Phosphorylation modification affects the gelation behavior of alkali-induced duck egg white gels

In this study, sodium tripolyphosphate (STP) and tetrasodium pyrophosphate (TSPP) were utilized to modify duck egg white protein (EWP). The phosphorylated EWP was prepared as egg white gel (EWG) by adding sodium hydroxide. The phosphorus content of EWP reached 2.18 mg/g and 2.07 mg/g with the addition of STP and TSPP, respectively, after 2 h phosphorylation. The average particle size, absolute zeta potential value, and surface hydrophobicity of EWP increased significantly during phosphorylation. FTIR results indicate that phosphorylation reduced the random structure and α-helical content while increasing the content of β-sheets and β-turn. The mechanical and rheological properties of EWG decreased obviously after phosphorylation. A three-dimensional porous network microstructure was formed, and the gel with added TSPP had larger pores. Adding STP and TSPP to EWG weakened its salt and solvent sensitivity. The findings provide a direction for the exploration of gel properties after protein modification.

Farnesal-loaded pH-sensitive polymeric micelles provided effective prevention and treatment on dental caries

BACKGROUND

Farnesol is a sesquiterpene from propolis and citrus fruit that shows promising anti-bacterial activity for caries treatment and prevention, but its hydrophobicity limits the clinical application. We aimed to develop the novel polymeric micelles (PMs) containing a kind of derivative of farnesol and a ligand of pyrophosphate (PPi) that mediated PMs to adhere tightly with the tooth enamel.

RESULTS

Farnesal (Far) was derived from farnesol and successfully linked to PEG via an acid-labile hydrazone bond to form PEG-hyd-Far, which was then conjugated to PPi and loaded into PMs to form the aimed novel drug delivery system, PPi-Far-PMs. The in vitro test about the binding of PPi-Far-PMs to hydroxyapatite showed that PPi-Far-PMs could bind rapidly to hydroxyapatite and quickly release Far under the acidic conditions. Results from the mechanical testing and the micro-computed tomography indicated that PPi-Far-PMs could restore the microarchitecture of teeth with caries. Moreover, PPi-Far-PMs diminished the incidence and severity of smooth and sulcal surface caries in rats that were infected with Streptococcus mutans while being fed with a high-sucrose diet. The anti-caries efficacy of free Far can be improved significantly by PPi-Far-PMs through the effective binding of it with tooth enamel via PPi.

CONCLUSIONS

This novel drug-delivery system may be useful for the treatment and prevention of dental caries as well as the targeting therapy of anti-bacterial drugs in the oral disease.

Single crystal structure, vibrational spectroscopy, gas sorption and antimicrobial properties of a new inorganic acidic diphosphates material (NH4)2Mg(H2P2O7)2•2H2O

We report on the successful synthesis of diammonium magnesium dihydrogendiphosphate (V) dihydrate compound (NH4)2Mg(H2P2O7)2•2H2O using a wet chemical route. Single crystal X-ray diffraction analysis and micro Raman spectroscopy are employed to characterize the compound. We demonstrate, using a multidisciplinary approach, that this compound is ideal for carbon dioxide (CO2) capture in addition to other anthropogenic gasses. We show here -from both an experimental as well as from a density functional theory (DFT) calculations routes- the potential for adopting this compound into domestic air-conditioning units (ACUs). From these experiments, the resistance to bacterial growth is also investigated, which is critical for the adoption of this compound in ACUs. Our  compound exhibits a higher methane (CH4) sorptivity as compared to CO2 at 25 °C and 45 °C under pressures up to 50 bars. Furthermore, DFT electronic structure calculations are used to compute the main structural and electronic properties of the compound, taking into consideration the characteristics of the identified pores as a function of the progressive CO2 vs. CH4 loadings. Finally, the antibacterial assay reveals a strong antibacterial activity against the tested Gram-positive and Gram-negative bacteria, with a large zone of inhibition against the tested E. Coli, S. Aureus and K. Pneumonia.

