scholarly journals Dynamics of Soil Microbial N-Cycling Strategies in Response to Cadmium Stress

Author(s):  
Haochun Zhao ◽  
Jiahui Lin ◽  
Xuehua Wang ◽  
Jiachun Shi ◽  
Randy A. Dahlgren ◽  
...  

2021 ◽  
Author(s):  
Felix Spiegel ◽  
Lucia Fuchslueger ◽  
Alberto Canarini ◽  
Jörg Schnecker ◽  
Hannes Schmidt ◽  
...  

<p>Fertilization experiments provide insights into elemental imbalances in soil microbial communities and their consequences for soil nutrient cycling. By addition of selected nutrients, other nutrients become deficient and limiting for soil microorganisms as well as for plants. In this study we focused on microbial nitrogen (N) cycling in a long-term nutrient manipulation experiment. In many soils, the rate-limiting step in N cycling is depolymerization of high-molecular-weight nitrogen compounds (e.g., proteins) to oligomers (e.g., peptides) and monomers (e.g., amino acids) rather than the subsequent steps of mineralization (ammonification) and nitrification. The aim of our study was to determine whether nutrient deficiency directly or indirectly – via changes in plant carbon (C) inputs - affects soil microbial N processing.</p><p>We collected soil samples from a fertilization experiment, established in 1946 on a hay meadow close to Admont (Styria, Austria). The field experiment consisted of a full factorial combination of inorganic N, P, and K fertilization and a control with no fertilizers. Furthermore, liming (Ca-addition) and organic fertilizer application treatments (solid manure and liquid slurry) were established. In the experiment, plant biomass is harvested three times per year, inducing strong nutrient limitation in plots that have not received nutrient additions (fully deficient or deficient in a single element). We determined gross rates of microbial protein depolymerization, N-mineralization and nitrification via isotope pool dilution assays with <sup>15</sup>N-labeled amino acids, NH<sub>4</sub><sup>+</sup>, and NO<sub>3</sub><sup>-</sup>. We hypothesized that N deficiency (lack of N fertilization) would stimulate microbial N mining (depolymerization), and reduce subsequent N mineralization and nitrification. In contrast, we expected that organic fertilization would alleviate microbial C and N limitations, reducing N depolymerization rates and increasing mineralization and nitrification.</p><p>Our results show that organically fertilized and limed soils have significantly lower gross protein depolymerization rates than plots receiving inorganic N. No significant differences were found comparing gross N-mineralization and gross nitrification rates across the different treatments. Given the higher rates of protein depolymerization in inorganically fertilized soils as compared to organically fertilized and limed soils, microbial N processes seem to be controlled by plant C input and/or soil pH rather than by direct soil nutrient availability. However, depolymerization of macromolecular N does not only supply N to the soil microbial community but also organic C. Thus, the reduced plant C input compared to fully fertilized soils may have caused microorganisms to increase their mining for a C-containing energy source, thereby increasing protein depolymerization rates. In summary, this study suggests that long term nutrient deficiency or nutrient imbalances may affect soil nutrient cycling indirectly by changing plant C inputs (via reduced primary production) and/or changing soil pH, rather than directly, by nutrient availability. This further indicates that soil microbial communities are rather C than nutrient limited.</p><p> </p>



2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Sanjutha Shanmugam ◽  
Sasha N. Jenkins ◽  
Bede S. Mickan ◽  
Noraini Md Jaafar ◽  
Falko Mathes ◽  
...  

AbstractCo-application of biochar and biosolids to soil has potential to mitigate N leaching due to physical and chemical properties of biochar. Changes in N cycling pathways in soil induced by co-application of biological amendments could further mitigate N loss, but this is largely unexplored. The aim of this study was to determine whether co-application of a biochar and a modified biosolids product to three pasture soils differing in texture could alter the relative abundance of N cycling genes in soil sown with subterranean clover. The biosolids product contained lime and clay and increased subterranean clover shoot biomass in parallel with increases in soil pH and soil nitrate. Its co-application with biochar similarly increased plant growth and soil pH with a marked reduction in nitrate in two coarse textured soils but not in a clayey soil. While application of the biosolids product altered in silico predicted N cycling functional genes, there was no additional change when applied to soil in combination with biochar. This supports the conclusion that co-application of the biochar and biosolids product used here has potential to mitigate loss of N in coarse textured soils due to N adsoption by the biochar and independently of microbial N pathways.



