An experimental analysis of species sorting and mass effects in freshwater bacterioplankton

Freshwater Biology

Volumn 59, Issue 10, 2014, Pages 2081-2095

  Souffreau, Caroline ^a   Pecceu, Bert ^a   Denis, Carla ^a   Rummens, Koen ^a   De Meester, Luc ^a  

^a UNIVERSITY OF LEUVEN   (Belgium)

Author keywords

Ecosystem processes; Freshwater bacterioplankton; Metacommunity ecology; Microbial communities

Indexed keywords

EID: 84908252741     PISSN: 00465070     EISSN: 13652427     Source Type: Journal    
DOI: 10.1111/fwb.12408     Document Type: Article

References (68)

1. Allison S.D. & Martiny J.B.H. (2008) Resistance, resilience, and redundancy in microbial communities. Proceedings of the National Academy of Sciences of the United States of America, 105, 11512-11519.
2. Beisner B.E., Peres Neto P.R., Lindstrom E.S., Barnett A. & Longhi M.L. (2006) The role of environmental and spatial processes in structuring lake communities from bacteria to fish. Ecology, 87, 2985-2991.
3. Bell T. (2010) Experimental tests of the bacterial distancedecay relationship. The ISME Journal, 4, 1357-1365.
4. Berga M., Szekely A.J. & Langenheder S. (2012) Effects of disturbance intensity and frequency on bacterial community composition and function. PLoS ONE, 7, e36959.
5. Chase J.M. & Leibold M.A. (2002) Spatial scale dictates the productivity-biodiversity relationship. Nature, 416, 427-430.
6. Codeço C.T. & Grover J.P. (2001) Competition along a spatial gradient of resource supply: a microbial experimental model. American Naturalist, 157, 300-315.
7. Comte J. & Del Giorgio P.A. (2010) Linking the patterns of change in composition and function in bacterioplankton successions along environmental gradients. Ecology, 91, 1466-1476.
8. Crump B.C., Adams H.E., Hobbie J.E. & Kling G.W. (2007) Biogeography of bacterioplankton in lakes and streams of an arctic tundra catchment. Ecology, 88, 1365-1378.
9. Crump B.C., Kling G.W., Bahr M. & Hobbie J.E. (2003) Bacterioplankton community shifts in an arctic lake correlate with seasonal changes in organic matter source. Applied and Environmental Microbiology, 69, 2253-2268.
10. Danielson B.J. (1991) Communities in a landscape - The influence of habitat heterogeneity on the interactions between species. American Naturalist, 138, 1105-1120.
11. Danovaro R., Luna G.M., Dell'anno A. & Pietrangeli B. (2006) Comparison of two fingerprinting techniques, terminal restriction fragment length polymorphism and automated ribosomal intergenic spacer analysis, for determination of bacterial diversity in aquatic environments. Applied and Environmental Microbiology, 72, 5982-5989.
12. De Bie T., De Meester L., Brendonck L., Martens K., Goddeeris B., Ercken D. et al. (2012) Body size and dispersal mode as key traits determining metacommunity structure of aquatic organisms. Ecology Letters, 15, 740-747.
13. Drakare S. & Liess A. (2010) Local factors control the community composition of cyanobacteria in lakes while heterotrophic bacteria follow a neutral model. Freshwater Biology, 55, 2447-2457.
14. Dunbar J., Ticknor L.O. & Kuske C.R. (2001) Phylogenetic specificity and reproducibility and new method for analysis of terminal restriction fragment profiles of 16S rRNA genes from bacterial communities. Applied and Environmental Microbiology, 67, 190-197.
15. Forbes A.E. & Chase J.N. (2002) The role of habitat connectivity and landscape geometry in experimental zooplankton metacommunities. Oikos, 96, 433-440.
16. Garland J.L. & Mills A.L. (1991) Classification and characterisation of heterotrophic microbial communities on the basis of patterns of community-level sole-carbon-source utilisation. Applied and Environmental Microbiology, 57, 2351-2359.
17. Gonzalez A. & Chaneton E.J. (2002) Heterotroph species extinction, abundance and biomass dynamics in an experimentally fragmented microecosystem. Journal of Animal Ecology, 71, 594-602.
18. Hanson C.A., Fuhrman J.A., Horner-Devine M.C. & Martiny J.B.H. (2012) Beyond biogeographic patterns: processes shaping the microbial landscape. Nature Reviews Microbiology, 10, 497-506.
19. Hartmann M., Frey B., Kolliker R. & Widmer F. (2005) Semi-automated genetic analyses of soil microbial communities: comparison of T-RFLP and RISA based on descriptive and discriminative statistical approaches. Journal of Microbiological Methods, 61, 349-360.
20. Holt R.D. (1985a) Density-dependent mortality, non-linear competitive interactions, and species coexistence. Journal of Theoretical Biology, 116, 479-493.