Phytostabilization of Pb-Zn Mine Tailings with Amorpha fruticosa Aided by Organic Amendments and Triple Superphosphate

A greenhouse pot trial was conducted to investigate the effect of organic amendments combined with triple superphosphate on the bioavailability of heavy metals (HMs), Amorpha fruticosa growth and metal uptake from Pb-Zn mine tailings. Cattle manure compost (CMC), spent mushroom compost (SMC) and agricultural field soil (AFS) were applied to tailings at 5%, 10%, 20% and 30% w/w ratio, whereas sewage sludge (SS) and wood biochar (WB) were mixed at 2.5%, 5%, 10% and 20% w/w ratio. Triple superphosphate (TSP) was added to all the treatments at 4:1 (molar ratio). Amendments efficiently decreased DTPA-extracted Pb, Zn, Cd and Cu in treatments. Chlorophyll contents and shoot and root dry biomass significantly (p < 0.05) increased in the treatments of CMC (except T4 for chlorophyll b) and SMC, whereas treatments of SS (except T1 for chlorophyll a and b), WB and AFS (except T4 for chlorophyll a and b) did not show positive effects as compared to CK1. Bioconcentration factor (BCF) and translocation factor (TF) values in plant tissues were below 1 for most treatments. In amended treatments, soluble protein content increased, phenylalanine ammonialyase (PAL) and polyphenol oxidase (PPO) decreased, and catalase (CAT) activity showed varied results as compared to CK1 and CK2. Results suggested that A. fruticosa can be a potential metal phytostabilizer and use of CMC or SMC in combination with TSP are more effective than other combinations for the in situ stabilization of Pb-Zn mine tailings.

The role of organic amendment in soils affected by residual pollution of potentially harmful elements

The addition of organic amendment in soils affected by residual pollution of potentially harmful elements (PHEs) is evaluated. The area was polluted twenty years ago and remediation actions were intensively applied, but evidence of pollution are still detected in some sectors. The amendment application produces significant changes in the main soil properties and modifies the mobility and availability of the pollutants. In general, Cu, Zn, Cd and Pb, showed a significant reduction in soluble and exchangeable forms after the vermicompost addition (percentage of reduction ranging from 59% for soluble Pb to 95% for exchangeable Zn), both in highly (UVS) as in moderately (VS1) polluted soils. This reduction is strongly related to the rise in OC content and pH. Arsenic presented no significant reduction or even an increase in soluble forms in moderately polluted soils (VS1), where the competing effects of OC and phosphorous could be responsible for this increase. Pb also showed an increase in availability after vermicompost application, probably related to the competing effect of Mg²⁺ coming from the organic amendment. The less mobile forms (those extracted with oxalic-oxalate, pyrophosphate and EDTA), indicate that vermicompost application reduce medium-long term mobility to similar values of those found in less polluted soils (VS2); anyway, an increase in available forms of Pb and As was detected in some cases, indicating a potential risk of toxicity that should be monitored over time.

Addition of zeolite and superphosphate to windrow composting of chicken manure improves fertilizer efficiency and reduces greenhouse gas emission

This study investigated the impact of adding zeolite (F), superphosphate (G), and ferrous sulfate (L) in various combinations on reducing greenhouse gas (GHG) emission and improving nitrogen conservation during factory-scale chicken manure composting, aimed to identify the combination that optimizes the performance of the process. Chicken manure was mixed with F, G, FL, or FGL and subjected to windrow composting for 46 days. Results showed that global warming potential (GWP) was reduced by 21.9% (F), 22.8% (FL), 36.1% (G), and 39.3% (FGL). Further, the nitrogen content in the final composting product increased by 27.25%, 9.45%, and 21.86% in G, FL, and FGL amendments, respectively. The fertilizer efficiency of the compost product was assessed by measuring the biomass of plants grown in it, and it was consistent with the nitrogen content. N₂O emission was negligible during composting, and 98% of the released GHGs comprised CO₂ and CH₄. Reduction in GHG emission was mainly achieved by reducing CH₄ emission. The addition of FL, G, and FGL caused a clear shift in the abundance of dominant methanogens; particularly, the abundance of Methanobrevibacter decreased and that of Methanobacterium and Methanocella increased, which was correlated with CH₄ emissions. Meanwhile, the changes in moisture content, NH₄⁺-N content, and pH level also played an important role in the reduction of GHG emission. Based on the effects of nitrogen conservation, fertilizer efficiency improvement, and GHG emission reduction, we conclude that G and FGL are more beneficial than F or FL and suggest these additives for efficient chicken manure composting.

