Fungal Decomposers in Freshwater Environments

  • Vladislav GulisEmail author
  • Rong Su
  • Kevin A. Kuehn
Part of the Advances in Environmental Microbiology book series (AEM, volume 7)


Streams, rivers, and freshwater marshes often depend on plant litter as a source of carbon, nutrients, and energy that drive ecosystem processes. Decomposition of this organic matter, such as leaves, wood, or emergent macrophytes, is mediated mostly by fungi, whereas the role of bacteria is minor. Fungal colonization leads to enzymatic breakdown of major plant polymers and fungal biomass accrual (often around 10% of total detrital dry mass), which makes decaying plant material more palatable to detritivorous invertebrates. Representatives of almost all major groups of fungi can be isolated from decaying plant litter collected in freshwater ecosystems or detected using molecular techniques; however, ascomycetes, including their asexual stages (e.g., aquatic hyphomycetes in streams), predominate. In recent years, utilization of radioisotopic approaches (e.g., acetate incorporation into ergosterol) to estimate fungal growth rates and production has facilitated the construction of partial carbon budgets for decaying plant litter that illustrate the importance of fungal decomposers in both lotic and lentic systems. For example, some estimates suggest that 23–60% of leaf litter carbon loss in streams can be explained by fungal assimilation (production plus respiration), which does not include fungal-mediated losses as fine particulate or dissolved organic carbon. Estimates of fungal contribution to plant carbon loss can be even higher (47–65%) in standing-dead emergent macrophyte systems in wetlands. The effects of environmental variables on fungal activity and plant litter decomposition in freshwaters, including inorganic nutrient availability and eutrophication, have also received considerable attention in the recent years. Molecular approaches are now becoming increasingly important in both streams and wetlands to assess the effects of environmental variables on litter-associated fungal assemblages. However, there are considerable differences in fungal dynamics and assemblages between streams and freshwater wetlands, which are discussed here in detail.


Streams Aquatic hyphomycetes Fungal biomass Fungal production Wetlands Macrophytes 


Compliance with Ethical Standards


Financial support from the National Science Foundation (DEB 0919054, DEB 1655797 to VG and DBI 0420965, DBI 0923063, DEB 0315686, DEB 1457217 to KAK) is gratefully acknowledged.

Conflict of Interest

Vladislav Gulis declares that he/she has no conflict of interest. Rong Su declares that he/she has no conflict of interest. Kevin A. Kuehn declares that he/she has no conflict of interest.

Ethical Approval

This article does not contain any studies with human participants or animals performed by any of the authors.


  1. Abdullah SK, Taj-Aldeen SJ (1989) Extracellular enzymatic activity of aquatic and aero-aquatic conidial fungi. Hydrobiologia 174:217–223CrossRefGoogle Scholar
  2. Apinis AE, Taligoola HK (1974) Biodegradation of Phragmites communis Trin. by fungi. In: Kilbertus G, Reisinger O, Concela Da Fonseca JA (eds) Biodegradation et humification. Sarreguemines, Pierron, pp 24–32Google Scholar
  3. Apinis AE, Chesters CGC, Taligoola HK (1975) Microfungi colonizing nodes and internodes of aerial standing dead culms of Phragmites communis Trin. Nova Hedwigia 26:495–507Google Scholar
  4. Asaeda T, Nam L, Hietz P et al (2002) Seasonal fluctuations in live and dead biomass of Phragmites australis as described by a growth and decomposition model: implications of duration of aerobic conditions for litter mineralization and sedimentation. Aquat Bot 73:223–239CrossRefGoogle Scholar
  5. Baldy V, Gessner MO (1997) Towards a budget of leaf litter decomposition in a first-order woodland stream. C R Acad Sci Paris, Ser III 320:747–758CrossRefGoogle Scholar
  6. Baldy V, Gessner MO, Chauvet E (1995) Bacteria, fungi and the breakdown of leaf litter in a large river. Oikos 74:93–102CrossRefGoogle Scholar
