Microbial biomass and growth kinetics of microorganisms in chernozem soils under different farm land use modes

The carbon content of microbial biomass and the kinetic characteristics of microbial respiration response to substrate introduction have been estimated for chernozem soils of different farm lands: arable lands used for 10, 46, and 76 years, mowed fallow land, non-mowed fallow land, and woodland. Microbial biomass and the content of microbial carbon in humus (Cmic/Corg) decreased in the following order: soils under forest cenoses-mowed fallow land-10-year arable land-46- and 75-year arable land. The amount of microbial carbon in the long-plowed horizon was 40% of its content in the upper horizon of non-mowed fallow land. Arable soils were characterized by a lower metabolic diversity of microbial community and by the highest portion of microorganisms able to grow directly on glucose introduced into soil. The effects of different scenarios of carbon sequestration in soil on the reserves and activity of microbial biomass are discussed.     

Persistence of Escherichia coli O157:H7 in soil and on plant roots

Soil microcosms were inoculated with Escherichia coli O157:H7 to test persistence in fallow soil, on roots of cover crops and in presence of manure. In fallow soils, E. coli O157:H7 persisted for 25-41 days, on rye roots for 47-96 days and on alfalfa roots, in a silt loam soil, for 92 days whereas on other legumes persistence ranged from 25-40 days, similar to fallow soil. Manure did not seem to affect the persistence of E. coli O157:H7 in these soils. Indigenous and manure-applied coliform populations often decreased faster when E. coli O157:H7 was applied, indicating possible competition between microflora. Coliform populations in microcosms not inoculated with E. coli O157:H7 decreased more slowly or increased. Microbial community analyses showed little effect for E. coli O157:H7 inoculation or addition of manure. Microbial community metabolic activity was enhanced from rye roots after 14 days and by 63 days from alfalfa roots. Microbial community lactose utilization increased over time on rye roots in all soils and on alfalfa roots in a silt loam soil when E. coli O157:H7 was inoculated. Lactose utilization also increased for uninoculated rye roots, soil around rye roots and in some fallow soils. Our data suggest that clay increases persistence and activity of E. coli O157:H7 and other coliforms. In frozen soil stored for over 500 days, E. coli O157:H7 was viable in 37% of tested samples. In summary, E. coli O157:H7 persisted longer and activity was enhanced with some cover crops in these soils due to plant roots, the presence of clay and freezing.     

Microcalorimetric assessment of microbial activity in long-term fertilization experimental soils of Southern China

Microcalorimetry, plate count and PCR–denaturing gradient gel electrophoresis (DGGE) were employed to investigate microbial diversity and activity in soils from the Red Soil Experimental Station of the Chinese Academy of Agricultural Sciences, Hunan Province, China, where a wheat–corn rotation with 12 fertilization treatments was established in 1990. Fertilization greatly increased microbial biomass carbon (C) and nitrogen (N) (C_mic and N_mic) as well as the activities of phosphatase, urease, invertase, protease, catalase and dehydrogenase. Manure alone (M) enhanced the number of denitrifying and aerobic bacteria by 54.4% and 20.5%, respectively, whereas fallow (H) increased the number of aerobic cellulose decomposing bacteria by 31.4%. Fallow and soils amended with mineral fertilizers plus pig manure or straw increased both the DGGE band patterns and the Shannon index compared with mineral fertilizers or the control. Mineral treatments with lower bacterial numbers enhanced the values of the peak time ( t _max) more than did organic treatments. The peak height ( P _max) was positively correlated ( P <0.01), with soil enzymes, C_mic and N_mic, and the number of microorganisms, whereas the peak time ( t _max) was negatively connected ( P <0.01) with these parameters. The microbial growth rate constant ( k ) was linked to bacteria ( P <0.01), actinomycetes ( P <0.05) and catalase ( P <0.05). The total heat evolution ( Q ) had no relationships with any soil microbial properties (except for catalase). We propose that P _max and t _max could be used as indices of soil microbial activity, while the values of k and Q are poor indicators.     

