Links between metabolic plasticity and functional redundancy in freshwater bacterioplankton communities

Frontiers in Microbiology

Volumn 4, Issue MAY, 2013, Pages

  Comte, Jérôme ^a,b   Fauteux, Lisa ^a   Del Giorgio, Paul A ^a  

^a UNIVERSITÉ DU QUÉBEC À MONTRÉAL   (Canada)

^b Université Laval   (Canada)

Author keywords

Community composition; Environmental forcing; Freshwater bacterioplankton; Functional redundancy; Metabolic plasticity; Traits selection

Indexed keywords

FRESH WATER;

AQUATIC ENVIRONMENT; ARTICLE; BACTERIOPLANKTON; BIOLOGICAL TRAIT; BIOMASS; CONTROLLED STUDY; DIAFILTRATION; FLOW CYTOMETRY; FUNCTIONAL REDUNDANCY; HIGH PERFORMANCE LIQUID CHROMATOGRAPHY; METABOLIC PLASTICITY; MICROBIAL COMMUNITY; MICROBIOLOGICAL PHENOMENA AND FUNCTIONS; NONHUMAN; POLYMERASE CHAIN REACTION; WATER ANALYSIS;

BACTERIA (MICROORGANISMS);

EID: 84884277814     PISSN: None     EISSN: 1664302X     Source Type: Journal    
DOI: 10.3389/fmicb.2013.00112     Document Type: Article

References (58)

