Skip to main content Accessibility help
×
Hostname: page-component-848d4c4894-2xdlg Total loading time: 0 Render date: 2024-06-24T12:57:46.014Z Has data issue: false hasContentIssue false

14 - Micro-organisms

Published online by Cambridge University Press:  29 December 2009

Michael F. Allen
Affiliation:
Center for Conservation Biology, University of California, Riverside CA, USA
David A. Jasper
Affiliation:
Soil Science and Plant Nutrition, School of Agriculture, University of Western Australia, Nedlands, WA, Australia
John C. Zak
Affiliation:
Ecology Program, Department of Biological Sciences, Texas Technical University, Lubbock TX, USA
Martin R. Perrow
Affiliation:
University of East Anglia
Anthony J. Davy
Affiliation:
University of East Anglia
Get access

Summary

INTRODUCTION

Most restoration ecologists have concerned themselves with the re-establishment of desirable plants and animals but generally overlook the resource base upon which the animal and plant communities are maintained, the soils. Reconstructing the soils is difficult because a soil comprises both organic and inorganic components that have weathered in situ for a very long time. As such, despite the best efforts, soils that have been reconstructed always contain early-successional characteristics (see Marrs, this volume). In most situations, the plants that colonise early-successional sites and are capable of surviving on these soils are not those that are considered desirable for restoration ‘success’. Restoration managers are primarily responsible for placing late seral vegetation into early seral soils.

Existing at the interface of plant and soil are soil organisms: the most diverse group of organisms at any site. Current estimates using molecular diversity measurements suggest that there are from 4000 to 40,000 distinct genetic populations of soil organisms per gram of soil, of which only less than 5% potentially may be cultured (e.g. Collins et al., 1995; Allen et al., in press)! No accurate estimates of soil organism richness across a landscape exist but it certainly is in the thousands to millions. These organisms change with successional time (many form highly specific associations with a limited number of plant species) in addition to their activities being altered due to discontinuous resource inputs (in the form of organic matter) and soil structural and compositional changes.

Type
Chapter
Information
Publisher: Cambridge University Press
Print publication year: 2002

Access options

Get access to the full version of this content by using one of the access options below. (Log in options will check for institutional or personal access. Content may require purchase if you do not have access.)