2018 ◽  
Vol 30 (4) ◽  
pp. 406-416 ◽  
Author(s):  
Zhongmin Dai ◽  
Yong Li ◽  
Xiaojie Zhang ◽  
Jianjun Wu ◽  
Yu Luo ◽  
...  


Forests ◽  
2020 ◽  
Vol 11 (10) ◽  
pp. 1027
Author(s):  
Dandan Qi ◽  
Fujuan Feng ◽  
Yanmei Fu ◽  
Ximei Ji ◽  
Xianfa Liu

Microbes, as important regulators of ecosystem processes, play essential roles in ecosystem recovery after disturbances. However, it is not clear how soil microbial communities and functions change and affect forest recovery after clear-cutting. Here, we used metagenome sequencing to systematically analyse the differences in soil microbial community composition, functions, and nitrogen (N) cycling pathways between primary Korean pine forests (PF) and secondary broad-leaved forests (SF) formed after clear-cutting. Our results showed that the dominant phyla of the two forest types were consistent, but the relative abundance of some phyla was significantly different. Meanwhile, at the genus level, the fold-changes of rare genera were larger than the dominant and common genera. The genes related to microbial core metabolic functions, virulence factors, stress response, and defence were significantly enriched in SF. Additionally, based on the relative abundance of functional genes, a schema was proposed to analyse the differences in the whole N cycling processes between the two forest types. In PF, the stronger ammoniation and dissimilatory nitrate reduction (DNRA) and the weaker nitrification provided a genetic explanation for PF dominated by ammonium (NH4+) rather than nitrate (NO3−). In SF, the weaker DNRA, the stronger nitrification and denitrification, the higher soil available phosphorus (AP), and the lower nitrogen to phosphorus ratio (N/P) comprehensively suggested that SF was faced with a greater degree of N limitation. These results offer insights into the potential relationship between soil microbes and forest recovery, and aid in implementing proper forestry management.



2020 ◽  
Author(s):  
Jie Zhou ◽  
Yuan Wen ◽  
Lingling Shi ◽  
Michaela Dippold ◽  
Yakov Kuzyakov ◽  
...  

<p>The Paris climate agreement is pursuing efforts to limit the increase in global temperature to below 2 °C above pre-industrial level. The overall consequence of relatively slight warming (~2 °C), on soil C and N stocks will be dependent on microorganisms decomposing organic matter through release of extracellular enzymes. Therefore, the capacity of soil microbial community to buffer climate warming in long-term and the self-regulatory mechanisms mediating soil C and N cycling through enzyme activity and microbial growth require a detailed comparative study. Here, microbial growth and the dynamics of enzyme activity (involved in C and N cycling) in response to 8 years warming (ambient, +1.6 °C, +3.2 °C) were investigated to identify shifts in soil and microbial functioning. A slight temperature increase (+1.6 °C) only altered microbial properties, but had no effect on either hydrolytic enzyme activity or basic soil properties. Stronger warming (+3.2 °C) increased the specific growth rate (μ<sub>m</sub>) of the microbial community, indicating an alteration in their ecological strategy, i.e. a shift towards fast-growing microorganisms and accelerated microbial turnover. Warming strongly changed microbial physiological state, as indicated by a 1.4-fold increase in the fraction of growing microorganisms (GMB) and 2 times decrease in lag-time with warming. This reduced total microbial biomass but increased specific enzyme activity to be ready to decompose increased rhizodeposition, as supported by the higher potential activitiy (V<sub>max</sub>) and lower affinity to substrates (higher K<sub>m</sub>) of enzymes hydrolyzing cellobiose and proteins cleavage in warmed soil. In other words, stronger warming magnitude (+3.2 °C) changed microbial communities, and was sufficient to benefit fast-growing microbial populations with enzyme functions that specific to degrade labile SOM. Combining with 48 literature observations, we confirmed that the slight magnitude of temperature increase (< 2 °C) only altered microbial properties, but further temperature increases (2-4 °C) was sufficient to change almost all soil, microbial, and enzyme properties and related processes. As a consequence, the revealed microbial regulatory mechanism of stability of soil C storage is strongly depended on the magnitude of future climate warming.</p>



