Carbon and Nitrogen Amendments Lead to Differential Growth of Bacterial and Fungal Communities in a High-pH Soil

Microbial growth in soil is mostly limited by lack of carbon (C). However, adding fresh, C-rich litter can induce nitrogen (N) limitation. We studied the effect of alleviating C and N limitation in high-pH (> 8) soils, soils expected to favor bacterial over fungal growth. Nitrogen limitation was induced by incubating soils amended with C-rich substrate (starch or straw) for 4 weeks. Limiting nutrients and the effects of alleviating limitation were then studied by adding C (as glucose) or N (as NH₄NO₃) and measuring microbial growth and respiration after 4 d. In non-amended, C-limited soils, adding C but not N increased both microbial respiration and bacterial growth. In N-limited, substrate-amended soils, adding C increased respiration, whereas adding N increased both microbial respiration and growth. Inducing N limitation by amending with straw was most easily detected in increased fungal growth after the addition of N, whereas with starch, only bacterial growth responded to alleviating N limitation. Compared to earlier results using a low-pH soil, the effect of substrate used to induce N limitation was more important than pH for inducing bacterial or fungal growth after alleviating N limitation. Furthermore, we found no evidence that alleviating N limitation resulted in decreased respiration concomitant with increased microbial growth in soil, suggesting no drastic changes in C use efficiency.     

Bacterial growth and growth-limiting nutrients following chronic nitrogen additions to a hardwood forest soil

Increasing nitrogen (N) deposition due to anthropogenic activities has become a significant global change threat to N-poor terrestrial ecosystems. We compared bacterial growth and nutrients limiting bacterial growth in one of the longest running experiments on increasing N-deposition to a temperate forest, the Chronic Nitrogen Amendment Study at Harvard Forest, USA. Soil samples were collected in fall 2009 from the organic and mineral horizons of plots treated annually since 1988 with 0 (unfertilized), 50 (low N) or 150 (high N) kg N ha⁻¹ as NH₄NO₃. In the organic horizon, bacterial growth (leucine incorporation) decreased by 5 times in the high N plots compared to the unfertilized treatment, while no decrease was observed in the mineral horizon. Bacterial growth in all soils was primarily limited by lack of carbon (C), although adding only C (as glucose) resulted in only a minor increase in bacterial growth in the unfertilized soil compared to adding C in combination with N. The bacterial growth induced by adding only C increased with higher level of N fertilization, up to 7–8 times the level without any C addition in the high N treatment, suggesting increased availability of N for the bacteria with increasing N addition.     

Maize straw is more effective than maize straw biochar at improving soil N availability and gross N transformation rate

Soil nitrogen (N) transformation is vital in determining farmland N availability. Although many studies have investigated the effect of biochar on N retention and loss via leaching and gaseous emissions, few have determined the dynamics of gross N transformation during crop growth in long-term biochar-amended soils and compared the effect of the biochar with that of its feedstock. In this study, we conducted a five-time field measurement of soil gross N turnover rates via ¹⁵N isotope pool dilution during maize growth in 2021. Three treatments were employed, including no amendment, biochar and straw applied annually at rates of 2.63 and 7.50 t ha⁻¹, respectively, since 2013. The results showed that biochar did not change the rate of gross N mineralisation when compared with no amendment, but straw increased it by 139% in August, resulting in significantly higher cumulative gross N mineralisation than biochar and no amendment (701 vs 489 and 499 mg kg⁻¹ in 200 d). The inconsistent influence was attributed to the fact that inherent biochar-N was recalcitrant and could not be mineralized like the straw. The gross nitrification rate was decreased by 72.9% and 77.4% by biochar and straw application, respectively, in June relative to no amendment, but then it increased from July to August in the straw treatment as a result of the elevated gross N mineralisation rate. The decreased nitrification in the biochar treatment was an outcome of the synergetic effect of a low ammonium pool (−59.4%) and a high gross ammonium immobilisation rate (+263%), which was likely due to excessive fertilizer N loss and abiotic adsorption to biochar. Meanwhile, biochar amendment inhibited bacterial 16S and fungal ITS genes, as well as ureC and bacterial and archaea-amoA gene copies. In conclusion, straw is more effective than biochar at improving soil N transformation and availability in the long term.     

