Possible role of soil microorganisms in aggregation in soils

In many soils, roots and fungal hyphae, especially those of vesicular arbuscular mycorrhizal (VAM) fungi, stabilize macroaggregates (>250 μm diameter); organic residues, bacteria, polysaccharides and inorganic materials stabilize microaggregates (<250 μm). This review discusses the factors (including other organisms) which affect VAM hyphae and their extracellular polysaccharides in soil, and the subsequent effect on stability of aggregates. The review also discusses the possible role of other organisms, including ectomycorrhizal fungi, in the stability of soil, and suggests future research.     

Effects of soil frost on soil respiration and its radiocarbon signature in a Norway spruce forest soil

Apart from a general increase of mean annual air temperature, climate models predict a regional increase of the frequency and intensity of soil frost with possibly strong effects on C cycling of soils. In this study, we induced mild soil frost (up to −5 °C in a depth of 5 cm below surface) in a Norway spruce forest soil by removing the natural snow cover in the winter of 2005/2006. Soil frost lasted from January to April 2006 and was detected down to 15 cm depth. Soil frost effectively reduced soil respiration in the snow removal plots in comparison to undisturbed control plots. On an annual basis 6.2 t C ha⁻¹ a⁻¹ were emitted in the control plots compared with 5.1 t C ha⁻¹ a⁻¹ in the snow removal plots. Only 14% of this difference was attributed to reduced soil respiration during the soil frost period itself, whereas 63% of this difference originated from differences during the summer of 2006. Radiocarbon (Δ¹⁴C) signature of CO₂ revealed a considerable reduction of heterotrophic respiration on the snow removal plots, only partly compensated for by a slight increase of rhizosphere respiration. Similar CO₂ concentrations in the uppermost mineral horizons of both treatments indicate that differences between the treatments originated from the organic horizons. Extremely low water contents between June and October of 2006 may have inhibited the recovery of the heterotrophic organisms from the frost period, thereby enhancing the differences between the control and snow removal plots. We conclude that soil frost triggered a change in the composition of the microbial community, leading to an increased sensitivity of heterotrophic respiration to summer drought. A CO₂ pulse during thawing, such as described for arable soils several times throughout the literature, with the potential to partly compensate for reduced soil respiration during soil frost, appears to be lacking for this soil. Our results from this experiment indicate that soil frost reduces C emission from forest soils, whereas mild winters may enhance C losses from forest soils.     

The role of mosses in the phosphorus cycling of an Alaskan black spruce forest

Summary Mosses account for 75% of the annual phosphorus accumulation in aboveground parts of an Alaskan black spruce forest, although they comprise only 17% of the phosphorus pool in aboveground vegetation. Sphagnum subsecundum and feathermosses (Hylocomium splendens and Pleurozium schreberi) have a higher capacity to absorb phosphate than do the fine roots of black spruce (Picea mariana) that are situated beneath the moss layer. In three of the four moss species studied, phosphate absorption capacity increases with increasing age of green tissue and decreases with increasing age of brown tissue. In the two feathermosses, which acquire moisture primarily from the air, and in Sphagnum, phosphate absorption is more rapid in green than in brown tissue. In contrast, the endohydric moss Polytrichum commune, which transports water through stem tissue from soil, absorbs phosphate most rapidly from stems in mineral soil. Two treatments designed to reduce activity of mycorrhizae (cutting of roots extending beneath the moss carpet or application to the moss surface of a fungicide that kills mycorrhizal hyphae) tended to increase phosphate retention by mosses and reduce phosphate transfer out of the experimental plots. This suggests that mycorrhizae are an important avenue of phosphorus movement out of the moss carpet and a means by which the black spruce competes with the overlying mosses for nutrients.     

Effect of fire on soil microorganisms in a meghalaya pine forest

The effect of man-made fire on soil mierobial population in a natural subtropical pine forest eco-system, was studied. A nearly fifty years old pine(Pinus kesiya Royle) forest was cut and burnt in March 1977. Another half of this pine forest was left uncut and unburnt. Microbial population was destroyed completely just after the burning and recolonization occurred after some days. Bacteria and actinomycetes were found to be the first colonizers followed by fungi. Burning initiated better growth and higher population of bacteria after two or three showers. Bacterial population was highest in July in burnt and in May in unburnt forest. Maximum fungal population in burnt site was recorded in July while it was highest in April and May in unburnt site.Penicillium spp.,Cladosporium sp. andTrichoderma sp. were found to be first colonizing fungi just after the burning. In unburnt forest eco-systemAbsidia sp.,Trichoderma sp.,Fusarium sp. andPenicillium spp. were found to be dominant.     

