Microbial responses to fluctuation of soil aeration status and redox conditions

 The response of the microbial community to changes in aeration status, from oxic to anoxic and from anoxic to oxic, was determined in arable soil incubated in a continuous flow incubation apparatus. Soil incubated in permanently oxic (air) and/or anoxic (O₂-free N₂) conditions was used as the control. Before experiments soil was preincubated for 6 days, then aeration status was changed and glucose added. Glucose concentration, extractable C, CO₂ production, microbial biomass, pH and redox potential were determined 0, 4, 8, 12, 16, 24, 36 and 48 h after change of aeration status. If oxic conditions were changed to anoxic, the amount of glucose consumed was reduced by about 60%, and CO₂ production was 10 times lower at the end of incubation compared to the control (permanently oxic conditions). Microbial biomass increased by 114% in glucose-amended soil but did not change in unamended soil. C immobilization prevailed over C mineralization. Redox potential decreased from +627 mV to –306 mV. If anoxic conditions were changed to oxic, consumption of glucose and CO₂ evolution significantly increased, compared to permanently anoxic conditions. Microbial biomass did not change in glucose-amended soil, but decreased by 78% in unamended soil. C mineralization was accelerated. Redox potential increased from +238 to +541 mV. The rate of glucose consumption was low in anoxic conditions if soil was incubated in pure N₂ but increased significantly when incubation was carried out in a CO₂/N₂ mixture. Received: 6 January 1999     

Soil microbial biomass C:N:P stoichiometry and microbial use of organic phosphorus

Microbial mineralization and immobilization of nutrients strongly influence soil fertility. We studied microbial biomass stoichiometry, microbial community composition, and microbial use of carbon (C) and phosphorus (P) derived from glucose-6-phosphate in the A and B horizons of two temperate Cambisols with contrasting P availability. In a first incubation experiment, C, nitrogen (N) and P were added to the soils in a full factorial design. Microbial biomass C, N and P concentrations were analyzed by the fumigation-extraction method and microbial community composition was analyzed by a community fingerprinting method (automated ribosomal intergenic spacer analysis, ARISA). In a second experiment, we compared microbial use of C and P from glucose-6-phosphate by adding ¹⁴C or ³³P labeled glucose-6-phosphate to soil. In the first incubation experiment, the microbial biomass increased up to 30-fold due to addition of C, indicating that microbial growth was mainly C limited. Microbial biomass C:N:P stoichiometry changed more strongly due to element addition in the P-poor soils, than in the P-rich soils. The microbial community composition analysis showed that element additions led to stronger changes in the microbial community in the P-poor than in the P-rich soils. Therefore, the changed microbial biomass stoichiometry in the P-poor soils was likely caused by a shift in the microbial community composition. The total recovery of ¹⁴C derived from glucose-6-phosphate in the soil microbial biomass and in the respired CO₂ ranged between 28.2 and 37.1% 66 h after addition of the tracer, while the recovery of ³³P in the soil microbial biomass was 1.4–6.1%. This indicates that even in the P-poor soils microorganisms mineralized organic P and took up more C than P from the organic compound. Thus, microbial mineralization of organic P was driven by microbial need for C rather than for P. In conclusion, our experiments showed that (i) the microbial biomass stoichiometry in the P-poor soils was more susceptible to additions of C, N and P than in the P-rich soils and that (ii) even in the P-poor soils, microorganisms were C-limited and the mineralization of organic P was mainly driven by microbial C demand.     

Characterization of redox-related soil microbial communities along a river floodplain continuum by fatty acid methyl ester (FAME) and 16S rRNA genes

