The measurement of soil fungal:bacterial biomass ratios as an indicator of ecosystem self-regulation in temperate meadow grasslands

 There is much interest in the development of agricultural land management strategies aimed at enhancing reliance on ecosystem self-regulation rather than on artificial inputs such as fertilisers and pesticides. This study tested the usefulness of measures of soil microbial biomass and fungal:bacterial biomass ratios as indicators of effective conversion from an intensive grassland system, reliant mainly on fertilisers for crop nutrition, to a low-input system reliant mainly on self-regulation through soil biological pathways of nutrient turnover. Analysis of soils from a wide range of meadow grassland sites in northern England, along a gradient of long-term management intensity, showed that fungal:bacterial biomass ratios (measured by phospholipid fatty acid analysis; PLFA) were consistently and significantly higher in the unfertilised than the fertilised grasslands. There was also some evidence that microbial biomass, measured by chloroform fumigation and total PLFA, was higher in the unfertilised than in the fertilised grasslands. It was also found that levels of inorganic nitrogen (N), in particular nitrate-N, were significantly higher in the fertilised than in the unfertilised grasslands. However, microbial activity, measured as basal respiration, did not differ between the sites. A field manipulation trial was conducted to determine whether the reinstatement of traditional management on an improved mesotrophic grassland, for 6 years, resulted in similar changes in the soil microbial community. It was found that neither the cessation of fertiliser applications nor changes in cutting and grazing management significantly affected soil microbial biomass or the fungal:bacterial biomass ratio. It is suggested that the lack of effects on the soil microbial community may be related to high residual fertility caused by retention of fertiliser N in the soil. On the basis of these results it is recommended that following the reinstatement of low-input management, the measurement of a significant increase in the soil fungal:bacterial biomass ratio, and perhaps total microbial biomass, may be an indicator of successful conversion to a grassland system reliant of self-regulation. Received: 4 May 1998     

The impacts of individual plant species on rhizosphere microbial communities in soils of different fertility

To investigate the effects of individual plant species on microbial community properties in soils of differing fertility, a microcosm experiment was carried out using plant species representative of the dominant flora in semi-fertile temperate grasslands of northern England. Soil microbial biomass and activity were found to be significantly greater in the more fertile, agriculturally improved soil than in the less productive unimproved meadow soil. Differences in microbial community structure were also evident between the two soils, with fungal abundance being greater in the unimproved soil type. Individual plant species effects significantly differed between the two soils. Holcus lanatus and Anthoxanthum odoratum stimulated microbial biomass in the improved soil type, but negatively affected this measure in the unimproved soil. In both soil types, herb species generally had negative effects on microbial biomass. Patterns for microbial activity were less consistent, but as with microbial biomass, A. odoratum and H. lanatus promoted respiration, whereas the herbs negatively affected this measure. All plant species grown in the improved soil increased the abundance of fatty acids synthesised by bacteria (bacterial phospholipid fatty acid analysis) relative to bare soil, but they negatively impacted on this group of fatty acids in unimproved soil. Similarly, the abundance of the fungal fatty acid 18:26 was increased by all plants in the more fertile improved soil only, albeit non-significantly. Our data indicate that effects of plant species on microbial properties differ markedly in soils of differing fertility, making general predictions about how individual plants impact on soil properties difficult to make.     

Soil microbial community composition and land use history in cultivated and grassland ecosystems of coastal California

Phospholipid ester-linked fatty acid (PLFA) profiles were used to evaluate soil microbial community composition for 9 land use types in two coastal valleys in California. These included irrigated and non-irrigated agricultural sites, non-native annual grasslands and relict, never-tilled or old field perennial grasslands. All 42 sites were on loams or sandy loams of similar soil taxa derived from granitic and alluvial material. We hypothesized that land use history and its associated management inputs and practices may produce a unique soil environment, for which microbes with specific environmental requirements may be selected and supported. We investigated the relationship between soil physical and chemical characteristics, management factors, and vegetation type with microbial community composition. Higher values of total soil C, N, and microbial biomass (total PLFA) and lower values of soil pH occurred in the grassland than cultivated soils. The correspondence analysis (CA) of the PLFA profiles and the canonical correspondence analysis (CCA) of PLFA profiles, soil characteristics, and site and management factors showed distinct groupings for land use types. A given land use type could thus be identified by soil microbial community composition as well as similar soil characteristics and management factors. Differences in soil microbial community composition were highly associated with total PLFA, a measure of soil microbial biomass, suggesting that labile soil organic matter affects microbial composition. Management inputs, such as fertilizer, herbicide, and irrigation, also were associated with the distinctive microbial community composition of the different cultivated land use types.     