Partitioning sources of soil respiration in boreal black spruce forest using radiocarbon

Separating ecosystem and soil respiration into autotrophic and heterotrophic component sources is necessary for understanding how the net ecosystem exchange of carbon (C) will respond to current and future changes in climate and vegetation. Here, we use an isotope mass balance method based on radiocarbon to partition respiration sources in three mature black spruce forest stands in Alaska. Radiocarbon (Δ¹⁴C) signatures of respired C reflect the age of substrate C and can be used to differentiate source pools within ecosystems. Recently‐fixed C that fuels plant or microbial metabolism has Δ¹⁴C values close to that of current atmospheric CO₂, while C respired from litter and soil organic matter decomposition will reflect the longer residence time of C in plant and soil C pools. Contrary to our expectations, the Δ¹⁴C of C respired by recently excised black spruce roots averaged 14‰ greater than expected for recently fixed photosynthetic products, indicating that some portion of the C fueling root metabolism was derived from C storage pools with turnover times of at least several years. The Δ¹⁴C values of C respired by heterotrophs in laboratory incubations of soil organic matter averaged 60‰ higher than the contemporary atmosphere Δ¹⁴CO₂, indicating that the major contributors to decomposition are derived from a combination of sources consistent with a mean residence time of up to a decade. Comparing autotrophic and heterotrophic Δ¹⁴C end members with measurements of the Δ¹⁴C of total soil respiration, we calculated that 47–63% of soil CO₂ emissions were derived from heterotrophic respiration across all three sites. Our limited temporal sampling also observed no significant differences in the partitioning of soil respiration in the early season compared with the late season. Future work is needed to address the reasons for high Δ¹⁴C values in root respiration and issues of whether this method fully captures the contribution of rhizosphere respiration.     

Linkages between phosphorus transformations and carbon decomposition in a forest soil

Phosphorus mineralization is chemically coupled with organic matter (OM) decomposition in surface horizons of a mixed-conifer forest soil from the Sierra Nevada, California, and is also affected by the disturbance caused by forest harvesting. Solution¹³C nuclear magnetic resonance (NMR) spectroscopy of NaOH extracts revealed a decrease of O-alkyl and alkyl-C fractions with increasing degree of decomposition and depth in the soil profile, while carbonyl and aromatic C increased. Solid-state¹³C-NMR analysis of whole soil samples showed similar trends, except that alkyl C increased with depth. Solution³¹P-NMR indicated that inorganic P (P₁) increased with increasing depth, while organic-P (P_o) fractions decreased. Close relationships between P mineralization and litter decomposition were suggested by correlations between P₁ and C fractions (r = 0.82, 0.81, –0.87, and –0.76 for carbonyl, aromatic, alkyl and O-alkyl fractions, respectively). Correlations for diester-P and pyrophosphate with O-alkyl (r = 0.63 and 0.84) and inverse correlations with aromatics (r = –0.74 and –0.72) suggest that mineralization of these P fractions coincides with availability of C substrate. A correlation between monoester P and alkyl C (r = 0.63) suggests mineralization is linked to breakdown of structural components of the plant litter. NMR analyses, combined with Hedley-P fractionation, suggest that post-harvest buildup of labile P in decomposed litter increases the potential for leaching of P during the first post-harvest season, but also indicates reduced biological activity that transports P from litter to the mineral soil. Thus, P is temporarily stored in decomposed litter, preventing its fixation by mineral oxides. In the mineral horizons,³¹P-NMR provides evidence of decline in biologically-available P during the first post-harvest season.     

