Switch of tropical Amazon forest to pasture affects taxonomic composition but not species abundance and diversity of arbuscular mycorrhizal fungal community

Arbuscular mycorrhizal fungi (AMF) community composition and species richness are affected by several factors including soil attributes and plant host. In this paper we tested the hypothesis that conversion of tropical Amazon forest to pasture changes taxonomic composition of AMF community but not community species abundance and richness. Soil samples were obtained in 300 m × 300 m plots from forest (n = 11) and pasture (n = 13) and fungal spores extracted, counted and identified. A total of 36 species were recovered from both systems, with 83% of them pertaining to Acaulosporaceae and Glomeraceae. Only 12 species were shared between systems and spore abundance of the majority of fungal species did not differ between pasture and forest. Spore abundance was significantly higher in pasture compared to forest but both systems did not differ on mean species richness, Shannon diversity and Pielou equitability. Species abundance distribution depicted by species rank log abundance plots was not statistically different between both systems. We concluded that conversion of pristine tropical forest to pasture influences the taxonomic composition of AMF communities while not affecting species richness and abundance distribution.     

Chronic nitrogen deposition and the composition of active arbuscular mycorrhizal fungi

A growing body of evidence indicates that atmospheric nitrogen (N) deposition can alter the composition and function of arbuscular mycorrhizal fungi (AMF) associated with plant roots. We studied the community of AMF actively transcribing ribosomal genes in the forest floor of northern hardwood forests dominated by sugar maple (Acer saccharum Marsh.) that have been exposed to experimental N deposition since 1994 (30 kg NO₃⁻-N ha⁻¹ year⁻¹). Our objective was to evaluate whether previously observed declines in AM root infection and mycelial production resulted in a compositional shift in the AM fungi actively providing resources to plant symbionts under chronic N deposition. To accomplish this task, we cloned and sequenced the LSU of reverse-transcribed AM fungal rRNA extracted from the forest floor under ambient and experimental N deposition treatments. We found that experimental N deposition did not alter the active community of AMF or AMF diversity, but we did observe a significant decrease in rare taxa under chronic N deposition. Our results indicate that chronic N deposition, at levels expected by the end of this century, can exert a moderate influence on the composition and abundance of AMF associated with plant roots in a wide-spread forest ecosystem in the northeastern North America.     

Impact of abundant Pheidole ant species on soil nutrients in relation to the food biology of the species

Impact of Pheidole sp., reportedly important in insect pest suppression in agroecosystems was studied on supporting agroecosystem services. This tropical ant species was found to be common and abundant in agroecosystems, with a high nest density and preference for the central, crop-growing zone of annual cropping systems. Physico-chemical characteristics of the debris soil were examined from nests located by the roadside and within two managed ecosystems. The debris soil had significantly higher concentrations of total C, N, P and NO₃-N along with higher water-holding capacity and moderate-sized soil particles in comparison to the control soil. The pH of the Pheidole sp. debris soil was shifted towards reduced alkaline conditions. Results reveal that annually, 2.44 kg/ha C, 0.071 kg/ha P, 0.628 kg/ha N and 0.009 kg/ha NO₃-N are added to the soil through the accumulation of organic refuse at the nest rim. This contributes to soil nutrient enhancement and is suggested to enhance ecosystem productivity. The high nutrient content of nest debris soil is linked to the predominance of arthropod carcasses (93.7% of the total organic refuse) in the refuse piles derived from the animal-based food (70.3%) brought to the nests by the foragers. Plant-based food was 29.6% (seeds, leaves, roots, etc.) of the total indicating a minor role of Pheidole sp. as a seed harvester. The results suggest an important role of Pheidole sp. in regulating the soil nutrients as an ecosystem engineer.     