Grazing effects on microbial community composition, growth and nutrient cycling in salt marsh and sand dune grasslands

The effect of grazing by large herbivores on the microbial community and the ecosystem functions they provide are relatively unknown in grassland systems. In this study, the impact of grazing upon the size, composition and activity of the soil microbial community was measured in field experiments in two coastal ecosystems: one salt marsh and one sand dune grassland. Bacterial, fungal and total microbial biomass were not systematically affected by grazing across ecosystems, although, within an ecosystem, differences could be detected. Fungal-to-bacterial ratio did not differ with grazing for either habitat. Redundancy analysis showed that soil moisture, bulk density and root biomass significantly explained the composition of phospholipid fatty acid (PLFA) markers, dominated by the distinction between the two grassland habitats, but where the grazing effect could also be resolved. PLFA markers for Gram-positive bacteria were more proportionally abundant in un-grazed, and markers for Gram-negative bacteria in grazed grasslands. Bacterial growth rate (leucine incorporation) was highest in un-grazed salt marsh but did not vary with grazing intensity in the sand dune grassland. We conclude that grazing consistently affects the composition of the soil microbial community in semi-natural grasslands but that its influence is small (7 % of the total variation in PLFA composition), compared with differences between grassland types (89 %). The relatively small effect of grazing translated to small effects on measurements of soil microbial functions, including N and C mineralisation. This study is an early step toward assessing consequences of land-use change for global nutrient cycles driven by the microbial community.     

Soil texture affects soil microbial and structural recovery during grassland restoration

Many biotic and abiotic factors influence recovery of soil communities following prolonged disturbance. We investigated the role of soil texture in the recovery of soil microbial community structure and changes in microbial stress, as indexed by phospholipid fatty acid (PLFA) profiles, using two chronosequences of grasslands restored from 0 to 19 years on silty clay loam and loamy fine sand soils in Nebraska, USA. All restorations were formerly cultivated fields seeded to native warm-season grasses through the USDA’s Conservation Reserve Program. Increases in many PLFA concentrations occurred across the silty clay loam chronosequence including total PLFA biomass, richness, fungi, arbuscular mycorrhizal fungi, Gram-positive bacteria, Gram-negative bacteria, and actinomycetes. Ratios of saturated:monounsaturated and iso:anteiso PLFAs decreased across the silty clay loam chronosequence indicating reduction in nutrient stress of the microbial community as grassland established. Multivariate analysis of entire PLFA profiles across the silty clay loam chronosequence showed recovery of microbial community structure on the trajectory toward native prairie. Conversely, no microbial groups exhibited a directional change across the loamy fine sand chronosequence. Changes in soil structure were also only observed across the silty clay loam chronosequence. Aggregate mean weighted diameter (MWD) exhibited an exponential rise to maximum resulting from an exponential rise to maximum in the proportion of large macroaggregates (>2000 μm) and exponential decay in microaggregates (<250 μm and >53 μm) and the silt and clay fraction (<53 μm). Across both chronosequences, MWD was highly correlated with total PLFA biomass and the biomass of many microbial groups. Strong correlations between many PLFA groups and the MWD of aggregates underscore the interdependence between the recovery of soil microbial communities and soil structure that may explain more variation than time for some soils (i.e., loamy fine sand). This study demonstrates that soil microbial responses to grassland restoration are modulated by soil texture with implications for estimating the true capacity of restoration efforts to rehabilitate ecosystem functions.     

温室菜园土壤氮矿化和微生物群落对水分的响应

Soil drying and wetting impose significant influences on soil nitrogen (N) dynamics and microbial communities. However, effects of drying-wetting cycles, while common in vegetable soils, especially under greenhouse conditions, have not been well studied. In this study, two greenhouse vegetable soils, which were collected from Xinji (XJ) and Hangzhou (HZ), China, were maintained at 30% and 75% water-holding capacity (WHC), or five cycles of 75% WHC followed by a 7-day dry-down to 30% WHC (DW). Soil inorganic N content increased during incubation. Net N mineralization (Nmin), microbial activity, and microbial biomass were significantly higher in the DW treatment than in the 30% and 75% WHC treatments. The higher water content (75% WHC) treatment had higher Nmin, microbial activity, and microbial biomass than the lower water content treatment (30% WHC). Multivariate analyses of community-level physiological profile (CLPP) and phospholipid fatty acid (PLFA) data indicated that soil moisture regime had a significant effect on soil microbial community substrate utilization pattern and microbial community composition. The significant positive correlation between Nmin and microbial substrate utilization or PLFAs suggested that soil N mineralization had a close relationship with microbial community.     