Effect of Sheep Urine Deposition on the Bacterial Community Structure in an Acidic Upland Grassland Soil

The effect of the addition of synthetic sheep urine (SSU) and plant species on the bacterial community composition of upland acidic grasslands was studied using a microcosm approach. Low, medium, and high concentrations of SSU were applied to pots containing plant species typical of both unimproved (Agrostis capillaris) and agriculturally improved (Lolium perenne) grasslands, and harvests were carried out 10 days and 50 days after the addition of SSU. SSU application significantly increased both soil pH (P < 0.005), with pH values ranging from pH 5.4 (zero SSU) to pH 6.4 (high SSU), and microbial activity (P < 0.005), with treatment with medium and high levels of SSU displaying significantly higher microbial activity (triphenylformazan dehydrogenase activity) than treatment of soil with zero or low concentrations of SSU. Microbial biomass, however, was not significantly altered by any of the SSU applications. Plant species alone had no effect on microbial biomass or activity. Bacterial community structure was profiled using bacterial automated ribosomal intergenic spacer analysis. Multidimensional scaling plots indicated that applications of high concentrations of SSU significantly altered the bacterial community composition in the presence of plant species but at different times: 10 days after application of high concentrations of SSU, the bacterial community composition of L. perenne-planted soils differed significantly from those of any other soils, whereas in the case of A. capillaris-planted soils, the bacterial community composition was different 50 days after treatment with high concentrations of SSU. Canonical correspondence analysis also highlighted the importance of interactions between SSU addition, plant species, and time in the bacterial community structure. This study has shown that the response of plants and bacterial communities to sheep urine deposition in grasslands is dependent on both the grass species present and the concentration of SSU applied, which may have important ecological consequences for agricultural grasslands.     

Persistence and impact on microorganisms of Bacillus thuringiensis proteins in some Zimbabwean soils

The persistence of the Bacillus thuringiensis subsp. kurstaki (Btk) toxin (Cry1Ab protein) from Bt maize (MON810, Yieldgard®) residues incorporated in a vertisol (739 g clay kg^?1) was investigated. The maize residues were incubated in the soil for 4 weeks, and activity of the toxin in the residues was bioassayed using larvae of the diamondback moth, Plutella xylostella (Lepidoptera: Yponomeutidae). Corrected mortality of P. xylostella in the bioassays decreased from 76% to 30% in less than a week of incubation in the soil. In addition to the above observations, the effects of Btk, Bt subsp. israelensis (Bti), and Bt subsp. tenebrionis (Btt) proteins on the soil microbiota were examined using a vertisol, an alfisol, and an oxisol. The pre-incubated soils (7 days after moisture adjustment) were treated with crystal proteins of Btk, Bti, and Btt and incubated for further a 7-day period. Microbial biomass carbon (MBC) and counts of culturable bacteria and fungi were determined. The proteins did not show effects on MBC or bacterial and fungal counts, possibly as a result of adsorption of the proteins on soil particles, which could have rendered the proteins inaccessible for microbial utilization. Microbial biomass carbon and counts arranged in decreasing order were vertisol>oxisol>alfisol, similar to the amounts of organic C and clay in the soils. However, bacteria and fungi counts were higher in the vertisol than in the alfisol and the oxisol soils. Our observations suggest that larvicidal proteins produced by different subspecies of Bt and Bt maize could persist in tropical soils as a result of adsorption on soil clays but that there were no observable effect on the soil microbiota.     

Changes in microbial nutrient status during secondary succession and its modification by earthworms