Redox states affect substrate availability and energy transformation, and, thus, play a crucial role in regulating soil microbial abundance, diversity, and community structure. We evaluated microbial communities in soils under oxic, intermittent, and anoxic conditions along a river floodplain continuum using fatty acid methyl ester (FAME) and 16S rRNA genes-based terminal-restriction fragment length polymorphism (T-RFLP) bacterial fingerprints. In all the soils tested, microbial communities clustered according to soil redox state by both evaluation techniques. Bacteria were dominant components of soil microbial communities, while mycorrhizal fungi composed about 12% of the microbial community in the oxic soils. Gram-positive bacteria consisted >10% of the community in all soils tested and their abundance increased with increasing soil depth when shifting from oxic to anoxic conditions. In the anoxic soils, Gram-positive bacteria composed about 16% of the total community, suggesting that their growth and maintenance were not as sensitive to oxygen supply as for other microbes. In general, microorganisms were more abundant and diverse, and distributed more evenly in the oxic layers than the anoxic layers. The decrease in abundance with increasing oxygen and substrate limitation, however, was considerably more drastic than the decrease in diversity, suggesting that growth of soil microorganisms is more energy demanding than maintenance. The lower diversity in the anoxic than the oxic soils was attributed primarily to the differences in oxygen availability in these soils.     

Influence of hydrological fluxes on the structure of nitrate-reducing bacteria communities in a peatland

Factors influencing nitrate dynamics and nitrate-reducing bacteria in peat soil in the field, were investigated in laboratory experiments. A previous study had indicated that the on-site effects of redox conditions and nutrient fluxes on microbial activity were influenced by hydrological conditions. However, the laboratory experiments indicated that peat samples from sites under different hydrological regimes exhibited different microbial activities independently of oxygenation conditions. The effects of redox conditions and nutrient fluxes (i.e. influence of NO₃⁻ and O₂ concentration) on the nitrate reducer community were therefore assessed. Microbial community structures in peat samples from sites under different hydrologic regimes were compared using Terminal-Restriction Fragment Length Polymorphism diversity signatures of the narG gene. This gene encodes the catalytic subunit of the nitrate reductase. Unexpectedly, the nitrate reducer communities were very similar at the beginning of the experiment whatever the peatland soil analysed. However, a strong structuration and divergence within the nitrate reducer communities, that was site-dependent, was evident after 76 h of incubation. These modifications within the microbial communities seemed to be due to differences in peat saturation at the sampling sites resulting from the different hydrological regimes. Of the forcing variables tested, oxygenation had a slight effect on the composition of the nitrate-reducers' community whereas nitrate addition had no effect. This study shows that a physical constraint such as hydrological regime might be considered important in microbial community composition.     

Surface and subsurface microbial biomass, community structure and metabolic activity as a function of soil depth and season

Microbial biomass, size and community structure along with an estimate of microbial activity and soil chemical parameters were determined at three depths in two soils (e.g. sandy loam Ultic Hapludalf and silt loam Mollic Hapludalf) replicated three times under one winter and summer season. Microbial biomass and community structure were estimated from phospholipid-PO₄ content and fatty acid methyl ester (FAME) measurements. Microbial activity and assimilative capacity were estimated using a ³H-acetate incorporation into phospholipids and by incubating the soil samples at the average winter and summer temperatures, 3 and 20 °C, respectively. We found that the size of the microbial biomass in both the surface and the subsurface soils was not significantly affected by the seasonal variation but activity increased by as much as 83% at the summer temperatures in the surface soil. We demonstrated using FAME analysis that for both soils seasonal changes in the subsurface microbial community occurred. These findings suggest that winter conditions will shift the population activity level in both the surface and subsurface systems and the biochemical structure of the community in the subsurface. In all cases, the inorganic chemical properties of the soil, as a function of season, remained constant. The greatly increased activity of microbial population at the higher temperature will favor the capacity of the system to utilize nutrients or organic materials that may enter soil. During low temperature seasons the capacity of either surface or subsurface soils to assimilate materials is generally diminished but the reduction reflects changes in metabolism and not a reduced biomass size.     

Role of soil drying in nitrogen mineralization and microbial community function in semi-arid grasslands of north-west Australia