%G+C profiling and cross hybridisation of microbial DNA reveals great variation in below-ground community structure in UK upland grasslands

Total DNA was directly extracted from microbial populations in grassland soils taken from three geographically distinct upland sites at Garrigill, Aber and Sourhope, UK. Within each site, grasslands were categorised using the National Vegetation Classification into distinct vegetation sequences, namely unimproved, semi-improved and improved. Microbial community DNA was extracted from the different soils and analysed by determining (percent guanine+yctosine) %G+C profiles by thermal denaturation, and by cross hybridisation to measure the degree of similarity between the DNA extracted from the different soils. The %G+C profiles indicated that the microbial community structure within the different grasslands at Garrigill was significantly different. No significant differences in %G+C were detected under the different grasslands at Aber and Sourhope. However, significant differences in %G+C profiles derived from spatially-distinct replicate quadrats taken within grasslands were detected within the semi-improved grasslands at each site, and the unimproved grassland at Aber. Cross hybridisation analysis revealed significant differences between the improved, semi-improved and unimproved grasslands within all sites, with similarity values ranging from 51 to 94%. Significant differences were also detected between replicate quadrats within grassland types by this technique. These results provide evidence for great spatial variation in community DNA (i.e. genetic composition of microbial communities) within these grasslands.     

Microbial communities of a native perennial bunchgrass do not respond consistently across a gradient of land-use intensification

To test if native perennial bunchgrasses cultivate the same microbial community composition across a gradient in land-use intensification, soils were sampled in fall, winter and spring in areas under bunchgrasses (‘plant’) and in bare soils (‘removal’) in which plots were cleared of living plants adjacent to native perennial bunchgrasses (Nassella pulchra). The gradient in land-use intensification was represented by a relict perennial grassland, a restored perennial grassland, and a perennial grass agriculture site on the same soil type. An exotic annual grassland site was also included because perennial bunchgrasses often exist within a matrix of annual grasses in California. Differences in soil resource pools between ‘plant’ and ‘removal’ soils were observed mainly in the relict perennial grassland and perennial grass agriculture site. Seasonal responses occurred in all sites. Microbial biomass carbon (C) and dissolved organic C were greater under perennial bunchgrasses in the relict perennial grassland and perennial grass agriculture site when comparing treatment means of ‘plant’ vs. ‘removal’ soil. In general, soil moisture, microbial respiration, and nitrate decreased from fall to spring in ‘plant’ and ‘removal’ soils, while soil ammonium and net mineralizable nitrogen (N) increased only in ‘plant’ soils. A canonical correspondence analysis (CCA) of phospholipid fatty acid (PLFA) profiles from all sites showed that land-use history limits the similarity of microbial community composition as do soil C and N dynamics among sites. When PLFA profiles from individual sites were analyzed by CCA, different microbial PLFA markers were associated with N. pulchra in each site, indicating that the same plant species does not retain a unique microbial fingerprint across the gradient of land-use intensification.     

Microbial community PLFA and PHB responses to ecosystem restoration in tallgrass prairie soils

Native North American prairie grasslands are renowned for the richness of their soils, having excellent soil structure and very high organic content and microbial biomass. In this study, surface soils from three prairie restorations of varying ages and plant community compositions were compared with a nearby undisturbed native prairie remnant and a cropped agricultural field in terms of soil physical, chemical and microbial properties. Soil moisture, organic matter, total carbon, total nitrogen, total sulfur, C:N, water-holding capacity and microbial biomass (total PLFA) were significantly greater (p<0.05) in the virgin prairie remnant as well as the two long-term (21 and 24 year) prairie restorations, compared with the agricultural field and the restoration that was begun more recently (7 years prior to sampling). Soil bulk density was significantly greater (p<0.05) in the agricultural and recently restored sites. In most cases, the soil quality indicators and microbial community structures in the restoration sites were intermediate between those of the virgin prairie and the agricultural sites. Levels of poly-β-hydroxybutyrate (PHB) and PLFA indicators of nutritional stress were significantly greater (p<0.05) in the agricultural and recent restoration sites than in the long-term restorations or the native prairie. Samples could be assigned to the correct site by discriminant analysis of the PLFA data, with the exception that the two long-term restoration sites overlapped. Redundancy analysis showed that prairie age (p<0.005) was the most important environmental factor in determining the PLFA microbial community composition, with C:N (p<0.015) also being significant. These findings demonstrate that prairie restorations can lead to improved quality of surface soils. We predict that the conversion of farmland into prairie will shift the soil quality, microbial community biomass and microbial community composition in the direction of native prairies, but with the restoration methods tested it may take many decades to approach the levels found in a virgin prairie throughout the soil profile.     