Summary Microbial biomass, nutrient (N and P) status, and carbon and nutrient limitation of the microflora were investigated in soils from five different sites (field, 5-, 12-, and about 50-year-old fallow, beechwood), which represent different stages of a secondary succession from a wheat field to the climax ecosystem of a beechwood on limestone. In addition, the effect of faeces production by the substrate feeding earthworm species Octolasion lacteum (Örley) on the nutrient status of the soil microflora of these sites was studied. Humus had accumulated in the soil of the third fallow site, with an enhanced biomass of microflora. However, in the beechwood soil, which had the highest humus content, microbial biomass was lower than in the soil of the third fallow site and similar to that of the field and the two younger fallow sites. In general, soil microbial biomass was little affected by the passage of soil through the gut of O. lacteum. The soil microflora of the field, the 5-, 12-, and about 50-year-old fallow was limited by carbon, whereas in the beechwood soil phosphorus limited microbial growth. NItrogen availability to the soil microflora was low in the two younger fallow sites and high in the field and the third fallow. In the beechwood soil nitrogen supply did not affect microbial carbon utilization. Application of phosphorus stimulated glucose mineralization in the soil of the field, the third fallow, and the beechwood, but not in the two younger fallow sites. Therefor, the nutrient status of the soil microflora seems to have changed during secondary succession: presumably, during the first phase the availability of nitrogen decreased, whereas during the second phase microbial phosphorus supply became more important, which resulted in phosphorus limitation of the soil microflora in the climax ecosystem. The passage of soil through the gut of O. lacteum caused an alteration in the microbial nutrient status. Generally, microbial growth in earthworm casts was limited by carbon. The relative effect of the gut passage of the soils on microbial carbon utilization seems to increase during succession. Therefore, the effect of decomposer invertebrates on microbial nutrient supply seems to increase during secondary succession. In general, nitrogen did not limit microbial carbon utilization in earthworm casts. Phosphorus requirements of the soil microflora were lowered by the gut passage of the soil of the third fallow site and the beechwood, which indicates an increased phosphorus supply in earthworm casts. Howerver, this additional supply was not sufficient to enable optimal carbon utilization by the soil microflora. The results indicate that the effect of decomposer invertebrates on the soil microflora depends on the nutrient status of the ecosystem.     

Soil Microbial Biomass,Basal Respiration and Enzyme Activity of Main Forest Types in the Qinling Mountains

Different forest types exert essential impacts on soil physical-chemical characteristics by dominant tree species producing diverse litters and root exudates, thereby further regulating size and activity of soil microbial communities. However, the study accuracy is usually restricted by differences in climate, soil type and forest age. Our objective is to precisely quantify soil microbial biomass, basal respiration and enzyme activity of five natural secondary forest (NSF) types with the same stand age and soil type in a small climate region and to evaluate relationship between soil microbial and physical-chemical characters. We determined soil physical-chemical indices and used the chloroform fumigation-extraction method, alkali absorption method and titration or colorimetry to obtain the microbial data. Our results showed that soil physical-chemical characters remarkably differed among the NSFs. Microbial biomass carbon (Cmic) was the highest in wilson spruce soils, while microbial biomass nitrogen (Nmic) was the highest in sharptooth oak soils. Moreover, the highest basal respiration was found in the spruce soils, but mixed, Chinese pine and spruce stands exhibited a higher soil qCO₂. The spruce soils had the highest Cmic/Nmic ratio, the greatest Nmic/TN and Cmic/Corg ratios were found in the oak soils. Additionally, the spruce soils had the maximum invertase activity and the minimum urease and catalase activities, but the maximum urease and catalase activities were found in the mixed stand. The Pearson correlation and principle component analyses revealed that the soils of spruce and oak stands obviously discriminated from other NSFs, whereas the others were similar. This suggested that the forest types affected soil microbial properties significantly due to differences in soil physical-chemical features.     

Interactive effects of wildfire and permafrost on microbial communities and soil processes in an Alaskan black spruce forest

Boreal forests contain significant quantities of soil carbon that may be oxidized to CO₂ given future increases in climate warming and wildfire behavior. At the ecosystem scale, decomposition and heterotrophic respiration are strongly controlled by temperature and moisture, but we questioned whether changes in microbial biomass, activity, or community structure induced by fire might also affect these processes. We particularly wanted to understand whether postfire reductions in microbial biomass could affect rates of decomposition. Additionally, we compared the short‐term effects of wildfire to the long‐term effects of climate warming and permafrost decline. We compared soil microbial communities between control and recently burned soils that were located in areas with and without permafrost near Delta Junction, AK. In addition to soil physical variables, we quantified changes in microbial biomass, fungal biomass, fungal community composition, and C cycling processes (phenol oxidase enzyme activity, lignin decomposition, and microbial respiration). Five years following fire, organic surface horizons had lower microbial biomass, fungal biomass, and dissolved organic carbon (DOC) concentrations compared with control soils. Reductions in soil fungi were associated with reductions in phenol oxidase activity and lignin decomposition. Effects of wildfire on microbial biomass and activity in the mineral soil were minor. Microbial community composition was affected by wildfire, but the effect was greater in nonpermafrost soils. Although the presence of permafrost increased soil moisture contents, effects on microbial biomass and activity were limited to mineral soils that showed lower fungal biomass but higher activity compared with soils without permafrost. Fungal abundance and moisture were strong predictors of phenol oxidase enzyme activity in soil. Phenol oxidase enzyme activity, in turn, was linearly related to both ¹³C lignin decomposition and microbial respiration in incubation studies. Taken together, these results indicate that reductions in fungal biomass in postfire soils and lower soil moisture in nonpermafrost soils reduced the potential of soil heterotrophs to decompose soil carbon. Although in the field increased rates of microbial respiration can be observed in postfire soils due to warmer soil conditions, reductions in fungal biomass and activity may limit rates of decomposition.     