Land use influences soil fungal community composition across central Victoria,south-eastern Australia

Current theory expects that fungi, on the one hand, are spatially ubiquitous but, on the other, are more susceptible than bacteria to disturbance such as land use change due to dispersal limitations. This study examined the relative importance of location and land use effects in determining soil fungal community composition in south-eastern Australia. We use terminal restriction fragment length polymorphism (T-RFLP; primer pair ITS1-F–ITS4) and multivariate statistical methods (NMDS ordinations, ANOSIM tests) to compare relative similarities of soil fungal communities from nine sites encompassing three locations (ca 50–200 km apart) and four land uses (native eucalypt forest, Pinus radiata plantation, Eucalyptus globulus plantation, and unimproved pasture). Location effects were generally weak (e.g. ANOSIM test statistic R ≤ 0.49) and were, in part, attributed to minor differences in soil texture. By contrast, we found clear and consistent evidence of land use effects on soil fungal community composition (R ≤ 0.95). That is, soils from sites of the same land use grouped together in NMDS ordinations of fungal composition despite geographic separations of up to ca 175 km (native eucalypt forests) and 215 km (P. radiata plantations). In addition, different land uses from the same location were clearly separate in NMDS ordinations, despite, in one case, being just 180 m apart and having similar land use histories (i.e. P. radiata versus E. globulus plantation both established on pasture in the previous decade). Given negligible management of all sites beyond the early establishment phase, we attribute much of the land use effects to changes in dominant plant species based on consistent evidence elsewhere of strong specificity in pine and eucalypt mycorrhizal associations. In addition, weak to moderate correlations between soil fungal community composition and soil chemical variables (e.g. Spearman rank correlation coefficients for individual variables of 0.08–0.32), indicated a minor contributing role of vegetation-mediated changes in litter and soil chemistry. Our data provide evidence of considerable plasticity in soil fungal community composition over time spans as short as 6–11 years. This suggests that – at least within geographic zones characterised by more-or-less contiguous forest cover – soil fungal community composition depends most on availability of suitable habitat because dispersal propagules are readily available for colonisation after land use change.     

Influences of non-herbaceous biochar on arbuscular mycorrhizal fungal abundances in roots and soils: Results from growth-chamber and field experiments

Biochar holds promise as an amendment for soil quality improvement and sequestration of atmospheric carbon dioxide. However, knowledge of how biochar influences soil properties, especially soil microorganisms, is limited. Three separate studies were conducted, with two studies using Plantago lanceolata as the AMF hosting plant, and a third being conducted in the field. Each of the three studies employed a different soil type. Furthermore, a total of five different biochars, and ten different biochar application rates, were used across the three experiments. All experiments had the goal to examine biochar influences on arbuscular mycorrhizal fungal (AMF) abundance in roots and AMF abundance (hyphal lengths) in soils. AMF abundance was either decreased or remained unchanged across all biochar treatments. When AMF abundances decreased, significant changes in soil properties, primarily in soil P availability, were observed. Application of large quantities (2.0% and 4.0%, w/w) of a lodgepole pine biochar, led to significant declines in AMF abundance in roots of 58% and 73% respectively, but not in soils. These declines in AMF abundance were accompanied by significant declines (28% and 34%) in soil P availability. After addition of a peanut shell biochar produced at 360 °C, P increased by 101% while AMF root colonization and extraradical hyphal lengths deceased by 74% and 95% respectively. Field application of mango wood biochar at rates of 23.2 and 116.1 t C ha⁻¹ increased P availabilities by 163% and 208% respectively and decreased AMF abundances in soils by 43% and 77%. These findings may have implications for soil management where the goal is to increase the services provided by AMF.     

Comparison of organic and conventional stockless arable systems: A multidisciplinary approach to soil quality evaluation

Soil quality in Mediterranean conventional and organic stockless arable systems was assessed by a multidisciplinary approach. At the end of the first cycle of a 5-year crop rotation (2002–2006) in the Mediterranean Arable Systems Comparison Trial (MASCOT) long-term experiment, the effects of organic and conventional management systems were evaluated by using soil chemical, biochemical and biological parameters. Chemical and biochemical parameters linked to soil C cycle, arbuscular mycorrhizal fungi (AMF) and microarthropod communities were analysed according to a comparative approach. Results suggested a higher soil carbon sequestration in the organic respect to the conventional system, as shown by the values of total organic C (9.5 and 7.8 g kg^?1, for organic and conventional system, respectively) and potentially mineralisable C (277 and 254 mg kg^?1, for organic and conventional system, respectively). AMF population, AMF root colonisation and diversity of microarthropod population were slightly influenced by management system. On the other hand, mites/collembolans ratio was higher in conventionally than in organically managed soil (2.67 and 1.30, respectively), indicating as organic managed soils were more disturbed than conventional ones, probably as the consequence of the more frequent soil tillage performed for mechanical weeds control.The overall results demonstrated that, even in the short-term, the implementation of organically managed stockless systems in Mediterranean areas determined significant changes of some attributes for soil quality evaluation.     

