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Ecomethodology for organoosmotrophs: Prokaryotic unicellular versus eukaryotic mycelial

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Abstract

Although they are very unlikely to play large direct roles in water-column microbial loops, eukaryotic mycelial decomposers (the mycelial true fungi, eumycotes, and zoosporic “fungi,” oomycotes) have the potential to be important secondary producers in decaying plant material in shallow aquatic systems. Their secondary productivity may lead to important exchanges of material with microbial loops: output of ascospores, conidia, zoosporic flagellates, leaked lysates, and particles of decayed plants containing mycelium; input of dissolved organics and inorganic nutrients. Development of methods for ecological study of the aquatic mycelial eukaryotic decomposers has not advanced as rapidly as that for the prokaryotes of microbial loops, probably because (1) there are fewer aquatic microbial ecologists with mycological training and inclination than with prokaryotic leanings; and (2) the mycelial decomposers are difficult to work with, because they produce their mycelial mass virtually entirely within opaque solid substrates. Direct microscopic methods have emerged as prime tools for the measurement of prokaryotic mass, whereas an index-chemical assay (ergosterol) is currently the most efficient way to measure the mass of eumycotes. For measuring productivity of prokaryotes of microbial loops, microbial ecologists may choose from several (>10) published and field-tested methods, involving direct microscopy or monitoring of radiotracers. Extensive reviews of distribution and dynamics of aquatic bacterial mass and productivity have appeared. For measuring productivity of eukaryotic mycelial decomposers, one has only two published methods from which to choose, a direct-microscopic and a radiotracer method, neither of which has had adequate field testing. We are, furthermore, much less well equipped to obtain mass and productivity information for the poorly known mycelial oomycotes than we are for the eumycotes. Application of productivity techniques and nucleic-acid technology, may within the next decade allow knowledge of ecology of aquatic eukaryotic mycelial decomposers to advance to levels approaching that for the prokaryotes of microbial loops.

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References

  1. Azam F, Cho BC (1987) Bacterial utilization of organic matter in the sea. In: Fletcher M, Gray TRG, Jones JG (eds) Ecology of microbial communities. Cambridge University Press, Cambridge, pp 261–281

    Google Scholar 

  2. Bird DF, Kalff J (1993) Protozoan grazing and size-activity structure in limnetic bacterial communities. Can J Fish Aquat Sci 50:370–380

    Google Scholar 

  3. Christensen H (1993) Conversion factors for the thymidine incorporation technique estimated with bacteria in pure culture and on seedling roots. Soil Biol Biochem 25:1085–1096

    Google Scholar 

  4. Cole JJ, Findlay S, Pace ML (1988) Bacterial production in fresh and saltwater ecosystems: a cross-system overview. Mar Ecol Prog Ser 43:1–10

    Google Scholar 

  5. Cooke RC, Whipps JM (1993) Ecophysiology of fungi. Blackwell, Oxford

    Google Scholar 

  6. Dick MW (1990) Phylum Oomycota. In: Margulis L, Corliss JO, Melkonian M, Chapman DJ (eds) Handbook of Protoctista. Jones & Bartlett, Boston, pp 661–685

    Google Scholar 

  7. Ducklow HW, Carlson CA (1992) Oceanic bacterial production. Adv Microb Ecol 12:113–181

    Google Scholar 

  8. Foster LM, Kozak KR, Loftus MG, Stevens JJ, Ross IK (1993) The polymerase chain reaction and its application to filamentous fungi. Mycol Res 97:769–781

    Google Scholar 

  9. Frankland JC (1982) Biomass and nutrient cycling by decomposer basidiomycetes. In: Frankland JC, Hedger JN, Swift MJ (eds) Decomposer basidiomycetes: their biology and ecology. Cambridge University Press, Cambridge, pp 241–261

    Google Scholar 

  10. Fry JC (1988) Determination of biomass. In: Austin B (ed) Methods in aquatic bacteriology. Wiley, New York, pp 27–72

    Google Scholar 

  11. Fry JC (1990) Direct methods and biomass estimation. In: Grigorova R, Norris JR (eds) Techniques in microbial ecology. (Methods in microbiology, vol 22) Academic, New York, pp 41–85