水稻和稗草共生土壤微生物生物量碳及酶活性的变化

以稻田稗草、化感水稻PI312777和普通水稻辽粳9为试材,研究了田间稗草和水稻1∶1共生条件下,土壤微生物生物量碳及脱氢酶、脲酶和转化酶活性的变化.结果表明：在稗草 的干扰下,化感水稻PI312777根区土壤微生物生物量碳含量比单作减少了 50.52％（P<0.01）,而行间土壤微生物生物量碳含量增加;普通水稻辽粳9根区土壤 微生物生物量碳含量比单作减少了38.99％（P<0.01）,但其行间土壤微生物生物量碳含量无明显变化.两个水稻品种根区土壤脱氢酶活性均被显著抑制（P<0.05）,下降率都在20％以上;PI312777根区土壤脲酶和转化酶活性均被显著促进（P<0.01）;而辽粳9根区土壤转化酶活性也被显著抑制（P<0.01）,但脲酶活性无明显变化.化感水稻根区土壤微生物生物量碳含量的显著减少及脲酶、转化酶活性的增加是其化感特性的表现,表明土壤微生物和酶均参与了水稻和稗草的种间作用,化感水稻具有抗稗草干扰的明显优势.     

Soil Microbial Community Response to Land Use Change in an Agricultural Landscape of Western Kenya

Tropical agroecosystems are subject to degradation processes such as losses in soil carbon, nutrient depletion, and reduced water holding capacity that occur rapidly resulting in a reduction in soil fertility that can be difficult to reverse. In this research, a polyphasic methodology has been used to investigate changes in microbial community structure and function in a series of tropical soils in western Kenya. These soils have different land usage with both wooded and agricultural soils at Kakamega and Ochinga, whereas at Ochinga, Leuro, Teso, and Ugunja a replicated field experiment compared traditional continuous maize cropping against an improved N-fixing fallow system. For all sites, principal component analysis of 16S rRNA gene denaturing gradient gel electrophoresis (DGGE) profiles revealed that soil type was the key determinant of total bacterial community structure, with secondary variation found between wooded and agricultural soils. Similarly, phospholipid fatty acid (PLFA) analysis also separated wooded from agricultural soils, primarily on the basis of higher abundance of monounsaturated fatty acids, anteiso- and iso-branched fatty acids, and methyl-branched fatty acids in the wooded soils. At Kakamega and Ochinga wooded soils had between five 5 and 10-fold higher levels of soil carbon and microbial biomass carbon than agricultural soils from the same location, whereas total enzyme activities were also lower in the agricultural sites. Soils with woody vegetation had a lower percentage of phosphatase activity and higher cellulase and chitinase activities than the agricultural soils. BIOLOG analysis showed woodland soils to have the greatest substrate diversity. Throughout the study the two functional indicators (enzyme activity and BIOLOG), however, showed lower specificity with respect to soil type and land usage than did the compositional indicators (DGGE and PLFA). In the field experiment comparing two types of maize cropping, both the maize yields and total microbial biomass were found to increase with the fallow system. Moreover, 16S rRNA gene and PLFA analyses revealed shifts in the total microbial community in response to the different management regimes, indicating that deliberate management of soils can have considerable impact on microbial community structure and function in tropical soils.     