1. Allison, S. D., and Martiny, J. B. H. (2008). Resistance, resilience, and redundancy in microbial communities. Proc. Natl. Acad. Sci. U.S.A. 105, 11512-11519.
2. Bell, T., Newman, J. A., Silverman, B. W., Turner, S. L., and Lilley, A. K. (2005). The contribution of species richness and composition to bacterial services. Nature 436, 1157-1160.
3. Bell, T. (2010). Experimental tests of the bacterial distance-decay relationship. ISME J. 4, 1357-1365.
4. Bertilsson, S., Eiler, A., Nordqvist, A., and Jørgensen, N. O. G. (2007). Links between bacterial production, amino-acid utilization and community composition in productive lakes. ISME J. 1, 532-544.
5. Bohannan, B. J., Kerr, B., Jessup, C. M., Hughes, J. B., and Sandvik, G. (2002). Trade-offs and coexistence in microbial microcosms. Antonie van Leeuwenhoek 81, 107-115.
6. Boucher, D., and Debroas, D. (2009). Impact of environmental factors on couplings between bacterial community composition and ectoenzymatic activities in a lacustrine ecosystem. FEMS Microbiol. Ecol. 70, 66-78.
7. Buchan, A., Gonzalez, J. M., and Moran, M. A. (2005). Overview of the marine roseobacter lineage. Appl. Environ. Microbiol. 71, 5665-5677.
8. Burke, C., Steinberg, P., Rusche, D., Kjelleberga, S., and Thomasa, T. (2011). Bacterial community assembly based on functional genes rather than species. Proc. Natl. Acad. Sci.U.S.A. 108, 14288-14293.
9. Comte, J., and del Giorgio, P. A. (2009). Links between resources, C metabolism, and the major components of bacterioplankton community structure across a range of freshwater ecosystems. Environ. Microbiol. 11, 1704-1716.
10. Comte, J., and del Giorgio, P. A. (2010). Linking the patterns of change in composition and function in bacterioplankton successions along environmental gradients. Ecology 91, 1466-1476.
11. Comte, J., and del Giorgio, P. A. (2011). Composition influences the pathway but not the outcome of the metabolic response of bacterioplankton to resource shifts. PLoS ONE 6, e25266. doi: 10.1371/journal.pone.0025266
12. Diaz, S., Lavorel, S., De Bello, F., Quetier, F., Grigulis, K., and Robson, T. M. (2007). Incorporating plant functional diversity effects in ecosystem service assessments. Proc. Natl. Acad. Sci. U.S.A. 104, 20684-20689.
13. Ducklow, H. (2008). Microbial services, challenges for microbial ecologists in a changing world. Aquat. Microb. Ecol. 53, 13-19.
14. Evans, T. G., and Hofmann, G. E. (2012). Defining the limits of physiological plasticity, how gene expression can assess and predict the consequences of ocean change. Philos. Trans. R. Soc. Lond. B Biol. Sci. 367, 1733-1745.
15. Fernàndez, A., Huang, S., Seston, S., Xing, J., Hickey, R., Criddle, C., et al. (1999). How stable is stable? Function versus community composition. Appl. Environ. Microbiol. 65, 3697-3704.
16. Findlay, S. E. G., and Sinsabaugh, R. L. (2006). Large-scale variation in subsurface stream biofilms, a cross regional comparison of metabolic function and community similarity. Microb. Ecol. 52, 491-500.
17. Fox, J. W., and Harpole, W. S. (2008). Revealing how species loss affects ecosystem function, the trait-based price equation partition. Ecology 89, 269-279.
18. Gamfeld, L., and Hillebrand, H. (2008). Biodiversity effects on aquatic ecosystem functioning-maturation of a new paradigm. Internat. Rev. Hydrobiol. 93, 550- 564.
19. Garland, J. L., Mills, A. L., and Young, J. S. (2001). Relative effectiveness of kinetic analysis vs single point readings for classifying environmental samples based on community-level physiological profiles (CLPP). Soil Biol. Biochem. 33, 1059-1066.
20. Gasol, J. M., Comerma, M., García, J. C., Armengol, J., Casamayor, E. O., Kojecká, P., et al. (2002). A transplant experiment to identify the factors controlling bacterial abundance, activity, production, and community composition in a eutrophic canyon-shaped reservoir. Limnol. Oceanogr. 47, 62-77.
21. Hahn, M. W., Lunsdorf, H., Wu, Q. L., Schauer, M., Höfle, M. G., Boenigk, J., et al. (2003). Isolation of novel ultramicrobacteria classified as actinobacteria from five freshwater habitats in Europe and Asia. Appl. Environ. Microbiol. 69, 1442-1451.
22. Hahn, M. W. (2006). The microbial diversity of inland waters. Curr. Opin. Biotechnol. 17, 256-261.
23. Hall, E. K., Singer, G. A., Kainz, M. J., and Lennin, J. T. (2010). Evidence for a temperature acclimation mechanism in bacteria, an empirical test of a membranemediated trade-off. Funct. Ecol. 24, 898-908.
24. Hillebrand, H., and Matthiessen, B. (2009). Biodiversity in a complex world, consolidation and progress in functional biodiversity research. Ecol. Lett. 12, 1405- 1419.
25. Horner-Devine, M. C., Green, J., and Bohannan, B. J. M. (2006). Patterns in prokaryotic biodiversity in "Prokaryotic Diversity , Mechanisms and Significance," eds N. A. Logan, H. M. Lappin-Scott, and P.C. F. Oyston (Cambridge, Cambridge University Press), 19-39.
26. Jaspers, E., and Overmann, J. (2004). Ecological significance of microdiversity, identical 16S rRNA gene sequences can be found in bacteria with highly divergent genomes and ecophysiologies. Appl. Environ. Microbiol. 70, 4831-4839.
27. Jessup, C. M., and Bohannan, B. J. M. (2008). The shape of an ecological rade-off varies with environment. Ecol. Lett. 9, 947-959.
28. Jones, S. E., Newton, R. J., and McMahon, K. D. (2009). Evidence for structuring of bacterial community composition by organic carbon source in temperate lakes. Environ. Microbiol. 11, 2463-2472.