  7. Baldy V, Chauvet E, Charcosset JY et al (2002) Microbial dynamics associated with leaves decomposing in the mainstem and floodplain pond of a large river. Aquat Microb Ecol 28:25–36CrossRefGoogle Scholar
  8. Baldy V, Gobert V, Guerold F et al (2007) Leaf litter breakdown budgets in streams of various trophic status: effects of dissolved inorganic nutrients on microorganisms and invertebrates. Freshw Biol 52:1322–1335CrossRefGoogle Scholar
  9. Bärlocher F (2005) Freshwater fungal communities. In: Dighton J, White JF, Oudemans P (eds) The fungal community. Its organization and role in the ecosystem, 3rd edn. CRC Press, Boca Raton, pp 39–59CrossRefGoogle Scholar
  10. Bärlocher F, Biddiscombe N (1996) Geratology and decomposition of Typha latifolia and Lythrum salicaria in a freshwater marsh. Arch Hydrobiol 136:309–325Google Scholar
  11. Baschien C, Tsui C, Gulis V et al (2013) The molecular phylogeny of aquatic hyphomycetes with affinity to the Leotiomycetes. Fungal Biol 117:660–672PubMedCrossRefPubMedCentralGoogle Scholar
  12. Battin T, Sloan W, Kjelleberg S et al (2007) Microbial landscapes: new paths to biofilm research. Nat Rev Microbiol 5:76–81CrossRefGoogle Scholar
  13. Batzer DP, Sharitz RR (2006) Ecology of freshwater and estuarine wetlands. University of California Press, BerkeleyGoogle Scholar
  14. Benstead JP, Rosemond AD, Cross WF et al (2009) Nutrient enrichment alters storage and fluxes of detritus in a headwater stream ecosystem. Ecology 90:2556–2566PubMedCrossRefPubMedCentralGoogle Scholar
  15. Blagodatsky S, Blagodatskaya E, Yuyukina T et al (2010) Model of apparent and real priming effects: linking microbial activity with soil organic matter decomposition. Soil Biol Biochem 42:1275–1283CrossRefGoogle Scholar
  16. Bucher VVC, Pointing SB, Hyde KD et al (2004) Production of wood decay enzymes, loss of mass, and lignin solubilization in wood by diverse tropical freshwater fungi. Microb Ecol 48:331–337PubMedCrossRefPubMedCentralGoogle Scholar
  17. Buesing N, Gessner MO (2006) Benthic bacterial and fungal productivity and carbon turnover in a freshwater marsh. Appl Environ Microbiol 72:596–605PubMedPubMedCentralCrossRefGoogle Scholar
  18. Buesing N, Filippini M, Burgmann H et al (2009) Microbial communities in contrasting freshwater marsh microhabitats. FEMS Microbiol Ecol 69:84–97PubMedCrossRefPubMedCentralGoogle Scholar
  19. Carter MD, Suberkropp K (2004) Respiration and annual fungal production associated with decomposing leaf litter in two streams. Freshw Biol 49:1112–1122CrossRefGoogle Scholar
  20. Cheever BM, Kratzer EB, Webster JR (2012) Immobilization and mineralization of N and P by heterotrophic microbes during leaf decomposition. Freshw Sci 31:133–147CrossRefGoogle Scholar
  21. Cheever BM, Webster JR, Bilger EE et al (2013) The relative importance of exogenous and substrate-derived nitrogen for microbial growth during leaf decomposition. Ecology 94:1614–1625PubMedCrossRefPubMedCentralGoogle Scholar
  22. Christensen J, Crumpton W, van der Valk A (2009) Estimating the breakdown and accumulation of emergent macrophyte litter: a mass-balance approach. Wetlands 29:204–214CrossRefGoogle Scholar
  23. Chung N, Suberkropp K (2009) Contribution of fungal biomass to the growth of the shredder, Pycnopsyche gentilis (Trichoptera: Limnephilidae). Freshw Biol 54:2212–2224CrossRefGoogle Scholar
  24. Clemmensen K, Bahr A, Ovaskainen O et al (2013) Roots and associated fungi drive long-term carbon sequestration in boreal forest. Science 339:1615–1618PubMedPubMedCentralCrossRefGoogle Scholar
  25. Cross WF, Wallace JB, Rosemond AD et al (2006) Whole-system nutrient enrichment increases secondary production in a detritus-based ecosystem. Ecology 87:1556–1565PubMedCrossRefPubMedCentralGoogle Scholar
  26. Cross WF, Wallace JB, Rosemond AD (2007) Nutrient enrichment reduces constraints on material flows in a detritus-based food web. Ecology 88:2563–2575PubMedCrossRefPubMedCentralGoogle Scholar
  27. Danger M, Chauvet E (2013) Elemental composition and degree of homeostasis of fungi: are aquatic hyphomycetes more like metazoans, bacteria or plants? Fungal Ecol 6:453–457CrossRefGoogle Scholar
