Stability indicating ion-pair reversed-phase liquid chromatography method for modified mRNA

Modified messenger RNA (mRNA) represents a rapidly emerging class of therapeutic drug product. Development of robust stability indicating methods for control of product quality are therefore critical to support successful pharmaceutical development. This paper presents an ion-pair reversed-phase liquid chromatography (IP-RPLC) method to characterise modified mRNA exposed to a wide set of stress-inducing conditions, relevant for pharmaceutical development of an mRNA drug product. The optimised method could be used for separation and analysis of large RNA, sized up to 1000 nucleotides. Column temperature, mobile phase flow rate and ion-pair selection were each studied and optimised. Baseline separations of the model RNA ladder sample were achieved using all examined ion-pairing agents. We established that the optimised method, using 100 mM Triethylamine, enabled the highest resolution separation for the largest fragments in the RNA ladder (750/1000 nucleotides), in addition to the highest overall resolution for the selected modified mRNA compound (eGFP mRNA, 996 nucleotides). The stability indicating power of the method was demonstrated by analysing the modified eGFP mRNA, upon direct exposure to heat, hydrolytic conditions and treatment with ribonucleases. Our results showed that the formed degradation products, which appeared as shorter RNA fragments in front of the main peak, could be well monitored, using the optimised method, and the relative stability of the mRNA under the various stressed conditions could be assessed.

Optimizing twin-screw melt granulation: The role of overflight clearance on granulation behavior

Twin-screw melt granulation (TSMG) relies on the dispersive and distributive mixing at the kneading zone for granule growth to happen highlighting the critical role played by the kneading elements in TSMG. Despite extensive research conducted on the impact of screw geometry in melt compounding, there is not enough literature for TSMG. Disc width for the kneading elements was 2 mm, contrary to the standard 5 mm. The objective of this study was to evaluate if varying overflight clearance (OC) can alter the paradigm for TSMG. The new elements reduce the peak shear at kneading zone however a higher barrel temperature and degree of fill (DoF) is required to compensate to attain similar granule attributes. The change in DoF was achieved through a combination of modified screw configuration to pre-densify powders before kneading and processing at a lower screw speed. Despite the higher barrel temperature, process optimization of thermally unstable gabapentin was carried out. Using the new elements, compressible granules (Tensile strength > 2 MPa) with low % GABA-L content were manufactured despite increasing OC to 0.4 mm. Granule stability at 40 °C, ambient humidity for 6 months indicated gabapentin was stable (% GABA-L ≪0.4 %) despite a high barrel temperature of 120 °C.

A review of liquid crystal monomers: Environmental occurrence, degradation, toxicity, and human exposure of an emerging class of E-waste pollutants

Liquid crystal monomers (LCMs) are a class of organic compounds with diphenyl or dicyclohexane as the skeleton structure, which are widely used in the manufacturing of liquid crystal displays. They are recognized as novel organic compounds with persistence, bioaccumulation, toxicity, and potential for long-range transport. LCMs are inevitably released into the environment throughout the life cycle of electronic products, and their presence has been found in various abiotic matrixes (air, dust, sediment, leachate, soil) and biotic matrixes (aquatic organisms, human serum, and human skin wipe). Given that studies on LCMs are still in their infancy, this review comprehensively summarizes the extensive literature data on LCMs and identifies key knowledge gaps and future research needs. The physicochemical properties, production, and usage of LCMs are described. Their environmental distribution, degradation, toxicity, and human exposure are also discussed based on the available data and results. Existing data show that LCMs have large-scale environmental pollution and may pose potential ecological and health risks, but it is still insufficient to accurately assess their risks due to the lack of knowledge on LCMs in many areas, such as global contamination trend, environmental behavior, toxic effects, and human exposure assessment. We believe that future studies of LCMs need to investigate LCMs pollution on a large geographic scale, explore their sources, behavior, and fate in the environment, and assess their potential health hazards to organisms and humans.