References

Aldon, E. F. (1975). Endomycorrhizae enhance survival and growth of fourwing saltbush on coalmine spoils. USDA Forest Service Research Note R. M., 294, 1–5Google Scholar
Allen, E. B. & Allen, M. F. (1980). Natural re-establishment of vesicular-arbuscular mycorrhizae following stripmine reclamation in Wyoming. Journal of Applied Ecology, 17, 139–147CrossRefGoogle Scholar
Allen, E. B. & Allen, M. F. (1986). Water relations of xeric grasses in the field: interactions of mycorrhizae and competition. New Phytologist, 104, 559–571CrossRefGoogle Scholar
Allen, E. B., Chambers, J. C., Conner, K. F., Allen, M. F. & Brown, R. W. (1987). Natural reestablishment of mycorrhizae in disturbed alpine ecosystems. Arctic and Alpine Research, 19, 11–20CrossRefGoogle Scholar
Allen, E. B., Allen, M. F., Helm, D. J., Trappe, J. M., Molina, R. & Rincon, E. (1995). Patterns and regulation of mycorrhizal plant and fungal diversity. Plant and Soil, 170, 47–62CrossRefGoogle Scholar
Allen, E. B., Brown, J. S., & Allen, M. F. (in press). Restoration and Biodiversity. In Encyclopedia of Biodiversity, ed. S. Levin. San Diego, CA: Academic Press
Allen, M. F. (1987). Re-establishment of mycorrhizas on Mount St. Helens: migration vectors. Transactions of the British Mycological Society, 88, 413–417CrossRefGoogle Scholar
Allen, M. F. (1988a). Re-establishment of VA mycorrhizae following severe disturbance: comparative patch dynamics of a shrub desert and a subalpine volcano. Proceedings of the Royal Society of Edinburgh, 94B, 63–71Google Scholar
Allen, M. F. (1988b). Belowground spatial patterning: influence of root architecture, microorganisms and nutrients on plant survival in arid lands. In The Reconstruction of Disturbed Arid Lands: An Ecological Approach, ed. E. B. Allen, pp. 113–135. Boulder, CO: Westview Press
Allen, M. F. (1991). The Ecology of Mycorrhizae. Cambridge: Cambridge University Press
Allen, M. F. (1993). Microbial and phosphate dynamics in a restored shrub steppe in southwestern Wyoming. Restoration Ecology, 1, 196–205CrossRefGoogle Scholar
Allen, M. F. (2000). Mycorrhizae. In Encyclopedia of Microbiology, Vol. 3, ed. M. Alexander, pp. 328–336. San Diego, CA: Academic Press
Allen, M. F. & Friese, C. F. (1992). Mycorrhizae and reclamation success: importance and measurement. In Evaluating Reclamation Success: The Ecological Considerations, General Technical Report no, NE-164, eds. J. C. Chambers & G. L. Wade, pp. 17–25. Radnor, PA: US Department of Agriculture Forest Service
Allen, M. F. & MacMahon, J. A. (1985). Impact of disturbance on cold desert fungi: comparative microscale dispersion patterns. Pedobiologia, 28, 215–224Google Scholar
Allen, M. F. & MacMahon, J. A. (1988). Direct VA mycorrhizal inoculation of colonizing plants by pocket gophers (Thomomys talpoides) on Mount St Helens. Mycologia, 80, 754–756CrossRefGoogle Scholar
Allen, M. F., Allen, E. B. & West, N. E. (1987). Influence of parasitic and mutualistic fungi on Artemisia tridentata during high precipitation years. Bulletin of the Torrey Botanical Club, 114, 272–279CrossRefGoogle Scholar
Allen, M. F., Hipps, L. E. & Wooldridge, G. L. (1989). Wind dispersal and subsequent establishment of VA mycorrhizal fungi across a successional arid landscape. Landscape Ecology, 2, 165–172CrossRefGoogle Scholar
Allen, M. F., Crisafulli, C., Friese, C. F. & Jeakins, S. L. (1992). Re-formation of mycorrhizal symbioses on Mount St Helens, 1980–1990: interactions of rodents and mycorrhizal fungi. Mycological Research, 96, 447–453CrossRefGoogle Scholar
Allen, M. F., Allen, E. B., Dahm, C. N. & Edwards, F. S. (1993). Preservation of biological diversity in mycorrhizal fungi: importance and human impacts. In Human Impact on Self-Recruiting Populations, ed. G. Sundnes, pp. 81–105. Trondheim, Norway: Tapir Publishers
Allen, M. F., Klironomos, J. & Harney, S. K. (1997). The epidemiology of mycorrhizal fungi during succession. In The Mycota, Vol. VB, eds. Cr. Carroll & P. Tudzynski, pp. 169–183. Berlin: Springer-Verlag
Allen, M. F., Allen, E. B., Zink, T. A., Harney, S., Yoshida, L. C., Siguenza, C., Edwards, F., Hinkson, C., Rillig, M., Bainbridge, D., Doljanin, C., & MacAller, R. (1999). Soil microorganisms. In Ecosystems of the World, Vol. 16, Ecosystems of Disturbed Ground, ed. L. Walker, pp. 521–544. New York: Elsevier