Effects of arbuscular mycorrhizal inoculation and phosphorus supply on the growth and nutrient uptake of Kandelia obovata (Sheue,Liu & Yong) seedlings in autoclaved soil

This study evaluated the interactive effect of arbuscular mycorrhizal fungi (AMF) inoculation and exogenous phosphorus supply on soil phosphotases, plant growth, and nutrient uptake of Kandelia obovata (Sheue, Liu & Yong). We aimed to explore the ecophysiological function of AMF in mangrove wetland ecosystems, and to clarify the possible survival mechanism of mangrove species against nutrient deficiency. K. obovata seedlings with or without AMF inoculation (mixed mangrove AMF), were cultivated for six months in autoclaved sediment medium which was supplemented with KH₂PO₄ (0, 15, 30, 60, 120 mg kg−¹). Then the plant growth, nitrogen and phosphorus content, root vitality, AMF colonization and soil phosphatase activity were analyzed. The inoculated AMF successfully infected K. obovata roots, developed intercellular hyphae, arbuscular (Arum-type), and vesicle structures. Arbuscular mycorrhizal fungi colonization ranged from 9.04 to 24.48%, with the highest value observed under 30 and 60 mg kg⁻¹ P treatments. Soil P supply, in the form of KH₂PO₄, significantly promoted the height and biomass of K. obovata, enhanced root vitality and P uptake, while partially inhibiting soil acid (ACP) and alkaline phosphotase (ALP) activities. Without enhancing plant height, the biomass, root vitality and P uptake were further increased when inoculated with AMF, and the reduction on ACP and ALP activities were alleviated. Phosphorus supply resulted in the decrease of leaf N–P ratio in K. obovata, and AMF inoculation strengthened the reduction, thus alleviating P limitation in plant growth. Arbuscular mycorrhizal fungi inoculation and adequate P supply (30 mg kg⁻¹ KH₂PO₄) enhanced root vitality, maintained soil ACP and ALP activities, increased plant N and P uptake, and resulted in greater biomass of K. obovata. Mutualistic symbiosis with AMF could explain the survival strategies of mangrove plants under a stressed environment (waterlogging and nutrient limitation) from a new perspective.     

Ring nematodes (Mesocriconema xenoplax) alter root colonization and function of arbuscular mycorrhizal fungi in grape roots in a low P soil

A reduction of arbuscules in roots of grapevines (Vitis vinifera) observed when ring nematodes were added to field microplots led to the hypothesis that nematode feeding suppresses arbuscules by competing for root carbohydrates. Support for this hypothesis was tested by growing ‘Pinot noir’ grapevines in a factorial experiment with three levels of initial nematode densities (0, 0.1, 1.0 nematodes g^?1 soil), two levels of light (full sun, 50% sun), and two levels of AMF (nonAMF, +AMF). Effects on plant growth were primarily driven by a light and AMF treatment interaction, such that low light increased stem dry matter accumulation at the expense of roots in +AMF vines only. Nematodes had only a minor influence on plant growth (leaf mass was reduced at the highest nematode density), but nematodes did not affect overall plant dry matter accumulation. Since nonAMF vines were severely limited by P and their growth was so poor, the impact of nematode and light treatments was further analyzed in +AMF plants only. Nematode populations, AMF colonization, and root carbohydrates were differentially affected by initial nematode density or light levels. Root biomass, and reducing sugar and starch concentrations in fine roots were reduced by low light, but the final nematode populations and arbuscule frequencies in roots were unaffected by light. Nematodes reduced arbuscules and starch concentrations in fine roots, but did not affect total colonization by AMF (hyphae, vesicles or arbuscules). Nematodes reduced plant P and K uptake at the highest density, and low light reduced Mg uptake. These findings are consistent with the hypothesis that ring nematodes suppress arbuscules in roots via competition for root carbohydrates. However, the lack of a treatment interaction between light and nematodes in our study suggests that ring nematode–AMF interactions in grape roots are controlled by more than competition for photosynthate.     