Recent advances in luminescence and aptamer sensors based analytical determination, adsorptive removal, degradation of the tetracycline antibiotics, an overview and outlook

Tetracycline antibiotics (TCs), one of the important antibiotic groups, have been widely used in human and veterinary medicines. Their residues in foodstuff, soil and sewage have caused serious threats to food safety, ecological environment and human health. Here, we reviewed the potential harms of TCs residues to foodstuff, environment and human beings, discussed the luminescence and aptamer sensors based analytical determination, adsorptive removal, and degradation strategies of TCs residues from a recent 5-year period. The advantages and intrinsic limitations of these strategies have been compared and discussed, the potential challenges and opportunities in TCs residues degradation have also been deliberated and explored.

Underestimation of biomass burning contribution to PM2.5 due to its chemical degradation based on hourly measurements of organic tracers: A case study in the Yangtze River Delta (YRD) region, China

Biomass burning (BB) has significant impacts on air quality and climate change, especially during harvest seasons. In previous studies, levoglucosan was frequently used for the calculation of BB contribution to PM_2.5, however, the degradation of levoglucosan (Lev) could lead to large uncertainties. To quantify the influence of the degradation of Lev on the contribution of BB to PM_2.5, PM_2.5-bound biomass burning-derived markers were measured in Changzhou from November 2020 to March 2021 using the thermal desorption aerosol gas chromatography-mass spectrometry (TAG-GC/MS) system. Temporal variations of three anhydro-sugar BB tracers (e.g., levoglucosan, mannosan (Man), and galactosan (Gal)) were obtained. During the sampling period, the degradation level of air mass (x) was 0.13, indicating that ~87 % of levoglucosan had degraded before sampling in Changzhou. Without considering the degradation of levoglucosan in the atmosphere, the contribution of BB to OC were 7.8 %, 10.2 %, and 9.3 % in the clean period, BB period, and whole period, respectively, which were 2.4-2.6 times lower than those (20.8 %-25.9 %) considered levoglucosan degradation. This illustrated that the relative contribution of BB to OC could be underestimated (~14.9 %) without considering degradation of levoglucosan. Compared to the traditional method (i.e., only using K⁺ as BB tracer), organic tracers (Lev, Man, Gal) were put into the Positive Matrix Factorization (PMF) model in this study. With the addition of BB organic tracers and replaced K⁺ with K⁺_BB (the water-soluble potassium produced by biomass burning), the overall contribution of BB to PM_2.5 was enhanced by 3.2 % after accounting for levoglucosan degradation based on the PMF analysis. This study provides useful information to better understand the effect of biomass burning on the air quality in the Yangtze River Delta region.

Treatment of the insensitive munitions compound, 3-nitro-1,2,4-triazol-5-one (NTO), in flow-through columns packed with zero-valent iron

The need for effective technologies to remediate the insensitive munitions compound 3-nitro-1,2,4-triazol-5-one (NTO) is emerging due to the increasing use by the US Army and environmental concerns about the toxicity and aqueous mobility of NTO. Reductive treatment is essential for the complete degradation of NTO to environmentally safe products. The objective of this study is to investigate the feasibility of applying zero-valent iron (ZVI) in a continuous-flow packed bed reactor as an effective NTO remediation technology. The ZVI-packed columns treated an acidic influent (pH 3.0) or a circumneutral influent (pH 6.0) for 6 months (ca. 11,000 pore volumes, PVs). Both columns effectively reduced NTO to the amine product, 3-amino-1,2,4-triazol-5-one (ATO). The column treating the pH-3.0 influent exhibited prolonged longevity in reducing NTO, treating 11-fold more PVs than the column treating pH-6.0 influent until the breakthrough point (defined as when 85% of NTO was removed). The exhausted columns (defined as when only 10% of NTO was removed) regained the NTO reducing capacity by reactivation using 1 M HCl, fully removing NTO. After the experiment, solid-phase analysis of the packed-bed material showed that ZVI was oxidized to iron (oxyhydr)oxide minerals such as magnetite, lepidocrocite, and goethite during NTO treatment. This is the first report on the reduction of NTO and the concomitant oxidation of ZVI in continuous-flow column experiments. The evidence indicates that treatment in a ZVI-packed bed reactor is an effective approach for the removal of NTO.