Degradation mechanism of lignocellulose in dairy cattle manure with the addition of calcium oxide and superphosphate

Cellulose and lignin belongs to refractory organic matters in the traditional composting. In this research, the degradation of lignocellulose in dairy cattle manure was investigated through adding calcium oxide (CaO) and superphosphate (SSP). In the presence of CaO and SSP, the degradation rate of cellulose and lignin were improved by 25.0% and 8.33%, respectively. The results indicated that the pH value in system would be slightly higher with the addition of CaO and SSP. Besides, the pH value of all cow manure piles were about 8.4 after composting rotten, which could be well neutralized by the gradually acidified soil in the southwest of China with the full effect of fertilizer released. In addition, the abundance of Bacillales, Actinomycetes, and Thermoactinomycetaceae in the experimental groups (AR) was slightly better than that in the control groups (CK) during composting, which led to a conclusion that an elaborate physical-chemical-multivariate aerobic microorganism evolution model of cellulose degradation products (PCMC) was deduced and the physical-chemical-multivariate aerobic microorganism model of lignin cycle degradation (PCML) was developed.

Crystal Structures of Pyrophosphatase from Acinetobacter baumannii: Snapshots of Pyrophosphate Binding and Identification of a Phosphorylated Enzyme Intermediate

All living things have pyrophosphatases that hydrolyze pyrophosphate and release energy. This energetically favorable reaction drives many energetically unfavorable reactions. An accepted catalytic model of pyrophosphatase shows that a water molecule activated by two divalent cations (M1 and M2) within the catalytic center can attack pyrophosphate in an S_N2 mechanism and thus hydrolyze the molecule. However, our co-crystal structure of Acinetobacter baumannii pyrophosphatase with pyrophosphate shows that a water molecule from the solvent may, in fact, be the actual catalytic water. In the co-crystal structure of the wild-type pyrophosphatase with pyrophosphate, the electron density of the catalytic centers of each monomer are different from one another. This indicates that pyrophosphates in the catalytic center are dynamic. Our mass spectroscopy results have identified a highly conserved lysine residue (Lys30) in the catalytic center that is phosphorylated, indicating that the enzyme could form a phosphoryl enzyme intermediate during hydrolysis. Mutation of Lys30 to Arg abolished the activity of the enzyme. In the structure of the apo wild type enzyme, we observed that a Na⁺ ion is coordinated by residues within a loop proximal to the catalytic center. Therefore, we mutated three key residues within the loop (K143R, P147G, and K149R) and determined Na⁺ and K⁺-induced inhibition on their activities. Compared to the wild type enzyme, P147G is most sensitive to these cations, whereas K143R was inactive and K149R showed no change in activity. These data indicate that monovalent cations could play a role in down-regulating pyrophosphatase activity in vivo. Overall, our results reveal new aspects of pyrophosphatase catalysis and could assist in the design of specific inhibitors of Acinetobacter baumannii growth.

Waste-wood-derived biochar cathode and its application in electro-Fenton for sulfathiazole treatment at alkaline pH with pyrophosphate electrolyte

For the first time, a biomass-derived porous carbon cathode (WDC) was fabricated via a facile one-step pyrolysis of recovered wood-waste without any post-treatment. The WDC along with pyrophosphate (PP) as electrolyte were used in electro-Fenton (EF) at pH 8 for sulfathiazole (STZ) treatment. The H₂O₂ accumulation capacity of WDC was optimized via the following parameters: pyrolysis temperature, applied current and electrolyte. Results showed that the WDC cathode prepared at 900 °C achieved the highest H₂O₂ accumulation (13.80 mg L^-1 in 3 h) due to its larger electroactive surface area (28.81 cm²). Interestingly, it was found that PP decreased the decomposition rate of H₂O₂ in solution as compared to conventional electrolyte, which resulted in higher H₂O₂ accumulation. PP allowed operating EF at pH of 8 due to the formation of Fe²⁺-PP complexes in solution. Moreover, Fe²⁺-PP was able to activate oxygen to produce OH. In this way, the degradation of STZ took place through four main pathways: 1) via OH from the Fe²⁺-PP complex, 2) via OH from EF reactions, 3) via surface OH at the boron doped diamond electrode (BDD) and 4) via SO₄- from BDD activation. Finally, microtox tests revealed that some toxic intermediates were generated during WDC/BDD/PP EF treatment, but they were removed at the end of the process.