    Google Scholar 

  12. Fuhrman JA, Lee S-H, Masuchi Y, Davis AA, Wilcox RM (1994) Characterization of marine prokaryotic communities via DNA and RNA. Microb Ecol 28:133–145

    Google Scholar 

  13. Gessner MO, Chauvet E (1994) Importance of stream microfungi in controlling breakdown rates of leaf litter. Ecology 75:1807–1817

    Google Scholar 

  14. Goericke R, Welschmeyer NA (1993) The carotenoid-labeling method: measuring specific rates of carotenoid synthesis in natural phytoplankton communities. Mar Ecol Prog Ser 98:157–171

    Google Scholar 

  15. Hollibaugh JT (1994) Relationship between thymidine metabolism, bacterioplankton community metabolic capabilities, and sources of organic matter used for growth. Microb Ecol: 28:117–131

    Google Scholar 

  16. Kirchman DL (1993) Leucine incorporation as a measure of biomass production by heterotrophic bacteria. In: Kemp PF, Sherr BF, Sherr EB, Cole JJ (eds) Handbook of methods in aquatic microbial ecology. Lewis Publishers, Boca Raton, Florida, pp 509–512

    Google Scholar 

  17. Lee S, Fuhrman JA (1987) Relationships between biovolume and biomass of naturally-derived marine bacterioplankton. Appl Environ Microbiol 52:1298–1303

    Google Scholar 

  18. Newell SY (1992) Estimating fungal biomass and productivity in decaying litter. In: Carroll GC, Wicklow DT (eds) The fungal community, second ed. Marcel Dekker, New York, pp 521–561

    Google Scholar 

  19. Newell SY (1993) Membrane-containing fungal mass and fungal specific growth rate in natural samples. In: Kemp PF, Sherr BF, Sherr EB, Cole JJ (eds) Handbook of methods in aquatic microbial ecology. Lewis Publishers, Boca Raton, Florida, pp 579–586

    Google Scholar 

  20. Newell SY (1993) Decomposition of shoots of a salt-marsh grass: methodology and dynamics of microbial assemblages. Adv Microb Ecol 13:301–326

    Google Scholar 

  21. Newell SY, Fallon RD (1991) Toward a method for measuring instantaneous fungal growth rates in field samples. Ecology 72:1547–1559

    Google Scholar 

  22. Newell SY, Fell JW (1994) Parallel testing of media for measuring frequencies of occurrence for Halophytophthora spp. (Oomycota) from decomposing mangrove leaves. Can J Microbiol 40: 250–256

    Google Scholar 

  23. Newell SY, Wasowski J (1995) Sexual productivity and spring intramarsh distribution of a key saltmarsh microbial secondary producer. Estuaries: in press

  24. Newell SY, Fallon RD, Tabor PS (1986) Direct microscopy of natural assemblages. In: Poindexter JS, Leadbetter ER (eds) Bacteria in nature, vol 2. Plenum, New York, pp 1–48

    Google Scholar 

  25. Newell SY, Porter D, Lingle WL (1994) Lignocellulolysis by ascomycetes (Fungi) of a saltmarsh grass (smooth cordgrass). Microse Res Techn: in press

  26. Pedrós-Alió C, Newell SY (1989) Microautoradiographic study of thymidine uptake in brackish waters around Sapelo Island, Georgia, USA. Mar Ecol Prog Ser 55:83–94

    Google Scholar 

  27. Perlmutter DG, Meyer JL (1991) The impact of a stream-dwelling harpacticoid copepod upon detritally associated bacteria. Ecology 72:2170–2180

    Google Scholar 

  28. Pomeroy LR, Wiebe WJ (1988) Energetics of microbial food webs. Hydrobiologia 159:7–18

    Google Scholar 

  29. Proctor LM, Fuhrman JA (1992) Mortality of marine bacteria in response to enrichments of the virus size fraction from salwater. Mar Ecol Prog Ser 87:283–293