Impact of allelochemical exuded from allelopathic rice on soil microbial community

Allelopathic rice releases allelochemicals from its roots to paddy soils at early growth stages to inhibit neighboring weeds. However, little is currently known about the effects of allelochemicals on soil microbes. In this study, we show that allelopathic rice can have great impact on the population and community structure of soil microbes. Allelopathic rice PI312777 seedlings reduced the culturable microbial population and total PLFA when compared to non-allelopathic rice Liaojing-9. Similar results were observed when, instead of growing seedlings, soils were incubated with plant root exudates. This result demonstrates that the composition of root exudates from the rice varieties tested contributes to the soil microbial community. Further experiments showed that the microbial community was affected by the allelochemical 5,4′-dihydroxy-3′,5′-dimethoxy-7-O-β-glucopyranosylflavone exuded from allelopathic rice roots, through immediately hydrolyzing glucose with stimulation on soil bacteria and aglycone (5,7,4′-trihydroxy-3′,5′-dimethoxyflavone) with inhibition on soil fungi. This result indicates that the flavone O-glycoside can provide carbon and interact with soil microbes. PC analysis of the fatty acid data clearly separated the allelopathic PI312777 and the non-allelopathic Liaojing-9 variety (PC1 = 46.4%, PC2 = 20.3%). Similarly, the first principal component (PC1 = 37.4%) together with the second principal component (PC2 = 17.3%) explained 54.7% of the variation between the allelopathic and non-allelopathic root exudates. Furthermore, the canonical correlation between allelopathic root exudates and the flavone O-glycoside was statistically significant (Canonical R = 0.889, χ² (25) = 69.72, p = 0.0041). Although the data generated in this study were not completely consistent between culturable microbes and PLFA profile, it is a fact that variation in soil microbial populations and community structures could be distinguished by the allelopathic and non-allelopathic rice varieties tested. Our results suggest that individual components of rice root exudates, such as allelochemicals from allelopathic rice, can modify the soil microbial community.     

Arbuscular mycorrhizal fungi are directly and indirectly affected by glyphosate application

Glyphosate is a systemic non-selective herbicide, the most widely used in the world. Alongside with its use in agricultural and forestry systems, this herbicide is used in grasslands in late summer with the aim of promoting winter species with the consequent increase in stocking rate. However, its effects on non-target organisms, such as arbuscular mycorrhizal fungi (AMF), are unclear. Arbuscular mycorrhizal fungi (AMF) colonize the root of more than 80% of terrestrial plants, improving their growth and survival, and therefore playing a key role in ecosystem structure and function. The aim of this work was to investigate the possible pathways through which glyphosate application affects AMF spores viability and root colonization in grassland communities. Our hypothesis is that glyphosate application can damage AMF directly (through contact with spores and external hyphae) or indirectly through the changes it generates on host plants. The experiment had a factorial array with three factors: (1) plant species, at two levels (Paspalum dilatatum and Lotus tenuis), (2) doses of glyphosate, at three levels (0 l ha⁻¹, 0.8 l ha⁻¹ and 3 l ha ⁻¹), and (3) application site, at two levels: soil (direct pathway) and plant foliage (indirect pathway). Spore viability was reduced even under the lowest glyphosate rate, but only when it was applied on the soil. Total root colonization for both species was similarly decreased when glyphosate was applied to plant foliage or on soil, with no difference between 0.8 and 3 l ha⁻¹. The number of arbuscules was 20% lower when glyphosate was applied on plant foliage, than when it was applied on the soil. Our findings illustrate that glyphosate application negatively affects AMF functionality in grasslands, due to different causes depending on the herbicide application site. While, under field conditions, the occurrence of direct and/or indirect pathways will depend on the plant cover at the time of glyphosate application, the consequences of this practice on the plant community structure will vary with the mycorrhizal dependence of the species composition regardless of the pathway involved.     