Bordetella bronchiseptica Glycosyltransferase Core Mutants Trigger Changes in Lipid A Structure

Bordetella bronchiseptica, known to infect animals and rarely humans, expresses a lipopolysaccharide that plays an essential role in host interactions, being critical for early clearance of the bacteria. On a B. bronchiseptica 9.73 isolate, mutants defective in the expression of genes involved in the biosynthesis of the core region were previously constructed. Herein, a comparative detailed structural analysis of the expressed lipids A by MALDI-TOF mass spectrometry was performed. The Bb3394 LPS defective in a 2-amino-2-deoxy-D-galacturonic acid lateral residue of the core presented a penta-acylated diglucosamine backbone modified with two glucosamine phosphates, similar to the wild-type lipid A. In contrast, BbLP39, resulting in the interruption of the LPS core oligosaccharide synthesis, presented lipid A species consisting in a diglucosamine backbone N-substituted with C14:0(3-O-C12:0) in C-2 and C14:0(3-O-C14:0) in C-2', O-acylated with C14:0(3-O-C10:0(3-OH) in C-3' and with a pyrophosphate in C-1. Regarding Bb3398 also presenting a rough LPS, the lipid A is formed by a hexa-acylated diglucosamine backbone carrying one pyrophosphate group in C-1 and one phosphate in C-4', both substituted with ethanolamine groups. As far as we know, this is the first description of a phosphoethanolamine modification in B. bronchiseptica lipid A. Our results demonstrate that although gene deletions were not directed to the lipid A moiety, each mutant presented different modifications. MALDI-TOF mass spectrometry was an excellent tool to highlight the structural diversity of the lipid A structures biosynthesized during its transit through the periplasm to the final localization in the outer surface of the outer membrane. Graphical Abstract.

A cryptic activity in the Nudix hydrolase superfamily

The Nudix hydrolase superfamily is identified by a conserved cassette of 23 amino acids, and it is characterized by its pyrophosphorylytic activity on a wide variety of nucleoside diphosphate derivatives. Of the 13 members of the family in Escherichia coli, only one, Orf180, has not been identified with a substrate, although a host of nucleoside diphosphate compounds has been tested. Several reports have noted a strong similarity in the three-dimensional structure of the unrelated enzyme, isopentenyl diphosphate isomerase (IDI) to the Nudix structure, and the report that a Nudix enzyme was involved in the synthesis of geraniol, a product of the two substrates of IDI, prompted an investigation of whether the IDI substrates, isopentenyl diphosphate (IPP), and dimethylallyl diphosphate (DAPP) could be substrates of Orf180. This article demonstrates that Orf180 does have a very low activity on IPP, DAPP, and geranyl pyrophosphate (GPP). However, several of the other Nudix enzymes with established nucleoside diphosphate substrates hydrolyze these compounds at substantial rates. In fact, some Nudix hydrolases have higher activities on IPP, DAPP, and GPP than on their signature nucleoside diphosphate derivatives.

Evidence for non-electrostatic interactions between a pyrophosphate-functionalized uranyl peroxide nanocluster and iron (hydr)oxide minerals

The terminal oxygen atoms of the pyrophosphate groups in the uranyl peroxide nanocluster U24Pp12 ([(UO2)24(O2)24(P2O7)12]48-) are not fully satisfied by bond valence considerations and can become protonated. This functionality could allow for specific interactions with mineral surfaces, as opposed to the electrostatically-driven interactions observed between non-functionalized uranyl peroxide nanoclusters and mineral surfaces. The sorption of U24Pp12 to goethite and hematite was studied using batch sorption experiments as a function of U24Pp12 concentration, mineral concentration, and pH. A suite of spectroscopic techniques, scanning electron microscopy, and electrophoretic mobility measurements were used to examine the minerals before and after reaction with U24Pp12, leading to a proposed conceptual model for U24Pp12 interactions with goethite. The governing rate laws were determined and compared to those previously determined for a non-functionalized uranyl peroxide nanocluster. The rate of uranyl peroxide nanocluster sorption depends on the charge density and functionalized component of the uranyl peroxide cage. Electrophoretic mobility and attenuated total reflectance Fourier transform infrared spectroscopy analyses show that an inner-sphere complex forms between the U24Pp12 cluster and the goethite surface through the terminal pyrophosphate groups, leading to a proposed conceptual model in which U24Pp12 interacts with the triply-coordinated reactive sites on the (110) plane of goethite. These results demonstrate that the behavior of U24Pp12 at the iron (hydr)oxide-water interface is unique relative to interactions of the uranyl ion and non-functionalized uranyl peroxide nanoclusters.