  28. Danger M, Cornut J, Chauvet E et al (2013) Benthic algae stimulate leaf litter decomposition in detritus-based headwater streams: a case of aquatic priming effect? Ecology 94:1604–1613PubMedCrossRefPubMedCentralGoogle Scholar
  29. Descals E (2005) Diagnostic characters of propagules of Ingoldian fungi. Mycol Res 109:545–555PubMedCrossRefPubMedCentralGoogle Scholar
  30. Diez J, Elosegi A, Chauvet E et al (2002) Breakdown of wood in the Aguera stream. Freshw Biol 47:2205–2215CrossRefGoogle Scholar
  31. Duarte S, Pascoal C, Alves A et al (2010) Assessing the dynamic of microbial communities during leaf decomposition in a low-order stream by microscopic and molecular techniques. Microbiol Res 165:351–362PubMedCrossRefPubMedCentralGoogle Scholar
  32. Duarte S, Seena S, Barlocher F et al (2013) A decade’s perspective on the impact of DNA sequencing on aquatic hyphomycete research. Fungal Biol Rev 27:19–24CrossRefGoogle Scholar
  33. Fennessy M, Rokosch A, Mack J (2008) Patterns of plant decomposition and nutrient cycling in natural and created wetlands. Wetlands 28:300–310CrossRefGoogle Scholar
  34. Ferreira V, Chauvet E (2011) Synergistic effects of water temperature and dissolved nutrients on litter decomposition and associated fungi. Glob Chang Biol 17:551–564CrossRefGoogle Scholar
  35. Ferreira V, Elosegi A, Gulis V et al (2006a) Eucalyptus plantations affect fungal communities associated with leaf-litter decomposition in Iberian streams. Arch Hydrobiol 166:467–490CrossRefGoogle Scholar
  36. Ferreira V, Gulis V, Graça MAS (2006b) Whole-stream nitrate addition affects litter decomposition and associated fungi but not invertebrates. Oecologia 149:718–729PubMedCrossRefPubMedCentralGoogle Scholar
  37. Ferreira V, Gulis V, Pascoal C et al (2014) Stream pollution and fungi. In: Jones EBG, Hyde KD, Pang KL (eds) Freshwater fungi and fungal-like organisms. De Gruyter, Berlin, pp 389–412Google Scholar
  38. Ferreira V, Castagneyrol B, Koricheva J et al (2015) A meta-analysis of the effects of nutrient enrichment on litter decomposition in streams. Biol Rev 90:669–688PubMedCrossRefGoogle Scholar
  39. Findlay S (2010) Stream microbial ecology. J N Am Benthol Soc 29:170–181CrossRefGoogle Scholar
  40. Findlay S, Howe K, Austin H (1990) Comparison of detritus dynamics in two tidal freshwater wetlands. Ecology 71:288–295CrossRefGoogle Scholar
  41. Findlay S, Tank J, Dye S et al (2002a) A cross-system comparison of bacterial and fungal biomass in detritus pools of headwater streams. Microb Ecol 43:55–66PubMedCrossRefPubMedCentralGoogle Scholar
  42. Findlay SEG, Dye S, Kuehn KA (2002b) Microbial growth and nitrogen retention in litter of Phragmites australis compared to Typha angustifolia. Wetlands 22:616–625CrossRefGoogle Scholar
  43. Fisher SG, Likens GE (1973) Energy flow in Bear Brook, New Hampshire: an integrative approach to stream ecosystem metabolism. Ecol Monogr 43:421–439CrossRefGoogle Scholar
  44. Francoeur SN, Schaecher M, Neely RK et al (2006) Periphytic photosynthetic stimulation of extracellular enzyme activity in aquatic microbial communities associated with decaying Typha litter. Microb Ecol 52:662–669PubMedCrossRefPubMedCentralGoogle Scholar
  45. Gessner M (2001) Mass loss, fungal colonisation and nutrient dynamics of Phragmites australis leaves during senescence and early aerial decay. Aquat Bot 69:325–339CrossRefGoogle Scholar
  46. Gessner MO (2005) Ergosterol as a measure of fungal biomass. In: Graça MAS, Bärlocher F, Gessner MO (eds) Methods to study litter decomposition: a practical guide. Springer, Dordrecht, pp 189–196CrossRefGoogle Scholar
  47. Gessner MO, Chauvet E (1993) Ergosterol-to-biomass conversion factors for aquatic hyphomycetes. Appl Environ Microbiol 59:502–507PubMedPubMedCentralGoogle Scholar
  48. Gessner MO, Chauvet E (1994) Importance of stream microfungi in controlling breakdown rates of leaf litter. Ecology 75:1807–1817CrossRefGoogle Scholar
  49. Gessner MO, Chauvet E (1997) Growth and production of aquatic hyphomycetes in decomposing leaf litter. Limnol Oceanogr 42:496–595CrossRefGoogle Scholar