Survival of Aporrectodea caliginosa and its effects on nutrient availability in biosolids amended soil

Few earthworms are present in production agricultural fields in the semi-arid plains of Colorado, where earthworm populations may be constrained by limited water and/or organic matter resources. We conducted a 12-week laboratory incubation study to determine the potential of a non-native endogeic earthworm (Aporrectodea caliginosa) to survive in a low-organic matter Colorado soil (1.4% organic C content), supplemented with or without biosolids, and to determine the effects of A. caliginosa on soil microbial biomass and soil nutrient availability. A factorial design with three main effects of A. caliginosa, biosolids addition, and time was used. Data was collected through destructively sampling at one, two, four, eight, and twelve weeks. During the 12-week study, 97.5% of the worms in the soil survived, and the survival of the earthworms was not significantly affected by the addition of biosolids. The addition of biosolids, however, did significantly reduce the gain in mass of the earthworms (8% mass gain compared to 18% in soil without biosolids). The presence of A. caliginosa significantly increased soil NH₄-N, and NO₃-N concentrations by 31% and 4%, respectively, which was less than the six fold increases in both soil NH₄-N, and NO₃-N concentrations supplied from biosolids. Microbial biomass carbon was not affected by A. caliginosa, but microbial biomass N was affected by an earthworm × biosolids interaction at week 1 and 12. We concluded that A. caliginosa can survive in a low-organic matter Colorado soil under optimal moisture content and that once established, A. caliginosa can provide modest increases in inorganic N availability to crops Colorado agroecosystems.     

Differential effect of arbuscular mycorrhizal fungal communities from ecosystems along management gradient on the growth of forest understorey plant species

Arbuscular mycorrhizal fungi (AMF) are important functional components of ecosystems. Although there is accumulating knowledge about AMF diversity in different ecosystems, the effect of forest management on diversity and functional characteristics of AMF communities has not been addressed. Here, we used soil inoculum representing three different AM fungal communities (from a young forest stand, an old forest stand and an arable field) in a greenhouse experiment to investigate their effect on the growth of three plant species with contrasting local distributions - Geum rivale, Trifolium pratense and Hypericum maculatum. AM fungal communities in plant roots were analysed using the terminal restriction fragment length polymorphism (T-RFLP) method. The effect of natural AMF communities from the old and young forest on the growth of studied plant species was similar. However, the AMF community from the contrasting arable ecosystems increased H. maculatum root and shoot biomass compared with forest inocula and T. pratense root biomass compared to sterile control. According to ordination analysis AMF inocula from old and young forest resulted in similar root AMF communities whilst plants grown with AM fungi from arable field hosted a different AMF community from those grown with old forest inocula. AMF richness in plant roots was not related to the origin of AMF inoculum. G. rivale hosted a significantly different AM fungal community to that of T. pratense and H. maculatum. We conclude that although the composition of AM fungal communities in intensively managed stands differed from that of old stands, the ecosystem can still offer the ‘symbiotic service’ necessary for the restoration of a characteristic old growth understorey plant community.     

Temporal variation of soil compaction and deterioration of soil quality in pasture areas of Colombian Amazonia

In the Amazon basin, tropical rainforest is being slashed and burned at accelerated rates for annual crops over a couple of years, followed by forage grasses. Because of poor management, the productivity of established pastures declines in a few years so that grazing plots are abandoned and new areas are deforested. Previous studies in the region report higher bulk density in soils under pasture than in similar soils under forest. The objective of this study was to detect changes in the physical quality of the topsoil of nutrient-poor Typic Paleudults in the colonisation area of Guaviare, Colombian Amazonia, and analyse the effect of soil deterioration on pasture performance. Temporal variation of soil compaction under pasture was analysed by comparing natural forest taken as control and pasture plots of Brachiaria decumbens (Stapf) grouped into three age ranges (<3, 3–9, >9 years). Evidence of soil compaction through cattle trampling, after clearing the primary forest, included the formation of an Ap horizon with platy structure and dominant greyish or olive colours, reflecting impaired surface drainage, the increase of bulk density and penetration resistance, and the decrease of porosity and infiltration rate. From primary forest to pastures older than 9 years, bulk density of the 5–10 cm layer increase was 42% in fine-textured soils and 30% in coarse-textured soils. Penetration resistance ranged from 0.45 MPa under forest to 4.25 MPa in old pastures, with maximum values occurring at 3–12 cm depth in pastures older than 9 years. Average total soil porosity was 58–62% under forest and 46–49% under pasture. Basic infiltration dropped from 15 cm h⁻¹ in the original forest conditions to less than 1 cm h⁻¹ in old pastures. Crude protein content and dry matter yield of the forage grass steadily decreased over time. No clear relationship between declining protein content as a function of pasture age and changes in chemical soil properties was found, but there was a high negative correlation (r=−0.81) between protein content and bulk density, reflecting the effect of soil compaction on pasture performance. After about 9–10 years of use, established grass did no longer compete successfully with invading weeds and grazing plots were abandoned. As land is not yet a scarcity in this colonisation area, degraded pastures are seldom rehabilitated.     

