Complexity of bacterial communities in a river-floodplain system (Danube, Austria)

Applied and Environmental Microbiology

Volumn 71, Issue 2, 2005, Pages 609-620

  Besemer, Katharina ^a   Moeseneder, Markus M ^b   Arrieta, Jesus M ^b   Herndl, Gerhard J ^b   Peduzzi, Peter ^a,c  

^a UNIVERSITY OF VIENNA   (Austria)

^b ROYAL NETHERLANDS INSTITUTE FOR SEA RESEARCH   (Netherlands)

^c Inst of Ecol and Conserv Biology   (Austria)

Author keywords

[No Author keywords available]

Indexed keywords

BIOMASS; COMPOSITION; DECOMPOSITION; ECOLOGY; HYDROLOGY; PURIFICATION; RIVERS;

AUSTRALIA; BACTERIAL COMMUNITIES; OPERATIONAL TAXONOMIC UNITS (OTU); POLYMORPHISM ANALYSIS; RIVER-FLOODPLAIN SYSTEM;

BACTERIA;

ORGANIC MATTER;

BACTERIUM; COMMUNITY STRUCTURE; FLOODPLAIN; NUTRIENT CYCLING; ORGANIC MATTER;

ALGA; ARTICLE; AUSTRIA; BACTERIAL FLORA; BACTERIOPLANKTON; BIOMASS; COMMUNITY DYNAMICS; CONTROLLED STUDY; ENVIRONMENTAL TEMPERATURE; FLOODPLAIN; HYDROLOGY; INORGANIC NUTRIENT; MOLECULAR INTERACTION; NONHUMAN; ORGANIC NUTRIENT; PRINCIPAL COMPONENT ANALYSIS; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; RIVER ECOSYSTEM; SPECIES DIVERSITY; TAXONOMY;

ANIMALS; AUSTRIA; BACTERIA; DNA, BACTERIAL; ECOSYSTEM; PLANKTON; POLYMERASE CHAIN REACTION; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; RIVERS; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY;

AUSTRIA; CENTRAL EUROPE; DANUBE RIVER; EASTERN HEMISPHERE; EURASIA; EUROPE; WORLD;

ALGAE; BACTERIA (MICROORGANISMS); OTUS;

EID: 13544272606     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.71.2.609-620.2005     Document Type: Article

References (38)