Atlas, R. M. & Bartha, R. (1993). Microbial Ecology. Redwood City, CA: Benjamin & Cummings
Azcon-Aguilar, C. & Barea, J. M. (1992). Interactions between mycorrhizal fungi and other rhizosphere microorganisms. In Mycorrhizal Functioning, ed. M. F. Allen, pp. 163–198. London: Chapman & Hall
Belnap, J. (1993). Recovery rates of cryptobiotic crusts: inoculant use assessment methods. Great Basin Naturalist, 53, 89–95Google Scholar
Belnap, J. & Gillette, D. A. (1998). Vulnerability of desert biological soil crusts to wind erosion: the influences of crust development, soil texture, and disturbance. Journal of Arid Environments, 39, 133–142CrossRefGoogle Scholar
Bergerson, F. S. (1970). Some Australian studies relating to the long-term effects of the inoculation of legume seeds. Plant and Soil, 32, 727–736CrossRefGoogle Scholar
Bethlenfalvay, G. J. (1993). Mycorrhizae in sustainable agriculture plant–soil system. Symbiosis, 14, 413–425Google Scholar
Burggraaf, A. J. P. & Shipton, W. A. (1982). Estimates of Frankia growth under various pH and temperature regimes. Plant and Soil, 69, 135–147CrossRefGoogle Scholar
Call, C. A. & McKell, C. M. (1982). Vesicular-arbuscular mycorrhizae: a natural revegetation strategy for disposed processed oil shale. Reclamation and Revegetation Research, 1, 337–347Google Scholar
Carpenter, A. T. & Allen, M. F. (1988). Responses of Hedysarum boreale to mycorrhizas and Rhizobium plant and soil nutrient changes. New Phytologist, 109, 125–132CrossRefGoogle Scholar
Chatel, D. L. & Parker, C. A. (1973). Survival of field-grown rhizobia over the dry summer period in Western Australia. Soil Biology and Biochemistry, 5, 415–423CrossRefGoogle Scholar
Christensen, M. (1981). Species diversity and dominance in fungal communities. In The Fungal Community: Its Organization and Role in the Ecosystems, eds. D. T. Wicklow & G. C. Carroll, pp. 201–231. New York: Marcel Dekker
Collins, H. P., Robertson, G. P. & Klug, M. S. (1995). The Significance and Regulation of Soil Biodiversity. Dordrecht, The Netherlands: Kluwer
Curry, J. P. & Good, J. A. (1992). Soil faunal degradation and restoration. In Soil Restoration, Advances in Soil Science, eds. R. Lal & B. S. Stewart, pp. 171–216. New York: Springer-VerlagCrossRef
Davies, F. T. Jr & Call, C. A. (1990). Mycorrhizae, survival and growth of selected woody plant species in lignite overburden in Texas [USA]. Agriculture Ecosystems and Environment, 31, 243–252CrossRefGoogle Scholar
deBary, A. (1887). Comparative Morphology and Biology of the Fungi, Mycettozoa and Bacteria. Oxford: Clarendon Press
Eldridge, D. J. & Rosentreter, R. (1999). Morphological groups: a framework of monitoring microphytic crusts in arid landscapes. Journal of Arid Environments, 41, 11–25CrossRefGoogle Scholar
Elkins, N. Z., Parker, L. W., Aldon, E. & Whitford, W. G. (1984). Responses of soil biota to organic amendments in stripmine spoils in Northwestern New Mexico. Journal of Environmental Quality, 13, 215–219CrossRefGoogle Scholar
Evans, R. D., & Belnap, J. (1999). Long-term consequences of disturbance on nitrogen dynamics in an arid ecosystem. Ecology, 80, 150–160CrossRefGoogle Scholar
Forman, R. T. T. (1975). Canopy lichens with blue-green algae: a nitrogen source in a Colombian rain forest. Ecology, 56, 1176–1184CrossRefGoogle Scholar
Fresquez, P. R. & Dennis, G. L. (1990). Composition of fungal groups associated with sewage sludge amended grassland soils. Arid Soil Research and Rehabilitation, 4, 19–32CrossRefGoogle Scholar
Fresquez, P. R., Aldon, E. F. & Lindemann, W. C. (1986). Microbial re-establishment and the diversity of fungal genera in reclaimed coal mine spoils and soils. Reclamation and Revegetation Research, 4, 359–367Google Scholar
Friese, C. F. & Allen, M. F. (1991). The spread of VA mycorrhizal fungal hyphae in the soil: inoculum types and external hyphal architecture. Mycologia, 83, 409–418CrossRefGoogle Scholar
Friese, C. F. & Allen, M. F. (1993). The interaction of harvester ants and VA mycorrhizal fungi in a patchy semi-arid environment: the effects of mound structure on fungal dispersion and establishment. Functional Ecology, 7, 13–20CrossRefGoogle Scholar