Restoring Soil Ecosystems and Biomass Production of Arundo donax L. under Microbial Communities-Depleted Soil

In recent years, giant reed (Arundo donax L) has received considerable attention as a promising plant for energy production. Giant reed is able to grow in a range of environments, including wetlands and marginal soils, and has shown promise in phytoremediation efforts. A pot experiment was carried out to investigate the ability of giant reed to restore ecosystems of different soils, including bauxite-derived red mud-amended soil and pure red mud (red mud—a waste generated by the Bayer process in the aluminum industry—is strongly alkaline and has a high salt content and electrical conductivity (EC) dominated by sodium). Samples were exposed to high temperatures, which simulate the effects of bushfires. Selected soil properties that were measured included soil dehydrogenase, alkaline phosphatase, urease and catalase activities, soil organic carbon, soil pH, EC, available soil macronutrients NPK, and above- and below-ground plant biomass yield. The results showed that giant reed reduced EC in all autoclaved soils and red mud-contaminated soils by 24–82 %. Significantly, available N was increased, and a slight increase was recorded for available K. The presence of giant reed enhanced the soils’ enzyme activities to recover in all tested autoclaved soils and red mud-contaminated soils; specifically, dehydrogenase activity increased by 262 and 705 % in non-autoclaved and autoclaved soils, respectively, and urease and catalase activities increased by 591 and 385 % in autoclaved soils, respectively. Total bacterial and fungal counts were higher in autoclaved soils than non-autoclaved soils after cultivating giant reed for 12 weeks. Autoclaved soils enabled higher biomass production for giant reed than non-autoclaved soils. These results demonstrate that giant reed is not only able to survive on soil that has lost its microbial community as a result of heat, but can also yield significant amounts of biomass while assisting recovering soil ecosystems after bushfires.     

Effect of sheep urine deposition on the bacterial community structure in an acidic upland grassland soil

The effect of the addition of synthetic sheep urine (SSU) and plant species on the bacterial community composition of upland acidic grasslands was studied using a microcosm approach. Low, medium, and high concentrations of SSU were applied to pots containing plant species typical of both unimproved (Agrostis capillaris) and agriculturally improved (Lolium perenne) grasslands, and harvests were carried out 10 days and 50 days after the addition of SSU. SSU application significantly increased both soil pH (P < 0.005), with pH values ranging from pH 5.4 (zero SSU) to pH 6.4 (high SSU), and microbial activity (P < 0.005), with treatment with medium and high levels of SSU displaying significantly higher microbial activity (triphenylformazan dehydrogenase activity) than treatment of soil with zero or low concentrations of SSU. Microbial biomass, however, was not significantly altered by any of the SSU applications. Plant species alone had no effect on microbial biomass or activity. Bacterial community structure was profiled using bacterial automated ribosomal intergenic spacer analysis. Multidimensional scaling plots indicated that applications of high concentrations of SSU significantly altered the bacterial community composition in the presence of plant species but at different times: 10 days after application of high concentrations of SSU, the bacterial community composition of L. perenne-planted soils differed significantly from those of any other soils, whereas in the case of A. capillaris-planted soils, the bacterial community composition was different 50 days after treatment with high concentrations of SSU. Canonical correspondence analysis also highlighted the importance of interactions between SSU addition, plant species, and time in the bacterial community structure. This study has shown that the response of plants and bacterial communities to sheep urine deposition in grasslands is dependent on both the grass species present and the concentration of SSU applied, which may have important ecological consequences for agricultural grasslands.     

Carbon dynamics in a 60?year fallowed loamy-sand soil compared to that in a 60?year permanent arable or permanent grassland UK soil

Aims

To determine if the soil microbial biomass in a 60?year fallow soil of the Highfield Ley-Arable Experiment at Rothamsted Research, UK, had maintained its ability to mineralise soil organic matter and added substrates compared to biomasses in a grassland and arable soil of the same experiment.

Materials and methods

Three soils of the same type: a 60 y permanent fallow, arable and grassland, were incubated (25°C, 40% WHC) with and without 1. a labile substrate (yeast extract, C/N ratio 3.6) or 2. more resistant ryegrass, (< 2?mm, C/N ratio 14.6). Measurements included biomass C, ATP, PLFAs and substrate C mineralization.

Results

Mean biomass C and ATP concentrations were:grassland.arable.fallow, as expected. However, substrate C mineralization was less in the grassland than fallow soil, opposite to that expected. Microbial biosynthesis efficiency (measured as biomass C and ATP) was similar in all soils. However, microbial community structure differed significantly between soils and treatments.