2020 ◽  
Author(s):  
Jessica Clayton ◽  
Steffen Rothardt ◽  
Rüdiger Reichel ◽  
Michael Bonkowski

<p>Every year agricultural soils lose significant amounts of nitrogen (N) over winter through N leaching and gas emissions as a result of freeze-thaw cycles. The incorporation of carbon amendments after harvest, such as crop residues or other carbon rich material, can help to promote soil microbial growth, and in doing so, immobilise N within the microbial biomass. It is still unclear which amendments are most effective at promoting microbial N immobilisation and at what time they should be incorporated into the soil to give best results.</p><p>In order to investigate this, we measured soil microbial biomass carbon (C<sub>mic</sub>) and -nitrogen (N<sub>mic</sub>) at 12 timepoints between harvest and spring in soils from an established agricultural field experiment in Kiel (Germany). We selected plots which had the same fertilisation regime and crop rotation (Faba bean-winter wheat-winter barley rotation) but differed in soil carbon amendment treatment; removal of residues (control), wheat straw, faba bean, and sawdust.  In addition to microbial biomass measurements, we measured microbial nutrient limitation at each timepoint via substrate induced respiration, in order to give a qualitative indication of microbial activity in respect to growth limiting nutrients.</p><p>Our data show that there was little effect of wheat straw in comparison to the control on the microbial biomass carbon or -nitrogen, but different patterns were observed for the latter amendments. C<sub>mic</sub> generally decreased over time after harvest in all treatments, but again the decreases were less pronounced in the faba bean and sawdust treatments. N<sub>mic</sub> decreased over time after harvest in control and wheat straw treatment but increased with time in the faba bean and sawdust treatments, suggesting improved N immobilisation by the microbial biomass for these treatments. We found that all soils were nearly always N limited throughout the winter and were never P limited. However, a shift to C limitation was observed after addition of fertiliser in spring, except for in the sawdust treatment, which remained N limited despite the addition of mineral N in the field. This result suggests that sawdust has a higher potential for N immobilisation compared to the other soil amendments.</p><p>In summary, there was little difference in the microbial post-harvest dynamics between the control and wheat straw treatments but stronger effects were observed in the faba bean and saw dust treatments, which suggested improved microbial N immobilisation. Interestingly, the sawdust amendment seemed to have the highest potential for microbial N immobilisation over winter and enduring into spring.</p>



