Effects of Cd or/and Pb on soil enzyme activities and microbial community structure

Heavy metals could have long-term hazardous impacts on the health of soil ecosystems and adverse influences on soil biological processes. A study of Cd or/and Pb effects on soil enzyme activities and microbial community structure was undertaken with brown soil in a greenhouse for a period of 10 weeks. The experiment results showed that urease, acid phosphatase and dehydrogenase activities were significantly lower (p < 0.05) in Cd or/and Pb treatments than in control. Three enzyme activities decreased with the increasing metal concentrations. The effects of Cd and Pb combined on enzyme activities were higher than Cd or Pb alone. The soil microbial populations were far lower in heavy metal treatments than in control, and soil microbial populations under different heavy metals levels showed a significant difference (p < 0.05). The PCR-DGGE banding patterns confirmed that the addition of metals had a significant impact on microbial community structure.     

Linear and non-linear impacts of a non-native plant invasion on soil microbial community structure and function

Biological invasions can alter ecosystem functions such as litter decomposition and nutrient cycling, but little is known about how invader abundance influences the impact on the ecosystem. It is often assumed that impacts are proportional to invasion density, but this assumption has never been tested and has little justification. We tested the hypothesis that the microbial community structure and function of a mixed hardwood forest soil changed after invasion by Japanese barberry (Berberis thunbergii), an invasive shrub commonly found in eastern hardwood forests, and that changes were proportional to the density of invasion. We constructed microcosms with mixtures of native and invasive leaf litter, and measured microbial community structure (phospholipid fatty acids) and function (litter decomposition). Decomposition was linearly related to the degree of invasion (R ²?=?0.945), but the ratio of bacteria to fungi exhibited a strongly non-linear, threshold response (R ²?=?0.513). These results indicate that impacts of Japanese barberry invasion are not always proportional to invasion density. This finding has implications for the study of biological invasions as well as practical implications for the management of exotic invasive species.     

Soil and plant effects on microbial community structure

We investigated the effects of two different plant species (corn and soybean) and three different soil types on microbial community structure in the rhizosphere. Our working hypothesis was that the rhizosphere effect would be strongest on fast-growing aerobic heterotrophs, while there would be little or no rhizosphere effect on oligotrophic and other slow-growing microorganisms. Culturable bacteria and fungi had larger population densities in the rhizosphere than in bulk soil. Communities were characterized by soil fatty acid analysis and by substrate utilization assays for bacteria and fungi. Fatty acid analysis revealed a very strong soil effect but little plant effect on the microbial community, indicating that the overall microbial community structure was not affected by the rhizosphere. There was a strong rhizosphere effect detected by the substrate utilization assay for fast-growing aerobic heterotrophic bacterial community structure, with soil controls and rhizosphere samples clearly distinguished from each other. There was a much weaker rhizosphere effect on fungal communities than on bacterial communities as measured by the substrate utilization assays. At this coarse level of community analysis, the rhizosphere microbial community was impacted most by soil effects, and the rhizosphere only affected a small portion of the total bacteria.     

Medium-term fertilization of grassland plant communities masks plant species-linked effects on soil microbial community structure

According to the singular hypothesis of plant diversity, different plant species are expected to make unique contributions to ecosystem functioning. Hence, individual species would support distinct microbial communities. It was hypothesized that microbial community dynamics in the respective rhizospheres of, two floristically divergent species, Agrostis capillaris and Prunella vulgaris that were dominant in a temperate, upland grassland in northern Greece, would support distinct microbial communities, in agreement to the singular hypothesis. Phospholipid lipid fatty acid (PLFA) profiles of the rhizosphere soil microbial community were obtained from the grassland which had been subjected to factorial nitrogen (N) and phosphorus (P) fertilization over five plant growth seasons. The soil cores analyzed were centered on stands of the two co-occurring target plant species, sampled from five blocks in all four factorial N and P fertilization combinations. Distinct PLFA clustering patterns following principle component analysis of PLFA concentrations revealed that, in the absence of P fertilization, soils under the two plant species supported divergent microbial communities. In the P fertilized plots, however, no such distinction could be observed. Results reveal that nutrient fertilization may mask the ability of plant species to shape their own rhizosphere microbial community.     

Plant community effects on soil moisture and nitrogen cycling in a semi-arid ecosystem

Biogeochemistry - Salinization of freshwater ecosystems impacts carbon cycling, a particular concern for coastal wetlands, which are important agents of carbon sequestration. Previous experimental...     

