Physical heterogeneity increases biofilm resource use and its molecular diversity in stream mesocosms

PLoS ONE

Volumn 5, Issue 4, 2010, Pages

  Singer, Gabriel ^a,b   Besemer, Katharina ^a,b   Schmitt Kopplin, Philippe ^c   Hödl, Iris ^a,b   Battin, Tom J ^a,b  

^a UNIVERSITY OF VIENNA   (Austria)

^b Inter University Centre for Aquatic Ecosystem Research   (Austria)

^c INSTITUTE OF EPIDEMIOLOGY   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

DISSOLVED ORGANIC CARBON; GLUCOSE; ORGANIC CARBON; RNA 16S; UNCLASSIFIED DRUG; CARBON; ORGANIC COMPOUND;

ARTICLE; BENTHOS; BIOFILM; CARBON UTILIZATION; CONTROLLED STUDY; GLUCOSE TRANSPORT; HYDRODYNAMICS; ION CYCLOTRON RESONANCE MASS SPECTROMETRY; MESOCOSM; MICROBIAL BIOMASS; MICROBIAL DIVERSITY; MICROHABITAT; NONHUMAN; RIPARIAN ECOSYSTEM; RIVER ECOSYSTEM; RNA FINGERPRINTING; STREAM (RIVER); BIODIVERSITY; ECOSYSTEM; METABOLISM; MICROBIOLOGY; RIVER; WATER FLOW;

BACTERIA (MICROORGANISMS);

BIODIVERSITY; BIOFILMS; CARBON; ECOSYSTEM; GLUCOSE; ORGANIC CHEMICALS; RIVERS; WATER MICROBIOLOGY; WATER MOVEMENTS;

EID: 77956312554     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0009988     Document Type: Article

References (68)

