Methods for evaluating human impact on soil microorganisms based on their activity,biomass, and diversity in agricultural soils

The present review is focused on microbiological methods used in agricultural soils accustomed to human disturbance. Recent developments in soil biology are analyzed with the aim of highlighting gaps in knowledge, unsolved research questions, and controversial results. Activity rates (basal respiration, N mineralization) and biomass are used as overall indices for assessing microbial functions in soil and can be supplemented by biomass ratios (C : N, C : P, and C : S) and eco‐physiological ratios (soil organic C : microbial‐biomass C, qCO₂, qN_min). The community structure can be characterized by functional groups of the soil microbial biomass such as fungi and bacteria, Gram‐negative and Gram‐positive bacteria, or by biotic diversity. Methodological aspects of soil microbial indices are assessed, such as sampling, pretreatment of samples, and conversion factors of data into biomass values. Microbial‐biomass C (µg (g soil)^–1) can be estimated by multiplying total PLFA (nmol (g soil)^–1) by the F_PLFA‐factor of 5.8 and DNA (µg (g soil)^–1) by the F_DNA‐factor of 6.0. In addition, the turnover of the soil microbial biomass is appreciated as a key process for maintaining nutrient cycles in soil. Examples are briefly presented that show the direction of human impact on soil microorganisms by the methods evaluated. These examples are taken from research on organic farming, reduced tillage, de‐intensification of land‐use management, degradation of peatland, slurry application, salinization, heavy‐metal contamination, lignite deposition, pesticide application, antibiotics, TNT, and genetically modified plants.     

Microbial processes and the site of N2O production in a temperate grassland soil

To understand nitrous oxide (N₂O) emissions from terrestrial ecosystems it is necessary to understand the processes leading to N₂O production. Here, for the first time, results are presented which identify in situ the processes of N₂O production in a temperate grassland soil. A small portion of the nitrogen (N) applied in the summer to the grassland soil was rapidly transported below the main rooting zone (>20 cm) and resulted in large N₂O productions at depths of 20-50 cm. Preferential pathways must have been responsible for this movement because the soil conditions were not conducive to leaching by piston flow. The N₂O was entirely produced by nitrate (NO₃⁻) reduction which was surprising because the bulk soil was aerobic. Therefore, reduction processes can operate during times of the year when it is least expected and cause large N₂O concentrations deep in the soil profile.     

Fresh Israeli Jaffa blond (Shamouti) orange and Israeli Jaffa red Star Ruby (Sunrise) grapefruit juices affect plasma lipid metabolism and antioxidant capacity in rats fed added cholesterol

The bioactivity of Israeli Jaffa blond (Shamouti) fresh orange and Israeli Jaffa red Star Ruby (Sunrise) grapefruit juices was investigated in vitro and in vivo. The contents of bioactive compounds of these juices were determined. The influence of bioactive compounds on plasma lipids and plasma antioxidant activity in rats fed cholesterol-containing and cholesterol-free diets was assessed. Significant differences in the contents of dietary fibers were not found. The contents of total polyphenols, flavonoids, and anthocyanins in fresh orange and grapefruit juices were 962.1 +/- 27.2 and 906.9 +/- 27.1; 50.1 +/- 3.3 and 44.8 +/- 3.2; and 69.9 +/- 5.6 and 68.7 +/- 5.5 microg/mL, respectively. The antioxidant potential measured by the scavenging activity against nitric oxide, the beta-carotene-linoleate model system (beta-carotene), and the 1,1-diphenyl-2-picrylhydrazyl and 2,2'-azino-bis(3-ethyl-benzothiazoline-6-sulfonic acid) diamonium salt assays was higher in orange juice but not significantly. A high level of correlation between contents of total polyphenols and flavonoids and antioxidant potential values of both juices was found. Diets supplemented with orange and to a lesser degree with grapefruit juices improved plasma lipid metabolism only in rats fed added cholesterol. However, an increase in the plasma antioxidant activity was observed in both groups. In conclusion, fresh orange and grapefruit juices contain high quantities of bioactive compounds, which guarantee their high antioxidant potential, and the positive influence on plasma lipid metabolism and plasma antioxidant activity could make fresh orange and grapefruit juices a valuable supplement for disease-preventing diets.     

Regenwürmer als Bioindikatoren für Schwermetallbelastungen von Böden unter Freilandbedingungen