1. Acinas, S. G., J. Antón, and F. Rodríguez-Valera. 1999. Diversity of free-living and attached bacteria in offshore western Mediterranean waters as depicted by analysis of genes encoding 16S rRNA. Appl. Environ. Microbiol. 65:514-522.
2. Azam, F., and B. C. Cho. 1987. Bacterial utilization of organic matter in the sea, p. 261-281. In M. M. Fletcher, J. G. Jones, and T. R. G. Gray (ed.), Ecology of microbial communities. Cambridge University Press, Cambridge, United Kingdom.
3. Azam, F., T. Fenchel, J. G. Field, J. S. Gray, L. A. Meyer-Reil, and F. Thingstad. 1983. The ecological role of water-column microbes in the sea. Mar. Ecol. Prog. Ser. 10:257-263.
4. Benner, R., B. Biddanda, B. Black, and M. McCarthy. 1997. Abundance, size distribution, and stable carbon and nitrogen isotopic composition of marine organic matter isolated by tangential-flow ultrafiltration. Mar. Chem. 57:243-263.
5. Benner, R., and M. Strom. 1993. A critical evaluation of the analytical blank associated with DOC measurements by high-temperature catalytic oxidation. Mar. Chem. 41:153-160.
6. Bidle, K. D., and M. Fletcher. 1995. Comparison of free-living and particle-associated bacterial communities in the Chesapeake Bay by stable low-molecular-weight RNA analysis. Appl. Environ. Microbiol. 61:944-952.
7. Bouvier, T. C., and P. A. del Giorgio. 2002. Compositional changes in free living bacterial communities along a salinity gradient in two temperate estuaries. Limnol. Oceanogr. 47:453-470.
8. Braker, G., H. L. Ayala-del-Río, A. H. Devol, A. Fesefeldt, and J. M. Tiedje. 2001. Community structure of denitrifiers, bacteria, and Archaea along redox gradients in Pacific Northwest marine sediments by terminal restriction fragment length polymorphism analysis of amplified nitrite-reductase (nirS) and 16S rRNA genes. Appl. Environ. Microbiol. 67:1893-1901.
9. Crump, B. C., E. V. Armbrust, and J. A. Baross. 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.
10. Crump, B. C., G. W. Kling, M. Bahr, and J. E. Hobbie. 2003. Bacterioplankton community shifts in an Arctic lake correlate with seasonal changes in organic matter source. Appl. Environ. Microbiol. 69:2253-2268.
11. Dahllöf, I., H. Baillie, and S. Kjelleberg. 2000. rpoB-based microbial community analysis avoids limitations inherent in 16S rRNA gene intraspecies heterogeneity. Appl. Environ. Microbiol. 66:3376-3380.
12. Giovannoni, S. J., T. B. Britschgi, C. L. Moyer, and K. G. Field. 1990. Genetic diversity in Sargasso Sea bacterioplankton. Nature 345:60-63.
13. Hein, T., C. Baranyi, G. Heiler, C. Holarek, P. Riedler, and F. Schiemer. 1999. Hydrology as a major factor determining plankton development in two floodplain segments and the River Danube, Austria. Arch. Hydrobiol. 11(Suppl. 115):439-452.
14. Hein, T., C. Baranyi, G. J. Herndl, W. Wanek, and F. Schiemer. 2003. Allochthonous and autochthonous particulate organic matter in floodplains of the River Danube: the importance of hydrological connectivity. Freshw. Biol. 48:220-232.
15. Hein, T., M. Schagerl, G. Heiler, and F. Schiemer. 1996. Chlorophyll-a and hydrochemical dynamics in a backwater system of the Danube, controlled by hydrology. Arch. Hydrobiol. 10(Suppl. 113):463-470.
16. Kirschner, A. K. T., and B. Velimirov. 1997. A seasonal study of bacterial community succession in a temperate backwater system, indicated by variation in morphotype numbers, biomass, and secondary production. Microb. Ecol. 34:27-38.
17. Lane, D. J. 1991. 16S/23S rRNA sequencing, p. 115-176. In E. Stackebrandt and M. Goodfellow (ed.), Nucleic acid techniques in bacterial systematics. John Wiley & Sons, Inc., New York, N.Y.
18. Lindell, M. J., W. Granéli, and L. J. Tranvik. 1995. Enhanced bacterial growth in response to photochemical transformation of dissolved organic matter. Limnol. Oceanogr. 40:195-199.
19. Liu, W.-T., T. L. Marsh, H. Cheng, and L. J. Forney. 1997. Characterization of microbial diversity by determining terminal restriction fragment length polymorphisms of genes encoding 16S rRNA. Appl. Environ. Microbiol. 63:4516-4522.