Microbial community composition on native and drastically disturbed serpentine soils

During construction of roads, entire hillsides can be cut away, dramatically disturbing the ecosystem. Microbial communities play important, but poorly understood roles in revegetating roadcuts because of the many functions they perform in nutrient cycling, plant symbioses, decomposition, and other ecosystem processes. Our objective was to determine relationships among microbial community composition, soil chemistry, and disturbance on a serpentine soil disturbed by a roadcut and then partially revegetated. We hypothesized that the adjacent undisturbed serpentine soil would have a different microbial community composition from barren and revegetated sections of the roadcut and that undisturbed soils would have the greatest microbial biomass and diversity. We measured phospholipid fatty acids (PLFA) and soil nutrient concentrations on barren and revegetated sections of the roadcut and on adjacent undisturbed serpentine and nonserpentine soils. Most roadcut samples had soil chemistry similar to the serpentine reference soil. The microbial biomass and diversity of barren sites was lower than that of revegetated or the serpentine reference site. The nonserpentine reference site had significantly (P≤0.05) greater microbial biomass than serpentine or disturbed sites but significantly lower relative proportions of actinomycetes, and slow growth biomarkers. The Barren site had the lowest microbial biomass and a significantly (P≤0.05) greater proportion of that biomass was fungi. Barren, revegetated, and serpentine sites all had dissimilar microbial community composition. The composition of the revegetated communities, however, was intermediate between the serpentine reference and barren soils, suggesting that community composition of revegetated soils is approaching that of an undisturbed site with similar soil chemistry.     

Accounting for variability in soil microbial communities of temperate upland grassland ecosystems

This study aimed to determine the factors which regulate soil microbial community organisation and function in temperate upland grassland ecosystems. Soil microbial biomass (C_mic), activity (respiration and potential carbon utilisation) and community structure (phospholipid fatty acid (PLFA) analysis, culturing and community level physiological profiles (CLPP) (Biolog^®)) were measured across a gradient of three upland grassland types; Festuca–Agrostis–Galium grassland (unimproved grassland, National Vegetation Classification (NVC) — U4a); Festuca–Agrostis–Galium grassland, Holcus–Trifolium sub-community (semi-improved grassland, NVC — U4b); Lolium–Cynosurus grassland (improved grassland, NVC — MG6) at three sites in different biogeographic areas of the UK over a period of 1 year. Variation in C_mic was mainly due to grassland type and site (accounting for 55% variance, v, in the data). C_mic was significantly (P<0.001) high in the unimproved grassland at Torridon (237.4 g C m⁻² cf. 81.2 g C m⁻² in semi- and 63.8 g C m⁻² in improved grasslands) and Sourhope (114.6 g C m⁻² cf. in 44.8 g C m⁻² semi- and 68.3 g C m⁻² in improved grasslands) and semi-improved grassland at Abergwyngregyn (76.0 g C m⁻² cf. 41.7 g C m⁻² in un- and 58.3 g C m⁻² in improved grasslands). C_mic showed little temporal variation (v=3.7%). Soil microbial activity, measured as basal respiration was also mainly affected by grassland type and site (n=32%). In contrast to C_mic, respiration was significantly (P<0.001) high in the improved grassland at Sourhope (263.4 l h⁻¹m⁻² cf. 79.6 l h⁻¹m⁻² in semi- and 203.9 l h⁻¹m⁻² unimproved grasslands) and Abergwyngregyn (198.8 l h⁻¹m⁻² cf. 173.7 l h⁻¹m⁻² in semi- and 88.2 l h⁻¹m⁻² unimproved grasslands). Microbial activity, measured as potential carbon utilisation, agreed with the respiration measurements and was significantly (P<0.001) high in the improved grassland at all three sites (A₅₉₀ 0.14 cf. 0.09 in semi- and 0.07 in unimproved grassland). However, date of sampling also had a significant (P<0.001) impact on C utilisation potential (v=24.7%) with samples from April 1997 having highest activity at all three sites. Variation in microbial community structure was due, predominantly, to grassland type (average v=23.6% for bacterial and fungal numbers and PLFA) and date of sampling (average v=39.7% for bacterial and fungal numbers and PLFA). Numbers of culturable bacteria and bacterial PLFA were significantly (P<0.001) high in the improved grassland at all three sites. Fungal populations were significantly (P<0.01) high in the unimproved grassland at Sourhope and Abergwyngregyn. The results demonstrate a shift in soil microbial community structure from one favouring fungi to one favouring bacteria as grassland improvement increased. Numbers of bacteria and fungi were also significantly (P<0.001) higher in August than any other sampling date. Canonical variate analysis (CVA) of the carbon utilisation data significantly (P<0.05) differentiated microbial communities from the three grassland types, mainly due to greater utilisation of sugars and citric acid in the improved grasslands compared to greater utilisation of carboxylic acids, phenolics and neutral amino acids in the unimproved grasslands, possibly reflecting substrate availability in these grasslands. Differences in C_mic, activity and community structure between grassland types were robust over time. In addition, broad scale measures of microbial growth and activity (C_mic and respiration) showed little temporal variation compared to measures of soil microbial community structure, which varied quantitatively with respect to environmental variables (temperature, moisture) and plant productivity, hence substrate supply.     