  50. Gessner MO, Van Ryckegem G (2003) Water fungi as decomposers in freshwater ecosystems. In: Bitton G (ed) Encyclopedia of environmental microbiology. Wiley, New York. CrossRefGoogle Scholar
  51. Gessner MO, Chauvet E, Dobson M (1999) A perspective on leaf litter breakdown in streams. Oikos 85:377–384CrossRefGoogle Scholar
  52. Gessner MO, Gulis V, Kuehn KA et al (2007) Fungal decomposers of plant litter in aquatic ecosystems. In: Kubicek CP, Druzhinina IS (eds) The Mycota, vol IV. Environmental and microbial relationship. Springer, Berlin, pp 301–324Google Scholar
  53. Gingerich R, Anderson J (2011) Litter decomposition in created and reference wetlands in West Virginia, USA. Wetl Ecol Manag 19:449–458CrossRefGoogle Scholar
  54. Grimmett I, Shipp K, Macneil A et al (2013) Does the growth rate hypothesis apply to aquatic hyphomycetes? Fungal Ecol 6:493–500CrossRefGoogle Scholar
  55. Guenet B, Danger M, Abbadie L et al (2010) Priming effect: bridging the gap between terrestrial and aquatic ecology. Ecology 91:2850–2861CrossRefGoogle Scholar
  56. Gulis V (2001) Are there any substrate preferences in aquatic hyphomycetes? Mycol Res 105:1088–1093CrossRefGoogle Scholar
  57. Gulis V, Bärlocher F (2017) Fungi: biomass, production, and community structure. In: Hauer FR, Lamberti GA (eds) Methods in stream ecology, vol 1. Academic Press, San Diego, pp 177–192CrossRefGoogle Scholar
  58. Gulis V, Suberkropp K (2003a) Effect of inorganic nutrients on relative contributions of fungi and bacteria to carbon flow from submerged decomposing leaf litter. Microb Ecol 45:11–19PubMedCrossRefPubMedCentralGoogle Scholar
  59. Gulis V, Suberkropp K (2003b) Interactions between stream fungi and bacteria associated with decomposing leaf litter at different levels of nutrient availability. Aquat Microb Ecol 30:149–157CrossRefGoogle Scholar
  60. Gulis V, Suberkropp K (2003c) Leaf litter decomposition and microbial activity in nutrient-enriched and unaltered reaches of a headwater stream. Freshw Biol 48:123–134CrossRefGoogle Scholar
  61. Gulis V, Suberkropp K (2004) Effects of whole-stream nutrient enrichment on the concentration and abundance of aquatic hyphomycete conidia in transport. Mycologia 96:57–65PubMedCrossRefPubMedCentralGoogle Scholar
  62. Gulis V, Rosemond AD, Suberkropp K et al (2004) Effects of nutrient enrichment on the decomposition of wood and associated microbial activity in streams. Freshw Biol 49:1437–1447CrossRefGoogle Scholar
  63. Gulis V, Marvanová L, Descals E (2005) An illustrated key to the common temperate species of aquatic hyphomycetes. In: Graça MAS, Bärlocher F, Gessner MO (eds) Methods to study litter decomposition: a practical guide. Springer, Dordrecht, pp 153–167CrossRefGoogle Scholar
  64. Gulis V, Ferreira V, Graça MAS (2006) Stimulation of leaf litter decomposition and associated fungi and invertebrates by moderate eutrophication: implications for stream assessment. Freshw Biol 51:1655–1669CrossRefGoogle Scholar
  65. Gulis V, Suberkropp K, Rosemond AD (2008) Comparison of fungal activities on wood and leaf litter in unaltered and nutrient-enriched headwater streams. Appl Environ Microbiol 74:1094–1101PubMedCrossRefPubMedCentralGoogle Scholar
  66. Gulis V, Kuehn KA, Suberkropp K (2009) Fungi. In: Likens GE (ed) Encyclopedia of inland waters, vol 3. Elsevier, Oxford, pp 233–243CrossRefGoogle Scholar
  67. Gulis V, Kuehn KA, Shoettle LN et al (2017) Changes in nutrient stoichiometry, elemental homeostasis and growth rate of aquatic litter-associated fungi in response to inorganic nutrient supply. ISME J 11:2729–2739PubMedPubMedCentralCrossRefGoogle Scholar
  68. Gutknecht J, Goodman R, Balser T (2006) Linking soil process and microbial ecology in freshwater wetland ecosystems. Plant Soil 289:17–34CrossRefGoogle Scholar
  69. Hagen E, McCluney K, Wyant K et al (2012) A meta-analysis of the effects of detritus on primary producers and consumers in marine, freshwater, and terrestrial ecosystems. Oikos 121:1507–1515CrossRefGoogle Scholar
  70. Hieber M, Gessner MO (2002) Contribution of stream detritivores, fungi, and bacteria to leaf breakdown based on biomass estimates. Ecology 83:1026–1038CrossRefGoogle Scholar