We examined effects of wetting and then progressive drying on nitrogen (N) mineralization rates and microbial community composition, biomass and activity of soils from spinifex (Triodia R. Br.) grasslands of the semi-arid Pilbara region of northern Australia. We compared soils under and between spinifex hummocks and also examined impacts of fire history on soils over a 28 d laboratory incubation. Soil water potentials were initially adjusted to −100 kPa and monitored as soils dried. We estimated N mineralization by measuring changes in amounts of nitrate (NO₃⁻-N) and ammonium (NH₄⁺-N) over time and with change in soil water potential. Microbial activity was assessed by amounts of CO₂ respired. Phospholipid fatty acid (PLFA) analyses were used to characterize shifts in microbial community composition during soil drying. Net N mineralized under hummocks was twice that of open spaces between hummocks and mineralization rates followed first-order kinetics. An initial N mineralization flush following re-wetting accounted for more than 90% of the total amount of N mineralized during the incubation. Initial microbial biomass under hummocks was twice that of open areas between hummocks, but after 28 d microbial biomass was<2 μ g⁻¹ ninhydrin N regardless of position. Respiration of CO₂ from soils under hummocks was more than double that of soils from between hummocks. N mineralization, microbial biomass and microbial activity were negligible once soils had dried to −1000 kPa. Microbial community composition was also significantly different between 0 and 28 d of the incubation but was not influenced by burning treatment or position. Regression analysis showed that soil water potential, microbial biomass N, NO₃⁻-N, % C and δ¹⁵N all explained significant proportions of the variance in microbial community composition when modelled individually. However, sequential multiple regression analysis determined only microbial biomass was significant in explaining variance of microbial community compositions. Nitrogen mineralization rates and microbial biomass did not differ between burned and unburned sites suggesting that any effects of fire are mostly short-lived. We conclude that the highly labile nature of much of soil organic N in these semi-arid grasslands provides a ready substrate for N mineralization. However, process rates are likely to be primarily limited by the amount of substrate available as well as water availability and less so by substrate quality or microbial community composition.     

氮素和水分对贝加尔针茅草原土壤酶活性和微生物量碳氮的影响

在内蒙古贝加尔针茅草原,分别设对照(N0)、1.5 g·m-2(N15)、3.0 g·m-2(N30)、5.0 g·m-2(N50)、10.0 g·m-2(N100)、15.0 g·m-2(N150)、20.0 g·m-2(N200)和30g·m-2(N300)(不包括大气沉降的氮量)8个氮素(NH4NO3)梯度和模拟夏季增加降水100 mm的水分添加交互试验,研究氮素和水分添加对草原土壤养分、酶活性及微生物量碳氮的影响。结果表明:氮素和水分添加对草原土壤理化性质和生物学特性有显著影响。随施氮量的增加土壤总有机碳、全氮、硝态氮、铵态氮含量呈增加的趋势,相反,土壤pH值呈降低的趋势。土壤脲酶和过氧化氢酶的活性随施氮量的增加而升高,多酚氧化酶则随施氮量的增加呈下降的趋势。氮素和水分添加对草原土壤微生物量碳氮含量有显著影响,高氮处理(N150、N200和N300)显著降低了微生物碳含量,微生物氮含量随施氮量的增加呈上升趋势。水分添加能够减缓氮素添加对微生物的抑制作用,提高微生物量碳、微生物量氮含量。草原土壤养分、土壤酶活性及土壤微生物量碳氮含量间关系密切,过氧化氢酶与全氮、总有机碳、硝态氮呈显著正相关,多酚氧化酶与铵态氮、硝态氮、全氮呈显著负相关。微生物量氮含量与土壤全氮、铵态氮、硝态氮含量以及过氧化氢酶和磷酸酶活性呈显著正相关,与多酚氧化酶呈负相关;微生物量碳与过氧化氢酶呈负相关,与多酚氧化酶活性呈正相关。     

Oily waste containing natural radionuclides: does it cause stimulation or inhibition of soil bacterial community?