The effect of fermented superphosphate pretreatment and step-feed mode on biological denitrification of piggery wastewater

Chemical pretreatment can reduce NH₃-N levels in piggery wastewater to a certain extent, but the lack of a carbon source for subsequent biological treatment leads to a low denitrification efficiency and poor total nitrogen (TN) removal percentage. Taking superphosphate (SP) pretreatment (SP/Pretreatment) as the control, this research studies the influence of fermented superphosphate (FSP; SP plus a carbon source) pretreatment (FSP/Pretreatment) on biological denitrification in a subsequent biological treatment step. Furthermore, the removal of pollutants under different influent modes is also evaluated. The experimental results show that with the addition of the SP pretreatment, the removal percentage of NH₃-N was 52%, and the chemical oxygen demand (COD)/TN ratio increased from 0.36 to 0.71. However, with the addition of the FSP pretreatment, the removal percentage of NH₃-N reached 64%, and the COD/TN ratio increased to 2.28. The combination of the FSP pretreatment and a subsequent sequencing batch reactor (SBR) step in the step-feed influent mode resulted in the best denitrification, with a TN removal percentage of 57%. This result was 51% higher than that of the SP/Pretreatment-SBR system, indicating that the addition of the FSP pretreatment improves the biological denitrification of piggery wastewater. After the full treatment process for piggery wastewater, the effluent COD was 57.33 mg·L^-1, the NH₃-N was 66.32 mg·L^-1, and the total phosphorus (TP) was 1.17 mg·L^-1, all of which meet the emission standards of the "Fouling Standards for Pollutants in the Livestock Breeding Industry" (GB 18596-2001) (400 mg·L^-1 COD, 80 mg·L^-1 NH₃-N, 8 mg·L^-1 TP).

Bioinspired Fabrication of DNA-Inorganic Hybrid Composites Using Synthetic DNA

Nucleic acid nanostructures have attracted significant interest as potential therapeutic and diagnostic platforms due to their intrinsic biocompatibility and biodegradability, structural and functional diversity, and compatibility with various chemistries for modification and stabilization. Among the fabrication approaches for such structures, the rolling circle techniques have emerged as particularly promising, producing morphologically round, flower-shaped nucleic acid particles: typically hybrid composites of long nucleic acid strands and inorganic magnesium pyrophosphate (Mg2PPi). These constructs are known to form via anisotropic nucleic acid-driven crystallization in a sequence-independent manner, rendering monodisperse and densely packed RNA or DNA-inorganic composites. However, it still remains to fully explore how flexible polymer-like RNA or DNA strands (acting as biomolecular additives) mediate the crystallization process of Mg2PPi and affect the structure and properties of the product crystals. To address this, we closely examined nanoscale details to mesoscopic features of Mg2PPi/DNA hybrid composites fabricated by two approaches, namely rolling circle amplification (RCA)-based in situ synthesis and long synthetic DNA-mediated crystallization. Similar to the DNA constructs fabricated by RCA, the rapid crystallization of Mg2PPi was retarded on a short-range order when we precipitated the crystals in the presence of presynthesized long DNA, which resulted in effective incorporation of biomolecular additives such as DNA and enzymes. These findings further provide a more feasible way to encapsulate bioactive enzymes within DNA constructs compared to in situ RCA-mediated synthesis, i.e., by not only protecting them from possible denaturation under the reaction conditions but also preventing nonselective association of proteins arising from the RCA reaction mixtures.

Phosphorus source driving the soil microbial interactions and improving sugarcane development

The world demand for phosphate has gradually increased over the last decades, currently achieving alarming levels considering available rock reserves. The use of soil microorganisms, such as arbuscular mycorrhizal fungi (AMF), has been suggested as a promising alternative to improve phosphorus-use efficiency. However, the effect of the source of phosphorus on the interactions within the soil microbial community remains unclear. Here, we evaluated the links between the total dry matter content of sugarcane and the interactions within the soil microbial community under different phosphate sources, with/without AMF inoculation. The phosphate sources were Simple Superphosphate (SS, 18% of P2O5), Catalão rock phosphate (CA, 2.93% of P2O5) and Bayovar rock phosphate (BA, 14% of P2O5). The results indicated that the BA source led to the largest total dry matter content. The phosphate source affected total dry matter and the structure of the soil microbial communities. The bacterial interactions increased across sources with high percentage of P2O5, while the fungal interactions decreased. The interactions between bacterial and fungal microorganisms allowed to identify the percentage of P2O5 resulting in the highest total sugarcane dry matter. Our findings suggested the soil microbial interactions as a potential microbial indicator helping to improve the agricultural management.