Streptacidiphilus durhamensis sp. nov., isolated from a spruce forest soil

The taxonomic position of three acidophilic actinobacteria, strains FGG38, FGG39 and FSCA67^T, isolated from the fermentation litter layer of a spruce forest soil was established using a polyphasic approach. The strains were shown to have chemotaxonomic and morphological properties consistent with their classification in the genus Streptacidiphilus and formed a distinct phyletic line in the Streptacidiphilus 16S rRNA gene tree being most closely related to Streptacidiphilus albus DSM 41753^T (99.4 % similarity). DNA:DNA relatedness data showed that isolate FSCA67^T and the type strain of S. albus belonged to markedly distinct genomic species. The isolates had many phenotypic properties in common and were distinguished readily from their closest phylogenetic neighbours in the Streptacidiphilus gene tree using a broad range of these features. Based on the combined genotypic and phenotypic data the three isolates are considered to represent a new Streptacidiphilus species. The name Streptacidiphilus durhamensis sp. nov. is proposed for this taxon with isolate FSCA67^T (=DSM 45796^T = KACC 17154^T = NCIMB 14829^T) as the type strain.     

Phenol metabolism by two microorganisms isolated from Amazonian forest soil samples

Two microorganisms isolated from Amazonian forest soil samples and identified as Candida tropicalis and Alcaligenes faecalis were capable of degrading phenol (16 and 12 mM, respectively) at high salt concentrations (15% and 5.6%, respectively). Chromatographic and enzymatic studies revealed that each microorganism cleaved phenol at the ortho position with total phenol mineralization. ¹⁴C-phenol mineralization assays showed that both microorganisms assimilated about 30% of the total label. No phenol degradation metabolite (i.e., catechol, cis, cis-muconic acid) was detected in the intercellular medium. The presence of phenol hydroxylase (EC 1.14.13.7) and catechol 1,2-dioxygenase (EC 1.13.11.1) extracellular activity suggested that these microorganisms may secrete these enzymes into the extracellular medium. Journal of Industrial Microbiology & Biotechnology (2000) 24, 403–409. Received 02 November 1999/ Accepted in revised form 08 March 2000     

Streptacidiphilus hamsterleyensis sp. nov., isolated from a spruce forest soil

Three acidophilic actinobacteria, isolates LSCA2, FGG8 and HSCA14^T, recovered from spruce litter were examined using a polyphasic approach. Chemotaxonomic and morphological properties of the isolates were found to be consistent with their classification in the genus Streptacidiphilus. The isolates were shown to have identical 16S rRNA gene sequences and were most closely related to Streptacidiphilus neutrinimicus DSM 41755^T (99.9 % similarity). However, DNA:DNA relatedness between isolate HSCA14^T and the type strain of S. neutrinimicus was found to be low at 44.0 (±14.1) %. A combination of phenotypic features, including degradative and nutritional characteristics were shown to distinguish the isolates from their nearest phylogenetic neighbours. Data from this study show that the isolates form a novel species in the genus for which the name S. hamsterleyensis sp. nov. is proposed. The type strain is HSCA 14^T (=DSM 45900^T = KACC 17456^T = NCIMB 14865^T).     

Clean rain promotes fine root growth and soil respiration in a Norway spruce forest

Soil acidification and N saturation are considered to affect the decomposition of soil organic matter as well as growth and mortality of fine roots in many forest soils. Here we report from a field experiment where ‘clean rain’ has been applied to the soil for about 10 years under a roofed plot of a 71‐year‐old Norway spruce plantation at Solling, Central Germany. Reduced amounts of protons (?78%), sulphate (?53%), ammonium (?86%), and nitrate (?49%) were sprayed on the soil surface of the clean rain plot between 1992 and 2001. In an adjacent roofed control plot, throughfall was collected and immediately re‐sprinkled below the roof construction without any chemical manipulation. One year before the clean rain treatment started, live and dead fine root masses (≤2 mm) were determined from undisturbed soil cores down to 40 cm mineral soil depth. Total live fine root mass was significantly lower in the clean rain plot than in the control plot. After the first sampling, the soil holes were refilled with quartz sand and repeatedly sampled in June 1992, June 1996, and October 2001. There were no differences in live and dead fine root masses between the plots in 1992 and 1996. In 2001, both live and dead fine root masses of the clean rain plot were about twice as high as in the control plot, indicating that fine root growth recovered in the mineral soil following 10 years of clean rain treatment. Moreover, the clean rain treatment significantly reduced the total N concentrations of live fine roots and 1‐year‐old needles. Our results suggest that the reduced N input promoted fine root growth to compensate N deficiency. Reduced Al concentration in soil solution may have contributed to the recovery of fine root growth, however, the toxicity of Al species is largely unknown. Mean annual soil respiration rate was 24% higher in the period from 2000 to 2001, indicating that the clean rain treatment increased respiration of roots and heterotrophic microorganisms within the rhizosphere. Laboratory incubation of samples from the organic horizon and the top mineral soil revealed no differences between the plots in the decay rate of soil organic matter. Our results suggest that strong reductions in atmospheric N deposition from about 30 to 10 kg N ha^?1 yr^?1 and decreasing acid stress can have beneficial effects on growth of fine roots in the mineral soil within a decade. We conclude that biological recovery under reduced atmospheric loads can affect the nutrient and carbon budget of spruce soils in the long run.     