Direct and indirect effects of allelopathy in the soil legacy of an exotic plant invasion

Invasive species may leave behind legacies that persist even after removal, inhibiting subsequent restoration efforts. We examined the soil legacy of Cytisus scoparius, a nitrogen-fixing, putatively allelopathic shrub invading the western US. We tested the hypothesis that allelopathy plays a critical role in the depressive effect of Cytisus on the key native Douglas-fir, both directly on tree growth and indirectly via effects on its ectomycorrhizal fungi (EMF). In a greenhouse factorial experiment, we used activated carbon to inhibit Cytisus-produced allelochemicals and sucrose to reduce elevated nitrogen (N). We found that: (1) Cytisus-invaded soils depressed Douglas-fir growth compared to uninvaded forest soils. The effect of adding Cytisus litter was positive (possibly reflecting an N fertilization effect) only in the presence of activated carbon, providing evidence for a role of allelopathic compounds. Activated carbon did not increase growth in the absence of Cytisus litter. Finally, sucrose addition provided weak support for a nitrogen effect of Cytisus litter. (2) Seedlings grown in Cytisus soils had lower EMF abundance compared to those in uninvaded forest soils. In forest soil from one site, adding Cytisus litter also decreased EMF abundance. Douglas-fir growth increased significantly with EMF across sites and soils suggesting that changes in EMF were linked to tree growth. The fungal taxon Cenococcum geophilum was significantly depressed in Cytisus soils compared to forest soils, while Rhizopogon rogersii abundance was similar across soil types. These results together suggest an overall negative effect of Cytisus on the growth of a dominant native tree and its fungal symbionts. Our study suggests how the role of allelopathy in ecological restoration may play out on two time scales: through immediate, direct impacts on native plants as well as through long-term, persistent impacts mediated by the collapse or transformation of microbial communities.     

Cumulative effects of short-term polymetal contamination on soil bacterial community structure

In this study we evaluated the short-term effects of copper, cadmium, and mercury, added singly or in combination at different doses, on soil bacterial community structure using the bacterial automated ribosomal intergenic spacer analysis (B-ARISA) fingerprinting technique. Principal-component analysis of B-ARISA profiles allowed us to deduce the following order of impact: (Cu + Cd + Hg) > Hg > or = Cd > Cu. These results demonstrated that there was a cumulative effect of metal toxicity. Furthermore, the trend of modifications was consistent with the "hump-backed" relationships between biological diversity and disturbance described by Giller et al. (K. E. Giller, E. Witler, and S. P. McGrath, Soil Biol. Biochem. 30:1389-1414, 1998).     

Effects of elevated nitrogen and exotic plant invasion on soil seed bank composition in Joshua Tree National Park

We investigated the effects of exotic species invasion and 3?years of nitrogen (N) fertilization on the soil seed bank in Joshua Tree National Park, California, USA at four sites along an N deposition gradient. We compared seed bank composition and density in control (no N added) and fertilized (30?kg?N?ha^?1?year^?1) plots to determine if the seed bank would reflect aboveground changes due to N fertilization. Soil samples were collected and germinated in a greenhouse over 2?years. In the field, invasive species cover responded positively to N fertilization. However, we did not observe increased seed density of exotic invasive species in fertilized plots. While no significant differences were detected between treatments within sites, exotic invasive grass seeds overwhelmed the seed bank at all sites. Significant differences between sites were found, which may be due to differences in level of invasion, historic N deposition, and soil surface roughness. Sites experiencing low N deposition had the highest seed bank species richness for both control and fertilized treatments. Aboveground plant density did not correlate well with seed bank density, possibly due to the inherent patchiness of soil seed banks and differential ability of species to form seed banks. This seed bank study provided insight into site-specific impacts on native versus invasive species composition of soil seed banks, as well as magnitude of invasion and restoration potential at invaded sites.     