Gardner, J. H. & Malajczuk, N. (1988). Recolonization of rehabilitated Bauxite mine sites in Western Australia by mycorrhizal fungi. Forest Ecology and Management, 24, 27–42CrossRefGoogle Scholar
Helm, D. J. & Carling, D. E. (1993). Use of soil transfer for reforestation on abandoned mined lands in Alaska. 2: Effects of soil transfers from different successional stages on growth and mycorrhizal formation by Populus balsamifera and Alnus crispa. Mycorrhiza, 3, 107–114CrossRefGoogle Scholar
Insam, H. & Domsch, K. H. (1988). Relationship between soil organic carbon and microbial biomass on chronosequences of reclamation sites. Microbial Ecology, 15, 177–188CrossRefGoogle ScholarPubMed
Jasper, D. A. (1994). Management of mycorrhizas in revegetation. In Management of Mycorrhizas in Agriculture, Horticulture and Forestry, eds. A. D. Robson, L. K. Abbott & N. Malajczuk, pp. 211–219. Dordrecht, The Netherlands: Kluwer
Jasper, D. A., Robson, A. D. & Abbott, L. K. (1987). The effect of surface mining on the infectivity of vesicular arbuscular mycorrhizal fungi. Australian Journal of Botany, 35, 641–652CrossRefGoogle Scholar
Jasper, D. A., Abbott, L. K. & Robson, A. D. (1989). Hyphae of a vesicular-arbuscular mycorrhizal fungus maintain infectivity in dry soil, except when the soil is disturbed. New Phytologist, 112, 101–107CrossRefGoogle Scholar
Jasper, D. A., Abbott, L. K. & Robson, A. D. (1991). The effect of soil disturbance on vesicular-arbuscular mycorrhizal fungi in soils from different vegetation types. New Phytologist, 118, 471–476CrossRefGoogle Scholar
Klein, D. A., McLendon, T., Paschke, M. W. & Redente, E. F. (1994). Saprophytic fungal–bacterial biomass variations in successional communities of a semi-arid steppe ecosystem. Biology and Fertility of Soils, 19, 253–256CrossRefGoogle Scholar
Klein, D. A., Paschke, M. W. & Redente, E. F. (1998). Assessment of fungal–bacterial development in a successional shortgrass steppe by direct integration of chloroform-fumigation extraction (FE) and microscopically derived data. Soil Biology and Biochemistry, 30, 573–581CrossRefGoogle Scholar
Klopatek, C. C., DeBano, L. F. & Klopatek, J. M. (1988). Effects of simulated fire on vesicular-arbuscular mycorrhizae in pinyon-juniper woodland soil. Plant and Soil, 109, 245–249CrossRefGoogle Scholar
Kowalski, S. (1982). Role of mycorrhiza and soil fungi in natural regeneration of fir (Abies alba Mill) in Polish Carpathians and Sudetes. European Journal of Forest Pathology, 12, 107–112CrossRefGoogle Scholar
Lange, O. L., Belnap, J., & Reichenberger, H. (1998). Photosynthesis of the cyanobacterial soil-crust lichen Collema tenax from arid lands in southern Utah, USA: role of water content on light and temperature responses of CO2 exchange. Functional Ecology, 12, 195–202CrossRefGoogle Scholar
Marx, D. H., Cordell, C. E., Kenney, D. S., Mexal, J. G., Artman, J. D., Riffle, J. W. & Molina, R. J. (1984). Commercial vegetative inoculum of Pisolithus tinctorius and inoculation techniques for development of ectomycorrhizae on bare-root tree seedlings. Forest Science Monograph, 25, 1–101Google Scholar
Mikola, P. (1980). Tropical Mycorrhiza Research. Oxford: Clarendon Press
Miller, R. M. (1984). Microbial ecology and nutrient cycling in disturbed arid ecosystems. In Ecological Studies of Disturbed Landscapes: A Compendium of the Results of Five Years of Research Aimed at the Restoration of Disturbed Ecosystems, DOE/NBM-5009372 (DE85009372), technical ed. A. J. Dvorak, pp. 3–1–3–29. Office of Scientific and Technical Information, US Department of Energy
Moldenke, A. R. & Lattin, J. D. (1990). Density and diversity of soil arthropods as biological probes of complex soil phenomena. Northwest Environmental Journal, 6, 409–410Google Scholar
Murie, A. (1962). Mammals of Denali. Denali, AK: Alaska Natural History Association
Nash, T. H. III (1996). Lichen Biology. Cambridge: Cambridge University Press
Parke, J. L., Linderman, R. G. & Trappe, J. M. (1983a). Effect of root zone temperature on ectomycorrhiza and vesicular-arbuscular mycorrhiza formation in disturbed and undisturbed soils of southwest Oregon. Canadian Journal of Forest Research, 13, 657–665CrossRefGoogle Scholar