  71. Hotchkiss E, Hall R, Baker M et al (2014) Modeling priming effects on microbial consumption of dissolved organic carbon in rivers. J Geophys Res-Biogeosci 119:982–995CrossRefGoogle Scholar
  72. Jenkins CC, Suberkropp K (1995) The influence of water chemistry on the enzymatic degradation of leaves in streams. Freshw Biol 33:245–253CrossRefGoogle Scholar
  73. Kayranli B, Scholz M, Mustafa A et al (2010) Carbon storage and fluxes within freshwater wetlands: a critical review. Wetlands 30:111–124CrossRefGoogle Scholar
  74. Kominkova D, Kuehn KA, Busing N et al (2000) Microbial biomass, growth, and respiration associated with submerged litter of Phragmites australis decomposing in a littoral reed stand of a large lake. Aquat Microb Ecol 22:271–282CrossRefGoogle Scholar
  75. Kuehn KA (2008) The role of fungi in the decomposition of emergent wetland plants. In: Sridhar S, Bärlocher F, Hyde KD (eds) Novel techniques and ideas in mycology. Fungal Diversity Press, Hong Kong, pp 19–41Google Scholar
  76. Kuehn KA (2016) Lentic and lotic habitats as templets for fungal communities: traits, adaptations, and their significance to litter decomposition within freshwater ecosystems. Fungal Ecol 19:135–154CrossRefGoogle Scholar
  77. Kuehn KA, Suberkropp K (1998a) Decomposition of standing litter of the freshwater emergent macrophyte Juncus effusus. Freshw Biol 40:717–727CrossRefGoogle Scholar
  78. Kuehn KA, Suberkropp K (1998b) Diel fluctuations in rates of CO2 evolution from standing dead leaf litter of the emergent macrophyte Juncus effusus. Aquat Microb Ecol 14:171–182CrossRefGoogle Scholar
  79. Kuehn KA, Churchill PF, Suberkropp K (1998) Osmoregulatory responses of fungi inhabiting standing litter of the freshwater emergent macrophyte Juncus effusus. Appl Environ Microbiol 64:607–612PubMedPubMedCentralGoogle Scholar
  80. Kuehn KA, Gessner MO, Wetzel RG et al (1999) Decomposition and CO2 evolution from standing litter of the emergent macrophyte Erianthus giganteus. Microb Ecol 38:50–57PubMedCrossRefPubMedCentralGoogle Scholar
  81. Kuehn KA, Lemke MJ, Suberkropp K et al (2000) Microbial biomass and production associated with decaying leaf litter of the emergent macrophyte Juncus effusus. Limnol Oceanogr 45:862–870CrossRefGoogle Scholar
  82. Kuehn KA, Steiner D, Gessner MO (2004) Diel mineralization patterns of standing-dead plant litter: implications for CO2 flux from wetlands. Ecology 85:2504–2518CrossRefGoogle Scholar
  83. Kuehn KA, Ohsowski B, Francoeur S et al (2011) Contributions of fungi to carbon flow and nutrient cycling from standing dead Typha angustifolia leaf litter in a temperate freshwater marsh. Limnol Oceanogr 56:529–539CrossRefGoogle Scholar
  84. Kuehn KA, Francoeur SN, Findlay RH et al (2014) Priming in the microbial landscape: periphytic algal stimulation of litter-associated microbial decomposers. Ecology 95:749–762PubMedCrossRefPubMedCentralGoogle Scholar
  85. Kuzyakov Y (2010) Priming effects: interactions between living and dead organic matter. Soil Biol Biochem 42:1363–1371CrossRefGoogle Scholar
  86. Manning DWP, Rosemond AD, Kominoski JS et al (2015) Detrital stoichiometry as a critical nexus for the effects of streamwater nutrients on leaf litter breakdown rates. Ecology 96:2214–2224PubMedCrossRefPubMedCentralGoogle Scholar
  87. Manning DWP, Rosemond AD, Gulis V et al (2016) Convergence of detrital stoichiometry predicts thresholds of nutrient-stimulated breakdown in streams. Ecol Appl 26:1745–1757PubMedCrossRefPubMedCentralGoogle Scholar
  88. Methvin BR, Suberkropp K (2003) Annual production of leaf-decaying fungi in two streams. J N Am Benthol Soc 22:554–564CrossRefGoogle Scholar
  89. Mille-Lindblom C, Tranvik LJ (2003) Antagonism between bacteria and fungi on decomposing aquatic plant litter. Microb Ecol 45:173–182PubMedCrossRefPubMedCentralGoogle Scholar
  90. Mille-Lindblom C, Fischer H, Tranvik L (2006) Antagonism between bacteria and fungi: substrate competition and a possible tradeoff between fungal growth and tolerance towards bacteria. Oikos 113:233–242CrossRefGoogle Scholar
  91. Mitsch WJ, Gosselink JG (2007) Wetlands. Wiley, New YorkGoogle Scholar