Structure-Based Optimization of Antibody-Based Biotherapeutics for Improved Developability: A Practical Guide for Molecular Modelers

A great effort to avoid known developability risks is now more often being made earlier during the lead candidate discovery and optimization phase of biotherapeutic drug development. Predictive computational strategies, used in the early stages of antibody discovery and development, to mitigate the risk of late-stage failure of antibody candidates, are highly valuable. Various structure-based methods exist for accurately predicting properties critical to developability, and, in this chapter, we discuss the history of their development and demonstrate how they can be used to filter large sets of candidates arising from target affinity screening and to optimize lead candidates for developability. Methods for modeling antibody structures from sequence and detecting post-translational modifications and chemical degradation liabilities are also discussed.

Impacts of chemical degradation of levoglucosan on quantifying biomass burning contribution to carbonaceous aerosols: A case study in Northeast China

Biomass burning (BB) is an important source of carbonaceous aerosols in Northeast China (NEC). Quantifying the original contribution of BB to organic carbon (OC) [BB-OC] can provide an essential scientific information for the policy-makers to formulate the control measures to improve the air quality in the NEC region. Daily PM_2.5 samples were collected in the rural area of Changchun city over the NEC region from May 2017 to May 2018. In addition to carbon contents, BB tracers (e.g., levoglucosan and K⁺_BB, defined as potassium from BB) were also determined, in order to investigate the relative contribution of BB-OC. The results showed that OC was the dominant (28%) components of PM_2.5 during the sampling period. Higher concentrations of OC, levoglucosan, and K⁺_BB were observed in the autumn followed by the winter, spring, and summer, indicating that the higher BB activities during autumn and winter in Changchun. By using the Bayesian mixing model, it was found that burning of crop residues were the dominant source (65-79%) of the BB aerosols in Changchun. During the sampling period, the aging in air mass (AAM) ratio was 0.14, indicating that ~86% of levoglucosan in Changchun was degraded. Without considering the degradation of levoglucosan in the atmosphere, the BB-OC ratios were 23%, 28%, 7%, and 4% in the autumn, winter, spring, and summer, respectively, which were 1.4-4.8 time lower than those (14-42%) with consideration of levoglucosan degradation. This illustrated that the relative contribution of BB to OC would be underestimated (~59%) without considering degradation effects of levoglucosan. Although some uncertainty was existed in our estimation, our results did highlight that the control of straw burning was an efficient way to decrease the airborne PM_2.5, improving the air quality in the NEC plain.

Groundwater remediation using Magnesium-Aluminum alloys and in situ layered doubled hydroxides

In situ remediation of groundwater by zerovalent iron (ZVI)-based technology faces the problems of rapid passivation, fast agglomeration, limited range of pollutants and secondary contamination. Here a new concept of Magnesium-Aluminum (Mg-Al) alloys and in situ layered double hydroxides on is proposed for the degradation and removal of a wide variety of inorganic and organic pollutants from groundwater. The Mg-Al alloy provides the electrons for the chemical reduction and/or the degradation of pollutants while released Mg²⁺, Al³⁺ and OH^- ions react to generate in situ LDH precipitates, incorporating other divalent and trivalent metals and oxyanions pollutants and further adsorbing the micropollutants. The Mg-Al alloy outperforms ZVI for treating acidic, synthetic groundwater samples contaminated by complex chemical mixtures of heavy metals (Cd²⁺, Cr⁶⁺, Cu²⁺, Ni²⁺ and Zn²⁺), nitrate, AsO₃^3-, methyl blue, trichloroacetic acid and glyphosate. Specifically, the Mg-Al alloy achieves removal efficiency ≥99.7% for these multiple pollutants at concentrations ranging between 10 and 50 mg L^-1 without producing any secondary contaminants. In contrast, ZVI removal efficiency did not exceed 90% and secondary contamination up to 220 mg L^-1 Fe was observed. Overall, this study provides a new alternative approach to develop efficient, cost-effective and green remediation for water and groundwater.