The role of microorganisms in mediating and facilitating the uptake of plant nutrients from soil

Summary No root systems in nature are without a microbial population. These may be freeliving or symbiotic.The incidence and nutrition of the freeliving microorganisms is discussed. Shortage of substrate makes it unlikely that the N-fixers in the population can fix useful amounts of N. There is a possibility that P supply is improved, but an analysis of possible processes shows them to be rather unlikely, and evidence for them to be poor. Manganese and iron uptake can be altered by microbial activity. Growth of plants can be affected by non-nutritional bacterial effects.The ecology of Rhizobium in the soil is briefly discussed, and the varying needs of different identified strains is stressed.Mycorrhizal infection of plants leads to large growth increases in appropriate conditions. This is almost always linked to increased P uptake, but zinc and copper nutrition can also be improved. The processes involved are briefly discussed. Rapid and extensive infection is important; it is very sensitive to temperature. New modelling methods are now becoming available to measure the behaviour of the fungal infections. The microorganisms require C compounds from the plant, and new measurements of this cost are discussed. The possibility of practical use of mycorrhizal fungi seem to be improving.Keynote address     

Influence of Norway spruce seedlings on the nutrient availability in mineral soil and forest floor material

A greenhouse experiment was performed to evaluate the effect of Norway spruce (Picea abies (L.) Karst.) seedlings on net nutrient availability in five different growing media containing F- or H-layer and mineral soil originating from a haplic podzol in northern Sweden. The initial total amounts of eight nutrient elements (N, K, P, Ca, Mg, Mn, Fe, Zn) and exchangeable amounts of the same elements were analyzed in pots with or without spruce seedlings. In the planted pots seedling nutrient uptake was also estimated. After 26 weeks, higher net nutrient availability with seedlings was found in 25 out of the 40 (62%) growing media and nutrient element combinations. A positive seedling effect on net nutrient availability might be explained by rhizodeposition stimulating the soil microorganism activity and accelerating the weathering of minerals or by seedling roots promoting the nutrient providing processes through changes in soil chemical and physical properties. Nitrogen availability was primarily affected by what part of the forest floor the growing medium contained although the positive response to seedling presence was apparent. The positive net availability response of P, Ca, Mg, Mn, Fe and Zn to seedling presence was on the other hand relatively strong. In the case of P, K, and Zn the growing medium composition (if the F- and H-layer was pure or mixed with mineral soil) was also an important factor for the estimated net availability. Pure F-and H-layer provided greater P- and K-availability while the availability of Zn increased when mineral soil was added. The influence of growing plants ought to be considered when soil samples are used for assessing the nutrient availability.     