21. Holt R.D. (1985b) Population dynamics in two-patch environments: some anomalous consequences of an optimal habitat distribution. Theoretical Population Biology, 28, 181-208.
22. Holt R.D., Barfield M. & Gonzalez A. (2003) Impacts of environmental variability in open populations and communities: 'inflation' in sink environments. Theoretical Population Biology, 64, 315-330.
23. Holt R.D. & Loreau M.(2001) Biodiversity and ecosystem functioning: the role of trophic interactions and the importance of system openness. In: Monographs in Population Biology. The Functional Consequences of Biodiversity: Empirical Progress and Theoretical Extensions (Eds A.P. Kinzig , S.W. Pacala & D. Tilman ), pp. 246-262. Princeton University Press, Princeton.
24. Holyoak M. (2000) Habitat patch arrangement and metapopulation persistence of predators and prey. American Naturalist, 156, 378-389.
25. Holyoak M., Leibold M.A. & Holt R.D. (2005) Metacommunities: Spatial Dynamics and Ecological Communities. pp. 520. University of Chicago Press, Chicago.
26. Hubbell S.P. (2006) Neutral theory and the evolution of ecological equivalence. Ecology, 87, 1387-1398.
27. Jones S.E. & McMahon K.D. (2009) Species-sorting may explain an apparent minimal effect of immigration on freshwater bacterial community dynamics. Environmental Microbiology, 11, 905-913.
28. Kneitel J.M. & Miller T.E. (2003) Dispersal rates affect species composition in metacommunities of Sarracenia purpurea inquilines. American Naturalist, 162, 165-171.
29. Langenheder S., Berga M., Östman Ö. & Székely A.J. (2012) Temporal variation of beta-diversity and assembly mechanisms in a bacterial metacommunity. The ISME Journal, 6, 1107-1114.
30. Langenheder S. & Székely A.J. (2011) Species sorting and neutral processes are both important during the initial assembly of bacterial communities. The ISME Journal, 5, 1086-1094.
31. Leibold M.A. (1998) Similarity and local co-existence of species in regional biotas. Evolutionary Ecology, 12, 95-110.
32. Leibold M.A., Holyoak M., Mouquet N., Amarasekare P., Chase J.M., Hoopes M.F. et al. (2004) The metacommunity concept: a framework for multi-scale community ecology. Ecology Letters, 7, 601-613.
33. Levin S.A. (1974) Dispersion and population interactions. American Naturalist, 108, 207-228.
34. Lindström E.S. & Bergström A.K. (2004) Influence of inlet bacteria on bacterioplankton assemblage composition in lakes of different hydraulic retention time. Limnology and Oceanography, 49, 125-136.
35. Lindström E.S., Feng X.M., Graneli W. & Kritzberg E.S. (2010) The interplay between bacterial community composition and the environment determining function of inland water bacteria. Limnology and Oceanography, 55, 2052-2060.
36. Lindström E.S., Forslund M., Algesten G. & Bergström A.K. (2006) External control of bacterial community structure in lakes. Limnology and Oceanography, 51, 339-342.
37. Lindström E.S. & Langenheder S. (2012) Local and regional factors influencing bacterial community assembly. Environmental Microbiology Reports, 4, 1-9.
38. Lindström E.S. & Östman € O. (2011) The importance of dispersal for bacterial community composition and functioning. PLoS ONE, 6, e25883.
39. Liu W.T., Marsh T.L., Cheng H. & Forney L.J. (1997) Characterization of microbial diversity by determining terminal restriction fragment length polymorphism of genes encoding 16S rRNA. Applied and Environmental Microbiology, 63, 4516-4522.
40. Logue J.B., Langenheder S., Andersson A.F., Bertilsson S., Drakare S., Lanzen A. et al. (2012) Freshwater bacterioplankton richness in oligotrophic lakes depends on nutrient availability rather than on species-area relationships. The ISME Journal, 6, 1127-1136.
41. Logue J.B. & Lindström E.S. (2010) Species sorting affects bacterioplankton community composition as determined by 16S rDNA and 16S rRNA fingerprints. The ISME Journal, 4, 729-738.
42. Masin M., Jezbera J., Nedoma J., Straskrabova V., Hejzlar J. & Simek K. (2003) Changes in bacterial community composition and microbial activities along the longitudinal axis of two canyon-shaped reservoirs with different inflow loading. Hydrobiologia, 504, 99-113.
43. Matthiessen B. & Hillebrand H. (2006) Dispersal frequency affects local biomass production by controlling local diversity. Ecology Letters, 9, 652-662.
44. Mouquet N. & Loreau M. (2002) Coexistence in metacommunities: the regional similarity hypothesis. American Naturalist, 159, 420-426.