Effect of biocontrol strains of Trichoderma on plant growth, Pythium ultimum polulations, soil microbial communities and soil enzyme activities

Five strains of Trichoderma with known biocontrol activities were assessed for their effect upon pea growth and their antagonistic activity against large Pythium ultimum inocula. The effect of Trichoderma inocula upon the indigenous soil microflora and soil enzyme activities in the presence and absence of Pythium is assessed. In the absence of Pythium, Trichoderma strain N47 significantly increased the wet shoot weight by 15% but did not significantly affect the dry weight, whilst strains T4 and N47 significantly increased the root weights by 22% and 80%) respectively. Strains TH1 and N47 resulted in significantly greater root lengths. Pythium inoculation significantly reduced the root length and the number of lateral roots and nodules, and significantly increased the root and rhizosphere soil fungal populations. Pythium inoculation significantly reduced the plant wet and dry shoot weights and significantly increased the wet and the dry shoot/root ratio. All the Trichoderma strains reduced the number of lesions caused by Pythium and increased the number of lateral roots. The effect of the Pythium on emergence and shoot growth was significantly reduced by all the Trichoderma strains except strain To10. Inoculation with Trichoderma strains TH1 and T4 resulted in significantly greater wet root weights (62% and 57%, respectively) in the presence of Pythium compared to the Pythium control. Strain N47 significantly increased the shoot/root ratio compared to the Pythium control. Inoculation with Trichoderma strains T4, T12 and N47 significantly reduced Pythium populations. Pythium increased the activity of C, N and P cycle enzymes, whilst four Trichoderma strains reduced this effect, indicating reduced plant damage and C leakage. Overall, strains T4 and N47 had the greatest beneficial characteristics, as both these strains improved plant growth in the absence of Pythium and reduced plant damage in the presence of Pythium. The dual properties of these strains improve the commercial application, giving them an advantage over single action inocula, especially in the absence of plant pathogens.     

The effects of chronic nitrogen fertilization on alpine tundra soil microbial communities: implications for carbon and nitrogen cycling

Many studies have shown that changes in nitrogen (N) availability affect primary productivity in a variety of terrestrial systems, but less is known about the effects of the changing N cycle on soil organic matter (SOM) decomposition. We used a variety of techniques to examine the effects of chronic N amendments on SOM chemistry and microbial community structure and function in an alpine tundra soil. We collected surface soil (0-5 cm) samples from five control and five long-term N-amended plots established and maintained at the Niwot Ridge Long-term Ecological Research (LTER) site. Samples were bulked by treatment and all analyses were conducted on composite samples. The fungal community shifted in response to N amendments, with a decrease in the relative abundance of basidiomycetes. Bacterial community composition also shifted in the fertilized soil, with increases in the relative abundance of sequences related to the Bacteroidetes and Gemmatimonadetes, and decreases in the relative abundance of the Verrucomicrobia. We did not uncover any bacterial sequences that were closely related to known nitrifiers in either soil, but sequences related to archaeal nitrifiers were found in control soils. The ratio of fungi to bacteria did not change in the N-amended soils, but the ratio of archaea to bacteria dropped from 20% to less than 1% in the N-amended plots. Comparisons of aliphatic and aromatic carbon compounds, two broad categories of soil carbon compounds, revealed no between treatment differences. However, G-lignins were found in higher relative abundance in the fertilized soils, while proteins were detected in lower relative abundance. Finally, the activities of two soil enzymes involved in N cycling changed in response to chronic N amendments. These results suggest that chronic N fertilization induces significant shifts in soil carbon dynamics that correspond to shifts in microbial community structure and function.     

Effects of nitrogen addition on litter decomposition, soil microbial biomass, and enzyme activities between leguminous and non-leguminous forests

Anthropogenic nitrogen (N) deposition is an expanding problem that affects the functioning and composition of forest ecosystems, particularly the decomposition of forest litters. Legumes play an important role in the nitrogen cycle of forest ecosystems. Two litter types were chosen from Zijin Mountain in China: Robinia pseudoacacia leaves from a leguminous forest (LF) and Liquidambar formosana leaves from a non-leguminous forest (NF). The litter samples were mixed into original forest soils and incubated in microcosms. Then, they were treated by five forms of N addition: NH₄ ⁺, NO₃ ^?, urea, glycine, and a mixture of all four. During a 6-month incubation period, litter mass losses, soil microbial biomass, soil pH, and enzyme activities were investigated. Results showed that mixed N and NO₃ ^?-N addition significantly accelerated the litter decomposition rates of LF leaves, while mixed N, glycine-N, and urea-N addition significantly accelerated the litter decomposition rates of NF leaves. Litter decomposition rates and soil enzyme activities under mixed N addition were higher than those under single form of N additions in the two forest types. Nitrogen addition had no significant effects on soil pH and soil microbial biomass. The results indicate that nitrogen addition may alter microbial allocation to extracellular enzyme production without affecting soil microbial biomass, and then affected litter decomposition process. The results further reveal that mixed N is a more important factor in controlling litter decomposition process than single form of N, and may seriously affect soil N cycle and the release of carbon stored belowground.     

