bloom analyzed by DGGE and 16S rDNA sequencing. Aquat Microb Ecol 23:119-130 (Pubitemid 34253476)
17. Gerdts G, Wichels A, Döpke H, Klings KW, Gunkel W, Schütt C (2004) A long-term study of microbial parameters near Helgoland (German Bight, North Sea): historical view and future perspectives. Helgol Mar Res 58:230-242 (Pubitemid 40071896)
18. Gich F, Schubert K, Bruns A, Hoffelner H, Overmann J (2005) Specific detection, isolation, and characterization of selected, previously uncultured members of the fresh-water bacterioplankton community. Appl Environ Microbiol 71:5908-5919 (Pubitemid 41456884)
19. Giebel HA, Brinkhoff T, Zwisler W, Selje N, Simon M (2009) Distribution of Roseobacter RCA and SAR11 lineages and distinct bacterial communities from the subtropics to the Southern Ocean. Environ Microbiol 11:2164-2178
20. Giebel HA, Kalhoefer D, Lemke A, Thole S, Gahl-Janssen R, Simon M, Brinkhoff T (2011) Distribution of Roseobacter RCA and SAR11 lineages in the North Sea and characteristics of an abundant RCA isolate. ISME J 5:8-19
21. González JM, Simó R, Massana R, Covert J, Casamayor E, Pedrós-Alió C, Moran MA (2000) Bacterial community structure associated with a dimethylsulfoniopropionate producing North Atlantic algal bloom. Appl Environ Microbiol 66:4237-4246
22. Grossart HP, Levold F, Allgaier M, Simon M, Brinkhoff T (2005) Composition of bacterial communities associated with marine diatoms. Environ Microbiol 7:860-873 (Pubitemid 40697644)
23. Hewson I, Fuhrman JA (2004) Richness and diversity of bacterioplankton species along an estuarine gradient in Moreton Bay, Australia. Appl Environ Microbiol 70:3425-3433 (Pubitemid 38745887)
24. Jaspers E, Nauhaus K, Cypionka H, Overmann J (2001) Multitude and temporal variability of ecological niches as indicated by the diversity of cultivated bacterioplankton. FEMS Microbiol Ecol 36:153-164 (Pubitemid 32635236)
25. Kirchman DL (2002) The ecology of Cytophaga-Flavobacteria in aquatic environments. FEMS Microbiol Ecol 39:91-100 (Pubitemid 34251208)
26. Lebaron P, Servais P, Trousselier M, Courties C and others (1999) Changes in bacterial community structure in seawater mesocosms differing in their nutrient status. Aquat Microb Ecol 19:255-267
27. Llobet-Brossa E, Rossello-Mora R, Amann R (1998) Microbial community composition of Wadden Sea sediments as revealed by fluorescence in situ hybridization. Appl Environ Microbiol 64:2691-2696 (Pubitemid 28303320)
28. Loewe P, Schmolke S, Becker G, Brockmann U and others (2005) Berichte des Bundesamtes für Seeschiffahrt und Hydrographie. Nr. 38/2005, Hamburg (www.bsh.de)
29. Lübben A, Dellwig O, Koch S, Beck M, Badewien TH, Fischer S, Reuter R (2009) Distributions and characteristics of dissolved organic matter in temperate coastal waters (Southern North Sea). Ocean Dyn 59:263-275
30. Ludwig W, Strunk O, Westram R, Richter L and others (2004) ARB: a software environment for sequence data. Nucleic Acids Res 32:1363-1371 (Pubitemid 38854737)
31. Lunau M, Lemke A, Walther K, Martens-Habbena W, Simon M (2005) An improved method for counting bacteria in samples with high proportions of particle-associated cells by epifluorescence microscopy. Environ Microbiol 7:961-968 (Pubitemid 40817153)
32. Lunau M, Lemke A, Dellwig O, Simon M (2006) Physical and biogeochemical controls of microaggregate dynamics in a tidally affected coastal ecosystem. Limnol Oceanogr 51:847-859
33. Musat N, Werner U, Knittel K, Dodenhof T and others (2006) Microbial community structure of sandy intertidal sediments in the North Sea, Sylt-Romø Basin, Wadden Sea. Syst Appl Microbiol 29:333-348
34. Muyzer G, de Waal EC, Uitterlinden AG (1993) Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reactionamplified genes coding for 16S rRNA. Appl Environ Microbiol 59:695-700 (Pubitemid 23072343)
35. Muyzer G, Brinkhoff T, Nübel U, Santegods C, Schäfer H, Wawer C (1998) Denaturing gradient gel electrophoresis (DGGE) in microbial ecology. Molecular microbial ecology manual. Kluwer Academic Publishers, Dordrecht, p 1-27
