Light affects competition for inorganic and organic nitrogen between maize and rhizosphere microorganisms

Effects of light on the short term competition for organic and inorganic nitrogen between maize and rhizosphere microorganisms were investigated using a mixture of amino acid, ammonium and nitrate under controlled conditions. The amount and forms of N added in the three treatments was identical, but only one of the three N forms was labeled with ¹⁵N. Glycine was additionally labeled with ¹⁴C to prove its uptake by maize and incorporation into microbial biomass in an intact form. Maize out-competed microorganisms for during the whole experiment under low and high light intensity. Microbial uptake of ¹⁵N and ¹⁴C was not directly influenced by the light intensity, but was indirectly related to the impact the light intensity had on the plant. More was recovered in microbial biomass than in plants in the initial 4 h under the two light intensities, although more ¹⁵N-glycine was incorporated into microbial biomass than in plants in the initial 4 h under low light intensity. Light had a significant effect on uptake by maize, but no significant effects on the uptake of or ¹⁵N-glycine. High light intensity significantly increased plant uptake of and glycine ¹⁴C. Based on ¹⁴C to ¹⁵N recovery ratios of plants, intact glycine contributed at least 13% to glycine-derived nitrogen 4 h after tracer additions, but it contributed only 0.5% to total nitrogen uptake. These findings suggest that light intensity alters the competitive relationship between maize roots and rhizosphere microorganisms and that C4 cereals such as maize are able to access small amounts of intact glycine. We conclude that roots were stronger competitor than microorganisms for inorganic N, but microorganisms out competed plants during a short period for organic N, which was mineralized into inorganic N within a few hours of application to the soil and was thereafter available for root uptake.     

Spatial and temporal dynamics of hotspots of enzyme activity in soil as affected by living and dead roots—a soil zymography analysis

Aims

Hotspots of enzyme activity in soil strongly depend on carbon inputs such as rhizodeposits and root detritus. In this study, we compare the effect of living and dead Lupinus polyphyllus L. roots on the small-scale distribution of cellulase, chitinase and phosphatase activity in soil.

Methods

Soil zymography, a novel in situ method, was used to analyze extracellular cellulase, chitinase and phosphatase activity in the presence of i. living L. polyphyllus roots prior to shoot cutting and ii. dead/dying roots 10, 20 and 30 days after shoot cutting.

Results

After shoot cutting, cellulase and chitinase activities increased and were highest at the root tips. The areas of high cellulase and phosphatase activity extend up to 55 mm away from the root. Moreover, we observed microhotspots of cellulose, chitinase, and phosphatase activity up to 60 mm away from the next living root. The number and activity of microhotspots of chitinase activity was maximal 10 days after shoot cutting.

Conclusions

The study showed that young root detritus stimulates enzyme activities stronger than living roots. Soil zymography allowed identification of microhotspots of enzyme activity up to several cm away from living and dying roots, which most likely were caused by arbuscular mycorrhizal fungi.     

Microbial Growth and Carbon Use Efficiency in the Rhizosphere and Root-Free Soil

Plant-microbial interactions alter C and N balance in the rhizosphere and affect the microbial carbon use efficiency (CUE)–the fundamental characteristic of microbial metabolism. Estimation of CUE in microbial hotspots with high dynamics of activity and changes of microbial physiological state from dormancy to activity is a challenge in soil microbiology. We analyzed respiratory activity, microbial DNA content and CUE by manipulation the C and nutrients availability in the soil under Beta vulgaris. All measurements were done in root-free and rhizosphere soil under steady-state conditions and during microbial growth induced by addition of glucose. Microorganisms in the rhizosphere and root-free soil differed in their CUE dynamics due to varying time delays between respiration burst and DNA increase. Constant CUE in an exponentially-growing microbial community in rhizosphere demonstrated the balanced growth. In contrast, the CUE in the root-free soil increased more than three times at the end of exponential growth and was 1.5 times higher than in the rhizosphere. Plants alter the dynamics of microbial CUE by balancing the catabolic and anabolic processes, which were decoupled in the root-free soil. The effects of N and C availability on CUE in rhizosphere and root-free soil are discussed.     

Monitoring Brain Tumor Vascular Heamodynamic following Anti-Angiogenic Therapy with Advanced Magnetic Resonance Imaging in Mice

Advanced MR imaging methods have an essential role in classification, grading, follow-up and therapeutic management in patients with brain tumors. With the introduction of new therapeutic options, the challenge for better tissue characterization and diagnosis increase, calling for new reliable non-invasive imaging methods. In the current study we evaluated the added value of a combined protocol of blood oxygen level dependent (BOLD) imaging during hyperoxic challenge (termed hemodynamic response imaging (HRI)) in an orthotopic mouse model for glioblastoma under anti-angiogenic treatment with B20-4.1.1, an anti-VEGF antibody. In glioblastoma tumors, the elevated HRI indicated progressive angiogenesis as further confirmed by histology. In the current glioblastoma model, B20-treatment caused delayed tumor progression with no significant changes in HRI yet with slightly reduced tumor vascularity as indicated by histology. Furthermore, fewer apoptotic cells and higher proliferation index were detected in the B20-treated tumors compared to control-treated tumors. In conclusion, HRI provides an easy, safe and contrast agent free method for the assessment of the brain hemodynamic function, an additionally important clinical information.     