20. McKnight, D. M., E. W. Boyer, P. K. Westerhoff, P. T. Doran, T. Kulbe, and D. T. Andersen. 2001. Spectroflourometric characterization of dissolved organic matter for indication of precursor organic material and aromaticity. Limnol. Oceanogr. 46:38-48.
21. Moeseneder, M. M., C. Winter, J. M. Arrieta, and G. J. Herndl. 2001. Terminal-restriction fragment length polymorphism (T-RFLP) screening of a marine archeal clone library to determine the different phylotypes. J. Microbiol. Methods 44:159-172.
22. Moeseneder, M. M., C. Winter, and G. J. Herndl. 2001. Horizontal and vertical complexity of attached and free-living bacteria of the eastern Mediterranean Sea, determined by 16S rDNA and 16S rRNA fingerprints. Limnol. Oceanogr. 46:95-107.
23. Nilsson, C., R. Jansson, and U. Zinko. 1997. Long-term responses of river-margin vegetation to water-level regulation. Science 276:798-800.
24. Pedrós-Alió, C., J. I. Calderón-Paz, and J. M. Gasol. 2000. Comparative analysis shows that bacterivory, not viral lysis, controls the abundance of heterotrophic prokaryotic plankton. FEMS Microb. Ecol. 32:157-165.
25. Pernthaler, J., F.-O. Glöckner, S. Unterholzner, A. Alfreider, R. Psenner, and R. Amann. 1998. Seasonal community and population dynamics of pelagic bacteria and archaea in a high mountain lake. Appl. Environ. Microbiol. 64:4299-4306.
26. Pinhassi, J., F. Azam, J. Hemphälä, R. A. Long, J. Martinez, U. L. Zweifel, and Å. Hagström. 1999. Coupling between bacterioplankton species composition, population dynamics, and organic matter degradation. Aquat. Microb. Ecol. 17:13-26.
27. Porter, K. G., and Y. S. Feig. 1980. The use of DAPI for identifying and counting aquatic microflora. Limnol. Oceanogr. 25:943-948.
28. Riemann, L., G. F. Steward, and F. Azam. 2000. Dynamics of bacterial community composition and activity during a mesocosm diatom bloom. Appl. Environ. Microbiol. 66:578-587.
29. Ryves, D. B., D. H. Jewson, M. Sturm, R. W. Battarbee, R. J. Flower, A. W. Mackay, and N. G. Granin. 2003. Quantitative and qualitative relationships between planktonic diatom communities and diatom assemblages in sedimenting material and surface sediments in Lake Baikal, Siberia. Limnol. Oceanogr. 48:1643-1661.
30. Schiemer, F., C. Baumgartner, and K. Tockner. 1999. Restoration of floodplain rivers: the Danube restoration project. Reg. Rivers Res. Manag. 15:231-244.
31. Šimek, K., J. Pernthaler, M. G. Weinbauer, K. Hornák, J. R. Dolan, J. Nedoma, M. Mašín, and R. Amann. 2001. Changes in bacterial community composition and dynamics and viral mortality rates associated with enhanced flagellate grazing in a mesoeutrophic reservoir. Appl. Environ. Microbiol. 67:2723-2733.
32. Strickland, J. D. H., and T. R. Parsons. 1972. A practical handbook of seawater analysis. Bulletin 167. Fishery Resources Board of Canada, Ottawa, Ontario.
33. Strome, D. J., and M. C. Miller. 1978. Photolytic changes in dissolved humic substances. Verh. Internat. Verein. Limnol. 20:1248-1254.
34. Talling, J. F., and D. Driver. 1961. Some problems in estimation of chlorophyll-a in phytoplankton, p. 142-146. In 10th Pac. Sci. Congr., Honolulu, Hawaii. U.S. Atomic Energy Commission, Washington, D.C.
35. ter Braak, C. J. F. 1987. Ordination, p. 91-167. In R. H. G. Jongman, C. J. F. ter Braak, and O. F. R. van Tongeren (ed.), Data analysis in community and landscape ecology. Center for Agricultural Publishing and Documentation, Wageningen, The Netherlands.
36. Tockner, K., D. Pennetzdorfer, N. Reiner, F. Schiemer, and J. V. Ward. 1999. Hydrological connectivity, and the exchange of organic matter and nutrients in a dynamic river-floodplain system (Danube, Austria). Freshw. Biol. 41:521-535.
37. Ward, J. V. 1998. Riverine landscapes: biodiversity patterns, disturbance regimes, and aquatic conservation. Biol. Conserv. 83:269-278.
38. Yager, P. L., T. L. Connelly, B. Mortazavi, K. E. Wommak, N. Bano, J. E. Bauer, S. Opsahl, and J. T. Hollibaugh. 2001. Dynamic bacterial and viral response to an algal bloom at subzero temperatures. Limnol. Oceanogr. 46:790-801.