Examining N-limited soil microbial activity using community-level physiological profiling based on O2 consumption

Nitrogen-limited soil microbial activity has important implications for soil carbon storage and nutrient availability, but previous methods for assessing resource limitation have been restricted, due to enrichment criteria (i.e., long incubation periods, high substrate amendments) and/or logistical constraints (e.g. use of radioisotopes). A microtiter-based assay of basal and substrate induced soil respiration based on O₂ consumption may be a rapid, ecologically relevant means of assessing N limitation. The present study evaluated this approach by examining 1) the extent and duration of N limitation on soil respiratory activity following different levels of N fertilization in the field, and 2) the relationship between N-limited activities and growth under the assay conditions. Fertilization rate and the time since fertilization had significant impacts on the degree of N limitation of soil microbial activity. The highest fertilization rate showed the earliest and most persistent reduction in N limitation, as would be predicted from the higher concentration of extractable inorganic soil N observed with this treatment. Bacterial growth under the assay conditions, as estimated by quantitative-PCR of 16S rRNA genes, was less than twofold in soils demonstrating a rapid respiratory response (i.e. peak within 6–8 h of initiating incubation) to up to fourfold in soils demonstrating a slower respiratory response (i.e., peak response after ∼14 h of incubation). Increased respiratory response with N amendment was usually associated with increased cell growth, although for rapidly responding soils some C sources showed N-limited use without growth. This was likely due to exhaustion of the relatively low levels of available C amendment before growth was detected. The method appears useful for assessing N-limited microbial growth, and it may be effective as a rapid indicator of bioavailable soil N. It may also be a tool to evaluate the complexity of N limitation among various metabolic pathways found in soil microbial communities, particularly if linked to dynamics in community structure and gene activation.     

Nitrogen and phosphorus transformations in the rhizospheres of three tree species in a nutrient-poor sandy soil

We examined acid phosphatase activity (APA), N mineralization and nitrification rates, available N and P, and microbial biomass C, N and P in rhizosphere and bulk soils of 18-year-old Siberian elm (Ulmus pumila), Simon poplar (Populus simonii) and Mongolian pine (Pinus sylvestris var. mongolica) plantations on a nutrient-poor sandy soil in Northeast China. The main objective was to compare the rhizosphere effects of different tree species on N and P cycling under nutrient-deficient conditions. All tree species had the similar pattern but considerably different magnitude of rhizosphere effects. The APA, potential net N mineralization and nitrification rates increased significantly (by 27–60%, 110–188% and 106–142% respectively across the three species) in rhizosphere soil compared to bulk soil. This led to significantly higher Olsen-P and NH₄⁺-N concentrations in rhizosphere soil, whereas NO₃⁻-N concentration was significantly lower in rhizosphere soil owing to increased microbial immobilization and root uptake. Microbial biomass C and N generally increased while microbial biomass P remained constant in rhizosphere soil relative to bulk soil, indicating the N-limited rather than P-limited microbial growth. Rhizosphere effects on P transformation were most pronounced for Siberian elm, while rhizosphere effects on N transformation were most pronounced for Mongolian pine, implying the different capacities of these species to acquire nutrients.     

The immobilization of nitrogen by straw decomposing in soil

Immobilization of nitrogen (N) in decomposing straw varies between soils, and the objective of this study was to identify the mechanisms responsible. Internode segments of wheat straw were incubated in Denmark and in Scotland in arable soils fertilized with NH₄NO₃, labelled with ¹⁵N, for periods up to 1 year. Straw was recovered from the soils periodically and analysed for microbial biomass and different forms of N using chemical methods and CPMAS ¹⁵N NMR spectroscopy. The total N content of the straw increased, as long as the soil was not too wet, such that there was overall immobilization. This was accompanied by a rapid increase in the content of amino acid N and to a lesser extent of glucosamine N and a concomitant decrease in the carbohydrate content of the straw. Using direct and plate counts for bacterial and ergosterol content for fungal estimation, we found that fungal biomass was much greater than that of bacteria. This correlated with the forms of N in the straw as determined by CPMAS ¹⁵N NMR, which showed spectra that were more typical of fungi than of bacteria. It seems that immobilization of N is primarily caused by fungi as they decompose the straw.     