  92. Moore J, Berlow E, Coleman D et al (2004) Detritus, trophic dynamics and biodiversity. Ecol Lett 7:584–600CrossRefGoogle Scholar
  93. Morrissey E, Berrier D, Neubauer S et al (2014) Using microbial communities and extracellular enzymes to link soil organic matter characteristics to greenhouse gas production in a tidal freshwater wetland. Biogeochemistry 117:473–490CrossRefGoogle Scholar
  94. Newell SY (2003) Fungal content and activities in standing-decaying leaf blades of plants of the Georgia Coastal Ecosystems research area. Aquat Microb Ecol 32:95–103CrossRefGoogle Scholar
  95. Newell SY, Fallon RD (1991) Toward a method for measuring instantaneous fungal growth rates in field samples. Ecology 72:1547–1559CrossRefGoogle Scholar
  96. Newell SY, Arsuffi TL, Fallon RD (1988) Fundamental procedures for determining ergosterol content of decaying plant material by liquid chromatography. Appl Environ Microbiol 54:1876–1879PubMedPubMedCentralGoogle Scholar
  97. Newell SY, Moran MA, Wicks R et al (1995) Productivities of microbial decomposers during early stages of decomposition of leaves of a freshwater sedge. Freshw Biol 34:135–148CrossRefGoogle Scholar
  98. Nikolcheva LG, Bärlocher F (2004) Taxon-specific fungal primers reveal unexpectedly high diversity during leaf decomposition in a stream. Mycol Progr 3:41–49CrossRefGoogle Scholar
  99. Nikolcheva LG, Cockshutt AM, Bärlocher F (2003) Determining diversity of freshwater fungi on decaying leaves: comparison of traditional and molecular approaches. Appl Environ Microbiol 69:2548–2554PubMedPubMedCentralCrossRefGoogle Scholar
  100. Ohsowski BM (2008) Annual secondary production of fungal and bacterial decomposers associated with standing and benthic litter of the freshwater emergent macrophyte, Typha angustigolia. MS thesis, Eastern Michigan UniversityGoogle Scholar
  101. Pascoal C, Cassio F (2004) Contribution of fungi and bacteria to leaf litter decomposition in a polluted river. Appl Environ Microbiol 70:5266–5273PubMedPubMedCentralCrossRefGoogle Scholar
  102. Pascoal C, Cassio F, Marcotegui A et al (2005) Role of fungi, bacteria, and invertebrates in leaf litter breakdown in a polluted river. J N Am Benthol Soc 24:784–797CrossRefGoogle Scholar
  103. Polunin NVC (1984) The decomposition of emergent macrophytes in fresh-water. Adv Ecol Res 14:115–166CrossRefGoogle Scholar
  104. Poon M, Hyde K (1998) Evidence for the vertical distribution of saprophytic fungi on senescent Phragmites australis culms at Mai Po marshes, Hong Kong. Bot Mar 41:285–292Google Scholar
  105. Pugh GJF, Mulder JL (1971) Mycoflora associated with Typha latifolia. Trans Br Mycol Soc 57:273–282CrossRefGoogle Scholar
  106. Reddy KR, Delaune RD (2008) Biogeochemistry of wetlands: science and applications. CRC Press, Boca RatonCrossRefGoogle Scholar
  107. Rier ST, Kuehn KA, Francoeur SN (2007) Algal regulation of extracellular enzyme activity in stream microbial communities associated with inert substrata and detritus. J N Am Benthol Soc 26:439–449CrossRefGoogle Scholar
  108. Rier S, Shirvinski J, Kinek K (2014) In situ light and phosphorus manipulations reveal potential role of biofilm algae in enhancing enzyme-mediated decomposition of organic matter in streams. Freshw Biol 59:1039–1051CrossRefGoogle Scholar
  109. Romani AM, Fischer H, Mille-Lindblom C et al (2006) Interactions of bacteria and fungi on decomposing litter: differential extracellular enzyme activities. Ecology 87:2559–2569PubMedCrossRefPubMedCentralGoogle Scholar
  110. Rosemond AD, Pringle CM, Ramirez A et al (2002) Landscape variation in phosphorus concentration and effects on detritus-based tropical streams. Limnol Oceanogr 47:278–289CrossRefGoogle Scholar
  111. Rothman E, Bouchard V (2007) Regulation of carbon processes by macrophyte species in a Great Lakes coastal wetland. Wetlands 27:1134–1143CrossRefGoogle Scholar
  112. Rousk J, Baath E (2007) Fungal and bacterial growth in soil with plant materials of different C/N ratios. FEMS Microbiol Ecol 62:258–267PubMedCrossRefPubMedCentralGoogle Scholar