Conclusions

The extent of mineralization of both substrates were unrelated to initial microbial community structure, size or soil management. Thus, the biomass in the fallow soil maintained full metabolic capacity (assessed by CO₂-C evolution) compared to permanent arable or grassland soils.     

Cellulose and lignin degradation in forest soils: Response to moisture,temperature, and acidity

The concentration of lignin in plant tissue is a major factor controlling organic matter degradation rates in forest ecosystems. Microbial biomass and lignin and cellulose decomposition were measured for six weeks in forest soil microcosms in order to determine the influence of pH, moisture, and temperature on organic matter decomposition. Microbial biomass was determined by chloroform fumigation; lignin and cellulose decomposition were measured radiometrically. The experiment was designed as a Latin square with soils of pH of 4.5, 5.5, and 6.5 adjusted to 20, 40, or 60% moisture content, and incubated at temperatures of 4, 12, or 24°C. Microbial biomass and lignin and cellulose decomposition were not significantly affected by soil acidity. Microbial biomass was greater at higher soil moisture contents. Lignin and cellulose decomposition significantly increased at higher soil temperatures and moisture contents. Soil moisture was more important in affecting microbial biomass than either soil temperature or soil pH.     

Discrimination of microbial diversity by fatty acid profiles of phospholipids and lipopolysaccharides in differently cultivated soils

The effects of long-term management practices on the diversity of the microbial community were examined by analyzing the composition of fatty acids (FAs) in phospholipids (PL) and lipopolysaccharides (LPS). According to the Principal Component Analysis (PCA) of total fatty acids the soils were divided in two groups: a) Black fallow soil (1) and soils cropped with potatoes (3, 4), and b) green fallow soil (2), soils cropped with wheat (5, 6), crop rotation (7) and grassland (8). The PCA for saturated FAs and for hydroxy FAs of both PL and LPS shows that the green fallow soil (2) can be distinguished from the other soils. For monounsaturated FAs the grassland soil (8) and for polyunsaturated FAs the wheat with vetch soil (6) clearly differed from the other soils. Fatty acids with biomarker quality such as 15:0 for bacteria and 18:26 for fungi were used for determining the ratio between bacteria and fungi: the black fallow soil (1) and the soil managed with crop rotation (7) contained significantly higher proportions of bacteria than the other soils. The largest proportion of the indicator fatty acid il5:0 for Gram-positive bacteria was measured in the black fallow soil (1), while the-hydroxy FAs indicative of Gram-negative bacteria most frequently occurred in manured potato cropped soil (4). Both indicator fatty acids 18:26 for fungi and cy19:0 for anaerobic bacteria had their highest concentrations in the manured potato cropped soil (4).     

Modelling the effect of active roots on soil organic matter turnover

The aim of this experiment was to study the effect of living roots on soil carbon metabolism at different decomposition stages during a long-term incubation. Plant material labelled with ¹⁴C and ¹⁵N was incubated in two contrasting soils under controlled laboratory conditions, over two years. Half the samples were cropped with wheat (Triticum aestivum) 11 times in succession. At earing time the wheat was harvested, the roots were extracted from the soil and a new crop was started. Thus the soils were continuously occupied by active root systems. The other half of the samples was maintained bare, without plants under the same conditions. Over the 2 years, pairs of cropped and bare soils were analysed at eight sampling occasions (total-, plant debris-, and microbial biomass-C and -¹⁴C). A five compartment (labile and recalcitrant plant residues, labile microbial metabolites, microbial biomass and stabilised humified compounds) decomposition model was fitted to the labelled and soil native organic matter data of the bare and cropped soils. Two different phases in the decomposition processes showed a different plant effect. (1) During the initial fast decomposition stage, labile ¹⁴C-material stimulated microbial activities and N immobilisation, increasing the ¹⁴C-microbial biomass. In the presence of living roots, competition between micro-organisms and plants for inorganic N weakly lowered the measured and predicted total-¹⁴C mineralisation and resulted in a lower plant productivity compared to subsequent growths. (2) In contrast, beyond 3–6 months, when the labile material was exhausted, during the slow decomposition stage, the presence of living roots stimulated the mineralisation of the recalcitrant plant residue-¹⁴C in the sandy soil and of the humified-¹⁴C in the clay soil. In the sandy soil, the presence of roots also substantially stimulated decomposition of old soil native humus compounds. During this slow decomposition stage, the measured and predicted plant induced decrease in total-¹⁴C and -C was essentially explained by the predicted decrease in humus-¹⁴C and -C. The ¹⁴C-microbial biomass (MB) partly decayed or became inactive in the bare soils, whereas in the rooted soils, the labelled MB turnover was accelerated: the MB-¹⁴C was replaced by unlabelled-C from C derived from living roots. At the end of experiment, the MB-C in the cropped soils was 2.5–3 times higher than in the bare soils. To sustain this biomass and activity, the model predicted a daily root derived C input (rhizodeposition), amounting to 5.4 and 3.2% of the plant biomass-C or estimated at 46 and 41% of the daily net assimilated C (shoot + root + rhizodeposition C) in the clay and sandy soil, respectively. This revised version was published online in June 2006 with corrections to the Cover Date.     