Straw amendments did not induce high N2O emissions in non-frozen wintertime conditions: A study in northern Germany

An increasing area of oilseed rape cultivation in Europe is used to produce biodiesel. However, a large amount of straw residue is often left in the field in autumn. Straw mineralization provides both carbon (C) and nitrogen (N) sources for emission of soil nitrous oxide (N₂O), which is an important greenhouse gas with a high warming potential. Some studies have focused on soil N₂O emissions immediately post-harvest; however, straw mineralization could possibly last over winter. Most field studies in winter have focused on freeze-thaw cycles. It is still not clear how straw mineralization affects soil N₂O emissions in unfrozen wintertime conditions. We carried out a field experiment in northern Germany in winter 2014, adding straw and glucose as a source of C with three rates of N fertilizer (0, 30, and 60 kg N ha⁻¹). During the 26 days of observation, cumulative N₂O emission in treatments without C addition was negative at all N fertilizer levels. Straw addition produced –3.2, 11.2, and 5.0 mg N₂O-N m⁻² at 0, 30, and 60 kg N ha⁻¹, respectively. Addition of glucose surprisingly caused –1.5, 74.6, and 165 mg N₂O–N m⁻² at 0, 30, and 60 kg N ha⁻¹, respectively. This study demonstrates that oilseed rape straw does not cause high N₂O emissions in wintertime when no extreme precipitation or freeze-thaw cycles are involved, and soil organic C content is low. However, N₂O emission could be intensively stimulated, when both easily available organic C and nitrate are not limited and the soil temperature between 0 and 10°C. These results provide useful information on potential changes to N₂O emissions that may occur due to the increased use of oilseed rape for biodiesel combined with less severe winters in the northern hemisphere driven by global warming.     

Microbial activity differentially regulates the vertical mobility of nitrogen compounds in soil

Alongside nitrate, dissolved organic nitrogen (DON) represents a significant N loss pathway in many agroecosystems. To better understand the factors controlling DON leaching in soil we followed the vertical movement of ¹⁵N-labeled NO₃⁻, NH₄⁺, alanine and trialanine in packed soil columns in response to a simulated rainfall event. We show that in autoclaved (sterile) soil where sorption is assumed to be the dominant regulating factor, leaching followed the series NO₃⁻ > trialanine > alanine > NH₄⁺. In the non-sterile packed soil columns, the rapid rate of NO₃⁻ leaching was unaffected whilst the movement of the amino acid, peptide and NH₄⁺ was almost completely prevented due to microbial immobilization. Our results support the view that (1) DON loss from agricultural soils occurs mainly in the form of recalcitrant compounds (e.g. humic DON) rather than in the form of labile low MW DON (e.g. oligopeptides and amino acids), and (2) that although nitrate was bioavailable, it was not a preferred N form for the C-limited microbial biomass.     

Phosphorus addition enhances loss of nitrogen in a phosphorus-poor soil

Plants and microbes have limited stoichiometric flexibility to take up and store nitrogen (N) and phosphorus (P). Variation in the relative availability of N and P to plants and microbes may therefore affect how strongly N and P are held in terrestrial ecosystems with important implications for net primary productivity and carbon sequestration. We hypothesized that an increase in P availability in a P-poor soil would increase N uptake by plants and microbes thereby reducing N loss. We grew mixtures of the C3 grass Phalaris aquatica L. and the legume Medicago sativa L. in mesocosms with soils low in P availability and then used a novel technique by adding a ¹⁵N tracer with and without 1 g P m⁻² to soil with different moisture and available N conditions, and measured the ¹⁵N recovery after 48 h in microbes, plants and soil. In contrast to our hypothesis, we found that P addition reduced ¹⁵N in microbes without water stress by 80% and also reduced total¹⁵N recovery, particularly without water stress. Water stress in combination with N addition further showed low total ¹⁵N recovery, possibly because of reduced plant uptake thereby leaving more ¹⁵N in the soil available for nitrification and denitrification. Our results suggest that P addition can result in large gaseous N loss in P-poor soils, most likely by directly stimulating nitrification and denitrification.     