Influence of heavy metals in spruce forest soil on amylase activity,CO2 evolution from starch and soil respiration

Summary Starch decomposition and soil respiration is partly inhibited in spruce needle mor contaminated with heavy metals (Cu, Zn, Pb and Cd) from a brass foundry at Gusum, Southern Sweden. The total decomposition of starch was measured as CO₂ evolution rate and the hydrolysis of starch as increase in glucose concentration during incubation according to the methods of Hoffman and Pallauf and that of Nelson. In order to measure the effects of the Na-acetate buffer (pH 5.5) during incubation, amylase activity was also determined without buffer. Only the Hoffmann and Pallauf method without buffer was significantly different (p<0.001) from the other three methods. Application of stepwise regression showed that 43 to 62 per cent of the variability in amylase activity was accounted for by the metal- and hydrogen concentration of the soil. Corresponding figures for the total starch decomposition and soil respiration were 47 and 66 per cent respectively. re]19751213     

Response of total and nitrate-dissimilating bacteria to reduced N deposition in a spruce forest soil profile

A field-scale manipulation experiment conducted for 16 years in a Norway spruce forest at Solling, Central Germany, was used to follow the long-term response of total soil bacteria, nitrate reducers and denitrifiers under conditions of reduced N deposition. N was experimentally removed from throughfall by a roof construction ('clean rain plot'). We used substrate-induced respiration (SIR) to characterize the active fraction of soil microbial biomass and potential nitrate reduction to quantify the activity of nitrate reducers. The abundance of total bacteria, nitrate reducers and denitrifiers in different soil layers was analysed by quantitative PCR of 16S rRNA gene, nitrate reduction and denitrification genes. Reduced N deposition temporarily affected the active fraction of the total microbial community (SIR) as well as nitrate reductase activity. However, the size of the total, nitrate reducer and denitrifier communities did not respond to reduced N deposition. Soil depth and sampling date had a greater influence on the density and activity of soil microorganisms than reduced deposition. An increase in the nosZ /16S rRNA gene and nosZ/nirK ratios with soil depth suggests that the proportion of denitrifiers capable of reducing N₂O into N₂ is larger in the mineral soil layer than in the organic layer.     

Effects of clear-cutting on the composition of bacterial populations of northern spruce forest soil.

This paper concerns the microbiological part of an investigation, the goal of which is to describe the biological changes in coniferous forest soil upon clear-cutting in a northern (66 degrees 20'N) moraine area where reforestation after clear-cutting had been met with difficulty. The zoological part of the work has been published elsewhere. Clear-cut sites of increasing age (4, 7, and 13 years) were investigated and compared with a forest area where no cutting of timber had been done for 120 years. A total of 684 random isolates of heterotrophic bacteria from pooled samples of the sites investigated were passed through 36 biochemical tests. The data were condensed by the aid of factor analysis, and a comparison of the populations was based on squared Euclidean distances between population centroids in a seven-dimensional factor space. The most marked population changes followed a course in which frequencies of some population characteristics became increasingly different until 7 years after clear-cutting, with regression towards the control clearly evident after 13 years. Disturbances of shorter duration were also relatively common, with maximal changes observed in the 4-year samples, and with a complete recovery after 7 years. The mineral soil populations seemed to undergo greater changes than the humus populations. The most distinct changes believed to be due to clear-cutting were the short-term relative increase of organisms producing acid from sucrose and dissolving CaHPO4, and a long-term increase of lipolytic and caseolytic, rhamnose-negative organisms; both in the mineral soil layer. In the humus layer, a short-term increase of lipolytic and of rhamnose-positive organisms seemed to take place.     

Decomposition of soil organic matter from boreal black spruce forest: environmental and chemical controls

Black spruce forests are a dominant covertype in the boreal forest region, and they inhabit landscapes that span a wide range of hydrologic and thermal conditions. These forests often have large stores of soil organic carbon. Recent increases in temperature at northern latitudes may be stimulating decomposition rates of this soil carbon. It is unclear, however, how changes in environmental conditions influence decomposition in these systems, and if substrate controls of decomposition vary with hydrologic and thermal regime. We addressed these issues by investigating the effects of temperature, moisture, and organic matter chemical characteristics on decomposition of fibric soil horizons from three black spruce forest sites. The sites varied in drainage and permafrost, and included a “Well Drained” site where permafrost was absent, and “Moderately well Drained” and “Poorly Drained” sites where permafrost was present at about 0.5 m depth. Samples collected from each site were incubated at five different moisture contents (2, 25, 50, 75, and 100% saturation) and two different temperatures (10°C and 20°C) in a full factorial design for two months. Organic matter chemistry was analyzed using pyrolysis gas chromatography-mass spectrometry prior to incubation, and after incubation on soils held at 20°C, 50% saturation. Mean cumulative mineralization, normalized to initial carbon content, ranged from 0.2% to 4.7%, and was dependent on temperature, moisture, and site. The effect of temperature on mineralization was significantly influenced by moisture content, as mineralization was greatest at 20°C and 50–75% saturation. While the relative effects of temperature and moisture were similar for all soils, mineralization rates were significantly greater for samples from the “Well Drained” site compared to the other sites. Variations in the relative abundances of polysaccharide-derivatives and compounds of undetermined source (such as toluene, phenol, 4-methyl phenol, and several unidentifiable compounds) could account for approximately 44% of the variation in mineralization across all sites under ideal temperature and moisture conditions. Based on our results, changes in temperature and moisture likely have similar, additive effects on in situ soil organic matter (SOM) decomposition across a wide range of black spruce forest systems, while variations in SOM chemistry can lead to significant differences in decomposition rates within and among forest sites.     

