Purification Of Complex Research Articles

Nanopore analysis of salvianolic acids in herbal medicines

Natural herbs, which contain pharmacologically active compounds, have been used historically as medicines. Conventionally, the analysis of chemical components in herbal medicines requires time-consuming sample separation and state-of-the-art analytical instruments. Nanopore, a versatile single molecule sensor, might be suitable to identify bioactive compounds in natural herbs. Here, a phenylboronic acid appended Mycobacterium smegmatis porin A (MspA) nanopore is used as a sensor for herbal medicines. A variety of bioactive compounds based on salvianolic acids, including caffeic acid, protocatechuic acid, protocatechualdehyde, salvianic acid A, rosmarinic acid, lithospermic acid, salvianolic acid A and salvianolic acid B are identified. Using a custom machine learning algorithm, analyte identification is performed with an accuracy of 99.0%. This sensing principle is further used with natural herbs such as Salvia miltiorrhiza, Rosemary and Prunella vulgaris. No complex sample separation or purification is required and the sensing device is highly portable.

Synergistic fermenter-electrolytic cell integration and phenomena-based process intensification for competitive bio-succinic acid production

The production of bio-succinic acid through fermentation presents a promising strategy for obtaining building-block chemicals from renewable sources. However, the limited yield of bio-succinic acid from fermentation and the complex purification procedures have hindered its competitiveness against petroleum-based succinic acid. One way to tackle this challenge is to develop a more efficient and sustainable production route, that is to integrate process synthesis with process intensification. In the present study, an existing flowsheet from our previous work based on process synthesis on bio-succinic acid batch fermentation was selected and subjected to heuristic and phenomena-based process intensification approaches. The heuristic approach involved integrating an electrolytic cell with the fermenter, employing an anionic exchange membrane for continuous extraction of organic acids. The resulting modified process flowsheet served as a base case for a systematic phenomena-based process intensification approach. Through this approach, intensified unit operations, such as an electro-membrane reactor and a membrane crystallizer, were generated. A total of 114 intensified process flowsheet alternatives were developed and ranked according to an enthalpy index. The top-ranked alternatives were evaluated in terms of economic performance and environmental impact. Notably, all analyzed process flowsheets exhibited improved indicators, with a minimum selling price below that of petroleum-based succinic acid (approximately $2 kg−1).

Micropreparative Gel Electrophoresis for Purification of Nanoscale Bioconjugates.

Conventional techniques for purifying macromolecular conjugates often require complex and costly installments that are inaccessible to most laboratories. In this work, we develop a one-step micropreparative method based on a trilayered polyacrylamide gel electrophoresis (MP-PAGE) setup to purify biological samples, synthetic nanoparticles, as well as biohybrid complexes. We apply this method to recover DNA from a ladder mixture with yields of up to 90%, compared to the 58% yield obtained using the conventional crush-and-soak method. MP-PAGE was also able to isolate enhanced yellow fluorescence protein (EYFP) from crude cell extract with 90% purity, which is comparable to purities achieved through a more complex two-step purification procedure involving size exclusion and immobilized metal-ion affinity chromatography. This technique was further extended to demonstrate size-dependent separation of a commercial mixture of graphene quantum dots (GQDs) into three different fractions with distinct optical properties. Finally, MP-PAGE was used to isolate DNA-EYFP and DNA-GQD bioconjugates from their reaction mixture of DNA and EYFP and GQD precursors, samples that otherwise could not be effectively purified by conventional chromatography. MP-PAGE thus offers a rapid and versatile means of purifying biological and synthetic nanomaterials without the need for specialized equipment.

Mapping protein-RNA binding in plants with individual-nucleotide-resolution UV cross-linking and immunoprecipitation (plant iCLIP2).