The role of biological activity (roots,earthworms) in medium-term C dynamics in vertisol under a Digitaria decumbens (Gramineae) pasture

The natural abundance of ¹³C was used to estimate the turnover of the soil organic matter in a vertisol re-grassed with Digitaria decumbens (C4 plant) following intensive market gardening (C3 plants). In addition, the experimental design allowed us to determine the respective roles of roots and earthworms (Polypheretima elongata) in soil C stock restoration in D. decumbens pasture.The C stock increased from 31 to 37 Mg C ha⁻¹ in 5 years and the δ¹³C increased from −18.1‰ in market gardening soil to −15.5‰ in the 5-year-old pasture soil in the upper 20 cm. Below the 20 cm soil layer, the C stock and the δ¹³C did not change significantly in 5 years. The net gain of 6 Mg C ha⁻¹ was the balance of a loss of 5 Mg C ha⁻¹ derived from market gardening and a gain of 11 Mg C ha⁻¹ derived from D. decumbens. Effects of earthworms on the C dynamics were not discernible.     

Change in soil properties and the soil microbial community following land spreading of olive mill wastewater affects olive trees key physiological parameters and the abundance of arbuscular mycorrhizal fungi

Olive mill wastewater (OMW) constitutes a major environmental problem for Mediterranean countries, where most of the world olive oil production takes place. The recycling of the OMW and its use as water for irrigation in agriculture, provided that its impact on soil and plant is established, is an attractive possibility for the Mediterranean countries. Investigations were performed on the influence of agronomic application of OMW (amount applied: 30, 60, 100 and 150 m³ ha^?1) in a field of olive trees on trees characters (photosynthesis, root-soluble carbohydrate and root colonisation), soil properties, and soil microbial community structure. Specific attention was paid to arbuscular mycorrhizal (AM) fungi. The soil fatty acid methyl ester (FAME) 16:1ω5 was used to quantify biomass of AM fungi and the root FAME 16:1ω5 analysis was used as index for the development of colonisation in the olive trees roots. A significant increase in organic C, C/N ratio, extractable phosphorus and exchangeable potassium was found after one year of agronomic application of OMW. The development of saprophytic fungi was significantly higher in the OMW amended soils, whereas the abundance of the soil FAME 16:1ω5, root FAME 16:1ω5, photosynthetic rates and the amount of the total root-soluble carbohydrate were decreased significantly after agronomic application of OMW. A principal component analysis (PCA) of the trees characteristics profiles showed discrimination between the nonirrigated and the OMW irrigated olive trees. These findings suggest that the altering functioning of arbuscular mycorrhizas should be considered as potential factors mediating olive trees responses to agronomic application of OMW when the OMW dose applied is higher than 30 m³ ha^?1. To our knowledge, this is the first report of alterations in the soil FAME 16:1ω5 and root FAME 16:1ω5 due to land spreading of OMW.     

Arable weeds,cover crops,and tillage drive soil microbial community composition in organic cropping systems