Perennial Grass Bioenergy Cropping on Wet Marginal Land: Impacts on Soil Properties,Soil Organic Carbon,and Biomass During Initial Establishment

The control of soil moisture, vegetation type, and prior land use on soil health parameters of perennial grass cropping systems on marginal lands is not well known. A fallow wetness-prone marginal site in New York (USA) was converted to perennial grass bioenergy feedstock production. Quadruplicate treatments were fallow control, reed canarygrass (Phalaris arundinaceae L. Bellevue) with nitrogen (N) fertilizer (75 kg N ha^?1), switchgrass (Panicum virgatum L. Shawnee), and switchgrass with N fertilizer (75 kg N ha^?1). Based on periodic soil water measurements, permanent sampling locations were assigned to various wetness groups. Surface (0–15 cm) soil organic carbon (SOC), active carbon, wet aggregate stability, pH, total nitrogen (TN), root biomass, and harvested aboveground biomass were measured annually (2011–2014). Multi-year decreases in SOC, wet aggregate stability, and pH followed plowing in 2011. For all years, wettest soils had the greatest SOC and active carbon, while driest soils had the greatest wet aggregate stability and lowest pH. In 2014, wettest soils had significantly (p?<?0.0001) greater SOC and TN than drier soils, and fallow soils had 14 to 20% greater SOC than soils of reed canarygrass + N, switchgrass, and switchgrass + N. Crop type and N fertilization did not result in significant differences in SOC, active carbon, or wet aggregate stability. Cumulative 3-year aboveground biomass yields of driest switchgrass + N soils (18.8 Mg ha^?1) were 121% greater than the three wettest switchgrass (no N) treatments. Overall, soil moisture status must be accounted for when assessing soil dynamics during feedstock establishment.     

Differential contributions of ammonia oxidizers and nitrite oxidizers to nitrification in four paddy soils

Rice paddy fields are characterized by regular flooding and nitrogen fertilization, but the functional importance of aerobic ammonia oxidizers and nitrite oxidizers under unique agricultural management is poorly understood. In this study, we report the differential contributions of ammonia-oxidizing archaea (AOA), bacteria (AOB) and nitrite-oxidizing bacteria (NOB) to nitrification in four paddy soils from different geographic regions (Zi-Yang (ZY), Jiang-Du (JD), Lei-Zhou (LZ) and Jia-Xing (JX)) that are representative of the rice ecosystems in China. In urea-amended microcosms, nitrification activity varied greatly with 11.9, 9.46, 3.03 and 1.43 μg NO₃⁻-N g⁻¹ dry weight of soil per day in the ZY, JD, LZ and JX soils, respectively, over the course of a 56-day incubation period. Real-time quantitative PCR of amoA genes and pyrosequencing of 16S rRNA genes revealed significant increases in the AOA population to various extents, suggesting that their relative contributions to ammonia oxidation activity decreased from ZY to JD to LZ. The opposite trend was observed for AOB, and the JX soil stimulated only the AOB populations. DNA-based stable-isotope probing further demonstrated that active AOA numerically outcompeted their bacterial counterparts by 37.0-, 10.5- and 1.91-fold in ¹³C-DNA from ZY, JD and LZ soils, respectively, whereas AOB, but not AOA, were labeled in the JX soil during active nitrification. NOB were labeled to a much greater extent than AOA and AOB, and the addition of acetylene completely abolished the assimilation of ¹³CO₂ by nitrifying populations. Phylogenetic analysis suggested that archaeal ammonia oxidation was predominantly catalyzed by soil fosmid 29i4-related AOA within the soil group 1.1b lineage. Nitrosospira cluster 3-like AOB performed most bacterial ammonia oxidation in the ZY, LZ and JX soils, whereas the majority of the ¹³C-AOB in the JD soil was affiliated with the Nitrosomona communis lineage. The ¹³C-NOB was overwhelmingly dominated by Nitrospira rather than Nitrobacter. A significant correlation was observed between the active AOA/AOB ratio and the soil oxidation capacity, implying a greater advantage of AOA over AOB under microaerophilic conditions. These results suggest the important roles of soil physiochemical properties in determining the activities of ammonia oxidizers and nitrite oxidizers.     