Dry potato extracts improve water holding capacity, shelf life, and sensory characteristics of fresh and precooked beef patties

The objective was to examine shelf stability, cooked product yield, and sensory characteristics of beef patties that had no binder (Control), incorporated soy flour (Textured Vegetable Protein; TVP) or one of three dry potato extracts: X-TRATOS™ (potato extract), X-TRATOS™ O (potato extract with mustard), or X-TRATOS™ W (potato extract with sodium acid pyrophosphate). In retail display patties, all binders decreased discoloration and lipid oxidation compared to Control, and X-TRATOS™ O was superior (P < 0.05) to all other treatments. Cooking yield was higher (P < 0.05) in patties containing potato extracts compared with patties containing TVP, which had higher yield than Control patties. Beef patties with potato extracts were juicier (P < 0.05) than Control and TVP patties and had higher (P < 0.05) overall acceptability than Control patties. We conclude that potato extracts are effective binders for use in fresh or precooked beef patties because they improve retail shelf life, cooked product yield, and sensory characteristics.

Visualized Quantitation of Trace Nucleic Acids Based on the Coffee-Ring Effect on Colloid-Crystal Substrates

We report a visualized quantitative detection method for nucleic acid amplification tests based on the coffee-ring effect on colloid-crystal substrates. The solution for loop-mediated isothermal amplification (LAMP) of DNA is drop cast on a colloid-crystal surface. After complete drying, a coffee ring containing the LAMP byproduct (i.e., magnesium pyrophosphate) is formed, and it is found that the width of the coffee ring is linearly correlated to the logarithm of the original DNA concentration before the isothermal amplification. Importantly, compared with other substrates, we found that the colloid-crystal substrate is an appropriate substrate for carrying out the assay of high sensitivity. On the basis of these findings, we develop a coffee-ring-based assay for quantitative readout of trace DNA in a sample. The assay requires 0.50 μL of the sample and is completed in 5 min in a homemade chamber with constant humidity. Semiquantitative detection of trace DNA is performed using naked eyes. With the use of a smartphone, the DNA in a sample can be quantitatively detected with a limit of detection of 20 copies.

Effect of different components of single superphosphate on organic matter degradation and maturity during pig manure composting

Single superphosphate (SSP) as an additive could improve phosphorus availability and reduce nitrogen loss for composts, but few studies have explored the influence of SSP on the transformation of carbon fractions in composting. The aim of this work was to assess the effect of different components of SSP, including calcium dihydrogen phosphate (CDP), calcium sulfate (CS) and free acid (FA) on organic matter degradation and maturity during pig manure composting. The results showed that CDP had significantly negative effects on the duration of thermophilic phase and organic matter degradation, but lengthened the curing phase for the transformation of organic matter. FA could intensify the inhibiting effect of CDP and postpone the biodegradation process of composting, but CS could buffer the effect of CDP on the degradation of organic carbon fractions by controlling pH. The study reveals the roles of different components of SSP to the transformation of organic carbon fractions, which lays a foundation for regulating the effects of chemical additives during composting. Regulating the content of CDP in SSP or applying SSP with other chemical additives to control the biotoxicity of excess phosphate on microbial activity should be concerned for complete and efficient composting in further study.

DNA flower-encapsulated horseradish peroxidase with enhanced biocatalytic activity synthesized by an isothermal one-pot method based on rolling circle amplification

DNA nanotechnology has been developed to construct a variety of functional two- and three-dimensional structures for versatile applications. Rolling circle amplification (RCA) has become prominent in the assembly of DNA-inorganic composites with hierarchical structures and attractive properties. Here, we demonstrate a one-pot method to directly encapsulate horseradish peroxidase (HRP) in DNA flowers (DFs) during RCA. The growing DNA strands and Mg₂PPi crystals lead to the construction of porous DFs, which provide sufficient interaction sites for spontaneously incorporating HRP molecules into DFs with high loading capacity and good stability. Furthermore, in comparison with free HRP, the DNA flower-encapsulated HRP (termed HRP-DFs) demonstrate enhanced enzymatic activity, which can efficiently biocatalyze the H₂O₂-mediated etching of gold nanorods (AuNRs) to generate distinct color changes since the longitudinal localized surface plasmon resonance (LSPR) frequency of AuNRs is highly sensitive to the changes in the AuNR aspect ratio. Through rationally incorporating the complementary thrombin aptamer sequence into the circular template, the synthesized HRP-DF composites are readily used as amplified labels for visual and colorimetric detection of thrombin with ultrahigh sensitivity and excellent selectivity. Therefore, our proposed strategy for direct encapsulation of enzyme molecules into DNA structures shows considerable potential applications in biosensing, biocatalysis, and point-of-care diagnostics.