Deciphering deamidation and isomerization in therapeutic proteins: Effect of neighboring residue

Deamidation of asparagine (Asn) and isomerization of aspartic acid (Asp) residues are among the most commonly observed spontaneous post-translational modifications (PTMs) in proteins. Understanding and predicting a protein sequence's propensity for such PTMs can help expedite protein therapeutic discovery and development. In this study, we used proton-affinity calculations with semi-empirical quantum mechanics and microsecond long equilibrium molecular dynamics simulations to investigate mechanistic roles of structural conformation and chemical environment in dictating spontaneous degradation of Asn and Asp residues in 131 clinical-stage therapeutic antibodies. Backbone secondary structure, side-chain rotamer conformation and solvent accessibility were found to be key molecular indicators of Asp isomerization and Asn deamidation. Comparative analysis of backbone dihedral angles along with N-H proton affinity calculations provides a mechanistic explanation for the strong influence of the identity of the n + 1 residue on the rate of Asn/Asp degradation. With these findings, we propose a minimalistic physics-based classification model that can be leveraged to predict deamidation and isomerization propensity of proteins.

Biodegradation and photo-Fenton degradation of bisphenol A, bisphenol S and fluconazole in water

Bisphenol A, bisphenol S, and fluconazole are ubiquitous environmental pollutants and their removal from water is of utmost importance. As the biodegradation of these compounds is usually not enough effective, often other degradation methods are required. The study presents the difference between biodegradation and photo-Fenton degradation with a much higher efficiency obtained in the latter process. Levels of biodegradation and chemical degradation were assessed based on high-performance liquid chromatography determination. Optimization of the photo-Fenton removal of bisphenol A, bisphenol S, and fluconazole resulted in about 100 % primary degradation of both bisphenols during 10-20 min and almost 90 % primary degradation of fluconazole within an hour. Degradation products formed in the process were identified using liquid chromatography with mass spectrometry and showed central scission of bisphenol S with the formation of phenol and sulfuric acid while for bisphenol A and fluconazole the oxidation resulted in much smaller structural changes.

Competitive adsorption/desorption of tetracycline, oxytetracycline and chlortetracycline on pine bark, oak ash and mussel shell

We studied competitive adsorption for the tetracycline antibiotics (TCs) tetracycline (TC), oxytetracycline (OTC), and chlortetracycline (CTC) on three bio-adsorbents (mussel shell, oak wood ash, and pine bark). The results were compared for individual systems (with antibiotics added separately) and ternary systems (with all three antibiotics added simultaneously). In all cases batch-type experiments were carried out, with 24 h of contact time. In the individual systems, concentrations of 200 μmol L^-1 were used for each of the three antibiotics, separately. In the ternary system, all three TCs were added simultaneously, using the following total concentrations: 50, 100, 200, 400, 600 μmol L^-1, each antibiotic being 1/3 of the total. Taking into account that ionic strength of a solution is related to a measure of the concentration of ions in that solution, the use of individual and ternary systems allows to compare, for each antibiotic, systems having equal concentrations and similar ionic strength (concentrations of 200 μmol L^-1), and systems having different concentrations and ionic strength (200 μmol L^-1 in the individual systems, and 600 μmol L^-1 in the ternary systems, resulting from the sum of 200 μmol L^-1 corresponding to each of the three antibiotics). Adsorption/desorption results indicated that these processes were in all cases closely related to pH values, and to carbon and non-crystalline minerals contents in the bio-adsorbents. Both oak ash and pine bark adsorbed close to 100% of TCs in individual and ternary systems, with desorption <4% for oak ash, and <12% for pine bark. However, mussel shell gave clearly poorer results, only relatively acceptable for CTC, with adsorption <56% and desorption even >30% for TC and OTC. In view of the results, oak ash and pine bark can be recommended as effective bio-adsorbents for the three TCs studied, and could be useful to retain/inactive them in wastes, and soil or liquid media receiving these emerging pollutants, thus reducing risks of damage for public health and the environment.

Decomposition of long-chain petroleum hydrocarbons by Fenton-like processes: Effects of ferrous iron source, salinity and temperature