Tree Species Composition Influences Enzyme Activities and Microbial Biomass in the Rhizosphere: A Rhizobox Approach

Monoculture causes nutrient losses and leads to declines in soil fertility and biomass production over successive cultivation. The rhizosphere, a zone of usually high microbial activities and clearly distinct from bulk soil, is defined as the volume of soil around living roots and influenced by root activities. Here we investigated enzyme activities and microbial biomass in the rhizosphere under different tree compositions. Six treatments with poplar, willow, and alder mono- or mixed seedlings were grown in rhizoboxes. Enzyme activities associated with nitrogen cycling and microbial biomass were measured in all rhizosphere and bulk soils. Both enzyme activities and microbial biomass in the rhizosphere differed significantly tree compositions. Microbial biomass contents were more sensitive to the changes of the rhizosphere environment than enzyme activities. Tree species coexistence did not consistently increase tested enzyme activities and microbial biomass, but varied depending on the complementarities of species traits. In general, impacts of tree species and coexistence were more pronounced on microbial composition than total biomass, evidenced by differences in microbial biomass C/N ratios stratified across the rhizosphere soils. Compared to poplar clone monoculture, other tree species addition obviously increased rhizosphere urease activity, but greatly reduced rhizosphere L-asparaginase activity. Poplar growth was enhanced only when coexisted with alder. Our results suggested that a highly productive or keystone plant species in a community had greater influence over soil functions than the contribution of diversity.     

Soil Microbial Community Structure and Metabolic Activity of Pinus elliottii Plantations across Different Stand Ages in a Subtropical Area

Soil microbes play an essential role in the forest ecosystem as an active component. This study examined the hypothesis that soil microbial community structure and metabolic activity would vary with the increasing stand ages in long-term pure plantations of Pinus elliottii. The phospholipid fatty acids (PLFA) combined with community level physiological profiles (CLPP) method was used to assess these characteristics in the rhizospheric soils of P. elliottii. We found that the soil microbial communities were significantly different among different stand ages of P. elliottii plantations. The PLFA analysis indicated that the bacterial biomass was higher than the actinomycic and fungal biomass in all stand ages. However, the bacterial biomass decreased with the increasing stand ages, while the fungal biomass increased. The four maximum biomarker concentrations in rhizospheric soils of P. elliottii for all stand ages were 18:1ω9c, 16:1ω7c, 18:3ω6c (6,9,12) and cy19:0, representing measures of fungal and gram negative bacterial biomass. In addition, CLPP analysis revealed that the utilization rate of amino acids, polymers, phenolic acids, and carbohydrates of soil microbial community gradually decreased with increasing stand ages, though this pattern was not observed for carboxylic acids and amines. Microbial community diversity, as determined by the Simpson index, Shannon-Wiener index, Richness index and McIntosh index, significantly decreased as stand age increased. Overall, both the PLFA and CLPP illustrated that the long-term pure plantation pattern exacerbated the microecological imbalance previously described in the rhizospheric soils of P. elliottii, and markedly decreased the soil microbial community diversity and metabolic activity. Based on the correlation analysis, we concluded that the soil nutrient and C/N ratio most significantly contributed to the variation of soil microbial community structure and metabolic activity in different stand ages of P. elliottii plantations.