Differential responses of native and exotic coastal sage scrub plant species to N additions and the soil microbial community

Background and aims

Native shrub species of southern California have a long history of displacement by exotic annual herbs and forbs. Such invasions may be mediated by interactions with the microbial community and changes in the N cycle as a result of N pollution. However, the simultaneous effects of the soil microbial community status and N fertilization on dominant native and exotic plant species growth have not been thoroughly explored in this ecosystem.

Methods

Three species of native shrubs and of exotic annuals were grown in an orthogonal two-factor greenhouse experiment. To assess the importance of the soil microbial community pre-sterilized soils were inoculated with sterilized or non-sterilized field soil; to assess the importance of N type pots were fertilized with nitrate, ammonium or glycine solutions. Plant shoot and root biomass was measured after harvesting.

Results

The natives Artemisia californica and Eriogonum fasciculatum had lower growth in sterilized soil, suggesting microbial facilitation of these species, and E. fasciculatum higher growth with ammonia than either nitrate or glycine. Salvia apiana had equal growth under all conditions. The exotics Brassica nigra and Bromus madritensis grew equally in sterilized and unsterilized soil, and B. madritensis greater growth with ammonia fertilizer. Centaurea melitensis had greater growth in sterilized soil, and with either form of inorganic N.

Conclusions

These results highlight the importance of the soil microbial community in contributing to relative success of native vs. exotic species, and could inform restoration approaches for these species.     

The effects of stubble retention and nitrogen application on soil microbial community structure and functional gene abundance under irrigated maize

The effects of agronomic management practices on the soil microbial community were investigated in a maize production system in New South Wales, Australia. The site has been intensively studied to measure the impact of stubble management and N-fertilizer application on greenhouse gas emissions (CO(2) and N(2)O), N-cycling, pathology, soil structure and yield. As all of these endpoints can be regulated by microbial processes, the microbiology of the system was examined. Soil samples were taken after a winter fallow period and the diversity of the bacterial and fungal communities was measured using PCR-denaturing gradient gel electrophoresis. Stubble and N shifted the structure of bacterial and fungal communities with the primary driver being stubble addition on the fungal community structure (P<0.05 for all effects). Changes in C, N (total and NO(3)), K and Na, were correlated (P<0.05) with variation in the microbial community structure. Quantitative PCR showed that nifH (nitrogen fixation) and napA (denitrification) gene abundance increased upon stubble retention, whereas amoA gene numbers were increased by N addition. These results showed that the management of both stubble and N have significant and long-term impacts on the size and structure of the soil microbial community at phylogenetic and functional levels.     

Legacy effects of drought on plant growth and the soil food web

Soils deliver important ecosystem services, such as nutrient provision for plants and the storage of carbon (C) and nitrogen (N), which are greatly impacted by drought. Both plants and soil biota affect soil C and N availability, which might in turn affect their response to drought, offering the potential to feed back on each other’s performance. In a greenhouse experiment, we compared legacy effects of repeated drought on plant growth and the soil food web in two contrasting land-use systems: extensively managed grassland, rich in C and with a fungal-based food web, and intensively managed wheat lower in C and with a bacterial-based food web. Moreover, we assessed the effect of plant presence on the recovery of the soil food web after drought. Drought legacy effects increased plant growth in both systems, and a plant strongly reduced N leaching. Fungi, bacteria, and their predators were more resilient after drought in the grassland soil than in the wheat soil. The presence of a plant strongly affected the composition of the soil food web, and alleviated the effects of drought for most trophic groups, regardless of the system. This effect was stronger for the bottom trophic levels, whose resilience was positively correlated to soil available C. Our results show that plant belowground inputs have the potential to affect the recovery of belowground communities after drought, with implications for the functions they perform, such as C and N cycling.     

Impact of the plant community composition on labile soil organic carbon, soil microbial activity and community structure in semi-natural grassland ecosystems of different productivity

Aims

The main objective was to describe the effects of plant litter on SOC and on soil microbial activity and structure in extensively managed grasslands in Central Germany that vary in biomass production and plant community composition.

Methods

The decomposition of shoot and root litter was studied in an incubation experiment. Labile C and N were isolated by hot water extraction (C_HWE, N_HWE), while functional groups of microbes were identified by PLFA analysis and microbial activity was measured using a set of soil exo-enzymes.

