The DOI matches its Crossref record; 45 of the 45 references it cites were found in a registry or an index.
Spatial Ecology of Bacteria at the Microscale in Soil
Open accessAbstract
Despite an exceptional number of bacterial cells and species in soils, bacterial diversity seems to have little effect on soil processes, such as respiration or nitrification, that can be affected by interactions between bacterial cells. The aim of this study is to understand how bacterial cells are distributed in soil to better understand the scaling between cell-to-cell interactions and what can be measured in a few milligrams, or more, of soil. Based on the analysis of 744 images of observed bacterial distributions in soil thin sections taken at different depths, we found that the inter-cell distance was, on average 12.46 µm and that these inter-cell distances were shorter near the soil surface (10.38 µm) than at depth (>18 µm), due to changes in cell densities. These images were also used to develop a spatial statistical model, based on Log Gaussian Cox Processes, to analyse the 2D distribution of cells and construct realistic 3D bacterial distributions. Our analyses suggest that despite the very high number of cells and species in soil, bacteria only interact with a few other individuals. For example, at bacterial densities commonly found in bulk soil (10(8) cells g(-1) soil), the number of neighbours a single bacterium has within an interaction distance of ca. 20 µm is relatively limited (120 cells on average). Making conservative assumptions about the distribution of species, we show that such neighbourhoods contain less than 100 species. This value did not change appreciably as a function of the overall diversity in soil, suggesting that the diversity of soil bacterial communities may be species-saturated. All in all, this work provides precise data on bacterial distributions, a novel way to model them at the micrometer scale as well as some new insights on the degree of interactions between individual bacterial cells in soils.
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EFFECTS OF BIODIVERSITY ON ECOSYSTEM FUNCTIONING: A CONSENSUS OF CURRENT KNOWLEDGE
Hooper, D. U., Chapin, F. S., Ewel, J. J., Hector, A., Inchausti, P., Lavorel, S., Lawton, J. H., Lodge, D. M., Loreau, M., Naeem, S., et al. (2005) · Ecological Monographs · doi:10.1890/04-0922 · Cited by 8,046
Fisher, R. A., Corbet, A. S., & Williams, C. B. (1943) · The Journal of Animal Ecology · doi:10.2307/1411 · Cited by 3,487
The Massachusetts Institute of Technology
Endowed, S. C. F. (1999) · Anthropology News · doi:10.1111/an.1999.40.2.6 · Cited by 3,135
spatstat: An R Package for Analyzing Spatial Point Patterns
Baddeley, A., & Turner, R. (2005) · Journal of Statistical Software · doi:10.18637/jss.v012.i06 · Cited by 2,328
Fierer, N., Lauber, C. L., Ramirez, K. S., Zaneveld, J., Bradford, M. A., & Knight, R. (2012) · The ISME Journal · doi:10.1038/ismej.2011.159 · Cited by 1,866
Pyrosequencing enumerates and contrasts soil microbial diversity
Roesch, L. F. W., Fulthorpe, R. R., Riva, A., Casella, G., Hadwin, A. K. M., Kent, A. D., Daroub, S. H., Camargo, F. A. O., Farmerie, W. G., & Triplett, E. W. (2007) · The ISME Journal · doi:10.1038/ismej.2007.53 · Cited by 1,852
Lauber, C. L., Strickland, M. S., Bradford, M. A., & Fierer, N. (2008) · Soil Biology and Biochemistry · doi:10.1016/j.soilbio.2008.05.021 · Cited by 1,834
High diversity in DNA of soil bacteria
Torsvik, V, Goksøyr, J., & Daae, F. L. (1990) · Applied and Environmental Microbiology · doi:10.1128/aem.56.3.782-787.1990 · Cited by 1,740
Global patterns in belowground communities
Fierer, N., Strickland, M. S., Liptzin, D., Bradford, M. A., & Cleveland, C. C. (2009) · Ecology Letters · doi:10.1111/j.1461-0248.2009.01360.x · Cited by 1,218
Cornell, H. V., & Lawton, J. H. (1992) · The Journal of Animal Ecology · doi:10.2307/5503 · Cited by 1,068
Cited by
Microbial hotspots and hot moments in soil: Concept & review
Kuzyakov, Y., & Blagodatskaya, E. (2015) · Soil Biology and Biochemistry · doi:10.1016/j.soilbio.2015.01.025 · Cited by 1,872
Bacteria and archaea on Earth and their abundance in biofilms
Flemming, H.-C., & Wuertz, S. (2019) · Nature Reviews Microbiology · doi:10.1038/s41579-019-0158-9 · Cited by 1,729
Life and death in the soil microbiome: how ecological processes influence biogeochemistry
Sokol, N. W., Slessarev, E., Marschmann, G. L., Nicolas, A., Blazewicz, S. J., Brodie, E. L., Firestone, M. K., Foley, M. M., Hestrin, R., Hungate, B. A., et al. (2022) · Nature Reviews Microbiology · doi:10.1038/s41579-022-00695-z · Cited by 1,179
Christou, A., Agüera, A., Bayona, J. M., Cytryn, E., Fotopoulos, V., Lambropoulou, D., Manaia, C. M., Michael, C., Revitt, M., Schröder, P., et al. (2017) · Water Research · doi:10.1016/j.watres.2017.07.004 · Cited by 590
Counteraction of antibiotic production and degradation stabilizes microbial communities
Kelsic, E. D., Zhao, J., Vetsigian, K., & Kishony, R. (2015) · Nature · doi:10.1038/nature14485 · Cited by 344
Metadata
- Authors
- Raynaud, X., & Nunan, N.
- Venue
- PLoS ONE
- Publisher
- Public Library of Science (PLoS)
- Published
- 2014-01-28
- Volume
- 9
- Issue
- 1
- Pages
- e87217
- ISSN
- 1932-6203 (ISSN-L)
- OpenAlex
- W2075364748
- Cited by
- 401
- References
- 45
- FWCI
- 14.82
- Type
- journal article
- Language
- en
- Open access
- gold
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