Effects of ecological restoration on microbial activity,microbial functional diversity,and soil organic matter in mixed-oak forests of southern Ohio,USA

As a result of many decades of fire suppression and atmospheric deposition the deciduous forests of eastern North America have changed significantly in stem density, basal area, tree size-frequency distribution, and community structure. Consequently, soil organic matter quality and quantity, nutrient availability, and microbial activity have likely been altered. This study evaluated the effects of four alternative forest ecosystem restoration strategies on soil microbial activity, microbial functional diversity, soil organic C, and soil N status in two mixed-oak (Quercus spp.) forests in southern Ohio, USA. The soils of these forests were sampled during the fourth growing season after application of (1) prescribed fire, (2) thinning of the understory and midstory to pre-settlement characteristics, (3) the combination of fire and thinning, and (4) an untreated control. Prescribed fire, with or without thinning, resulted in increased bacterial but not fungal activity when assessed using Biolog^®. In contrast, assays of acid phosphatase and phenol oxidase activity indicated greater microbial activity in the thinning treatment than in the other three treatments. Functional diversity of both bacteria and fungi was affected by restoration treatment, with the bacterial and fungal assemblages present in the thin + burn sites and the fungal assemblage present in the thinned sites differing significantly from those of the control and burned sites. Treatments did not result in significant differences in soil organic C content among experimental sites; however, the soil C:N ratio was significantly greater in thinned sites than in sites given the other three treatments. Similarly, there were no significant differences in dissolve inorganic N, dissolved organic N, or microbial biomass N among treatments. Bacterial and fungal functional diversity was altered significantly. Based on Biolog^® utilization treatments the bacterial assemblage in the thin-only treatment appeared to be relatively N-limited and the fungal assemblage relatively C-limited, whereas in the thin + burn treatment this was reversed. Although effects of restoration treatments on soil organic matter and overall microbial activity may not persist through the fourth post-treatment year, effects on microbial functional diversity are persistent.     

Nitrogen transformations in cold and frozen agricultural soils following organic amendments

Though microbial activity is known to occur in frozen soils, little is known about the fate of animal manure N applied in the fall to agricultural soils located in areas with prolonged winter periods. Our objective was to examine transformations of soil and pig slurry N at low temperatures. Loamy and clay soils were either unamended (Control), amended with ¹⁵NH₄-labeled pig slurry, or amended with the pig slurry and wheat straw. Soils were incubated at −6, −2, 2, 6, and 10 °C. The amounts of NH₄, NO₃ and microbial biomass N (MBN), and the presence of ¹⁵N in these pools were monitored. Total mineral N, NO₃ and ¹⁵NO₃ increased at temperature down to −2 °C in the loam soil and −6 °C in the clay soil, indicating that nitrification and mineralization proceeded in frozen soils. Nitrification and mineralization rates were 1.8-4.9 times higher in the clay than in the loamy soil, especially below freezing point (3.2-4.9), possibly because more unfrozen water remained in the clay than in the loamy soil. Slurry addition increased nitrification rates by 3-14 times at all temperatures, indicating that this process was N-limited even in frozen soils. Straw incorporation caused significant net N immobilization only at temperatures ≥2 °C in both soils; the rates were 1.4-3.4 higher in the loam than in the clay soil. Nevertheless, up to 30% of the applied ¹⁵N was present in MBN at all temperatures. These findings indicate that microbial N immobilization occurred in frozen soils, but was not strong enough to induce net immobilization below the freezing point, even in the presence of straw. The Q₁₀ values for estimated mineralization and nitrification rates were one to two orders-of-magnitude larger below 2 °C than above this temperature (13-208 versus 1.5-6.9, respectively), indicating that these processes are highly sensitive to a small increase in soil temperature around the freezing point of water. This study confirms that net mineralization and nitrification can occur at potentially significant rates in frozen agricultural soils, especially in the presence of organic amendments. In contrast, net N immobilization could be detected essentially above the freezing point. Our results imply that fall-applied N could be at risk of overwinter losses, particularly in fine-textured soils.     

