The spatial organisation of soils is crucially important in affecting belowground function, and the associated delivery of ecosystem services. Fungi constitute an important part of the soil biomass. As well as playing key roles in nutrient cycling and biotic interactions, they are also intimately involved in soil structural dynamics. Fungi mediate the formation of soil structure at a variety of spatial scales via charge, adhesive and enmeshment mechanisms. They also produce large quantities of hydrophobic compounds that affect water infiltration properties of soils. Fungi can also destroy soil structure via decomposition of organic matter that affects soil aggregation. In turn, soil structure affects fungi. The filamentous growth-form of fungi is a very efficient spacefilling structure well adapted for life in a spatially heterogeneous environment such as soil, but the labyrinthine pore network ultimately regulates how fungal mycelia grow through and function within the soil. The distribution of water within soils plays a crucial role in governing fungal development and activity, as does the spatial distribution of nutrient resources. This article reviews the continual interplay that occurs between soil structure and fungi, and discusses how self-organisation mechanisms may operate in the soil system.

Responses of Rhizoctonia solani to spatial heterogeneity in sources of carbon, and associated translocation of carbon (C), were studied in a simple microcosm system comprising two discrete domains of agar gels separated on a glass slide and overlain with a porous membrane. Two arrangements of the gel pairs were used, one containing two equally large resources (representing ‘homogeneous’ conditions) and one containing a large and a negligible resource (representing ‘heterogeneous’ conditions). The nutrient sources were a standard mineral salt medium with or without glucose as sole C source. The fungus was inoculated onto one domain and growth responses determined by direct measurement of biomass. Translocation of C was quantified by use of 13C-enriched glucose. This substrate was either added to the agar at the outset, when studying newly developing colonies, or as a pulse into already established colonies. When growing in heterogeneous conditions, the fungus actively translocated C from a glucose-containing domain to sustain growth in the adjacent region lacking such a resource. In homogeneous conditions there was evidence of passive translocation (diffusion), but the fungus preferentially used local resource to maintain growth. Active translocation was only observed in newly growing colonies, whereas passive translocation occurred in both growing and established colonies. When the fungus was pulsed with a 13C-enriched glucose solution after 10 d growth, 2.5 times more 13C was taken up by the fungus grown in heterogeneous than homogeneous conditions, suggesting uptake exceeded local demands. In heterogeneous conditions, the total amount of 13C enriched glucose taken up by the fungus was independent of the location of the enriched glucose in the underlying medium. When the nylon membrane was replaced by Cellophane (an additional C source), degradation of the membrane and an increase in biomass occurred only in the heterogeneous system. The possible implications for these results in soil systems are discussed.

The study of filamentous fungi can be difficult through experimental means alone due to the complexity of their natural growth habitat (e.g. soils) and the microscopic scale of growth (e.g. tip vesicle translocation and hyphal tip extension). Mathematical modelling provides a complimentary, powerful and efficient method of investigation. In this article, earlier mathematical models are briefly reviewed, before an overview of the construction and resultant predictions of a new model for fungal growth and function is given. Model predictions are compared to experimentally obtained data, giving new insight into the complex interaction between the developing mycelium and its environment.

Metal-contaminated soils often contain a spatially heterogeneous distribution of metal concentrations, and the ability of fungi to colonize such metal-contaminated domains will be influenced by the nutritional resources available. An experimental system based upon tessellated agar tiles was used to study the influence of nutrients upon the ability of soil fungi Trichoderma virens and Clonostachys rosea to colonize spatially discrete toxic metal (copper and cadmium) containing domains. The growth parameters recorded demonstrated a decrease in apparent metal toxicity with increasing concentration of available carbon source. It was shown that maximum hyphal extension rates and the efficacy of carbon substrate utilization of both species decreased with increasing concentration of toxic metals. It was also observed that in the gap between metal-free and metal-containing tiles, the presence of toxic metals led to negative chemotropic reactions and cessation of growth, swelling and lysis of some hyphal tips. Penetration of the hyphae into the metal-containing domain was often followed by the formation of very dense mycelia or mycelial ‘bushes’ representing an associative (constraining, exploitative or ‘phalanx’) growth strategy of the mycelial system. After the fungi entered the toxic metal-containing domains, they often produced long sparsely-branched or branchless explorative hyphae representing a dissociative (expansive, explorative or ‘guerrilla’) growth strategy. Our data therefore demonstrate that fungi efficiently use both ‘phalanx’ and ‘guerrilla’ states of the mycelial system as well as shifts in these growth strategies as a response to toxic metal stress combined with nutritionally-poor conditions.

The effects of different temperatures and pH on the growth and solubilization of insoluble calcium phosphate, cobalt phosphate, manganese phosphate, strontium hydrogen phosphate and zinc phosphate by Rhizoctonia solani on solidified media were assessed. Solubilization of the metal phosphates was monitored by the production of a clear zone around or underneath the fungus. R. solani efficiently solubilized all five metal phosphates except cobalt phosphate when grown on medium at pH 7. Solubilization activity by R. solani decreased with increasing pH on medium containing calcium phosphate but increased on strontium hydrogen phosphate-amended medium. The uptake of metals by the mycelia was unaffected by the pH of the medium or the growth temperature. Small quantities of crystals were produced in the agar when R. solani was grown on calcium phosphate- and strontium hydrogen phosphate-amended media and these were identified as calcium or strontium sulphates respectively: there appeared to be little or no production of insoluble oxalates although a role for oxalate in the overall solubilization process cannot be discounted. These results are discussed in relation to their physiological and environmental significance, and the important roles of fungi in effecting transformations of insoluble metal-containing compounds in the environment.

Fluorescent stains offer an effective means of visualising bacteria and fungi in soil or litter samples. Fluorescent brightener (FB) 28 (also known as Calcofluor White M2R) is commonly used to stain such microorganisms. However, during production of soil thin-sections we observed erratic crystallisation of this stain, particularly in soils colonised by Rhizoctonia solani. We report on the evaluation of alternative stains to FB 28 for their propensity to crystallize in interaction with fungi, staining efficiency, and suitability for application in soil thin-section production. All of the additional candidate stains namely Fluorescent Brightener Agent (FBA) 15/25, FBA 71 and SCRI Renaissance 2200 (SR 2200) were highly effective in staining agar-cultured hyphae, but differed in the degree to which they stained hyphae cultured in soil. All stains tested, except SR 2200, stained hyphae of R. solani insufficiently when growing on or through soil. These stains also showed extensive crystallisation in solutions that had been in contact with R. solani colonised soil. However, SR 2200 stained hyphae of R solani growing over soil as effectively as hyphae growing on agar and showed no evidence of crystallisation; the intensity of staining exceeded that of the ‘benchmark’ FB 28 for hyphae grown in two soil types. These excellent fluorescent properties of FBA 220 persisted in soil thin-sections, resulting in bright hyphae that could be readily visualised in situ in undisturbed soils.