1. Hooper DU, Chapin FS, Ewel JJ, Hector A, Inchausti P, et al. (2005) Effects of iodiversity on ecosystem functioning: a consensus of current knowledge. Ecological Monographs 75: 12844.
2. Srivastava DS, Vellend M (2005) Biodiversity-ecosystem function research: Is it elevant to conservation? Annual Review of Ecology, Evolution and Systematics 6: 267-294.
3. Balvanera P, Pfisterer AB, Buchmann N, He J-S, Nakashizuka T, et al. (2006) Quantifying the evidence for biodiversity effects on ecosystem functioning and ervices. Ecology Letters 9: 1146-1156.
4. Cardinale BJ, Srivastava DS, Duffy JE, Wright JP, Downing AL, et al. (2006) Effects of biodiversity on the functioning of trophic groups and ecosystems. Nature 443: 989-992.
5. Raffaelli D (2004) How extinction patterns affect ecosystems. Science 306: 141-1142.
6. Naeem S (2008) Advancing realism in biodiversity research. Trends in Ecology Evolution 23: 414-416.
7. Chesson P, Pacala S, Neuhauser C (2001) Environmental niches and ecosystem unctioning. In: Kinzig A, Pacala S, Tilman D, eds. The functional consequences of Biodiversity. Princeton, New Jersey, USA: Princeton University Press. pp 213-245.
8. Loreau M, Mouquet N, Gonzalez A (2003) Biodiversity as spatial insurance in eterogeneous landscapes. Proceedings of the National Academy of Sciences,USA 100: 12765-12770.
9. Weis JJ, Madrigal DS, Cardinale BJ (2008) Effects of algal diversity on the roduction of biomass in homogeneous and heterogeneous nutrient environments: microcosm experiment. PLoS ONE 3: e2825.
10. Tylianakis JM, Rand TA, Kahmen A, Klein A-M, Buchmann N, et al. (2008) Resource Heterogeneity Moderates the Biodiversity-Function Relationship in eal World Ecosystems. PLOS Biology 6: 947-956.
11. Wacker L, Baudois O, Eichenberger-Glinz S, Schmid B (2008) Environmental eterogeneity increases complementarity in experimental grassland communities. Basic and Applied Ecology 9: 467-474.
12. Bulling M, Solan M, Dyson K, Hernandez-Milian G, Luque P, et al. (2008) Species effects on ecosystem processes are modified by faunal responses to habitat composition. Oecologia 158: 511-520.
13. Dyson KE, Bulling MT, Solan M, Hernandez-Milian G, Raffaelli DG, et al. (2007) Influence of macrofaunal assemblages and environmental heterogeneity on microphytobenthic production in experimental systems. Proceedings of the Royal Society B-Biological Sciences 274: 2547-2554.
14. Griffin JN, Jenkins SR, Gamfeldt L, Jones D, Hawkins SJ, et al. (2009) Spatial heterogeneity increases the importance of species richness for an ecosystem process. Oikos 118: 1335-1342.
15. Curtis TP, Sloan WT, Scannell JW (2002) Estimating prokaryotic diversity and its limits. Proceedings of the National Academy of Sciences of the United States of America 99: 10494-10499.
16. Prosser JI, Bohannan BJM, Curtis JT, Ellis RJ, Firestone MK, et al. (2007) The role of ecological theory in microbial ecology. Nature Reviews: Microbiology 5: 384-392.
17. Falkowski PG, Fenchel T, Delong EF (2008) The microbial engines that drive Earth's biogeochemical cycles. Science 320: 1034-1039.
18. Hedges JI (1992) Global Biogeochemical Cycles - Progress and Problems. Marine Chemistry 39: 67-93.
19. Pomeroy LR (1974) Oceans Food Web, a Changing Paradigm. Bioscience 24: 499-504.
20. Azam F, Fenchel T, Field JG, Gray JS, Meyerreil LA, et al. (1983) The Ecological Role of Water-Column Microbes in the Sea. Marine Ecology-Progress Series 10: 257-263.
21. Battin TJ, Kaplan LA, Findlay S, Hopkinson CS, Marti E, et al. (2008) Biophysical controls on organic carbon fluxes in fluvial networks. Nature Geoscience 1: 95-100.
22. Hertkorn N, Ruecker C, Meringer M, Gugisch R, Frommberger M, et al. (2007) High-precision frequency measurements: indispensable tools at the core of the molecular-level analysis of complex systems. Analytical and Bioanalytical Chemistry 389: 1311-1327.
23. Dittmar T, Paeng J (2009) A heat-induced molecular signature in marine dissolved organic matter. Nature Geoscience 2: 175-179.
24. Seitzinger SP, Hartnett H, Lauck R, Mazurek M, Minegishi T, et al. (2005) Molecular-level chemical characterization and bioavailability of dissolved organic matter in stream water using electrospray-ionization mass spectrometry. Limnology and Oceanography 50: 1-12.
25. Kim S, Kaplan LA, Hatcher PG (2006) Biodegradable dissolved organic matter in a temperate and a tropical stream determined from ultra-high resolution mass spectrometry. Limnology and Oceanography 51: 1054-1063.
26. Dittmar T, Whitehead K, Minor EC, Koch BP (2007) Tracing terrigenous dissolved organic matter and its photochemical decay in the ocean by using liquid chromatography/mass spectrometry. Marine Chemistry 107: 378-387.
27. Cottrell MT, Kirchman DL (2000) Natural assemblages of marine proteobacteria nd members of the Cytophaga-Flavobacter cluster consuming low- and igh-molecular-weight dissolved organic matter. Applied and Environmental icrobiology 66: 1692-1697.
28. Battin TJ, Kaplan LA, Newbold JD, Hansen CME (2003) Contributions of microbial biofilms to ecosystem processes in stream mesocosms. Nature 426: 39-442.
29. Wickland KP, Neff JC, Aiken GR (2007) Dissolved organic carbon in Alaskan oreal forest: Sources, chemical characteristics, and biodegradability. Ecosystems 0: 1323-1340.
30. Qualls RG (2005) Biodegradability of dissolved organic from decomposing ractions of carbon leached leaf litter. Environmental Science & Technology 39: 616-1622.
31. Gordon ND, McMahon TA, Finlayson BL, Gippel CJ, Nathan RJ (2004) tream Hydrology, an Introduction for Ecologists. Chichester, England: John iley & Sons Ltd. 429 p.
32. Besemer K, Singer G, Limberger R, Chlup A-K, Hochedlinger G, et al. (2007) Biophysical controls on community succession in stream biofilms. Applied and nvironmental Microbiology 73: 4966-4974.