  113. Saccardo PA (1898) Sylloge fungorum omnium hucusque cognitorum 13, Index universalis. Fratres Borntrager, LipsiaeGoogle Scholar
  114. Seena S, Wynberg N, Barlocher F (2008) Fungal diversity during leaf decomposition in a stream assessed through clone libraries. Fungal Divers 30:1–14Google Scholar
  115. Shearer CA (1992) The role of woody debris. In: Bärlocher F (ed) The ecology of aquatic hyphomycetes. Springer, Berlin, pp 77–98CrossRefGoogle Scholar
  116. Shearer CA, Descals E, Kohlmeyer B et al (2007) Fungal biodiversity in aquatic habitats. Biodivers Conserv 16:49–67CrossRefGoogle Scholar
  117. Simon KS, Benfield EF (2001) Leaf and wood breakdown in cave streams. J N Am Benthol Soc 20:550–563CrossRefGoogle Scholar
  118. Sinsabaugh RL, Findlay S (1995) Microbial production, enzyme activity, and carbon turnover in surface sediments of the Hudson River estuary. Microb Ecol 30:127–141PubMedCrossRefPubMedCentralGoogle Scholar
  119. Sinsabaugh RL, Follstad Shah JJ (2012) Ecoenzymatic stoichiometry and ecological theory. Ann Rev Ecol Evol Syst 43:313–343CrossRefGoogle Scholar
  120. Sinsabaugh RL, Belnap J, Follstad Shah JJ et al (2014) Extracellular enzyme kinetics scale with resource availability. Biogeochemistry 121:287–304CrossRefGoogle Scholar
  121. Sinsabaugh RL, Follstad Shah JJ, Findlay SG et al (2015) Scaling microbial biomass, metabolism and resource supply. Biogeochemistry 122:175–190CrossRefGoogle Scholar
  122. Spanhoff B, Gessner MO (2004) Slow initial decomposition and fungal colonization of pine branches in a nutrient-rich lowland stream. Can J Fish Aquat Sci 61:2007–2013CrossRefGoogle Scholar
  123. Stelzer RS, Heffernan J, Likens GE (2003) The influence of dissolved nutrients and particulate organic matter quality on microbial respiration and biomass in a forest stream. Freshw Biol 48:1925–1937CrossRefGoogle Scholar
  124. Su R (2014) Fungal contribution to carbon and nutrient cycling in a subtropical freshwater marsh. Ph.D. dissertation, University of Southern MississippiGoogle Scholar
  125. Su R, Lohner RN, Kuehn KA, Sinsabaugh R et al (2007) Microbial dynamics associated with decomposing Typha angustifolia litter in two contrasting Lake Erie coastal wetlands. Aquat Microb Ecol 46:295–307CrossRefGoogle Scholar
  126. Su R, Kuehn KA, Phipps SW (2015) Carbon and nutrient flow into decomposer fungi during standing-dead Typha domingensis decomposition in a subtropical freshwater marsh. Freshw Biol 60:2100–2112CrossRefGoogle Scholar
  127. Suberkropp K (1991) Relationships between growth and sporulation of aquatic hyphomycetes on decomposing leaf litter. Mycol Res 95:843–850CrossRefGoogle Scholar
  128. Suberkropp K (1992) Interactions with invertebrates. In: Bärlocher F (ed) The ecology of aquatic hyphomycetes. Springer, Berlin, pp 118–134CrossRefGoogle Scholar
  129. Suberkropp K (1995) The influence of nutrients on fungal growth, productivity, and sporulation during leaf breakdown in streams. Can J Bot 73:S1361–S1369CrossRefGoogle Scholar
  130. Suberkropp K (1997) Annual production of leaf-decaying fungi in a woodland stream. Freshw Biol 38:169–178CrossRefGoogle Scholar
  131. Suberkropp K (1998) Effect of dissolved nutrients on two aquatic hyphomycetes growing on leaf litter. Mycol Res 102:998–1002CrossRefGoogle Scholar
  132. Suberkropp K, Gessner MO (2005) Acetate incorporation into ergosterol to determine fungal growth rates and production. In: Graça MAS, Bärlocher F, Gessner MO (eds) Methods to study litter decomposition: a practical guide. Springer, Berlin, pp 197–202CrossRefGoogle Scholar
  133. Suberkropp K, Weyers H (1996) Application of fungal and bacterial production methodologies to decomposing leaves in streams. Appl Environ Microbiol 62:1610–1615PubMedPubMedCentralGoogle Scholar
  134. Suberkropp K, Gessner MO, Chauvet E (1993) Comparison of ATP and ergosterol as indicators of fungal biomass associated with decomposing leaves in streams. Appl Environ Microbiol 59:3367–3372PubMedPubMedCentralGoogle Scholar
  135. Suberkropp K, Gulis V, Rosemond AD et al (2010) Ecosystem and physiological scales of microbial responses to nutrients in a detritus-based stream: results of a 5-year continuous enrichment. Limnol Oceanogr 55:149–160CrossRefGoogle Scholar