2021 ◽  
Author(s):  
Jie Li ◽  
Weilin Li ◽  
Xingliang Xu

Abstract Aims Kin recognition has been used to explain plant interactions among siblings, but the morphological-based conclusions are various and the mechanism is still fuzzy. Here, we tested the rhizosphere effect of plant kin recognition based on soil nitrogen (N) cycling resulted from root exudates, combined with plant fitness, morphological and physiological performances to examine how plants respond to kin neighbors. Methods One factorial experimental design of relatedness including either sibling or strangers of Glycine max was constructed. After growing about three months, plant morphological traits including plant height, specific leaf area (SLA) and root length as well as plant biomass; physiological traits including root activity, nitrate reductase (NR) activity and contents of chlorophyll; plant N use efficiency of each individuals were measured. Moreover, the production rate of root exudates carbon (C) and N, soil microbial biomass C and N, as well as genes amoA-AOAs, amoA-AOBs, nifH, nirK, nirS and nosZ genes related with soil N were assayed. Finally, the abundances of soil archaea, bacteria and fungi were quantified. Results Our study showed significant higher plant fitness and physiological growth and N use efficiency in siblings than strangers. The root secreted C rather than secreted N was sensitive to kin identity of G. max. Moreover, higher root secreted C quantity of sibling also ignited increasing of soil microbial biomass especially the abundance of Archaea community, and the abundance of amoa-AOAs gene compared to stranger soils. Finally, siblings increased the supply of soil available N and N use efficiency compared to strangers. Conclusions The rhizosphere changes induced by root exudation resulted in increased fitness and greater resource use efficiency among siblings compared to strangers. These findings suggest that the rhizosphere effect of soil microbial changes and soil N cycling and transformation triggered by the root-exuded C, could be a potential underground feedback mechanism for multiple kin recognition responses.



Chemosphere ◽  
2020 ◽  
Vol 260 ◽  
pp. 127578
Author(s):  
Shahid Iqbal ◽  
Jianchu Xu ◽  
Schaefer Douglas Allen ◽  
Sehroon Khan ◽  
Sadia Nadir ◽  
...  


2020 ◽  
Author(s):  
Nele Meyer ◽  
Outi-Maaria Sietiö ◽  
Sylwia Adamczyk ◽  
Christina Biasi ◽  
Per Ambus ◽  
...  

<p>It has been assumed for a long time that stable soil organic carbon (SOC) results from selective preservation of plant residues. Yet, a new paradigm points to a more active role of microorganisms in building SOC storage. In this context, even labile C, such as sugars, may persist in soil for a long time due to their incorporation into microbial biomass and ultimately necromass. The latter is considered as a relatively stable pool. However, little is known about the cycling of labile C through the microbial biomass and the turnover time of its residues. Unraveling the mechanisms and regulating factors would be critical for understanding SOC stabilization in soil.</p><p>We assume that the fate of labile C is mainly driven by microbial nitrogen (N) demand and supply. Specifically, we hypothesize that (1) high N demand forces microbes to decompose N-rich substances (“microbial N mining”), such as amino sugars, leading to a rapid turnover of microbial necromass, and that (2) labile C is stabilized in microbial necromass when N demand is met.</p><p>To investigate these hypotheses, we set up a greenhouse pot experiment including four treatments: (1) bare soil, (2) bare soil+N, (3) tree, and (4) tree+N. The soil is a sandy and nutrient poor forest soil from southern Finland. Trees are 1 m high pines (Pinus Sylvestris), which are supposed to induce microbial N deficiency by exuding easily degradable C compounds and by competing with microbes for mineral N. In order to follow to fate of labile C, we added trace amounts of <sup>13</sup>C labeled glucose to the soil (4 replicates per treatment). As a control to account for background variations in <sup>13</sup>C, we added <sup>12</sup>C glucose to another set of pots (4 replicates per treatment). Up to now, we sampled the soil 1 day, 3 days, 8 days, 1 month, 3 months, 6 months, 9 months, and 1 year after glucose addition. Measurements of the <sup>13</sup>C recovery in soil, microbial biomass, water extractable C, PLFA, amino sugars, and DNA are in progress.</p><p>First results indicate that the largest loss of <sup>13</sup>C tracer occurred in the unfertilized tree treatment, i.e., where N demand was high but N supply was low. Here, only 22% of the <sup>13</sup>C glucose remained after 3 month, whereas 40% remained in the fertilized tree treatment. Only small proportions of the recovered <sup>13</sup>C were present in the pool of water extractable C (<1%) and in living microbial biomass (8±3%, 3 days after glucose addition). As protection by clay minerals and aggregates is likely not a relevant process in this sandy soil, we suspect the remaining <sup>13</sup>C to be stabilized in microbial residues, but depending on N demand. We assume that microbial necromass accounts for a considerable proportion to total SOC storage, especially under conditions of adequate nitrogen supply.</p>





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