Cover crops have traditionally been used to reduce soil erosion and build soil quality, but more recently cover crops are being used as an effective tool in organic weed management. Many studies have demonstrated microbial community response to individual cover crop species, but the effects of mixed species cover crop communities have received less attention. Moreover, the relationship between arable weeds and soil microbial communities is not well understood. The objective of this study was to determine the relative influence of cover crop diversity, early-season weed communities, and tillage on soil microbial community structure in an organic cropping system through the extraction of fatty acid methyl esters (FAMEs). A field experiment was conducted between 2009 and 2011 near Mead, NE where spring-sown mixtures of zero (control), two, and eight cover crop species were included in a sunflower–soybean–corn crop rotation. A mixture of four weed species was planted in all experimental units (excluding the no-cover control), and also included as an individual treatment. Cover crops and weeds were planted in late-March, then terminated in late-May using a field disk or sweep plow undercutter, and main crops were planted within one week of termination. Three (2009) or four (2010–11) soil cores were taken to a depth of 20 cm in all experimental units at 45, 32, and 25 days following cover crop termination in 2009, 2010, and 2011, respectively. Total FAMEs pooled across 2009 and 2010 were greatest in the two species mixture–undercutter treatment combination (140.8 ± 3.9 nmol g⁻¹) followed by the eight species mixture–undercutter treatment combination (132.4 ± 3.9 nmol g⁻¹). Abundance of five (2009 and 2010) and seventeen (2011) FAME biomarkers was reduced in the weedy treatment relative to both cover-cropped treatments and the no-cover control. In 2009 and 2010, termination with the undercutter reduced abundance of most actinomycete biomarkers while termination with the field disk reduced abundance of C18:1(cis11) and iC16:0. Canonical discriminant analysis of the microbial community successfully segregated most cover crop mixture by termination method treatment combinations in 2009 and 2010. Microbial communities were most strongly influenced by the presence and type of early-spring plant communities, as weeds exerted a strong negative influence on abundance of many key microbial biomarkers, including the AMF markers C16:1(cis11) and C18:1(cis11). Weeds may alter soil microbial community structure as a means of increasing competitive success in arable soils, but this relationship requires further investigation.     

Mycorrhizal activity and diversity in a long-term organic Mediterranean agroecosystem

In organic agriculture, soil fertility and productivity rely on biological processes carried out by soil microbes, which represent the key elements of agroecosystem functioning. Arbuscular mycorrhizal fungi (AMF), fundamental microorganisms for soil fertility, plant nutrition and health, may play an important role in organic agriculture by compensating for the reduced use of fertilizers and pesticides. Though, AMF activity and diversity following conversion from conventional to organic farming are poorly investigated. Here we studied AMF abundance, diversity and activity in short- and long-term organically and conventionally managed Mediterranean arable agroecosystems. Our results show that both AMF population activity, as assessed by the mycorrhizal inoculum potential (MIP) assay, the percentage of colonized root length of the field crop (maize) and glomalin-related soil protein (GRSP) content were higher in organically managed fields and increased with time since transition to organic farming. Here, we showed an increase of GRSP content in arable organic systems and a strong correlation with soil MIP values. The analysis of AMF spores showed differences among communities of the three microagroecosystems in terms of species richness and composition as suggested by a multivariate analysis. All our data indicate that AMF respond positively to the transition to organic farming by a progressive enhancement of their activity that seems independent from the species richness of the AMF communities. Our study contributes to the understanding of the effects of agricultural managements on AMF, which represent a promising tool for the implementation of sustainable agriculture.     

Parallel shifts in plant and soil microbial communities in response to biosolids in a semi-arid grassland

Approximately 70,150 dry Mg of biosolids from over 450 wastewater treatment facilities are applied to the semi-arid rangelands of Colorado every year. Research on semi-arid grassland responses to biosolids has become vital to better understand ecosystem dynamics and develop effective biosolids management strategies. The objectives of this study were to determine the long-term (∼12 years) effects of a single biosolids application, and the short-term (∼2 years) effects of a repeated application, on plant and microbial community structure in a semi-arid grassland soil. Specific attention was paid to arbuscular mycorrhizal fungi (AMF) and linkages between shifts in plant and soil microbial community structures. Biosolids were surface applied to experimental plots once in 1991 (long-term plots) and again to short-term plots in 2002 at rates of 0, 2.5, 5, 10, 21, or 30 Mg ha⁻¹. Vegetation (species richness and above-ground biomass), soil chemistry (pH, EC, total C, total N, and extractable P, NO₃-N, and NH₄-N), and soil microbial community structure [ester-linked fatty acid methyl esters (EL-FAMEs)], were characterized to assess impacts of biosolids on the ecosystem. Soil chemistry was significantly affected and shifts in both soil microbial and plant community structure were observed with treatment. In both years, the EL-FAME biomarker for AMF decreased with increasing application rate of biosolids; principal components analysis of EL-FAME data yielded shifts in the structure of the microbial communities with treatment primarily related to the relative abundance of the AMF specific biomarker. Significant (p≤0.05) correlations existed among biomarkers for Gram-negative and Gram-positive bacteria, AMF and specific soil chemical parameters and individual plant species' biomass. The AMF biomarker was positively correlated with biomass of the dominant native grass species blue grama (Bouteloua gracilis [Willd. ex Kunth] Lagasca ex Griffiths) and was negatively correlated with western wheatgrass (Agropyron smithii Rydb.) biomass. This study demonstrated that applications of biosolids at relatively low rates can have significant long-term effects on soil chemistry, soil microbial community structure, and plant community species richness and structure in the semi-arid grasslands of northern Colorado. Reduced AMF and parallel shifts in the soil microbial community structure and the plant community structure require further investigation to determine precisely the sequence of influence and resulting ecosystem dynamics.     