Exploration of Alternate Catalytic Mechanisms and Optimization Strategies for Retroaldolase Design

Designed retroaldolases have utilized a nucleophilic lysine to promote carbon–carbon bond cleavage of β-hydroxy-ketones via a covalent Schiff base intermediate. Previous computational designs have incorporated a water molecule to facilitate formation and breakdown of the carbinolamine intermediate to give the Schiff base and to function as a general acid/base. Here we investigate an alternative active-site design in which the catalytic water molecule was replaced by the side chain of a glutamic acid. Five out of seven designs expressed solubly and exhibited catalytic efficiencies similar to previously designed retroaldolases for the conversion of 4-hydroxy-4-(6-methoxy-2-naphthyl)-2-butanone to 6-methoxy-2-naphthaldehyde and acetone. After one round of site-directed saturation mutagenesis, improved variants of the two best designs, RA114 and RA117, exhibited among the highest k_cat (> 10^− 3 s^− 1) and k_cat/K_M (11–25 M^− 1 s^− 1) values observed for retroaldolase designs prior to comprehensive directed evolution. In both cases, the > 10⁵-fold rate accelerations that were achieved are within 1–3 orders of magnitude of the rate enhancements reported for the best catalysts for related reactions, including catalytic antibodies (k_cat/k_uncat = 10⁶ to 10⁸) and an extensively evolved computational design (k_cat/k_uncat > 10⁷). The catalytic sites, revealed by X-ray structures of optimized versions of the two active designs, are in close agreement with the design models except for the catalytic lysine in RA114. We further improved the variants by computational remodeling of the loops and yeast display selection for reactivity of the catalytic lysine with a diketone probe, obtaining an additional order of magnitude enhancement in activity with both approaches.     

Nitrogen fertilization raises CO2 efflux from inorganic carbon: A global assessment

Nitrogen (N) fertilization is an indispensable agricultural practice worldwide, serving the survival of half of the global population. Nitrogen transformation (e.g., nitrification) in soil as well as plant N uptake releases protons and increases soil acidification. Neutralizing this acidity in carbonate‐containing soils (7.49 × 10⁹ ha; ca. 54% of the global land surface area) leads to a CO₂ release corresponding to 0.21 kg C per kg of applied N. We here for the first time raise this problem of acidification of carbonate‐containing soils and assess the global CO₂ release from pedogenic and geogenic carbonates in the upper 1 m soil depth. Based on a global N‐fertilization map and the distribution of soils containing CaCO₃, we calculated the CO₂ amount released annually from the acidification of such soils to be 7.48 × 10¹² g C/year. This level of continuous CO₂ release will remain constant at least until soils are fertilized by N. Moreover, we estimated that about 273 × 10¹² g CO₂‐C are released annually in the same process of CaCO₃ neutralization but involving liming of acid soils. These two CO₂ sources correspond to 3% of global CO₂ emissions by fossil fuel combustion or 30% of CO₂ by land‐use changes. Importantly, the duration of CO₂ release after land‐use changes usually lasts only 1–3 decades before a new C equilibrium is reached in soil. In contrast, the CO₂ released by CaCO₃ acidification cannot reach equilibrium, as long as N fertilizer is applied until it becomes completely neutralized. As the CaCO₃ amounts in soils, if present, are nearly unlimited, their complete dissolution and CO₂ release will take centuries or even millennia. This emphasizes the necessity of preventing soil acidification in N‐fertilized soils as an effective strategy to inhibit millennia of CO₂ efflux to the atmosphere. Hence, N fertilization should be strictly calculated based on plant‐demand, and overfertilization should be avoided not only because N is a source of local and regional eutrophication, but also because of the continuous CO₂ release by global acidification.     

Carbon input by roots into the soil: Quantification of rhizodeposition from root to ecosystem scale

Despite its fundamental role for carbon (C) and nutrient cycling, rhizodeposition remains ‘the hidden half of the hidden half’: it is highly dynamic and rhizodeposits are rapidly incorporated into microorganisms, soil organic matter, and decomposed to CO₂. Therefore, rhizodeposition is rarely quantified and remains the most uncertain part of the soil C cycle and of C fluxes in terrestrial ecosystems. This review synthesizes and generalizes the literature on C inputs by rhizodeposition under crops and grasslands (281 data sets). The allocation dynamics of assimilated C (after ¹³C‐CO₂ or ¹⁴C‐CO₂ labeling of plants) were quantified within shoots, shoot respiration, roots, net rhizodeposition (i.e., C remaining in soil for longer periods), root‐derived CO₂, and microorganisms. Partitioning of C pools and fluxes were used to extrapolate belowground C inputs via rhizodeposition to ecosystem level. Allocation from shoots to roots reaches a maximum within the first day after C assimilation. Annual crops retained more C (45% of assimilated ¹³C or ¹⁴C) in shoots than grasses (34%), mainly perennials, and allocated 1.5 times less C belowground. For crops, belowground C allocation was maximal during the first 1–2 months of growth and decreased very fast thereafter. For grasses, it peaked after 2–4 months and remained very high within the second year causing much longer allocation periods. Despite higher belowground C allocation by grasses (33%) than crops (21%), its distribution between various belowground pools remains very similar. Hence, the total C allocated belowground depends on the plant species, but its further fate is species independent. This review demonstrates that C partitioning can be used in various approaches, e.g., root sampling, CO₂ flux measurements, to assess rhizodeposits’ pools and fluxes at pot, plot, field and ecosystem scale and so, to close the most uncertain gap of the terrestrial C cycle.