45. Mouquet N. & Loreau M. (2003) Community patterns in source-sink metacommunities. American Naturalist, 162, 544-557.
46. Nelson C.E., Sadro S. & Melack J.M. (2009) Contrasting the influences of stream inputs and landscape position on bacterioplankton community structure and dissolved organic matter composition in high-elevation lake chains. Limnology and Oceanography, 54, 1292-1305.
47. Ofiteru I.D., Lunn M., Curtis T.P., Wells G.F., Criddle C.S., Francis C.A. et al. (2010) Combined niche and neutral effects in a microbial wastewater treatment community. Proceedings of the National Academy of Sciences of the United States of America, 107, 15345-15350.
48. Oksanen J., Blanchet F., Kindt R., Legendre P., Minchin P., O'hara R. et al. (2013) vegan: Community Ecology Package. R-package version 2.0-7. Available at: http://CRAN.R-project.org/package=vegan.
49. Östman Ö., Drakare S., Kritzberg E.S., Langenheder S., Logue J.B. & Lindström E.S. (2010) Regional invariance among microbial communities. Ecology Letters, 13, 118-127.
50. östman Ö., Drakare S., Kritzberg E.S., Langenheder S., Logue J.B. & Lindström E.S. (2012) Importance of space and the local environment for linking local and regional abundances of microbes. Aquatic Microbial Ecology, 67, 35-U158.
51. Preston-Mafham J., Boddy L. & Randerson P.F. (2002) Analysis of microbial community functional diversity using sole-carbon-source utilisation profiles - a critique. FEMS Microbiology Ecology, 42, 1-14.
52. Pulliam H.R. (1988) Sources, sinks, and population regulation. American Naturalist, 132, 652-661.
53. Pulliam H.R. (2000) On the relationship between niche and distribution. Ecology Letters, 3, 349-361.
54. Schauer R., Bienhold C., Ramette A. & Harder J. (2010) Bacterial diversity and biogeography in deep-sea surface sediments of the South Atlantic Ocean. The ISME Journal, 4, 159-170.
55. Shabarova T., Widmer F. & Pernthaler J. (2013) Mass effects meet species sorting: transformations of microbial assemblages in epiphreatic subsurface karst water pools. Environmental Microbiology, 15, 2476-2488.
56. Shmida A. & Ellner S. (1984) Coexistence of plant-species with similar niches. Vegetatio, 58, 29-55.
57. Shmida A. & Whittaker R.H. (1981) Pattern and biological microsite effects in 2 shrub communities, Southern-California. Ecology, 62, 234-251.
58. Shmida A. & Wilson M.V. (1985) Biological determinants of species diversity. Journal of Biogeography, 12, 1-20.
59. Shurin J.B. (2001) Interactive effects of predation and dispersal on zooplankton communities. Ecology, 82, 3404-3416.
60. Sloan W.T., Lunn M., Woodcock S., Head I.M., Nee S. & Curtis T.P. (2006) Quantifying the roles of immigration and chance in shaping prokaryote community structure. Environmental Microbiology, 8, 732-740.
61. Smalla K., Oros-Sichler M., Milling A., Heuer H., Baumgarte S., Becker R. et al. (2007) Bacterial diversity of soils assessed by DGGE, T-RFLP and SSCP fingerprints of PCR-amplified 16S rRNA gene fragments: do the different methods provide similar results? Journal of Microbiological Methods, 69, 470-479.
62. Van Der Gucht K., Cottenie K., Muylaert K., Vloemans N., Cousin S., Declerck S. et al. (2007) The power of species sorting: local factors drive bacterial community composition over a wide range of spatial scales. Proceedings of the National Academy of Sciences of the United States of America, 104, 20404-20409.
63. Venail P.A., Maclean R.C., Bouvier T., Brockhurst M.A., Hochberg M.E. & Mouquet N. (2008) Diversity and productivity peak at intermediate dispersal rate in evolving metacommunities. Nature, 452, 210-U257.
64. Venail P.A., Maclean R.C., Meynard C.N. & Mouquet N. (2010) Dispersal scales up the biodiversity-productivity relationship in an experimental source-sink metacommunity. Proceedings of the Royal Society B-Biological Sciences, 277, 2339-2345.
65. Verreydt D., De Meester L., Decaestecker E., Villena M.-J., Van Der Gucht K., Vannormelingen P. et al. (2012) Dispersal-mediated trophic interactions can generate apparent patterns of dispersal limitation in aquatic metacommunities. Ecology Letters, 15, 218-226.
66. Whitaker R.J., Grogan D.W. & Taylor J.W. (2003) Geographic barriers isolate endemic populations of hyperthermophilic archaea. Science, 301, 976-978.
67. Wilson M.V. & Shmida A. (1984) Measuring beta diversity with presence-absence data. Journal of Ecology, 72, 1055-1064.
68. Woodcock S., Van Der Gast C.J., Bell T., Lunn M., Curtis T.P., Head I.M. et al. (2007) Neutral assembly of bacterial communities. FEMS Microbiology Ecology, 62, 171-180.