36. Nusch EA (1999) Chlorophyllbestimmung. In: von Tuempling W, Friedrich G (eds) Biologische Gewässeruntersuchung. G Fischer, Stuttgart, p 368-375
37. Pinhassi J, Gómez-Consarnau L, Alonso-Sáez L, Sala MM, Vidal M, Pedrós-Alió C, Gasol JM (2006) Seasonal changes in bacterioplankton nutrient limitation and their effects on bacterial community composition in the NW Mediterranean Sea. Aquat Microb Ecol 44:241-252 (Pubitemid 44735075)
38. Porter K, Feig Y (1980) The use of DAPI for identifying and counting aquatic microflora. Limnol Oceanogr 25:943-948
39. Reinthaler T, Winter C, Herndl GJ (2005) Relationship between bacterioplankton richness, respiration, and production in the southern North Sea. Appl Environ Microbiol 71:2260-2266 (Pubitemid 40646965)
40. Riebesell U (1991) Particle aggregation during a diatom bloom. II. Biological aspects. Mar Ecol Prog Ser 69:281-291
41. Riedel T, Tomasch J, Buchholz I, Jacobs J and others (2010) Constitutive expression of the proteorhodopsin gene by a flavobacterium strain representative of the proteo-rhodopsin-producing microbial community in the North Sea. Appl Environ Microbiol 76:3187-3197
42. Rink B, Seeberger S, Martens T, Duerselen C, Simon M, Brinkhoff T (2007) Effects of a phytoplankton bloom in a coastal ecosystem on the composition of bacterial communities. Aquat Microb Ecol 48:47-60 (Pubitemid 351525818)
43. Rink B, Martens T, Fischer D, Lemke A, Grossart HP, Simon M, Brinkhoff T (2008) Short-term dynamics of bacterial communities in a tidally affected coastal ecosystem. FEMS Microbiol Ecol 66:306-319
44. Rooney-Varga JN, GiewatMW, Savin MC, Sood S, LeGresley M, Martin JL (2005) Links between phytoplankton and bacterial community dynamics in a coastal marine environment. Microb Ecol 49:163-175 (Pubitemid 40747814)
45. Sambrook J, Frisch EF, Maniatis T (1989) Northern hybridisation. In: Nolan C (ed) Molecular cloning: a laboratory manual, 2nd edn. Cold Spring Harbour Laboratory Press, New York, NY
46. Sapp M, Wichels A, Wiltshire KH, Gerdts G (2007) Bacterial community dynamics during the winter-spring transition in the North Sea. FEMS Microbiol Ecol 59:622-637 (Pubitemid 46376237)
47. Schäfer H, Abbas B, Witte H, Muyzer G (2002) Genetic diversity of 'satellite' bacteria present in cultures of marine diatoms. FEMS Microbiol Ecol 42:25-35 (Pubitemid 35279277)
48. Selje N, Simon M (2003) Composition and dynamics of particle-associated and free-living bacterial communities in the Weser estuary, Germany. Aquat Microb Ecol 30:221-236
49. Selje N, Simon M, Brinkhoff T (2004) A newly discovered Roseobacter cluster in temperate and polar oceans. Nature 427:445-448 (Pubitemid 38168497)
50. Simon M, Grossart HP, Schweitzer B, Plough H (2002) Microbial ecology of organic aggregates in aquatic ecosystems. Aquat Microb Ecol 28:175-211 (Pubitemid 34780562)
51. Staneva J, Stanev EV, Wolff JO, Badewien TH and others (2009) Hydrodynamics and sediment dynamics in the German Bight. A focus on observations and numerical modelling in the East Frisian Wadden Sea. Cont Shelf Res 29:302-319 (Pubitemid 50091536)
52. Stevens H, Brinkhoff T, Simon M (2005a) Composition and seasonal dynamics of free-living, aggregate- and sediment surface-associated bacterial communities in the German Wadden Sea. Aquat Microb Ecol 38:15-30 (Pubitemid 40263298)
53. Stevens H, Stübner M, Simon M, Brinkhoff T (2005b) Phylogeny of Proteobacteria and Bacteroidetes from oxic habitats of a tidal flat ecosystem. FEMS Microbiol Ecol 54:351-365 (Pubitemid 41416852)
54. Utermöhl H (1958) Zur Vervollkommnung der quantitativen Phytoplankton-Methodik. Mitt Int Verh Theor Angew Limnol 9:1-38
55. Zubkov MV, Fuchs BM, Archer SD, Kiene RP, Amann R, Burkill PH (2002) Rapid turnover of dissolved DMS and DMSP by defined bacterioplankton communities in the stratified euphotic zone of the North Sea. Deep-Sea Res II 49:3017-3038 (Pubitemid 34657346)