The use of earthworms in monitoring soil pollution by heavy metals Total heavy metal contents (HNO₃-soluble) and exchangeable fractions (Ca(NO₃)₂-soluble) of Pb, Zn and Cd were measured in soils, litter layers and earthworms (dry masses) from forest, arable and pasture sites in a transect of the main wind direction and varying distances (1.5, 5.4, 11.4, 15.6 km) to a lead smelter near Bad Ems, Germany. Additionally, cast materials of Lumbricus terrestris-individuals were collected from the surface of the pasture sites. In the observed area total soil contents of Pb and Cd exceeded the C-level and total contents of Zn the B-level of the “Netherland-list”. Heavy metal contents in soils and earthworms decreased with increasing distance to the smelter. Pb showed the best correlation. Correlation between total contents of Pb and Cd in soils and earthworms were significant (rs = 0.66; p < 0.05 and rs = 0.67; p < 0.01, respectively). The uptake of heavy metals by Lumbricus rubellus, L. terrestris and Aporrectodea caliginosa was metal specific rather than species specific with factors of accumulation being <1 (Pb), 2.7–7.6 (Zn) and 19.5–85.5 (Cd). The heavy metal contents of the observed cast materials signified the different transfer of elements from soil material via earthworm individuals to the faeces. In the cast materials the amounts of Pb were high and the amounts of Zn and Cd were low. This indicates a high accumulation rate for Zn and especially for Cd in the tissues of the observed earthworm individuals. The present data support the necessity of ecotoxicological threshold levels.     

Effects of fungal inocula on the decomposition of lignin and structural polysaccharides in Pinus sylvestris litter

 Litter bags containing sterile Scots pine (Pinus sylvestris) needles (19.8% lignin, 26.5% cellulose and 0.34% N) were inoculated with two species of fungi in the laboratory and then placed in the litter layer of a pine plantation. Marasmius androsaceus, which can degrade lignocellulose, was initially displaced by other fungal colonisers and was not detected in the litter after 2–3 months; but was re-isolated from the needles after 12 months. Trichoderma viride, which is a cellulolytic species and also antagonistic to other fungi, dominated the litter throughout the experiment. The control litter was naturally colonised by litter fungi. After 12 months, mass losses were similar at 52% for M. androsaceus and 48% for T. viride, compared with 36% for the control litter colonised by a more complex fungal community. Lignin concentrations increased with time in control litter and with T. viride because mass losses of carbohydrates were greater than those of lignin. Litter inoculated with M. androsaceus showed significant lignin decomposition throughout the experiment but cellulose concentrations showed a proportional increase in the first 6 months, suggesting that the fungus was preferentially exploiting hemicellulose and non-structural carbohydrates. Analysis of TFA-extractable sugars (mainly from hemicellulose) and CuO-derived phenylpropanoid moieties from lignin confirmed the differential patterns of resource decomposition which were not evident from total mass losses. During the initial stages of decomposition, T. viride was as effective in utilising structural polysaccharides as the complex fungal community in the control litter. Furthermore, M. androsaceus not only exhibited unexpectedly low cellulolytic activity but also facilitated lignin depolymerisation after the fungus was no longer detectable in the litter. The pre-inoculation of litter with these two fungal species therefore affected the overall dynamics of decomposition at a biochemical level. This study illustrates the importance of understanding the effects and interactions of specific fungi, rather than assumptions about the functional competence of diverse communities, on the processes of litter decomposition. Received: 5 July 2000     

Effects of tetracycline on the soil microflora: function,diversity, resistance

Background  Tetracycline is a widely used antibiotic in animal production. Significant amounts of the substance reach the soil via feces, urine and manure application. As tetracycline is a persistent compound with antibacterial activity, its presence in soil may have undesired direct and indirect effects. These have been investigated so far focusing on effects on selected microbial functions. Objectives  The aim of the present study was to obtain comprehensive information on potential effects of tetracycline on the soil microflora under environmentally relevant conditions. The investigations included function and structure of the microbial biocoenosis and the distribution of resistance genes. Methods  Pig manure rich in tetracycline resistance genes was applied to a sandy soil. This soil as well as an unamended soil were additionally treated with several concentrations of tetracycline. The spiked soils were incubated in outdoor lysimeters for several months. Substrate induced respiration, PLFAs, ten selected resistance genes, and the concentrations of tetracycline were determined. Results  The test concentrations, though far exceeding environmental relevance, caused only small effects. An establishment of resistance could not be detected. Applied resistance genes were not detectable at the end of the study even in the presence of added tetracycline. Conclusion  Due to the high sorption capacity of the antibiotic, environmentally relevant concentrations of tetracycline do not seem to cause undesired effects on the soil microflora.     

Evaluation of First-Feeding Regimens for Larval Nassau Grouper Epinephelus straitus and Preliminary, Pilot-Scale Culture through Metamorphosis