Multifunctional and Programmable Modulated Interface Reactions on Proteinosomes

A multiresponsive microcapsule has been synthesized by incorporating photoswitchable spiropyran units and the thermoresponsive monomer N-isopropylacrylamide into membrane lumens. By using functionalized light or thermoresponsive groups, this multifunctional microcapsule can modulate programmed release and interface reactions between lipase and fluorescein diacetate, alkaline phosphatase and fluorescein diphosphate, and others. Exposing this multifunctional microcapsule in a programmed controlled way allowed us to develop schematics to understand complicated interface interactions on protocells.

Arginine in the FARM and SARM: A Role in Chain-Length Determination for Arginine in the Aspartate-Rich Motifs of Isoprenyl Diphosphate Synthases from Mycobacterium tuberculosis

Isoprenyl chains are found in many important metabolites. These are derived from precursors of the appropriate length produced by isoprenyl diphosphate synthases (IDSs). The human pathogen Mycobacterium tuberculosis makes various isoprenoids/terpenoids, with important roles in their biosynthesis played by two closely related IDSs, encoded by grcC1 (Rv0562) and grcC2 (Rv0989c), with Rv0989c generating the 10-carbon precursor (E)-geranyl diphosphate (GPP), and Rv0562 the 20-carbon precursor (E,E,E)-geranylgeranyl diphosphate (GGPP). Intriguingly, while Rv0562 contains the prototypical trans-IDS first and second aspartate-rich (DDxxD) motifs (FARM and SARM, respectively), Rv0989c uniquely contains arginine in place of the second Asp in the FARM and first Asp in the SARM. Here site-directed mutagenesis of the corresponding residues in both Rv0562 and Rv0989c reveals that these play a role in determination of product chain length. Specifically, substitution of Asp for the Arg in the FARM and SARM of Rv0989c leads to increased production of the longer 15-carbon farnesyl diphosphate (FPP), while substitution of Arg for the corresponding Asp in Rv0562 leads to increased release of shorter products, both FPP and GPP. Accordingly, while the primary role of the FARM and SARM is known to be chelation of the divalent magnesium ion co-factors that assist substrate binding and catalysis, the Arg substitutions found in Rv0989c seem to provide a novel means by which product chain length is moderated, at least in these M. tuberculosis IDSs.

Effect of amendments on contaminated soil of multiple heavy metals and accumulation of heavy metals in plants

The contamination of soil with heavy metals is a severe problem due to adverse impact of heavy metals on environmental safety and human health. It is essential to remediate soil contaminated with heavy metals. This study has evaluated the effects of pine biochar, kaolin, and triple super phosphate (TSP) on multiple heavy metals (Ni, Zn, Cu, and Cd) in contaminated soil and accumulation of heavy metals in plants. The amendments can reduce availability of heavy metals in soil by increasing pH, adsorption, complexation, or co-precipitation. Different amendments have variable effects on accumulation of heavy metals in plants and in soil due to its diverse mechanism of stability. The results showed that application of triple super phosphate (TSP) has significant reduced soil Cd exchangeable (EXC) fraction from 58.59 to 21.30%. Bound to carbonates (CAR) fraction decreased from 9.84 to 5.11%, and bound to Fe-Mn oxides (OX) fraction increased from 29.61 to 69.86%. The triple super phosphate (TSP) has the ability to stabilize Cu and especially Cd. However, triple super phosphate (TSP) has enhanced ecological risk of Zn and Ni. Application of pine biochar has significantly enhanced soil pH. The kaolin has significantly reduced EXC fraction of Cd and increased OX fraction of Cu. The amendments and heavy metals have not caused significant effect on SPAD value of Buxus microphylla Siebold & Zucc (B. microphylla). The triple super phosphate (TSP) has significant decreased biomass of B. microphylla and bamboo-williow (Salix sp.) by 24.91 and 57.43%, respectively. Pine biochar and kaolin have increased the accumulation of Zn and Cd in plants. It is concluded that triple super phosphate (TSP) was effective in remediation of Cd and kaolin was effective in remediation of Cd and Cu. Pine biochar was effective in remediation of Cd, Cu, and Zn.