Despite crucial roles of RNA-binding proteins (RBPs) in plant physiology and development, methods for determining their transcriptome-wide binding landscape are less developed than those used in other model organisms. Cross-linking and immunoprecipitation (CLIP) methods (based on UV-mediated generation of covalent bonds between RNAs and cognate RBPs in vivo, purification of the cross-linked complexes and identification of the co-purified RNAs by high-throughput sequencing) have been applied mainly in mammalian cells growing in monolayers or in translucent tissue. We have developed plant iCLIP2, an efficient protocol for performing individual-nucleotide-resolution CLIP (iCLIP) in plants, tailored to overcome the experimental hurdles posed by plant tissue. We optimized the UV dosage to efficiently cross-link RNA and proteins in plants and expressed epitope-tagged RBPs under the control of their native promoters in loss-of-function mutants. We select epitopes for which nanobodies are available, allowing stringent conditions for immunopurification of the RNA-protein complexes to be established. To overcome the inherently high RNase content of plant cells, RNase inhibitors are added and the limited RNA fragmentation step is modified. We combine the optimized isolation of RBP-bound RNAs with iCLIP2, a streamlined protocol that greatly enhances the efficiency of library preparation for high-throughput sequencing. Plant researchers with experience in molecular biology and handling of RNA can complete this iCLIP2 protocol in ~5 d. Finally, we describe a bioinformatics workflow to determine targets of Arabidopsis RBPs from iCLIP data, covering all steps from downloading sequencing reads to identifying cross-linking events ( https://github.com/malewins/Plant-iCLIPseq ), and present the R/Bioconductor package BindingSiteFinder to extract reproducible binding sites ( https://bioconductor.org/packages/release/bioc/html/BindingSiteFinder.html ).

Constructing green, smart wettability-switchable and antibacterial Caragana cellulose filter by cooperative regulation of texture and surface for on-demand purification of emulsions

The efficient on-demand purification of complex oily emulsions containing multiple pollutants and bacteria by a green filter has always been desired, but also extremely challenging. The abundant and renewable natural cellulose biomass is the best choice for developing green separation materials, but the limited separation capability of raw biomass restricts its application. To resolve this problem, this paper proposed a synergetic texture-surface regulation strategy to improve the liquid-locking ability and amphiphilicity of Caragana cellulose fiber, and thus prepared an intelligent multifunctional filter with an arbitrarily switchable underoil superhydrophobic (WCA = 152.1°) and underwater superoleophobic (OCA = 151.6°) surface. The surface wettability of the filter can be switched randomly by changing the wetting liquid, thus achieving efficient separation of different types of emulsions. As expected, both simulated different oils-in-water and different actual waters-in-oil emulsions, and all types of practical industrial oily complex emulsion sewage were purified by the filter at a high level (separation efficiency: 99.9 %). In addition, the filter can simultaneously remove 99.1 % of the Methylene blue and 98.6 % of the Oil red O in emulsions and has excellent antibacterial activity against E. coli (efficiency: 99.87 %) and S. aureus (efficiency: 99.43 %). The spent filter can be regenerated as an adsorbent capable of dynamically adsorbing 99.9 % of Orange II and 99.8 % of Methylene blue. This study provides a new method to modulate natural renewable cellulose and thus produce a multifunctional separation material for on-demand purification of complex and stubborn emulsions.

A novel strategy for extraction of intracellular poly(3-hydroxybutyrate) from engineered Pseudomonas putida using deep eutectic solvents: Comparison with traditional biobased organic solvents

Polyhydroxyalkanoates (PHAs) represent a category of microbial polyesters that offer both biodegradability and biocompatibility, if produced in sufficient quantities, they could serve as an alternative to many conventional plastics in use today. However, these microbial polymers are intracellularly stored, necessitating a more complex downstream extraction and purification process. Downstream processes often constitute the most financially burdensome stage in biomolecule production. One significant drawback of many existing extraction processes is their reliance on harsh organic solvents, such as chloroform, and high temperatures. This study presents and compares two novel downstream processes for the extraction and purification of poly(3-hydroxybutyrate) (PHB), a type of short-chain-length PHA, utilizing bio-based green solvents and natural deep eutectic solvents (NADES), respectively. The soil bacterium Pseudomonas putida, engineered to produce PHB from sugars, was adopted as a model for testing these extraction procedures. Initially, biomass was disrupted using a hypotonic buffer containing lysozyme to enhance the extraction efficiency in the downstream process. After extensive screening, the bio-based solvent ethyl acetate was selected for PHB extraction from P. putida biomass, yielding ∼ 95 wt% of the homo-polymer with a purity of ∼ 97 wt%, results comparable to those achieved with the traditional benchmark solvent, chloroform. Furthermore, a hydrophobic natural deep eutectic solvent (hydrophobic NADES) was synthesized, comprising L-menthol and acetic acid in a 1:3 M ratio, and employed as the extraction solvent in combination with methanol as the anti-solvent. The optimized extraction process resulted in a homo-polymer yield of ∼ 66 wt% with a high purity of ∼ 85 wt%. These results are promising considering the benefits associated with the use of NADES, they are less toxic and much easier to handle than ethyl acetate and have the potential to be recycled. Therefore, it represents a promising avenue for a more sustainable PHB extraction process, devoid of harmful organic solvents.