    Google Scholar 

  30. Psenner R (1993) Determination of size and morphology of aquatic bacteria by automated image analysis. In: Kemp PF, Sherr BF, Sherr EB, Cole JJ (eds) Handbook of methods in aquatic microbial ecology. Lewis Publishers, Boca Raton, Florida, pp 339–345

    Google Scholar 

  31. Rygiewicz PT, Armstrong JL (1991) Ectomycorrhizal DNA: isolation, RFLPs, and probe hybridization. In: Norris JR, Read DJ, Varma AK (eds) Techniques for the study of mycorrhiza. (Methods in microbiology, vol 23) Academic, New York, pp 253–280

    Google Scholar 

  32. Scarborough GA (1970) Sugar transport in Neurospora crassa. II. A second glucose transport system. J Biol Chem 245:3985–3987

    Google Scholar 

  33. Schut F, De Vries EJ, Gottschal JC, Robertson BR, Harder W, Prins RA, Button DK (1993) Isolation of typical marine bacteria by dilution culture: growth, maintenance, and characteristics of isolates under laboratory conditions. Appl Environ Microbiol 59:2150–2160

    Google Scholar 

  34. Shearer CA (1993) The freshwater ascomycetes. Nova Hedwigia 56:1–33

    Google Scholar 

  35. Sherr BF, Sherr EB, Andrew TL, Fallon RD, Newell SY (1986) Trophic interactions between heterotrophic protozoa and bacterioplankton in estuarine water analyzed with selective metabolic inhibitors. Mar Ecol Prog Ser 32:169–179

    Google Scholar 

  36. Srebotnik E, Messner K (1990) Enzymatic attack of wood is limited by the inaccessibility of the substrate. In: Kirk TK, Chang H-M (eds) Biotechnology in pulp and paper manufacture. Applications and fundamental investigations. Butterworth-Heinemann, Boston, pp 111–119

    Google Scholar 

  37. Suberkropp K (1991) Relationships between growth and sporulation of aquatic hyphomycetes on decomposing leaf litter. Mycol Res 95:843–850

    Google Scholar 

  38. Suberkropp K (1992) Aquatic hyphomycete communities. In: Carroll GC, Wicklow DT (eds) The fungal community, second ed. Marcel Dekker, New York, pp 729–747

    Google Scholar 

  39. Toth R (1992) The quantification of arbuscules and related structures using morphometric cytology. In: Norris, JR, Read DJ, Varma AK (eds) Techniques for the study of mycorrhiza. (Methods in microbiology, vol 24) Academic, New York, pp 275–299

    Google Scholar 

  40. Velji MI, Albright LJ (1993) Improved sample preparation for enumeration of aggregated aquatic substrate bacteria. In: Kemp PF, Sherr BF, Sherr EB, Cole JJ (eds) Handbook of methods in aquatic microbial ecology. Lewis Publishers, Boca Raton, Florida, pp 139–142

    Google Scholar 

  41. Weisse T (1991) The microbial food web and its sensitivity to eutrophication and contaminant enrichment: a cross-system overview. Int Rev ges Hydrobiol 76:327–337

    Google Scholar 

  42. Wicks RJ, Moran MA, Pittman LJ, Hodson RE (1991) Carbohydrate signatures of aquatic macrophytes and their dissolved degradation products as determined by a sensitive high-performance ion chromatography method. Appl Environ Microbiol 57:3135–3143

    Google Scholar 

  43. Zelles L (1988) The simultaneous determination of muramic acid and glucosamine in soil by high-performance liquid chromatography with precolumn fluorescence derivatization. Biol Fertil Soils 6:125–130

    Google Scholar 

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Newell, S.Y. Ecomethodology for organoosmotrophs: Prokaryotic unicellular versus eukaryotic mycelial. Microb Ecol 28, 151–157 (1994). https://doi.org/10.1007/BF00166803

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