29. Judd, K. E., Crump, B. C., and Kling, G. W. (2006). Variations in dissolved organic matter controls bacterial production and community composition. Ecology 87, 2068-2079.
30. Kirchman, D. L. (1993). "Leucine incorporation as a measure of biomass production by heterotrophic bacteria," in "Handbook of Methods in Aquatic Microbial Ecology," eds P. F. Kemp, B. F. Sherr, E. B. Sherr, and J. J. Cole (Danvers, CRC Press), 509-512.
31. Kirchman, D. L. (2002). The ecology of Cytophaga-Flavobacteria in aquatic environments. FEMS Microbiol. Ecol. 39, 91-100.
32. Kirchman, D. L., Dittel, A. I., Findlay, S. E. G., and Fischer, D. (2004). Changes in bacterial activity and community structure in response to dissolved organic matter in the Hudson River, New York. Aquat. Microb. Ecol. 35, 243-257.
33. Kritzberg, E. S., Langenheder, S., and Lindström, E. S. (2006). Influence of dissolved organic matter source on lake bacterioplankton structure and functionimplications for seasonal dynamics of community composition. FEMS Microbiol. Ecol. 56, 406-417.
34. Langenheder, S., Lindström, E. S., and Tranvik, L. J. (2005). Weak coupling between community composition and functionning of aquatic bacteria. Limnol. Oceanogr. 50, 957-967.
35. Langenheder, S., Lindström, E. S., and Tranvik, L. J. (2006). Structure and function of bacterial communities emerging from different sources under identical conditions. Appl. Environ. Microbiol. 72, 212-220.
36. Langenheder, S., Bulling, M. T., Solan, M., and Prosser, J. I. (2010). Bacterial biodiversity-ecosystem functioning relations are modified by environmental complexity. PLoS ONE 5, e10834. doi: 10.1371/journal.pone.0010834
37. Lennon, J. T., and Cottingham, K. L. (2008). Microbial productivity in variable resources environments. Ecology 89, 1001-1014.
38. Lennon, J. T., and Jones, S. E. (2011). Microbial seed banks, the ecological and evolutionary implications of dormancy. Nat. Rev. Microbiol. 9, 119-130.
39. Lindström, E. S., Feng, X. M., Granél, W., and Kritzberg, E. S. (2010). The interplay between bacterial community composition and the environment determining function of inland water bacteria. Limnol. Oceanogr. 55, 2052-2060.
40. Loreau, M. (2004). Does functional redundancy exist?. Oikos 104, 606-611.
41. Meyer, A. F., Lipson, D. A., Martin, A. P., Schadt, C. W., and Schmidt, S. K. (2004). Molecular and metabolic characterization of cold-tolerant alpine soil Pseudomonas sensu stricto. Appl. Environ. Microbiol. 70, 483-489.
42. Naeem, S. (1998). Does functional redundancy exist?. Cons. Biol. 12, 39-45.
43. Nelson, C. E. (2009). Phenology of high-elevation pelagic bacteria, the roles of meteorologic variability, catchment inputs and thermal stratification in structuring communities. ISME J. 3, 13-30.
44. Newton, R. J., and McMahon, K. D. (2011). Seasonal differences in bacterial community composition following nutrient additions in a eutrophic lake. Environ. Microbiol. 13, 887-899.
45. Newton, R. J., Jones, S. E., Eiler, A., McMahon, K. D., and Bertilsson, S. (2011). A guide to the natural history of freshwater lake bacteria. Microbiol. Mol. Biol. Rev. 75, 14-49.
46. Peter, H., Beier, S., Bertilsson, S., Lindström, E. S., Langenheder, S., and Tranvik, L. J. (2011). Function-specific response to depletion of microbial diversity. ISME J. 5, 351-361.
47. Reed, H. E., and Martiny, J. B. H. (2007). Testing the functional significance ofmicrobial composition in natural communities. FEMS Microb. Ecol. 62, 161-170.
48. Reed, H. E., and Martiny, J. B. H. (2013). Microbial composition affects the functioning of estuarine sediments. ISME J. 7, 868-879.
49. Rosenfeld, J. S. (2002). Functional redundancy in ecology and conservation. Oikos 98, 156-162.
50. Schimel, J. P., Balser, T. C., and Wallenstein, M. (2007). Microbial stress-response physiology and its implications for ecosystem function. Ecology 88, 1386-1394.
51. Shade, A., Chiu, C. Y., and McMahon, K. D. (2010). Differential bacterial dynamics promote emergent community robustness to lake mixing, an epilimnion to hypolimnion transplant experiment. Environ. Microbiol. 12, 455-466.
52. Shade, A., Kent, A. D., Jones, S. E., Newton, R. J., Triplett, E. W., and McMahon, K. D. (2007). Interannual dynamics and phenology of bacterial communities in a eutrophic lake. Limnol. Oceanogr. 52, 487-494.
53. Shade, A., Peter, H., Allison, S. D., Baho, D. L., Berga, M., Bürgmannand, H., et al. (2012). Fundamentals of microbial community resistance and resilience. Front. Microbiol. 3, 417. doi: 10.3389/fmicb.2012.00417
54. Strickland, M. S., Lauber, C., Fierer, N., and Bradford, M. A. (2009). Testing the functional significance of microbial community composition. Ecology 90, 441-451.
55. Suding, K. N. S., Lavorel, F. S., Chapin, J. H. C., Cornelissen, S., Diaz, E., Garnier, et al. (2008). Scaling environmental change through the community-level, a traitbased response-and-effect framework for plants. Glob. Change Biol. 14, 1125-1140.
56. Violle, C., Navas, M. L., Vile, D., Kazakou, E., Fortunel, C., Hummel, I., et al. (2007). Let the concept of trait be functional! Oikos 116, 882-892.
57. Walker, V. K., Palmer, G. R., and Voordouw, G. (2006). Freeze-thaw tolerance and clues to the winter survival of a soil community. Appl. Environ. Microbiol. 72, 1784-1792.
58. Wohl, D. L., Arora, S., and Gladstone, J. R. (2004). Functional redundancy supports biodiversity and ecosystem function in a closed and constant environment. Ecology 85, 1534-1540.