Biochemical properties in managed grassland soils in a temperate humid zone: modifications of soil quality as a consequence of intensive grassland use

Although soil biochemical properties are considered to be good indicators of changes in soil quality, few studies have been made of the changes in biochemical properties brought about by anthropogenic disturbance of grassland ecosystems. In the present study, several biochemical properties were analysed in 31 grassland soils subjected to a high level of management, and the values obtained were compared with known values corresponding to native grasslands from the same region (Galicia, NW Spain). The 31 managed grasslands were divided into two groups (re-sown grasslands and improved grasslands) according to their management and past land use. The biochemical properties studied were: labile carbon, microbial biomass carbon, microbial respiration, metabolic quotient, net nitrogen mineralisation and the activities of dehydrogenase, catalase, phosphodiesterase, phosphomonoesterase, casein hydrolysing proteases, benzoyl arginamide (BAA)-hydrolysing proteases, urease, cellulase, ß-glucosidase, invertase and arylsulphatase. Managed grasslands exhibited lower values of soil biochemical properties than native grasslands. Three biochemical equilibrium equations were used to compare soil quality in managed and native grasslands. One of the equations did not show any significant difference between the groups of grassland soils considered. In contrast, two of the equations showed similar soil quality for improved and native grasslands, while re-sown grasslands exhibited a loss of soil quality when compared to native grassland soils.     

Short-term effects of defoliation on the soil microbial community associated with two contrasting Lolium perenne cultivars

Intra-species variation in response to defoliation and soil amendment has been largely neglected in terms of the soil microbial community (SMC). The influence of defoliation and soil fertiliser amendment on the structure of the SMC was assessed with two Lolium perenne cultivars contrasting in ability to accumulate storage reserves. Plant response to defoliation was cultivar specific and depended on the nutrient amendment of the soil. Results suggested a greater ability to alter plant biomass allocation in the low carbohydrate accumulating cultivar (S23) compared to the high carbohydrate cultivar (AberDove) when grown in improved (IMP), but not in unimproved (UNI), soil. Although differences in plant growth parameters were evident, no treatment effects were detected in the size of the active microbial biomass (total phospholipid fatty acid (PLFA) 313.8 nmol g⁻¹ soil±33.9) or proportions of PLFA signature groups. A lower average well colour development (AWCD) of Biolog sole carbon source utilisation profiles (SCSUPs) in defoliated (D) compared to non-defoliated (ND) treatments may be indicative of lower root exudation 1 week following defoliation, as a consequence of lower root non-structural carbohydrate (NSC) concentrations. Within the bacterial community the lower cyclopropyl-to-precursor ratio of PLFAs, and the trans/cis ratio of 16:1w7, in UNI relative to IMP soil treatments indicates lower physiological stress in UNI soils regardless of L. perenne cultivar. Discrimination of broad scale SMC structure, measured by PLFA analysis, revealed that soil treatment interacted strongly with cultivar and defoliation. In IMP soils the SMCs discriminated between cultivars while defoliation had little effect. Conversely, in UNI soils defoliation caused a common shift in the SMC associated with both cultivars, causing convergence of overall community structure. Separation of SMC structure along the primary canonical axis correlated most strongly (P<0.001) with root:shoot ratio (47.6%), confirming that differences in cultivar C-partitioning between treatments were influential in defining the rhizosphere microbial community.     