Organic nitrogen stimulates the heterotrophic nitrification rate in an acidic forest soil

Many previous studies have demonstrated that heterotrophic nitrification processes play an important role in the production of NO₃⁻ in acidic soils. However, it is not clear whether a low concentration of nitrogenous organic compounds support heterotrophic nitrification processes in natural soils. In this study, we performed an ¹⁵N tracer experiment with a glycine concentration gradient (20, 40, 80, and 160 mg N kg⁻¹) to investigate the effect of the organic nitrogen concentration on the heterotrophic nitrification rate and its relative contribution to the total nitrification of the studied acidic forest soil. This experiment demonstrated that ¹⁵N–NO₃⁻ accumulated over time with all nitrogen treatments in the presence of acetylene, confirming that heterotrophic nitrification occurred even at a low organic nitrogen concentration (20 mg kg⁻¹) in the studied acidic forest soil. In the presence of acetylene, the ¹⁵N–NO₃⁻ concentration in the 20 and 40 mg kg⁻¹ glycine-N treatments was significantly lower than in the 80 and 160 mg kg⁻¹ glycine-N treatments (p < 0.05), indicating that a high organic nitrogen concentration stimulated the heterotrophic nitrification rate. There was no significant difference in the average contribution of heterotrophic nitrification to total nitrification among the different nitrogen treatments, suggesting that the organic nitrogen concentration did not affect the relative contribution of heterotrophic nitrification to total nitrification in the studied acidic soil. Our results confirmed that a low concentration of organic N (20 mg kg⁻¹) supported heterotrophic nitrification in the studied soil. The organic nitrogen concentration stimulates the heterotrophic nitrification rate, but does not affect the relative contribution of heterotrophic nitrification to total nitrification in the studied acidic soil.     

Fungal and bacterial N2O production regulated by soil amendments of simple and complex substrates

Fungal N₂O production results from a respiratory denitrification that reduces NO₃⁻/NO₂⁻ in response to the oxidation of an electron donor, often organic C. Despite similar heterotrophic nature, fungal denitrifiers may differ from bacterial ones in exploiting diverse resources. We hypothesized that complex C compounds and substances could favor the growth of fungi over bacteria, and thereby leading to fungal dominance for soil N₂O emissions. Effects of substrate quality on fungal and bacterial N₂O production were, therefore, examined in a 44-d incubation after soils were amended with four different substrates, i.e., glucose, cellulose, winter pea, and switchgrass at 2 mg C g⁻¹ soil. During periodic measurements of soil N₂O fluxes at 80% soil water-filled pore space and with the supply of KNO₃, substrate treatments were further subjected to four antibiotic treatments, i.e., no antibiotics or soil addition of streptomycin, cycloheximide or both so that fungal and bacterial N₂O production could be separated. Up to d 8 when antibiotic inhibition on substrate-induced microbial activity and/or growth was still detectable, bacterial N₂O production was generally greater in glucose- than in cellulose-amended soils and also in winter pea- than in switchgrass-amended soils. In contrast, fungal N₂O production was more enhanced in soils amended with cellulose than with glucose. Therefore, fungal-to-bacterial contribution ratios were greater in complex than in simple C substrates. These ratios were positively correlated with fungal-to-bacterial activity ratios, i.e., CO₂ production ratios, suggesting that substrate-associated fungal or bacterial preferential activity and/or growth might be the cause. Considering substrate depletion over time and thereby becoming limited for microbial N₂O production, measurements of soil N₂O fluxes were also carried out with additional supply of glucose, irrespective of different substrate treatments. This measurement condition might lead to potentially high rates of fungal and bacterial N₂O production. As expected, bacterial N₂O production was greater with added glucose than with added cellulose on d 4 and d 8. However, this pattern was broken on d 28, with bacterial N₂O production lower with added glucose than with added cellulose. In contrast, plant residue impacts on soil N₂O fluxes were consistent over 44-d, with greater bacterial contribution, lower fungal contribution, and thus lower fungal-to-bacterial contribution ratios in winter pea- than in switchgrass-amended soils. Real-time PCR analysis also demonstrated that the ratios of 16S rDNA to ITS and the copy numbers of bacterial denitrifying genes were greater in winter pea- than in switchgrass-amended soils. Despite some inconsistency found on the impacts of cellulose versus glucose on fungal and bacterial leading roles for N₂O production, the results generally supported the working hypothesis that complex substrates promoted fungal dominance for soil N₂O emissions.     