  136. Tanaka Y (1991) Microbial decomposition of reed (Phragmites communis) leaves in a saline lake. Hydrobiologia 220:119–129CrossRefGoogle Scholar
  137. Tank JL, Webster JR, Benfield EF et al (1998) Effect of leaf litter exclusion on microbial enzyme activity associated with wood biofilms in streams. J N Am Benthol Soc 17:95–103CrossRefGoogle Scholar
  138. Tant CJ, Rosemond AD, First MR (2013) Stream nutrient enrichment has a greater effect on coarse than on fine benthic organic matter. Freshw Sci 32:1111–1121CrossRefGoogle Scholar
  139. Tsui CKM, Hyde KD (2003) Freshwater mycology. Fungal Diversity Press, Hong KongGoogle Scholar
  140. Van Ryckegem G, Verbeken A (2005a) Fungal diversity and community structure on Phragmites australis (Poaceae) along a salinity gradient in the Scheldt estuary (Belgium). Nova Hedwigia 80:173–197CrossRefGoogle Scholar
  141. Van Ryckegem G, Verbeken A (2005b) Fungal ecology and succession on Phragmites australis in a brackish tidal marsh. I. Leaf sheaths. Fungal Divers 19:157–187Google Scholar
  142. Van Ryckegem G, Verbeken A (2005c) Fungal ecology and succession on Phragmites australis in a brackish tidal marsh. II. Stems. Fungal Divers 20:209–233Google Scholar
  143. Van Ryckegem G, Van Driessche G, Van Beeumen J et al (2006) The estimated impact of fungi on nutrient dynamics during decomposition of Phragmites australis leaf sheaths and stems. Microb Ecol 52:564–574PubMedCrossRefPubMedCentralGoogle Scholar
  144. Van Ryckegem G, Gessner MO, Verbeken A (2007) Fungi on leaf blades of Phragmites australis in a brackish tidal marsh: diversity, succession, and leaf decomposition. Microb Ecol 53:600–611PubMedCrossRefPubMedCentralGoogle Scholar
  145. Wallander H, Ekblad A, Godbold D et al (2013) Evaluation of methods to estimate production, biomass and turnover of ectomycorrhizal mycelium in forests soils—a review. Soil Biol Biochem 57:1034–1047CrossRefGoogle Scholar
  146. Webster J (1992) Anamorph-teleomorph relationships. In: Bärlocher F (ed) The ecology of aquatic hyphomycetes. Springer, Berlin, pp 99–117CrossRefGoogle Scholar
  147. Webster JR, Benfield EF (1986) Vascular plant breakdown in freshwater ecosystems. Ann Rev Ecol Syst 17:567–594CrossRefGoogle Scholar
  148. Webster J, Descals E (1981) Morphology, distribution, and ecology of conidial fungi in freshwater habitats. In: Cole GT, Kendrick B (eds) Biology of conidial fungi, vol 1. Academic Press, New York, pp 295–355CrossRefGoogle Scholar
  149. Webster JR, Meyer JL (1997) Stream organic matter budgets. J N Am Benthol Soc 16:3–4CrossRefGoogle Scholar
  150. Weete JD, Abril M, Blackwell M (2010) Phylogentic distribution of fungal sterols. PLoS One 5:e10899PubMedPubMedCentralCrossRefGoogle Scholar
  151. Welsch M, Yavitt J (2003) Early stages of decay of Lythrum salicaria L. and Typha latifolia L. in a standing-dead position. Aquat Bot 75:45–57CrossRefGoogle Scholar
  152. Weyers HS, Suberkropp K (1996) Fungal and bacterial production during the breakdown of yellow poplar leaves in two streams. J N Am Benthol Soc 15:408–420CrossRefGoogle Scholar
  153. Woodward G, Gessner MO, Giller P et al (2012) Continental-scale effects of nutrient pollution on stream ecosystem functioning. Science 336:1438–1440PubMedCrossRefPubMedCentralGoogle Scholar
  154. Wurzbacher C, Bärlocher F, Grossart H (2010) Fungi in lake ecosystems. Aquat Microb Ecol 59:125–149CrossRefGoogle Scholar
  155. Wurzbacher C, Rösel S, Rychla A et al (2014) Importance of saprotrophic freshwater fungi for pollen degradation. PLoS One 9:e94643PubMedPubMedCentralCrossRefGoogle Scholar
  156. Zare-Maivan H, Shearer CA (1988) Extracellular enzyme production and cell wall degradation by freshwater lignicolous fungi. Mycologia 80:365–375CrossRefGoogle Scholar

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© Springer Nature Switzerland AG 2019

Authors and Affiliations

  1. 1.Department of BiologyCoastal Carolina UniversityConwayUSA
  2. 2.Department of Biological SciencesThe University of Southern MississippiHattiesburgUSA

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