Contamination with oily wastes containing natural radionuclides is a potential hazard for soil health and function. Our study aimed to reveal both structural and functional changes of the microbial community resistant to and able to decompose oily wastes in soil. To do this, we determined CO₂ efflux, microbial biomass (by the extraction‐fumigation method), and community structure (by PCR‐SSCP) for 120 d after application of radioactive oily wastes to the soil at the ratio 1:4. The addition of the waste resulted in an increase of the activity concentration of ²²⁶Ra by 130 times (up to 643 Bq kg^?1) and of ²³²Th by 29 times (up to 254 Bq kg^?1). The calculated weighted dose for the radionuclide ²²⁶Ra was found to be below the values that are known to affect microorganisms. However, the cumulative effect of a repeated deposition of radioactive oily waste may result in an increase of the weighted dose up to an effective level. During the incubation, the hydrocarbon (HC) content of the waste‐treated soil decreased from 156 to 54 g kg^?1 of soil indicating intensive decomposition of added organics by soil microorganisms. The waste application, however, led to an inhibition of soil microbial biomass compared with the control (by 26–47%). Microbial respiration was stimulated in the first month of incubation and then decreased until the end of the incubation period (by up to 74% compared to the control). The qCO₂ was estimated to be 3‐fold higher than the control on day 1 of incubation and equal to the control on day 120 of incubation. The bacterial diversity decreased in the contaminated soil compared with the control soil. The bacterial community structure was altered by domination of new oil degrader species belonging to the genera Dyella, Pseudoxanthomonas, Sinobacter, and Parvibaculum. Thus, disposal of radioactive petroleum waste strongly altered the structure of the microbial community resulting in the selection of resistant species able to decompose pollutants and also affected the community function (inhibition of microbial biomass and stimulation of respiration) which tended to stabilize after long‐term incubation.     

Redox control on carbon mineralization and dissolved organic matter along a chronosequence of paddy soils

Paddy soils are subjected to periodically changing redox conditions. In order to understand better the redox control on long‐term carbon turnover, we assessed carbon mineralization and dissolved organic carbon (DOC) of paddy topsoils sampled along a chronosequence spanning 2000 years of rice cultivation. Non‐paddy soils were used as references. We exposed soils to alternating redox conditions for 12 weeks in incubation experiments. Carbon mineralization of paddy soils was independent of redox conditions. Anoxic conditions caused increasing DOC concentrations for paddy soils, probably because of desorption induced by increasing pH. We assume desorption released older, previously stabilized carbon, which then was respired by a microbial community well adapted to anoxic conditions. This assumption is supported by the ¹⁴C signatures of respired CO₂, indicating larger mineralization of older carbon under anoxic than under oxic conditions. The increasing DOC concentrations under anoxic conditions did not result in an equivalent increase in carbon mineralization, possibly because of little reducible iron oxide. Therefore, net DOC and CO₂ production were not positively related under anoxic conditions. The overall 20–75% smaller carbon mineralization of paddy soils than of non‐paddy soils resulted from less respiration under oxic conditions. We conclude that carbon accumulation in paddy as well as in other wetland soils results from a microbial community well adapted to anoxic conditions, but less efficient in mineralizing carbon during transient oxic periods. Carbon accumulation might be even larger when mineralization under anoxic conditions is restricted by a lack of alternative electron acceptors.     

Active community structure of microeukaryotes in a rice (Oryza sativa L.) rhizosphere revealed by RNA-based PCR-DGGE

The rhizosphere is one of the hot spots in soil ecosystems for a variety of microorganisms. In this study, we explored the seasonal change of the microeukaryotic community of a rice rhizosphere focusing on the active members through an RNA-based molecular approach. Rice plants (Oryza sativa L.) were grown in a pot where the rhizosphere was compartmented from bulk soil with a nylon gauze. The Eh in the rhizosphere compartment indicated that the rhizosphere was under oxic conditions in the initial stage of plant growth and then suddenly became anoxic or suboxic. Denaturing gradient gel electrophoresis targeting 18S rRNA-transcribed cDNA demonstrated that the active community of microeukaryotes in the rice rhizosphere was different from that in the bulk soil. The rhizosphere community showed a temporal shift in accordance with the shift of the redox conditions having three stages: the oxic before maximum tillering stage, anoxic/suboxic stage before maximum tillering stage, and anoxic/suboxic stage in the panicle initiation stage and thereafter. Active members specific to the rhizosphere at either the oxic or anoxic/suboxic stage were found: Heterolobosea amoeba, ciliates, and Chytridiomycota fungi for the oxic stage and oomycetes, ciliates and Ascomycota fungi in the anoxic/suboxic stage. The present results demonstrate that a specific group of microeukaryotes inhabit the rice rhizosphere even under anoxic/suboxic conditions and play various ecological roles as plant parasites, microbial grazers and organic decomposers.     