Response of microbial community composition and activity in agricultural and grassland soils after a simulated rainfall

Rainfall in Mediterranean climates may affect soil microbial processes and communities differently in agricultural vs. grassland soils. We explored the hypothesis that land use intensification decreases the resistance of microbial community composition and activity to perturbation. Soil carbon (C) and nitrogen (N) dynamics and microbial responses to a simulated Spring rainfall were measured in grassland and agricultural ecosystems. The California ecosystems consisted of two paired sets: annual vegetable crops and annual grassland in Salinas Valley, and perennial grass agriculture and native perennial grassland in Carmel Valley. Soil types of the respective ecosystem pairs were derived from granitic parent material and had sandy loam textures. Intact cores (30 cm deep) were collected in March 1999. After equilibration, dry soil cores (approx. −1 to −2 MPa) were exposed to a simulated Spring rainfall of 2.4 cm, and then were measured at 0, 6, 24, and 120 h after rewetting. Microbial biomass C (MBC) and inorganic N did not respond to rewetting. N₂O and CO₂ efflux and respiration increased after rewetting in all soils, with larger responses in the grassland than in the agricultural soils. Phospholipid fatty acid (PLFA) profiles indicated that changes in microbial community composition after rewetting were most pronounced in intensive vegetable production, followed by the relict perennial grassland. Changes in specific PLFA markers were not consistent across all sites. There were more similarities among microbial groups associated with PLFA markers in agricultural ecosystems than grassland ecosystems. Differences in responses of microbial communities may be related to the different plant species composition of the grasslands. Agricultural intensification appeared to decrease microbial diversity, as estimated from numbers of individual PLFA identified for each ecosystem, and reduce resistance to change in microbial community composition after rewetting. In the agricultural systems, reductions in both the measures of microbial diversity and the resistance of the microbial community composition to change after a perturbation were associated with lower ecosystem function, i.e. lower microbial responses to increased moisture availability.     

Microbial reaction in activity, biomass, and community structure after long-term continuous mixing of a grassland soil

Long-term continuous mixing at 40% water holding capacity (WHC) or as slurry at 400% WHC should result in increased soil organic matter decomposition rates in comparison to a control treatment at 40% WHC, but may have strong impacts on soil microbial indices for activity, biomass, and community structure. The amount of extractable inorganic N (NO₃-N+NH₄-N) accumulated in the soil solution after 40 weeks of incubation at 25 °C was 3% of total N in the control treatment and 4% in the two continuous mixing treatments. However, in the treatment mixing at 40% WHC, this 33% increase compared to the control treatment might be explained solely by the decrease in microbial biomass N. In the control treatment, microbial indices decreased in the order microbial biomass C (−10%), microbial biomass N (−40%), ergosterol (−45%) and ATP (−60%). In the treatment mixing at 40% WHC, all four microbial biomass indices were significantly lower than the respective index in the control treatment. This was especially true for microbial biomass N. In the treatment mixing as slurry, only the contents of microbial biomass C and ATP were significantly lower in comparison to the control treatment. The correspondence analysis ordination biplot of the phospholipid fatty acid (PLFA) profiles showed distinct clusters for the three treatments at the end of the incubation. The strongest relative decline of 64% was observed for the fungi-specific PLFA 18:3ω6 in the treatment mixing as slurry in comparison to the control treatment. The content of total bacterial PLFA decreased only by 23%. The differences between the control treatment and the treatment mixing at 40% WHC were less apparent. Fungi represent on average 21% of total microbial biomass C at the end of the incubation if the ergosterol content is recalculated into fungal biomass C. In accordance with this percentage, 22% of the group-specific PLFA could be attributed to fungi.     