Batch experiments were conducted to examine the effects of ferrous iron source, soil salinity and temperature on degradation of long-chain petroleum hydrocarbons by Fenton-like processes. The results show that over 70%, 50% and 25% of aliphatic C16-C21, C21-C35 and C35-C40, respectively, was eliminated at a H₂O₂ dose of 1.5%. The decomposition rate of petroleum hydrocarbons was similar to each other for ferrous sulfate and magnetite while the capacity of pyrite to trigger Fenton-driven decomposition of long-chain aliphatic petroleum hydrocarbons was weaker, as compared to ferrous sulfate and magnetite. The decomposition rate of aromatic hydrocarbons decreased with increasing length of carbon chain in the ferrous sulfate and magnetite systems, but the opposite was observed in the pyrite system. The effect of Fenton-like process on degradation of long-chain petroleum hydrocarbons was enhanced by increased temperature. At a temperature of 60 °C, the enhancement of Fenton process outweighed the adverse effects from potential loss of H₂O₂ due to elevated temperature. The use of magnetite as a source of ferrous iron was likely to prevent consumption of Fe²⁺ by complexation with chloride ion from occurring and consequently effectively eliminated the inhibitory effect of salinity on Fenton reaction.

Comparison of software tools for kinetic evaluation of chemical degradation data

BACKGROUND

For evaluating the fate of xenobiotics in the environment, a variety of degradation or environmental metabolism experiments are routinely conducted. The data generated in such experiments are evaluated by optimizing the parameters of kinetic models in a way that the model simulation fits the data. No comparison of the main software tools currently in use has been published to date. This article shows a comparison of numerical results as well as an overall, somewhat subjective comparison based on a scoring system using a set of criteria. The scoring was separately performed for two types of uses. Uses of type I are routine evaluations involving standard kinetic models and up to three metabolites in a single compartment. Evaluations involving non-standard model components, more than three metabolites or more than a single compartment belong to use type II. For use type I, usability is most important, while the flexibility of the model definition is most important for use type II.

RESULTS

Test datasets were assembled that can be used to compare the numerical results for different software tools. These datasets can also be used to ensure that no unintended or erroneous behaviour is introduced in newer versions. In the comparison of numerical results, good agreement between the parameter estimates was observed for datasets with up to three metabolites. For the now unmaintained reference software DegKinManager/ModelMaker, and for OpenModel which is still under development, user options were identified that should be taken care of in order to obtain results that are as reliable as possible. Based on the scoring system mentioned above, the software tools gmkin, KinGUII and CAKE received the best scores for use type I. Out of the 15 software packages compared with respect to use type II, again gmkin and KinGUII were the first two, followed by the script based tool mkin, which is the technical basis for gmkin, and by OpenModel.

CONCLUSIONS

Based on the evaluation using the system of criteria mentioned above and the comparison of numerical results for the suite of test datasets, the software tools gmkin, KinGUII and CAKE are recommended for use type I, and gmkin and KinGUII for use type II. For users that prefer to work with scripts instead of graphical user interfaces, mkin is recommended. For future software evaluations, it is recommended to include a measure for the total time that a typical user needs for a kinetic evaluation into the scoring scheme. It is the hope of the authors that the publication of test data, source code and overall rankings foster the evolution of useful and reliable software in the field.

Influence of Mechanical and Chemical Degradation in the Surface Roughness, Gloss, and Color of Microhybrid Composites

AIM

The aim of this study was to investigate the association of different degradations on the roughness, gloss, and color changes of microhybrid composites.

MATERIALS AND METHODS

Ten specimens were prepared for Charisma, Amelogen Plus, Point 4, and Opallis resins. Surfaces were polished and baseline measurements of roughness, gloss, and color were recorded. Specimens were then submitted to chemical and mechanical challenges, and the specimens were reevaluated. Roughness and gloss were analyzed by Kruskal -Wallis and Dunn's test (p < 0.05). Color change (ΔE) was analyzed by one-way analysis of variance and Tukey's tests (p < 0.05). The initial and final data were compared using the Wilcoxon test (p < 0.05). Spearman test checked the correlation between the roughness and gloss (p < 0.05).

RESULTS

Regarding surface roughness and gloss, there was no difference between composites before challenges. However, all composites showed a significant increase of roughness after challenges, with highest values for Charisma. The gloss was influenced by challenges, evidencing the best gloss for Point 4. Charisma showed the highest value of color change. There was no correlation between surface roughness and gloss for the initial analysis, and after the challenges.

CONCLUSION

Composites were influenced by association of challenges, and Charisma showed the highest changes for roughness, gloss, and color.