Factors Regulating the Flux of Phosphate at the Sediment - Water Interface of a Subtropical Calcareous Lake: a Simulation Study with Intact Sediment Cores

Different factors which interactively control the flux of soluble reactive phosphorus (SRP) at the sediment water irterface (SWI) of Lake Kinneret were studied seasonally. The influence of pH, Eh and microbial activity on SRP flux at the SWI was investigated by manipulating the conditions in the overlying water of intact sediment cores. The calculated diffusive SRP flux out of the sediment was lower in cores sampled during winter and spring than during the period of amixis. Potential SRP release, as measured in the absence of microbial activity, was strongly enhanced upon the transition from oxic to anoxic conditions indicating P release from iron(III)-bound phosphorus. In spring and summer cores, an enhanced SRP flux from sediments at pH 7 in comparison to pH 8 indicated P release from carbonate-bound P which sedimented previously as result of high pH values during the algal spring bloom. Microbial uptake at the SWI was the most important sink for SRP and no net-flux occured under oxic conditions. The higher net-flux of P under anoxic conditions was linked to carbon limitation ofthe bacteria at the SWI.     

Na+和K+共存对A2/O工艺脱氮除磷效果及污泥性质的影响

为了揭示多种金属离子共存的含盐废水生物处理系统污染物的去除机制和污泥特性,考察Na~+、K~+共存对A~2/O工艺污染物去除率、污泥性质和微生物群落的影响,采用高通量测序技术分析了厌氧区、缺氧区和好氧区的微生物群落结构,结合脱氮除磷效果和污泥性质的变化,探讨不同Na~+/K~+摩尔比下A~2/O工艺优势种群的演替规律,以期从微生物角度明确Na~+、K~+共存对含盐废水污染物去除率的影响。结果表明:当进水Na~+/K~+摩尔比分别为2、1和0.5时,A~2/O工艺的COD去除率分别为80%、84%和86%,TN去除率分别为73%、77%和80%,K~+浓度的提高缓解了Na~+对COD和TN去除率的抑制作用;厌氧区释磷率分别为70%、73%和74%,缺氧区吸磷率分别为53%、55%和58%,好氧区吸磷率分别为70%、72%和75%。随着进水Na~+/K~+摩尔比的降低,厌氧区、缺氧区和好氧区微生物群落的丰富度和多样性降低,微生物群落差异显著,变形菌门的相对丰度均升高约30%,拟杆菌门和绿弯菌门相对丰度逐渐降低。陶氏菌属和固氮弧菌属作为优势菌属,其相对丰度逐渐增大,有利于氮磷污染物的去除。通过增加K~+的浓度有利于提高氮、磷去除率,增强污泥的生物絮凝性和反硝化聚磷菌的活性。     

Microbial community composition and substrate use in a highly weathered soil as affected by crop rotation and P fertilization

A better understanding of soil microbial processes is required to improve the synchrony between nutrient release from plant residues and crop demand. Phospholipid fatty acid analysis was used to investigate the effect of two crop rotations (continuous maize and maize-crotalaria rotation) and P fertilization (0 and 50 kg P ha⁻¹ yr⁻¹, applied as triple superphosphate) on microbial community composition in a highly weathered soil from western Kenya. Microbial substrate use in soils from the field experiment was compared in incubation experiments. Higher levels of soil organic matter and microbial biomass in the maize-crotalaria rotation were connected with higher total amounts of phospholipid fatty acids and an increase in the relative abundances of indicators for fungi and gram-negative bacteria. P fertilization changed the community profile only within the continuous maize treatment. The decomposition of glucose, cellulose and three plant residues (all added at 2.5 g C kg⁻¹ soil) proceeded faster in soil from the maize-crotalaria rotation, but differences were mostly transient. Microbial P and N uptake within one week increased with the water-soluble carbon content of added plant residues. More P and N were taken up by the greater microbial biomass in soil from the maize-crotalaria rotation than from continuous maize. Re-mineralization of nutrients during the decline of the microbial biomass increased also with the initial biological activity of the soil, but occurred only for a high quality plant residue within the half year incubation period. Compared to the effect of crop rotation, P fertilization had a minor effect on microbial community composition and substrate use.     