Bacterial salt tolerance is unrelated to soil salinity across an arid agroecosystem salinity gradient

In arid and semi-arid ecosystems, salinization is a major threat to the productivity of agricultural land. While the influence of other physical and chemical environmental factors on decomposer microorganisms have been intensively studied in soil, the influence of salinity has been less exhaustively assessed. We investigated the influence of soil salinity on soil bacterial communities in soils covering a range of salt levels. We assessed tolerance of the bacterial communities from Libyan agricultural soils forming a salinity gradient to salt (NaCl), by extracting bacterial communities and instantaneously monitoring the concentration-response to added NaCl with the Leucine incorporation technique for bacterial growth. To maximise our ability to detect differences in bacterial salt tolerance between the soils, we also repeated the assessment of bacterial growth tolerance after one month incubation with 1 or 2% added organic matter additions to stimulate microbial growth levels. We could establish clear concentration-response relationships between bacterial growth and soil salinity, demonstrating an accurate assessment of bacterial tolerance. The in situ soil salinity in the studied soils ranged between 0.64 and 2.73 mM Na (electrical conductivities of 0.74-4.12 mS cm⁻¹; cation exchange capacities of 20-37 mmol_c kg⁻¹) and the bacterial tolerance indicated by the concentration inhibiting 50% of the bacterial growth (EC₅₀) varied between 30 and 100 mM Na or between electrical conductivities of 3.0 and 10.7 mS cm⁻¹. There was no relationship between in situ soil salinity and the salt tolerance of the soil bacterial communities. Our results suggest that soil salinity was not a decisive factor for bacterial growth, and thus for structuring the decomposer community, in the studied soils.     

Survival and persistence of genetically modified Sinorhizobium meliloti in soil

Studies were conducted to evaluate the survival and persistence of Sinorhizobium meliloti 104A14 and two acid phosphatase-negative mutants in Kirkland (fine, mixed, thermic Udertic Paleustolls) silt loam soils with various fertility levels, and to assess the impact of inoculation on nodule occupancy and soil microbial community structure in the inoculated alfalfa (Medicago sativa L.) rhizosphere. Recovery of the inoculated strains was 100% (in the order of 10⁸ cells g⁻¹ soil) immediately following inoculation to soils, but decreased from 10⁸ cells g⁻¹ soil to undetectable levels in a nutrient-poor soil within 32 days. In a nutrient-rich soil, approximately 2–3% (4.7–7.43×10⁶ cells g⁻¹ soil) of the mutants and 23% (5.84×10⁷ cells g⁻¹ soil) of the wild-type inocula persisted for more than 64 days. Survivability and persistence of the wild-type S. meliloti were significantly greater than that of the genetically modified acid phosphatase negative mutants in all the soils tested. The persistence and nodule occupancy of the introduced S. meliloti in sterile and non-sterile soils were also tested for two repeated alfalfa growth periods in the same plant growth units, with a 1 month interval in between and no additional inoculation for the second period. Nodule occupancy of the introduced S. meliloti in non-sterile soils ranged from 30 to 60% for the first period and 85 to 100% for the second period. Our results suggest that survival and persistence of S. meliloti was enhanced by alfalfa cultivation and increased soil fertility, but impaired by mutation of acid phosphatase genes regardless of phosphorus nutritional levels. Moreover, inoculation with genetically modified S. meliloti strain 104A14 promoted indigenous bacterial growth in soil (increased bacterial population from 1.4×10⁶ to 4.3×10⁶ cells g⁻¹ soil), but not the growth of fungi and yeast. However, inoculation of the wild-type S. meliloti or genetically modified mutants did not result in significant changes in microbial community structure as indicated by EP indices and ratios of r/K strategists.     