Parke, J. L., Linderman, R. G. & Trappe, J. M. (1983b). Effects of forest litter on mycorrhiza development and growth of Douglas-fir and western red cedar seedlings. Canadian Journal of Forest Research, 13, 666–671CrossRefGoogle Scholar
Paul, E. A. & Clark, F. E. (1996). Soil Microbiology and Biochemistry. San Diego, CA: Academic Press
Pilz, D. P. & Perry, D. A. (1984). Impact of clearcutting and slash burning on ectomycorrhizal associations of Douglas-fir seedlings. Canadian Journal of Forest Research, 14, 94–100CrossRefGoogle Scholar
Read, D. J. (1983). The biology of mycorrhiza in the Ericales. Canadian Journal of Botany, 61, 985–1004CrossRefGoogle Scholar
Schlesinger, W. H., Reynolds, J. F., Cunningham, G. L., Huenneke, L. F., Jarrell, W. M., Virginia, R. A. & Whitford, W. G. (1990). Biological feedbacks in global desertification. Science, 247, 1043–1048CrossRefGoogle ScholarPubMed
Schwab, S. & Reeves, F. B. (1981). The role of endomy corrhizae in revegetation practices in the semiarid west. 3: Vertical distribution of vesicular-arbuscular mycorrhiza inoculum potential. American Journal of Botany, 68, 1293–1297CrossRefGoogle Scholar
Shipton, W. A. & Burggraaf, A. J. P. (1982). Frankia growth and activity as inluenced by water potential. Plant and Soil, 69, 293–297CrossRefGoogle Scholar
Smith, S. E. & Read, D. J. (1997). Mycorrhizal Symbiosis, 2nd edn. San Diego, CA: Academic Press
Smolander, A. & Sundman, V. (1987). Frankia in acid soils of forests devoid of actinorhizal plants. Physiologia Plantarum, 70, 297–303CrossRefGoogle Scholar
Sprent, J. I. (1987). The Ecology of the Nitrogen Cycle. Cambridge: Cambridge University Press
Stanton, N. L. & Krementz, D. (1982). Nematode densities on reclaimed sites on a cold desert shrub-steppe. Reclamation and Revegetation Research, 1, 233–241Google Scholar
Stanton, N. L., Allen, M. F. & Campion, M. (1981). The effect of the pesticide carbofuran on soil organisms and root and shoot production in shortgrass prairie. Journal of Applied Ecology, 18, 417–431CrossRefGoogle Scholar
Stewart, E. L. & Pfleger, F. L. (1985). Selection and Utilization of Mycorrhizal Fungi in Revegetation of Iron Mining Wastes, A Mining Research Contract Report, Contract No. J0225008, project officer K. Bickel. St Paul, MN: Bureau of Mines, US Department of the Interior
Stylinski, C. & Allen, E. B. (1999). Lack of native species recovery following severe exotic disturbance in southern California shrublands. Journal of Applied Ecology, 36, 544–554CrossRefGoogle Scholar
Waaland, M. E. & Allen, E. B. (1987). Relationships between VA mycorrhizal fungi and plant cover following surface mining in Wyoming. Journal of Range Management, 40, 271–276CrossRefGoogle Scholar
Waksman, S. A. (1927). Microbiological analysis of soil as an aid to soil characterization and classification. Journal of the American Society of Agronomy, 19, 297–311CrossRefGoogle Scholar
Weinbaum, B. S., Allen, M. F. & Allen, E. B. (1996). Survival of arbuscular mycorrhizal fungi following reciprocal transplanting across the Great Basin, USA. Ecological Applications, 6, 1365–1372CrossRefGoogle Scholar
West, N. E. & Skujins, J. (1978). Summary, conclusions, and suggestions for further research. In Nitrogen in Desert Ecosystems, eds. N. E. West & J. Skujins, pp. 244–253. Stroudsburg, PA: Dowden, Hutchinson & Ross, Inc
Whitford, W. G. (1988). Decomposition and nutrient cycling in disturbed arid ecosystems. In The Reconstruction of Disturbed Arid Ecosystems, ed. E. B. Allen, pp. 136–161. Boulder, CO: Westview Press
Wicklow-Howard, M. (1989). The occurrence of vesicular-arbuscular mycorrhizae in burned areas of the Snake River Birds of Prey area, Idaho [USA]. Mycotaxon, 34, 253–258Google Scholar
Wollum, A. G., Youngberg, C. T. & Chichester, F. W. (1968). Relation of previous timber stand age to nodulation of Ceanothus velutinus. Forest Science, 14, 114–118Google Scholar
Zak, J. C. (1992). Responses of soil fungal communities to disturbance. Mycological Research, 9, 403–425Google Scholar
Zak, J. C. & Rabatin, S. C. (1997). Organization and description of fungal Communities. In The Mycota, vol. 4, eds. K. Esser & P. A. Lemke, pp. 33–46. Berlin: Springer-Verlag