Soil microbial community composition as affected by restoration practices in California grassland

Agricultural practices have strong impacts on soil microbes including both the indices related to biomass and activity as well as those related to community composition. In a grassland restoration project in California, where native perennial bunchgrasses were introduced into non-native annual grassland after a period of intensive tillage, weeding, and herbicide use to reduce the annual seed bank, microbial community composition was investigated. Three treatments were compared: annual grassland, bare soil fallow, and restored perennial grassland. Soil profiles down to 80 cm in depth were investigated in four separate layers (0-15, 15-30, 30-60, and 60-80 cm) using both phospholipid ester-linked fatty acid (PLFAs) and ergosterol as biomarkers in addition to microbial biomass C by fumigation extraction. PLFA fingerprinting showed much stronger differences between the tilled bare fallow treatment vs. grasslands, compared to fewer differences between restored perennial grassland and annual grassland. The presence or absence of plants over several years clearly distinguished microbial communities. Microbial communities in lower soil layers were little affected by management practices. Regardless of treatment, soil depth caused a strong gradient of changing habitat conditions, which was reflected in Canonical Correspondence Analysis of PLFAs. Fungal organisms were associated with the presence of plants and/or litter since the total amount and the relative proportion of fungal markers were reduced in the tilled bare fallow and in lower layers of the grassland treatments. Total PLFA and soil microbial biomass were highly correlated, and fungal PLFA biomarkers showed strong correlations to ergosterol content. In conclusion, microbial communities are resilient to the grassland restoration process, but do not reflect the change in plant species composition that occurred after planting native bunchgrasses.     

Impact of cattle grazing and inorganic fertiliser additions to managed grasslands on the microbial community composition of soils

A study was undertaken to determine if cattle grazing on managed grasslands had an impact on the microbial community composition of soils. Microbial community molecular profiles of bacteria, actinomycetes, pseudomonads and fungi were generated by polymerase chain reaction (PCR) amplification of rDNA sequences from community DNA isolated from soils. PCR products were profiled using denaturing gradient gel electrophoresis (DGGE) and analysed by principal co-ordinate analysis. PCR–DGGE profiles indicated that cattle grazing had an impact on the pseudomonad community structure only, and that the addition of inorganic nitrogen (N) fertiliser impacted on bacterial, actinomycete and pseudomonad community structure. There was no difference in the community profiles of fungi from grazed and N fertilised grassland plots. Analysis of phospholipid fatty acid (PLFA) profiles revealed that both cattle grazing and N fertiliser impacted on microbial community structure. The abundance of individual PLFAs differed between treatments, with bacterial (15:0), actinomycete (10Me18:0) and fungal (18:2ω6) PLFAs not affected directly by grazing cattle and N fertiliser, however, there were significant grazing–fertiliser interactions. Bacterial plate counts were highest in the N fertilised plots and fungal plate counts were highest in the cattle grazed plots. Analysis of molecular microbial community profiles with PLFA and background soil data revealed several significant correlations. Notably, soil pH was positively correlated with PCO1 of the pseudomonad community profiles and negatively correlated with the fungal PLFA 18:2ω6. Fungal DGGE profiles were negatively correlated with the fungal PLFA 18:2ω6, and bacterial and fungal plate counts positively correlated with each other. Correlation analysis using PC1 from PLFA profile data showed no significant relationship with soil organic matter, pH, total C and total N. The results indicate that cattle grazing and N fertiliser addition to grasslands impact on the community composition of specific groups of micro-organisms. The consequences of such changes in population structure may have implications regarding the dynamics of nutrient turnover in soils.     

Above- and below-ground interactions with agricultural management: Effects of soil microbial communities on barley and aphids

Recent research has shown that agricultural management affects microbial biomass and community composition. We investigated the functional implications of such effects in terms of barley biomass production and nutrient acquisition, and whether changes in barley nutrient status affected aphid fecundity. Soils were collected from conventional, ley and organic arable fields and used as inocula in a glasshouse experiment. We determined microbial biomass and community composition using PLFA. We investigated barley growth and nutrient responses to the different soil inoculums, and the impact of excluding arbuscular mycorrhizal fungi (AMF). Aphids were applied to plants within clip cages and numbers of offspring counted. Microbial biomass and community composition were unaffected by agricultural management. The microbial communities altered root and shoot biomass and nutrient allocation, but had no effect on grain yield. Exclusion of AMF significantly increased shoot biomass but reduced grain yield. Aphid fecundity was not significantly affected by the microbial community or shoot nitrogen. We conclude that agricultural intensification does not necessarily have negative consequences for above- and below-ground interactions, and microbial communities from conventionally managed soils may offer equal benefit to crop productivity and nutrition as those from organically managed soils.     