Soil microbial community response to land-management and depth,related to the degradation of organic matter in English wetlands: Implications for the in situ preservation of archaeological remains

Wetlands are important habitats not only for their unique ecological value but also because they contain organic material that is fundamental to our understanding of precedent landscape and human past. This study compares the effects of two different land-management regimes on metabolic diversity and bacterial community structure with depth in order to relate them to the process of organic matter degradation and the potential for preservation in situ of organic archaeological artefacts in wetland soils. Soil cores were collected at five depths down to 100 cm from two wetlands sites in England. Environmental variables were monitored and the metabolic capabilities of the microbial community were studied using Biolog Ecoplates^®. DNA was extracted from soil, and the bacterial community structure was examined by polymerase chain reaction followed by denaturing gradient gel electrophoresis (PCR-DGGE). To determine compositional changes in the bacterial community with depth, information about specific groups of bacteria at the site with higher water table (Hatfield Moor) was obtained by cloning and sequencing of 16S rRNA genes. Biolog and DGGE analyses showed depth variation and between-site variation. Carbon substrate utilization and bacterial diversity decreased with increasing depth. The wetland soil under an arable regime in which the water levels were kept elevated, showed higher metabolic capability and bacterial richness when compared with the soil under pasture and subjected to long-standing drainage. Cloning and sequencing showed that Proteobacteria and Acidobacteria were the predominant taxa within the soil profile, but there was a clear shift in bacterial community composition with increasing depth as several taxonomic groups (δ-Proteobacteria and Spirochaetes) were only detectable at 50 cm depth. Because the site with a high and stable water table presented higher metabolic activity and bacterial diversity, it may be that saturated conditions and a high water table are not sufficient to guarantee the preservation in situ of organic material such as archaeological artefacts.     

Improving soil structure by promoting fungal abundance with organic soil amendments

Building soil structure in agroecosystems is important because it governs soil functions such as air and water movement, soil C stabilization, nutrient availability, and root system development. This study examined, under laboratory conditions, effects of organic amendments comprised of differing proportions of labile and semi-labile C on microbial community structure and macroaggregate formation in three variously textured soils where native structure was destroyed. Three amendment treatments were imposed (in order of increasing C lability): vegetable compost, dairy manure, hairy vetch (Vicia villosa Roth). Formation of water stable macroaggregates and changes in microbial community structure were evaluated over 82 days. Regardless of soil type, formation of large macroaggregates (LMA, >2000 μm diameter) was highest in soils amended with vetch, followed by manure, non-amended control, and compost. Vetch and manure had greater microbially available C and caused an increase in fungal biomarkers in all soils. Regression analysis indicated that LMA formation was most strongly related to the relative abundance of the fungal fatty acid methyl ester (FAME) 18:2ω6c (r = 0.55, p < 0.001), fungal ergosterol (r = 0.58, p < 0.001), and microbial biomass (r = 0.57, p < 0.001). Non-metric multidimensional scaling (NMS) ordination of FAME profiles revealed that vetch and manure drove shifts toward fungal-dominated soil microbial communities and greater LMA formation in these soils. This study demonstrated that, due to their greater amounts of microbially available C, vetch or manure inputs can be used to promote fungal proliferation in order to maintain or improve soil structure.