Results

The plant community composition, particulary legume species affected SOC dynamics and below-ground microbial processes, especially via roots. This was reflected in about 20% lower decomposition of root litter in low productivity grassland soil. The C_HWE soil pool was found to be a key driver of the below-ground food web, controlling soil microbial processes.

Conclusions

Below-ground responses appear to be related to the presence of legume species, which affected the microbial communities, as well as the ratio between fungal and bacterial biomass and patterns of soil enzyme activity. Low productivity fungal-dominated grasslands with slow C turnover rates may play an important role in SOC accumulation. The approach used here is of particular importance, since associated biological and biochemical processes are fundamental to ecosystem functioning.     

Long- and short-term effects of fire on nitrogen cycling in tallgrass prairie

Fires in the tallgrass prairie are frequent and significantly alter nutrient cycling processes. We evaluated the short-term changes in plant production and microbial activity due to fire and the long-term consequences of annual burning on soil organic matter (SOM), plant production, and nutrient cycling using a combination of field, laboratory, and modeling studies. In the short-term, fire in the tallgrass prairie enhances microbial activity, increases both above-and belowground plant production, and increases nitrogen use efficiency (NUE). However, repeated annual burning results in greater inputs of lower quality plant residues causing a significant reduction in soil organic N, lower microbial biomass, lower N availability, and higher C:N ratios in SOM. Changes in amount and quality of below-ground inputs increased N immobilization and resulted in no net increases in N availability with burning. This response occurred rapidly (e.g., within two years) and persisted during 50 years of annual burning. Plant production at a long-term burned site was not adversely affected due to shifts in plant NUE and carbon allocation. Modeling results indicate that the tallgrass ecosystem responds to the combined changes in plant resource allocation and NUE. No single factor dominates the impact of fire on tallgrass plant production.     

氮添加对亚热带毛竹林土壤微生物群落结构的影响

氮沉降会影响森林生态系统地上(如植物生产力和组成)和地下特性(如土壤养分循环),进而影响土壤微生物群落结构和功能。本研究以亚热带戴云山毛竹林为对象,设置N0(0 kg N·hm^-2·a^-1)、N20(20 kg N·hm^-2·a^-1)、N80(80 kg N·hm^-2·a^-1) 3个施氮水平,进行3年的氮沉降模拟实验。通过测定土壤基本理化性质、腐殖化指数和微生物磷脂脂肪酸等指标,研究氮添加对毛竹林土壤养分、腐殖化指数和微生物群落结构的影响。结果显示,N20显著增加土壤腐殖化指数,降低土壤中碱性阳离子总量(K⁺,Na⁺,Ca²⁺,Mg²⁺)、革兰氏阳性菌(G⁺)、革兰氏阴性菌(G^-)、总磷脂脂肪酸含量和G⁺/G^-。与N20相比,N80处理土壤NO₃^-     

The effects of plant roots on microbial community structure in aerated wastewater-treatment reactors

Hydroponic reactors are aerated tanks on top of which emergent macrophytes are grown with their roots developing freely into the wastewater, thus providing a support medium for attached microbial growth. The community structures of biofilms derived from the roots of two macrophyte species, Typha domingensis and Cyperus alopcuroides, were compared. The macrophytes were grown, hydroponically, in reactors treating public kitchen wastewater. Tuff particles served as a control. Microbial community structure was determined through community level physiological profiling using BIOLOG Ecoplates. The experimental system consisted of six parallel treatment trains, each composed of four consecutive aerated tanks inhabited by one plant species or unplanted. Retention time was 80 h. Biofilm samples were taken from the first and last reactors of each treatment train. Water analyses were also conducted. Wastewater treatment removed 97.7, 98.6, 99.98 and 73.1% of BOD, TSS, coliforms and TN, respectively. Support-medium type had no significant effect on any of these parameters. Ordination analyses showed a significant effect of support-medium type, treatment stage and reactor age on the physiological profile of biofilms. The effect of support-medium type on community structure remained significant across different treatment stages and reactor ages. Richness of well response was higher in the first reactors than in the last ones. Differences in richness between support-medium types were minor.     

Diversity- and density-mediated allelopathic effects of resident plant communities on invasion by an exotic plant

Plant and Soil - Resident plants can exert allelopathic effects on introduced exotic plants, and resistance to exotic plant invasions usually increases with diversity and density of the resident...