Organic Fertilization in Traditional Mediterranean Grapevine Orchards Mediates Changes in Soil Microbial Community Structure and Enhances Soil Fertility

Soil microbial populations and their functions related to nutrient cycling contribute substantially to the regulation of soil fertility and the sustainability of agroecosystems. A field experiment was performed to assess the medium‐term effect of a mineral fertilizer and two organic fertilization systems with different nitrogen sources on the soil microbial community biomass, structure, and composition (phospholipid fatty acids, pattern, and abundance), microbial activity (basal respiration, dehydrogenase, protease, urease, β‐glucosidase, and total amount of phosphomonoesterase activities), and physical (aggregate stability) and chemical (total organic C, total N, available P and water‐soluble carbohydrates) properties in a vineyard under semiarid Mediterranean conditions after a period of 10 years. The three fertilization systems assayed were as follows: inorganic fertilization, addition of grapevine pruning with sheep manure (OPM), and addition of grapevine pruning with a legume cover crop (OPL). Both treatments, OPM and OPL, produced higher contents of total organic carbon, total N, available P, water‐soluble carbohydrates, and stable aggregates. The organic fertilization systems increased microbial biomass, shifted the structure and composition of the soil microbial community, and stimulated microbial activity, when compared with inorganic fertilization. The abundances of fungi and G+ bacteria were increased by treatments OPM and OPL, without significant differences between them. Organic and inorganic fertilization produced similar grapevine yields. The ability of the organic fertilization systems for promoting the sustainability and soil biological and chemical fertility of an agroecosystem under semiarid conditions was dependent of the organic N source. Copyright © 2016 John Wiley & Sons, Ltd.     

秸秆施用下接种蚯蚓对农田土壤微生物特性的影响

在连续6年稻麦轮作系统中，研究不同秸秆施用方式下接种蚯蚓对土壤微生物生物量、活性（基础呼吸）及群落功能多样性（BIOLOG单一碳源利用指纹方法）的影响，试验设5个处理：对照（CK）、秸秆表施（M）、秸秆混施（I）、秸秆表施且接种蚯蚓（ME）、秸秆混施且接种蚯蚓（IE）。不同秸秆施用下接种蚯蚓均对土壤微生物生物量、微生物生物活性和群落碳源利用能力产生显著影响：两种秸秆施用方式下接种蚯蚓均增加微生物生物量；秸秆表施并接种蚯蚓导致微生物活性、碳源利用丰富度和多样性指数均降低，而在秸秆混施下则均升高；BIOLOG碳源利用分析结果表明在秸秆施用下接种蚯蚓后土壤的微生物群落组成发生明显变化。     

四种农业土壤上生物炭-土壤的交互效应

Soils in south-western Australia are highly weathered and deficient in nutrients for agricultural production. Addition of biochar has been suggested as a mean of improving soil C storage, texture and nutrient retention of these soils.~Clay amendment in sandy soils in this region is a management practice used to improve soil conditions, including water repellence.~In this study a woody biochar (Simcoa biochar) was characterised using scanning electron microscopy before, and four weeks after, it was incorporated into each of four soils differing in clay content and organic matter. Scanning electron microscopy of Simcoa biochar after incubation in soil showed different degrees of attachment of soil particles to the biochar surfaces after 28 d. In addition, the effects of three biochars, Simcoa biochar, activated biochar and Wundowie biochar, on soil microbial biomass C and soil respiration were investigated in a short-term incubation experiment. It was hypothesised that all three biochars would have greater potential to increase soil microbial activity in the soil that had higher organic matter and clay. After 28-d incubation in soil, all three biochars had led to a higher microbial biomass C in the clayey soil, but prior to this time, less marked differences were observed in microbial biomass C among the four soils following biochar application.     

挪威北部土壤微生物活性的季节变化

Seasonal development of soil microbial activity and bacterial biomass in sub-polar regions was investigated to determine the impacts of biotic and abiotic factors, such as organic matter content, temperature and moisture. The study was performed during spring thaw from three cultivated meadows and two non-cultivated forest sites near Alta, in northern Norway. Samples from all five sites showed increasing respiration rates directly after the spring thaw with soil respiration activity best related to soil organic matter content. However, distributions of bacteria] biomass showed fewer similarities to these two parameters. This could be explained by variations of litter exploitation through the biomass. Microbial activity started immediately after the thaw while root growth had a longer time lag. An influence of root development on soil microbes was proposed for sites where microorganisms and roots had a tight relationship caused by a more intensive root structure. Also a reduction of microbial activity due to soil compaction in the samples from a wheel track could not be observed under laboratory conditions. New methodological approaches of differential staining for live and dead organisms were applied in order to follow changes within the microbial community. Under laboratory conditions freeze and thaw cycles showed a damaging influence on parts of the soil bacteria. Additionally, different patterns for active vs. non-active bacteria were noticeable after freeze-thaw cycles.     