Two 10-day hatchery experiments were conducted to evaluate s-type (Hawaiian strain) and ss-type (Thailand strain) rotifers Brachionus plicatilis and cryogenically preserved oyster Crassostrea gigas trochophores as first feeds for larval Nassau grouper Epinephelus striatus. Newly hatched grouper larvae were reared at densities of 11.2–20.8/L in 500-L tanks at 36–38 ppt salinity, 25–26 C, and under a 11-h light: 13-h dark photoperiod. Beginning on day 2 posthatching (d2ph), prey were maintained at a density of 20 individuals/mL, while phytoplankton (Nanochloropsis oculata) was maintained at 500 × 10³ cells/mL. In experiment 1, survival and growth were higher (P < 0.05) for fish fed small s-type rotifers (mean lorica length = 117 μm; fish survival = 7.96%) selected by sieving than for fish fed non-selected rotifers (mean lorica length = 161 μm; fish survival = 2.13%). These results demonstrated the advantage of small prey size and suggested that super-small (ss-type) rotifer strains would be beneficial. In experiment 2, three feeding regimens were compared: 1) ss-type rotifers (mean lorica length = 147 μm); 2) oyster trochophores (mean diameter = 50 μm) gradually replaced by ss-type rotifers from d5ph; and 3) a mixed-prey teatment of 50% oyster trochophores and 50% ss-type rotifers. Survival was higher (P < 0.05) for larvae fed mixed prey (15.6%) than for those fed rotifers (9.73%) or trochophores and rotifers in sequence (2.55%), which also showed the slowest growth. Oyster trochophores, although inadequate when used exclusively, enhanced survival when used in combination with rotifers, possibly by improving size selectivity and dietary quality. In a pilot-scale trial, larvae were cultured through metamorphosis in two 33.8-m³ outdoor tanks. Fertilized eggs were stocked at a density of 10 eggs/L and larvae were fed ss-type rotifers from d2ph-d20ph, newly hatched Artemia from d15ph-d18ph, 1-d-old Artemia nauplii from d18ph-d62ph. Survival on d62ph was 1.17%, with a total of 5,651 post-metamorphic juveniles produced.     

The effect of temperature on growth and survival of Fusobacterium necrophorum isolated from bovine liver abscesses.

The ability of Fusobacterium necrophorum to survive or grow in liquid nitrogen or at temperatures between -10 degrees and 59 degrees C was determined. The organism remained viable but did not grow in liquid nitrogen or between -10 degrees and 21 degrees C. It grew between 22 degrees and 43 degrees C. No isolate grew at temperatures above 43 degrees C and all three isolates survived for a minimum of 15 minutes and an average of 25 minutes at 59 degrees C. The optimum temperature for maximum growth was 37 degrees C. The organism survived in ampoules stored in liquid nitrogen for eight years. It survived in liver abscesses stored at -10 degrees C for five years and as cultures in screw capped tubes for three years.     

Resorption and incorporation of radioactive-labeled amino acids during the administration of various protein carriers in rats. 2. Uptake of radioactivity by tissues of the gastrointestinal tract after intragastric administration of 14C-L-U-leucine and 3H-glycine]

Male Albino rats (weighing 90-100 gms) were fed ad libitum for 14 days with limited periods of access to food. Powdered whole egg (V), fish meal (F), yeats (H), and gelatine (10% protein in dry matter) used as protein sources. Additionally, one group of rats received a protein-free (e). Radioactive tracers were administered by intragastric infusion of 25 mu Ci 3H glycine and 5 mu Ci 14C L-leucine per 100 gm of body weight 2 hrs after the feeding of 2 gm of the experimental diet per 100 gms of body weight. The level of uptake of radioactive tracers from the different sections of the gastro-intestinal tract was measurels of 3H and 14C labelling in intestinal tissues were observed 3 hrs and 7 hrs after infusion. The level of 14C labelling was found to be negatively correlated and the level of 3H labelling was positively correlated with the biological value of the diet. Intestinal tissues are capable of storing considerable amounts of 14C radioactivity. So, 72 hrs after infusion, the following levels of 14C radioactivity (expressed as percentage of the total dose of radioactivity) were found in tissues of the gastro-intestinal tract: whole egg: 8.4%, fish meal: 9.6%, yeast: 13.1%, gelatine: 14.9%; protein-free diet; 14.2%. The quotients correlating the levels of radioactivity from the intestinal contents with that found in the intestinal wall suggest that the walls of the small intestine possess a high capacity for absorption. At all times of radioactive measurements the walls of the small intestine were found to contain higher levels of both 14C and 3H radioactivity than the contents of small intestine.     

Resorption and incorporation of radioactive-labeled amino acids during administration of various protein carriers in rats. 3. Uptake of radioactivity by blood plasma, liver and muscular tissue and incorporation into tissue proteins after intragastric administration of 14C-leucine and 3H-glycine]

Growing male rats received diets of varying biological value (protein sources: powdered whole egg (V); fish meal (F); yeast (H); gelatine (G); protein-free diet (e)) for a 14-day feeding period. Subsequently, 14C leucine and 3H glycine were administered intragastrically. The level of uptake of 14C and 3H radioactivity into blood plasma, liver and muscular tissue and the rate of incorporation of the radioactive tracers into the proteins of these tissues was examined. A negative correlation was found to exist between the incorporation of radioactivity into liver proteins and the biological value of dietary proteins, the former being mainly dependent on the level of incorporation into the liver. For muscular proteins the rate of incorporation decreases with the decreasing biological value of the dietary proteins. This may be attributed to the fact that with poor protein nutrition the rate of protein synthesis in the skeletal muscles is also reduced. Comparative studies on the specific 14C radioactivity from free leucine made in the group on the protein-free diet and in the group receiving the whole egg diet showed that the leucine pool of the skeletal muscles was markedly redueced in animals fed a protein-deficient diet while the leucine pool in the liver remained comparatively constant.