Soil morphology,depth and grapevine root frequency influence microbial communities in a Pinot noir vineyard

The composition of microbial communities responds to soil resource availability, and has been shown to vary with increasing depth in the soil profile. Soil microorganisms partly rely on root-derived carbon (C) for growth and activity. Roots in woody perennial systems like vineyards have a deeper vertical distribution than grasslands and annual agriculture. Thus, we hypothesized that vineyard soil microbial communities along a vertical soil profile would differ from those observed in grassland and annual agricultural systems. In a Pinot noir vineyard, soil pits were excavated to ca. 1.6–2.5 m, and microbial community composition in ‘bulk’ (i.e., no roots) and ‘root’ (i.e., roots present) soil was described by phospholipid ester-linked fatty acids (PLFA). Utilization of soil taxonomy aided in understanding relationships between soil microbial communities, soil resources and other physical and chemical characteristics. Soil microbial communities in the Ap horizon were similar to each other, but greater variation in microbial communities was observed among the lower horizons. Soil resources (i.e., total PLFA, or labile C, soil C and nitrogen, and exchangeable potassium) were enriched in the surface horizons and significantly explained the distribution of soil microbial communities with depth. Soil chemical properties represented the secondary gradient explaining the differentiation between microbial communities in the B-horizons from the C-horizons. Relative abundance of Gram-positive bacteria and actinomycetes did not vary with depth, but were enriched in ‘root’ vs. ‘bulk’ soils. Fungal biomarkers increased with increasing depth in ‘root’ soils, differing from previous studies in grasslands and annual agricultural systems. This was dependent on the deep distribution of roots in the vineyard soil profile, suggesting that the distinct pattern in PLFA biomarkers may have been strongly affected by C derived from the grapevine roots. Gram-negative bacteria did not increase in concert with fungal abundance, suggesting that acidic pHs in lower soil horizons may have discouraged their growth. These results emphasize the importance of considering soil morphology and associated soil characteristics when investigating effects of depth and roots on soil microorganisms, and suggest that vineyard management practices and deep grapevine root distribution combine to cultivate a unique microbial community in these soil profiles.     

Soil microbial biomass and activity in Chinese tea gardens of varying stand age and productivity

Tea (Camellia sinensis) is a globally important crop and is unusual because it both requires an acid soil and acidifies soil. Tea stands tend to be extremely heavily fertilized in order to improve yield and quality, resulting in a great potential for diffuse pollution. The microbial ecology of tea soils remains poorly understood; an improved understanding is necessary as processes affecting nutrient availability and loss pathways are microbially mediated. We therefore examined the relationships between soil characteristics (pH, organic C, total N, total P, available P, exchangeable Al), the soil microbial biomass (biomass C, biomass ninhydrin-N, ATP, phospholipid fatty acids—PLFAs) and its activities (respiration, net mineralization and nitrification). At the Tea Research Institute, Hangzhou (TRI), we compared fields of different productivity levels (low, medium and high) and at Hongjiashan village (HJS) we compared fields of different stand age (9, 50 and 90 years). At both sites tea soils were compared with adjacent forest soils. At both sites, soil pH was highest in the forest soil and decreased with increasing productivity and age of the tea stand. Soil microbial biomass C and biomass ninhydrin-N were significantly affected by tea production. At TRI, microbial biomass C declined in the order forest>low>high>middle production and at HJS in the order stand age 50>age 9>forest>age 90. Soil pH had a strong influence on the microbial biomass, demonstrated by positive linear correlations with: microbial biomass C, microbial biomass ninhydrin-N, the microbial biomass C:organic C ratio, the microbial biomass ninhydrin-N:total N ratio, the respiration rate and specific respiration rate. Above pH_(KCl) 3.5 there was net N mineralization and nitrification, and below this threshold some samples showed net immobilization of N. A principal component (PC) analysis of PLFA data showed a consistent shift in the community composition with productivity level and stand age. The ratio of fungal:bacterial PLFA biomarkers was negatively and linearly correlated with specific respiration in the soils from HJS (r²=0.93, p=0.03). Our results demonstrate that tea cultivation intensity and duration have a strong impact on the microbial community structure, biomass and its functioning, likely through soil acidification and fertilizer addition.