Impact of inorganic nitrogen additions on microbes in biological soil crusts

Many studies have shown that changes in nitrogen (N) availability affect the diversity and composition of soil microbial community in a variety of terrestrial systems, but less is known about the responses of microbes specific to biological soil crusts (BSCs) to increasing N additions. After seven years of field experiment, the bacterial diversity in lichen-dominated crusts decreased linearly with increasing inorganic N additions (ambient N deposition; low N addition, 3.5 g N m⁻² y⁻¹; medium N addition, 7.0 g N m⁻² y⁻¹; high N addition, 14.0 g N m⁻² y⁻¹), whereas the fungal diversity exhibited a distinctive pattern, with the low N-added crust containing a higher diversity than the other crusts. Pyrosequencing data revealed that the bacterial community shifted to more Cyanobacteria with modest N additions (low N and medium N) and to more Actinobacteria and Proteobacteria and much less Cyanobacteria with excess N addition (high N). Our results suggest that soil pH, together with soil organic carbon (C), structures the bacterial communities with N additions. Among the fungal communities, the relative abundance of Ascomycota increased with modest N but decreased with excess N. However, increasing N additions favored Basidiomycota, which may be ascribed to increases in substrate availability with low lignin and high cellulose contents under elevated N conditions. Bacteria/fungi ratios were higher in the N-added samples than in the control, suggesting that the bacterial biomass tends to dominate over that of fungi in lichen-dominated crusts after N additions, which is especially evident in the excess N condition. Because bacteria and fungi are important components and important decomposers in BSCs, the alterations of the bacterial and fungal communities may have implications in the formation and persistence of BSCs and the cycling and storage of C in desert ecosystems.     

Effect of labile and recalcitrant carbon on heterotrophic nitrification in a subtropical forest soil

Carbon (C) is an important factor controlling heterotrophic nitrification in soil, but the effect of individual C components (e.g., labile and recalcitrant C) is largely unclear. We carried out a C amendment experiment in which either labile C (glucose) or a recalcitrant C (cellulose and biochar) was added to a subtropical forest soil. A ¹⁵N-, ¹³C-tracing and MiSeq sequencing study was performed to investigate soil gross heterotrophic nitrification rates, carbon utilization for soil respiration and microbial biomass production and microbial composition, respectively. After 2 days, results showed a significant increase of gross heterotrophic nitrification rate in glucose (GLU) (on average 3.34 mg N kg⁻¹ day⁻¹), cellulose (CEL) (on average 0.21 mg N kg⁻¹ day⁻¹) and biochar (BIO) (on average 0.13 mg N kg⁻¹ day⁻¹) amendment in comparison with the unamended soil (CK) (on average 0.01 mg N kg⁻¹ day⁻¹; p < 0.05). The contribution of heterotrophic nitrification to total soil nitrification was significantly larger in GLU (average 85.86%), CEL (average 98.52%) and BIO (average 81.25%) treatments compared with CK (average 33.33%; p < 0.01). After 2-month amendment, the gross rates remarkably decreased in GLU (average 0.02 mg N kg⁻¹ day⁻¹), and the contribution to total nitrification (average 8.73%) were significantly lower than that in CK (p < 0.05). A decrease in the proportion of heterotrophic nitrification to total nitrification in soil was also observed in CEL (average 38.40%) and BIO (6.74%) treatments. Nevertheless, BIO amendment (compared to CK, GLU and CEL) showed the highest gross heterotrophic nitrification rate, accompanied by a notably higher abundance of specific heterotrophic nitrifiers, i.e. Trichoderma, Aspergillus and Penicillium. These results point to a stimulatory effect of C addition on soil heterotrophic nitrification in the short term, while the stimulatory impact of C amendment diminishes with the decline in easily available C. In addition, a shift of the microbial composition in the long term can possibly be sustained for longer if additional recalcitrant C is available to heterotrophic nitrifiers. The dynamic response of heterotrophic nitrification to labile and recalcitrant C in this study offered an explanation for the positive effect of plantation and plant root exudation on the process.     

Short-term population dynamics of ammonia oxidizing bacteria in an agricultural soil

Ammonia oxidizing bacteria (AOB) control the rate limiting step of nitrification, the conversion of ammonia (NH₄⁺) to nitrite (NO₂⁻). The AOB therefore have an important role to play in regulating soil nitrogen cycling. Tillage aerates the soil, stimulating rapid changes in soil N cycling and microbial communities. Here we report results of a study of the short term responses of AOB and net nitrification to simulated tillage and NH₄⁺ addition to soil. The intensively farmed vegetable soils of the Salinas Valley, California, provide the context for this study. These soils are cultivated frequently, receive large N fertilizer inputs and there are regional concerns about groundwater N concentrations. An understanding of N dynamics in these systems is therefore important. AOB population sizes were quantified using a real-time PCR approach. In a 15 day experiment AOB populations, increased rapidly following tillage and NH₄⁺ addition and persisted after the depletion of soil NH₄⁺. AOB population sizes increased to a similar degree, over a 1.5-day period, irrespective of the amount of NH₄⁺ supplied. These data suggest selection of an AOB community in this intensively farmed and C-limited soil, that rapidly uses NH₄⁺ that becomes available. These data also suggest that mineralization may play an especially important role in regulating AOB populations where NH₄⁺ pool sizes are very low. Methodological considerations in the study of soil AOB communities are also discussed.     