CLINICAL SIGNIFICANCE

The type of composite resin influenced the properties of materials, which are surface roughness, gloss, and color change. The dentist should be aware of the performance of different brands, to choose the correct required composite resin for each type of patient or region to be restored.

Spectroscopic and AFM characterization of polypeptide-surface interactions: Controls and lipid quantitative analyses

This article is related to http://dx.doi.org/10.1016/j.bbamem.2017.01.005 (Ø. Strømland, Ø.S. Handegård, M.L. Govasli, H. Wen, Ø. Halskau, 2017) [1]. In protein and polypeptide-membrane interaction studies, negatively charged lipids are often used as they are a known driver for membrane interaction. When using fluorescence spectroscopy and CD as indicators of polypeptide binding and conformational change, respectively, the effect of zwitterionic lipids only should be documented. The present data documents several aspects of how two engineered polypeptides (A-Cage-C and A-Lnk-C) derived from the membrane associating protein alpha-Lactalbumin affects and are affected by the presence of zwitterionic bilayers in the form of vesicles. We here document the behavior or the Cage and Lnk segments with respect to membrane interaction and their residual fold, using intrinsic tryptophan fluorescence assays. This data description also documents the coverage of solid-supported bilayers prepared by spin-coating mica using binary lipid mixes, a necessary step to ensure that AFM is performed on areas that are covered by lipid bilayers when performing experiments. Uncovered patches are detectable by both force curve measurements and height measurements. We tested naked mica׳s ability to cause aggregation as seen by AFM, and found this to be low compared to preparations containing negatively charged lipids. Work with lipids also carries the risk of chemical degradation taking place during vesicles preparation or other handling of the lipids. We therefor use ³¹P NMR to quantify the head-group content of commonly used commercial extracts before and after a standard protocol for vesicle production is applied.

Potential effects of rainwater-borne H2O2 on competitive degradation of herbicides and in the presence of humic acid

In a previous piece of work, we reported some preliminary experimental results showing that hydrogen peroxide at a concentration range frequently encountered in rainwater could lead to degradation of three common herbicides (diuron, butachlor and glyphosate). However, the work was limited to the observation on the effects of Fenton process on the individual herbicides. In field conditions, different types of herbicides along with other organic molecules may occur concurrently. It is unclear how different herbicides and various organic molecules compete for the available hydroxyl radical. In this study, further laboratory experiments were conducted to observe the changes in the herbicides in the scenarios where multiple herbicides or humic acid are present. The results show that humic acid impeded hydroxyl radical-driven degradation of the diuron and butachlor. However, humic acid had no significant effects on reducing glyphosate removal rate. Glyphosate could compete strongly with the humic acid for the available hydroxyl radical in the reaction systems. The reactivity of glyphosate with hydroxyl radical was much higher than those of diuron and butachlor due possibly to its relatively simpler chemical structure, as compared to either diuron or butachlor, which are aromatic compounds that have higher chemical stability. Butachlor degradation was much weaker in the combined diuron and butachlor system than in the combined glyphosate and butachlor system. In the glyphosate-butachlor system, the opposite was observed. The findings have moved another step forward to understanding the potential role of rainwater-borne H2O2 in degrading herbicides in open water environments.

Chemical and technical challenges in the analysis of central carbon metabolites by liquid-chromatography mass spectrometry

This review deals with chemical and technical challenges in the analysis of small-molecule metabolites involved in central carbon and energy metabolism via liquid-chromatography mass-spectrometry (LC-MS). The covered analytes belong to the prominent pathways in biochemical carbon oxidation such as glycolysis or the tricarboxylic acid cycle and, for the most part, share unfavorable properties such as a high polarity, chemical instability or metal-affinity. The topic is introduced by selected examples on successful applications of metabolomics in the clinic. In the core part of the paper, the structural features of important analyte classes such as nucleotides, coenzyme A thioesters or carboxylic acids are linked to "problematic hotspots" along the analytical chain (sample preparation and-storage, separation and detection). We discuss these hotspots from a chemical point of view, covering issues such as analyte degradation or interactions with metals and other matrix components. Based on this understanding we propose solutions wherever available. A major notion derived from these considerations is that comprehensive carbon metabolomics inevitably requires multiple, complementary analytical approaches covering different chemical classes of metabolites.