Save book to Kindle

To save this book to your Kindle, first ensure [email protected] is added to your Approved Personal Document E-mail List under your Personal Document Settings on the Manage Your Content and Devices page of your Amazon account. Then enter the ‘name’ part of your Kindle email address below. Find out more about saving to your Kindle.

Note you can select to save to either the @free.kindle.com or @kindle.com variations. ‘@free.kindle.com’ emails are free but can only be saved to your device when it is connected to wi-fi. ‘@kindle.com’ emails can be delivered even when you are not connected to wi-fi, but note that service fees apply.

Find out more about the Kindle Personal Document Service.

  • Micro-organisms
    • By Michael F. Allen, Center for Conservation Biology, University of California, Riverside CA, USA, David A. Jasper, Soil Science and Plant Nutrition, School of Agriculture, University of Western Australia, Nedlands, WA, Australia, John C. Zak, Ecology Program, Department of Biological Sciences, Texas Technical University, Lubbock TX, USA
  • Edited by Martin R. Perrow, University of East Anglia, Anthony J. Davy, University of East Anglia
  • Book: Handbook of Ecological Restoration
  • Online publication: 29 December 2009
  • Chapter DOI: https://doi.org/10.1017/CBO9780511549984.016
Available formats
×

Save book to Dropbox

To save content items to your account, please confirm that you agree to abide by our usage policies. If this is the first time you use this feature, you will be asked to authorise Cambridge Core to connect with your account. Find out more about saving content to Dropbox.

  • Micro-organisms
    • By Michael F. Allen, Center for Conservation Biology, University of California, Riverside CA, USA, David A. Jasper, Soil Science and Plant Nutrition, School of Agriculture, University of Western Australia, Nedlands, WA, Australia, John C. Zak, Ecology Program, Department of Biological Sciences, Texas Technical University, Lubbock TX, USA
  • Edited by Martin R. Perrow, University of East Anglia, Anthony J. Davy, University of East Anglia
  • Book: Handbook of Ecological Restoration
  • Online publication: 29 December 2009
  • Chapter DOI: https://doi.org/10.1017/CBO9780511549984.016
Available formats
×

Save book to Google Drive

To save content items to your account, please confirm that you agree to abide by our usage policies. If this is the first time you use this feature, you will be asked to authorise Cambridge Core to connect with your account. Find out more about saving content to Google Drive.

  • Micro-organisms
    • By Michael F. Allen, Center for Conservation Biology, University of California, Riverside CA, USA, David A. Jasper, Soil Science and Plant Nutrition, School of Agriculture, University of Western Australia, Nedlands, WA, Australia, John C. Zak, Ecology Program, Department of Biological Sciences, Texas Technical University, Lubbock TX, USA
  • Edited by Martin R. Perrow, University of East Anglia, Anthony J. Davy, University of East Anglia
  • Book: Handbook of Ecological Restoration
  • Online publication: 29 December 2009
  • Chapter DOI: https://doi.org/10.1017/CBO9780511549984.016
Available formats
×