33. Blackwood CB, Hudleston D, Zak DR, Buyer JS (2007) Interpreting ecological iversity indices applied to terminal restriction fragment length polymorphism ata: insights from simulated microbial communities. Applied and Environmental icrobiology 73: 5276-5283.
34. Bent SJ, Forney LJ (2008) The tragedy of the uncommon: understanding imitations in the analysis of microbial diversity. The ISME Journal 2: 689-695.
35. Hill MO (1973) Diversity and Evenness: A unifying notation and its onsequences. Ecology 54: 427-432.
36. Jost L (2007) Partitioning diversity into independent alpha and beta components. Ecology 88: 2427-2439.
37. Buzas M, Hayek L (1996) Biodiversity resolution: an integrated approach. Biodiversity Letters 3: 40-43.
38. Hillebrand H, Bennett DM, Cadotte MW (2008) Consequences of dominance: review of evenness effects on local and regional ecosystem processes. Ecology 9: 1510-1520.
39. Wallace JB, Eggert SL, Meyer JL, Webster JR (1997) Multiple trophic levels of a orest stream linked to terrestrial litter inputs. Science 277: 102-104.
40. Thurman EM, Malcolm RL (1981) Preparative isolation of aquatic humic substances. Environmental Science & Technology 15: 463-466.
41. Hertkorn N, Frommberger M, Witt M, Koch B, Schmitt-Kopplin P, et al. (2008) Natural organic matter and the event horizon of mass spectrometry. Analytical Chemistry 80: 8908-8919.
42. Chevan A, Sutherland M (1991) Hierarchical Partitioning. The American Statistician 45: 90-96.
43. Legendre P, Legendre L (1998) Numerical Ecology. Amsterdam, The Netherlands:Elsevier Science B.V. 853 p.
44. R-Development-Core-Team (2005) R: A language and environment for statistical computing. Vienna, Austria. URL http://www.R-project.org.: R Foundation for Statistical Computing.
45. Culman SW, Gauch HG, Blackwood CB, Thies JE (2008) Analysis of T-RFLP ata using analysis of variance and ordination methods: A comparative study. Journal of Microbiological Methods 75: 55-63.
46. Gessner MO, Chauvet E, Dobson M (1999) A perspective on leaf litter reakdown in streams. Oikos 85: 377-384.
47. Kim S, Kramer RW, Hatcher PG (2003) Graphical method for analysis of ltrahigh-resolution broadband mass spectra of natural organic matter, the Van revelen diagram. Analytical Chemistry 75: 5336-5344.
48. Loreau M, Naeem S, Inchausti P, Bengtsson J, Grime JP, et al. (2001) Ecology - Biodiversity and ecosystem functioning: Current knowledge and future hallenges. Science 294: 804-808.
49. Loreau M, Hector A (2001) Partitioning selection and complementarity in biodiversity experiments. Nature 412: 72-76.
50. Al-Homoud A, Hondzo M (2008) Enhanced uptake of dissolved oxygen and glucose by Escherichia coli in a turbulent flow. Applied Microbiology and Biotechnology 79: 643-655.
51. Gantzer CJ, Rittmann BE, Herricks EE (1988) Mass-Transport to Streambed Biofilms. Water Research 22: 709-722.
52. Cardenas MB, Wilson JL (2007) Hydrodynamics of coupled flow above and below a sediment-water interface with triangular bedforms. Advances in Water esources 30: 301-313.
53. Besemer K, Singer G, Hödl I, Battin TJ (2009) Bacterial community composition and biodiversity of stream biofilms in spatially variable flow environments. Applied and Environmental Microbiology 75: 7189-7195.
54. Bond EM, Chase JM (2002) Biodiversity and ecosystem functioning at local and regional spatial scales. Ecology Letters 5: 467-470.
55. Besemer K, Hödl I, Singer G, Battin TJ (2009) Architectural differentiation eflects bacterial community structure in stream biofilms. The ISME Journal 3: 318-1324.
56. Hansen SK, Rainey PB, Haagensen JAJ, Molin S (2007) Evolution of species interactions in a biofilm community. Nature 445: 533-536.
57. Kim HJ, Boedicker JQ, Choi JW, Ismagilov RF (2008) Defined spatial structure stabilizes a synthetic multispecies bacterial community. Proceedings of the ational Academy of Sciences, USA 105: 18188-18193.
58. Wolfaardt GM, Lawrence JR, Robarts RD, Caldwell DE (1994) The role of interactions, sessile growth, and nutrient amendments on the degradative efficiency of a microbial consortium. Canadian Journal of Microbiology 40: 31-340.
59. Mouquet N, Moore JL, Loreau M (2002) Plant species richness and community productivity: why the mechanism that promotes coexistence matters. Ecology Letters 5: 56-65.
60. Vallino JJ, Hopkinson CS, Hobbie JE (1996) Modeling bacterial utilization of dissolved organic matter: optimization replaces Monod growth kinetics. Limnology and Oceanography 41: 1591-1609.
61. Einsiedl F, Hertkorn N, Wolf M, Frommberger M, Schmitt-Kopplin P, et al. 2007) Rapid biotic molecular transformations of fulvic acids in a karst aquifer. Geochimica et Cosmochimica Acta 71: 5474-5482.
62. Cardinale BJ, Palmer MA, Swan CM, Brooks S, Poff LN (2002) The influence of substrate heterogeneity on biofilm metabolism in a stream ecosystem. Ecology 3: 412-422.
63. Hall-Stoodley L, Costerton JW, Stoodley P (2004) Bacterial biofilms: from the natural environment to infectious deseases. Nature Reviews: Microbiology 2: 5-108.
64. Battin TJ, Sloan WT, Kjelleberg S, Daims H, Head IM, et al. (2007) Microbial landscapes: new paths to biofilm research. Nature Reviews: Microbiology 5:7-12.
65. Bottacin-Busolin A, Singer G, Zaramella M, Battin TJ, Marion A (2009) Effects of streambed morphology and biofilm growth on the transient storage of solutes. Environmental Science & Technology 43: 7337-7342.
66. Orr CH, Clark JJ, Wilcock PR, Finlay JC, Doyle MW (2009) Comparison of morphological and biological control of exchange with transient storage zones in field-scale flume. Journal of Geophysical Research 114: G02019.
67. Battin TJ, Kaplan LA, Newbold JD, Hendricks SP (2003) A mixing model analysis of stream solute dynamics and the contribution of a hyporheic zone to cosystem function. Freshwater Biology 48: 995-1014.
68. Poff NL, Olden JD, Merritt RW, Pepin D (2007) Homogenization of regional river dynamics by dams and global biodiversity implications. Proceedings of the national Academy of Sciences, USA 104: 5732-5737.