Using Magnetic Ions to Probe and Induce Magnetism of Pyrophosphates, Bacteria, and Mammalian Cells

Magnetic isolation using magnetic nanoparticles (MNPs) as trapping probes have been widely used in sample pretreatment to shorten analysis time. Nevertheless, to generate MNPs is time-consuming. Furthermore, the generated MNPs have to be further functionalized to gain the capability of recognizing their target species. Thus, an alternative approach that can impose magnetism to nonmagnetic species by simply using magnetic ions as the probes is developed in this study. That is, we employ magnetic ions (Fe³⁺, Co²⁺, and Ni²⁺) that can interact with nonmagnetic species containing oxygen-containing functional groups as the probes. Pyrophosphate (PPi), bacteria, and mammalian cells were selected as the model samples. Our results show that the as-prepared magnetic ion-PPi conjugates gain sufficient magnetism and can be readily aggregated by applying an external magnetic field. Moreover, the magnetic trapping is reversible. The PPi-containing conjugates can lose their magnetic property simply using ethylenediaminetetraacetic acid or aluminum ions as competing agents to remove or to replace, respectively, the conjugated magnetic ions. In addition, bacteria and mammalian cells that possess abundant oxygen-containing functional groups on their cell surfaces can be selectively probed by magnetic ions and gain sufficient magnetism for magnetic isolation from complex serum samples.

Design and Synthesis of Pyrophosphate-Targeting Vancomycin Derivatives for Combating Vancomycin-Resistant Enterococci

As the last resort for intractable Gram-positive bacterial infections, vancomycin is losing efficacy with the emergence of vancomycin-resistant bacteria, especially vancomycin-resistant Enterococci (VRE). To combat this threat, we rationally designed and synthesized 39 novel vancomycin derivatives by respective or combined modifications using metal-chelating, lipophilic, and galactose-attachment strategies for extensive structure-activity relationship (SAR) analysis. In a proposed mechanism, the conjugation of dipicolylamine on the seventh amino acid resorcinol position or C-terminus endowed the vancomycin backbone with binding capacity for the pyrophosphate moiety in lipid II while maintaining the intrinsic binding affinity for the dipeptide terminus of the bacterial cell wall peptidoglycan precursor. The in vitro antibacterial activities were evaluated, and the optimal compounds indicated 16- to 1024-fold higher activity against VRE than that of vancomycin. Compound 11 b (3',5'-bis(dipicolylaminomethyl)tyrosine [1,2,3]triazolylmethoxylethyoxyl ethylaminomethyl-N-decylvancomycin) was found to have particularly potent activity against VRE through synergistic effects brought about by combining two peripheral modifications.

Betulin-3,28-diphosphate. Physico-Chemical Properties and In Vitro Biological Activity Experiments

Betulin-3,28-diphosphate (BDP) obtained by phosphorylation of betulin using POCl₃ has two main structural forms-BDP-1 and BDP-2-which differ in ethanol solubility, melting point, FTIR spectra, thermoanalytical characteristics and biological activity. Betulin-3,28-diphosphate and its sodium salt (Na-BDP) were characterized using 13C and 31P-NMR spectra, powder XRD experiments, as well as differential scanning calorimetry (DSC) and thermogravimetric analysis (TG) methods. The exo-effects at 193 ± 8 °C for ethanol soluble BDP-1 samples (-19.7 ± 0.2 kJ∙mol-1) were about three times less than for ethanol insoluble BDP-2 samples f (-70.5 ± 0.7 kJ∙mol-1). The DSC curves of Na-BDP-1 and Na-BDP-2 characterized the endo-effects having a maximum at 95⁻112 °C. Water-soluble Na-BDP-1 was obtained as needle-like crystals, unlike poorly crystalline Na-BDP-2, whereas BDP-1 and BDP-2 aged with time and were isolated as amorphous substances. In vitro experiments on rats showed that compared to the control, Na-BDP-1 increased catalase and SOD activity and improved energy metabolism more effectively than Na-BDP-2.