Substrate inputs and pH as factors controlling microbial biomass, activity and community structure in an arable soil

Our aim was to determine whether the smaller biomasses generally found in low pH compared to high pH arable soils under similar management are due principally to the decreased inputs of substrate or whether some factor(s) associated with pH are also important. This was tested in a soil incubation experiment using wheat straw as substrate and soils of different pHs (8.09, 6.61, 4.65 and 4.17). Microbial biomass ninhydrin-N, and microbial community structure evaluated by phospholipid fatty acids (PLFAs), were measured at 0 (control soil only), 5, 25 and 50 days and CO₂ evolution up to 100 days. Straw addition increased biomass ninhydrin-N, CO₂ evolution and total PLFA concentrations at all soil pH values. The positive effect of straw addition on biomass ninhydrin-N was less in soils of pH 4.17 and 4.65. Similarly total PLFA concentrations were smallest at the lowest pH. This indicated that there is a direct pH effect as well as effects related to different substrate availabilities on microbial biomass and community structure. In the control soils, the fatty acids 16:1ω5, 16:1ω7c, 18:1ω7c&9t and i17:0 had significant and positive linear relationships with soil pH. In contrast, the fatty acids i15:0, a15:0, i16:0 and br17:0, 16:02OH, 18:2ω6,9, 17:0, 19:0, 17:0c9,10 and 19:0c9,10 were greatest in control soils at the lowest pHs. In soils given straw, the fatty acids 16:1ω5, 16:1ω7c, 15:0 and 18:0 had significant and positive linear relationships with pH, but the concentration of the monounsaturated 18:1ω9 PLFA decreased at the highest pHs. The PLFA profiles indicative of Gram-positive bacteria were more abundant than Gram-negative ones at the lowest pH in control soils, but in soils given straw these trends were reversed. In contrast, straw addition changed the microbial community structures least at pH 6.61. The ratio: [fungal PLFA 18:2w6,9]/[total PLFAs indicative of bacteria] indicated that fungal PLFAs were more dominant in the microbial communities of the lowest pH soil. In summary, this work shows that soil pH has marked effects on microbial biomass, community structure, and response to substrate addition.     

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.     

Influence of organic and mineral amendments on microbial soil properties and processes

Microbial diversity in soils is considered important for maintaining sustainability of agricultural production systems. However, the links between microbial diversity and ecosystem processes are not well understood. This study was designed to gain better understanding of the effects of short-term management practices on the microbial community and how changes in the microbial community affect key soil processes. The effects of different forms of nitrogen (N) on soil biology and N dynamics was determined in two soils with organic and conventional management histories that varied in soil microbial properties but had the same fertility. The soils were amended with equal amounts of N (100 kg ha⁻¹) in organic (lupin, Lupinus angustifolius L.) and mineral form (urea), respectively. Over a 91-day period, microbial biomass C and N, dehydrogenase enzyme activity, community structure of pseudomondas (sensu stricto), actinomycetes and α proteobacteria (by denaturing gradient gel electrophoresis (DGGE) following PCR amplification of 16S rDNA fragments) and N mineralisation were measured. Lupin amendment resulted in a two- to five-fold increase in microbial biomass and enzyme activity, while these parameters did not differ significantly between the urea and control treatments. The PCR–DGGE analysis showed that the addition of mineral and organic compounds had an influence on the microbial community composition in the short term (up to 10 days) but the effects were not sustained over the 91-day incubation period. Microbial community structure was strongly influenced by the presence or lack of substrate, while the type of amendment (organic or mineral) had an effect on microbial biomass size and activity. These findings show that the addition of green manures improved soil biology by increasing microbial biomass and activity irrespective of management history, that no direct relationship existed among microbial structure, enzyme activity and N mineralisation, and that microbial community structure (by PCR–DGGE) was more strongly influenced by inherent soil and environmental factors than by short-term management practices.