Response of microbial activity and biomass to increasing salinity depends on the final salinity,not the original salinity

Salinization is a global land degradation issue which inhibits microbial activity and plant growth. The effect of salinity on microbial activity and biomass has been studied extensively, but little is known about the response of microbes from different soils to increasing salinity although soil salinity may fluctuate in the field, for example, depending on the quality of the irrigation water or seasonally. An incubation experiment with five soils (one non-saline, four saline with electrical conductivity (EC_e) ranging from 1 to 50 dS m⁻¹) was conducted in which the EC was increased to 37 EC_e levels (from 3 to 119 dS m⁻¹) by adding NaCl. After amendment with 2% (w/w) pea straw to provide a nutrient source, the soils were incubated at optimal water content for 15 days, microbial respiration was measured continuously and chloroform-labile C was determined every three days. Both cumulative respiration and microbial biomass (indicated by chloroform-labile C) were negatively correlated with EC. Irrespective of the original soil EC, cumulative respiration at a given adjusted EC was similar. Thus, microorganisms from previously saline soils were not more tolerant to a given adjusted EC than those in originally non-saline soil. Microbial biomass in all soils increased from day 0 to day 3, then decreased. The relative increase was greater in soils which had a lower microbial biomass on day 0 (which were more saline). Therefore the relative increase in microbial biomass appears to be a function of the biomass on day 0 rather than the EC. Hence, the results suggest that microbes from originally saline soils are not more tolerant to increases in salinity than those from originally non-saline soils. The strong increase in microbial biomass upon pea straw addition suggests that there is a subset of microbes in all soils that can respond to increased substrate availability even in highly saline environments.     

Mechanisms of soil N dynamics following long-term application of organic fertilizers to subtropical rain-fed purple soil in China

In this study, a ¹⁵N tracing incubation experiment and an in situ monitoring study were combined to investigate the effects of different N fertilizer regimes on the mechanisms of soil N dynamics from a long-term repeated N application experiment. The field study was initiated in 2003 under a wheat-maize rotation system in the subtropical rain-fed purple soil region of China. The experiment included six fertilization treatments applied on an equivalent N basis (280 kg N ha⁻¹), except for the residue only treatment which received 112 kg N ha⁻¹: (1) UC, unfertilized control; (2) NPK, mineral fertilizer NPK; (3) OM, pig manure; (4) OM-NPK, pig manure (40% of applied N) with mineral NPK (60% of applied N); (5) RSD, crop straw; (6) RSD-NPK, crop straw (40% of applied N) with mineral NPK (60% of applied N). The results showed that long-term repeated applications of mineral or organic N fertilizer significantly stimulated soil gross N mineralization rates, which was associated with enhanced soil C and N contents following the application of N fertilizer. The crop N offtake and yield were positively correlated with gross mineralization. Gross autotrophic nitrification rates were enhanced by approximately 2.5-fold in the NPK, OM, OM-NPK, and RSD-NPK treatments, and to a lesser extent by RSD application, compared to the UC. A significant positive relationship between gross nitrification rates and cumulative N loss via interflow and runoff indicated that the mechanisms responsible for increasing N loss following long-term applications of N fertilizer were governed by the nitrification dynamics. Organic fertilizers stimulated gross ammonium (NH₄⁺) immobilization rates and caused a strong competition with nitrifiers for NH₄⁺, thus preventing a build-up of nitrate (NO₃⁻). Overall, in this study, we found that partial or complete substitution of NPK fertilizers with organic fertilizers can reduce N losses and maintain high crop production, except for the treatment involving application of RSD alone. Therefore, based on the N transformation dynamics observed in this study, organic fertilizers in combination with mineral fertilizer applications (i.e. OM, OM-NPK, and RSD-NPK treatments) are recommended for crop production in the subtropical rain-fed purple soils in China.