Modelling soil C sequestration in spruce forest ecosystems along a Swedish transect based on current conditions

The change of current pools of soil C in Norway spruce ecosystems in Sweden were studied using a process-based model (CoupModel). Simulations were conducted for four sites representing different regions covering most of the forested area in Sweden and representing annual mean temperatures from 0.7°C to 7.1°C. The development of both tree layer and field layer (understory) was simulated during a 100-year period using data on standing stock volumes from the Swedish Forest Inventory to calibrate tree growth using different assumptions regarding N supply to the plants. The model successfully described the general patterns of forest stand dynamics along the Swedish climatic transect, with decreasing tree growth rates and increasing field layer biomass from south to north. However, the current tree growth pattern for the northern parts of Sweden could not be explained without organic N uptake and/or enhanced mineralisation rates compared to the southern parts. Depending on the assumption made regarding N supply to the tree, different soil C sequestration rates were obtained. The approach to supply trees with both mineralised N and organic N, keeping the soil C:N ratio constant during the simulation period was found to be the most realistic alternative. With this approach the soils in the northern region of Sweden lost 5 g C m⁻² year⁻¹, the soils in the central region lost 2 g C m⁻² year⁻¹, and the soils in the two southern regions sequestered 9 and 23 g C m⁻² year⁻¹, respectively. In addition to climatic effects, the feedback between C and N turnover plays an important role that needs to be more clearly understood to improve estimates of C sequestration in boreal forest ecosystems.     

The effect of pyrogenically modified substrates on mineralizing activity and growth strategies of microorganisms of grey forest soil

The rates of the mineralization processes initiated by the input of plant residues and pyrogenically modified plant material into gray forest soil under forests and meadows were assayed. While meadow plant residues was mineralized more rapidly than the forest floor, decomposition of the pyrogenic material resulted in disproportional changes in CO₂ emission from soils. Statistical treatment showed that the respiratory activity of CO₂ emission by heterotrophic microorganisms, which is a physiological characteristic of microbial communities, is 89% determined by the substrate quality. The maximal specific growth rate, which reflects the functional changes in microbial communities, was affected by the cenosis (36%) and the substrate (30%). Most of the carbon of the original plant material (up to 90%) was removed during the burning of plant substrates. The remaining compounds in the pyrogenically transformed material changed the process of mineralization in soil compared both to the control variant and to soil enriched with plant residues. Input of plant residues and ash into the soil resulted in increased total and active biomass, while the maximal specific growth rate decreased and the generation time for the active biomass increased. In the case of soils with plant residues, these changes in the state of microbial communities were brief and occurred during the period of intense mineralization (0–5 days), while, in soils with plant ash, stable changes were revealed after more prolonged incubation. Experimental determination of the microbial biomass turnover time (MTT) by means of two methods (from the ratio between the microbial biomass and respiration and from microbial specific growth rates) made it possible to determine the economical coefficient Y for microbial communities metabolizing the substrates of different availability. Depending on the experimental variant, the Y values varied from 0.22 to 0.51. Decreased maximal specific growth rate and increased values of Y (the coefficient of efficiency of substrate utilization) showed the predominant contribution of K-strategists in the mineralization of low available substrates in soil. The balance calculations and physiological characteristics of the microbial community suggested that the priming effect was most probable in soils enriched with plant ash.