Multi‐Color Magnetic Circularly Polarized Luminescence from Achiral Perovskite (Cs+Pb2+X3) Quantum Dots

AbstractHigh‐performance optoelectronic materials require luminescent materials capable of intense photoluminescence (PL). However, controlling the optical properties of luminescent materials requires complex synthesis and purification procedures. Herein, we propose a simple method for obtaining circularly polarized luminescence from achiral inorganic quantum dots. This method involves applying north‐up and south‐up 1.7 T magnetic fields at 25 °C to five types of achiral antimagnetic perovskite‐Pb‐quantum dots in a solution state. The wavelengths of magnetic circularly polarized luminescence (MCPL) and PL of achiral perovskite‐Pb quantum dots were successfully controlled according to the type and composition ratio of halogen ions. The magnitude of MCPL, gMCPL, was on the order of |gMCPL|=10−3 in a wavelength range of 406–697 nm. Although the perovskite‐Pb‐quantum dots were achiral, the rotation direction of the MCPL could be controlled by varying the direction of the applied magnetic field.

Glucans and heteroglycans of fungi and their possibilities in immunotherapy of malignant neoplasms

The present review is devoted to the oncostatic properties of glucans and heteroglycans produced by higher fungi. These are the most pharmacologically promising substances, since they are produced in large quantities both by artificially grown mycelium and fruiting bodies, do not require complex purification methods, are devoid of toxicity, and, having a complex (immune-mediated and direct) effect on tumors, do not require any complex fractionation procedures. The diversity of β-glucans produced by fungi is shown, the main types of these macromolecules are considered (according to the structural features of the macromolecule, the linear and branched forms of β-glucans are distinguished, first of all). Heteroglycans, a more diverse but less studied group of fungal compounds, have also been characterized. The effects of fungal polysaccharides and heteroglycans on immune and cancer cells described in the literature are considered. The long and branched chains of these biopolymers, as well as peptides and lipids covalently bound to them, have fragments that are complementary to the binding sites of the surface receptors of the animal cell and thus act as their agonists or antagonists. They are recognized by the receptors of antigen-representing cells of the immune system as pathogen-associated molecular patterns, what leads to the activation of the cytotoxic component of the immune system; to reduce their tolerogenic and immunosuppressive signaling. Prospects for further study of fungal glucans and heteroglycans are outlined.

Transient Co-expression of Membrane Protein Complexes in Mammalian Cells.

Membrane proteins are essential components of biological membranes with key roles in cellular processes such as nutrient transport, cell communication, signaling, or energy conversion. Due to their crucial functions, membrane proteins and their complexes are often targets for therapeutic interventions. Expression and purification of membrane proteins are often a bottleneck to yield sufficient material for structural studies and further downstream characterization. Taking advantage of the Expi293 expression system for the production of eukaryotic proteins, we present a very efficient and fast protocol for the co-expression of a membrane complex. Here, we use transient transfection to co-express the membrane transporter PHT1 with its adaptor protein TASL. To allow the simultaneous screening of different proteins, constructs, or interaction partners, we make use of the Twin-Strep magnetic system. The protocol can be applied for small-scale screening of any membrane protein alone or co-expressed with interacting partners followed by large-scale production and purification of a potential membrane protein complex.

Purification of Native Dentilisin Complex from Treponema denticola by Preparative Continuous Polyacrylamide Gel Electrophoresis and Functional Analysis by Gelatin Zymography.

Periodontal disease is characterized by the destruction of the hard and soft tissues comprising the periodontium. This destruction translates to a degradation of the extracellular matrices (ECM), mediated by bacterial proteases, host-derived matrix metalloproteinases (MMPs), and other proteases released by host tissues and immune cells. Bacterial pathogens interact with host tissue, triggering adverse cellular functions, including a heightened immune response, tissue destruction, and tissue migration. The oral spirochete Treponema denticola is highly associated with periodontal disease. Dentilisin, a T. denticola outer membrane protein complex, contributes to the chronic activation of pro-MMP-2 in periodontal ligament (PDL) cells and triggers increased expression levels of activators and effectors of active MMP-2 in PDL cells. Despite these advances, no mechanism for dentilisin-induced MMP-2 activation or PDL cytopathic behaviors leading to disease is known. Here, we describe a method for purification of large amounts of the dentilisin protease complex from T. denticola and demonstrate its ability to activate MMP-2, a key regulator of periodontal tissue homeostasis. The T. denticola dentilisin and MMP-2 activation model presented here may provide new insights into the dentilisin protein and identify potential therapeutic targets for further research. Key features • This protocol builds upon a method described by Cunningham et al. [1] for selective release of Treponema outer membrane proteins. • We adapted the protocol for the purification of biologically active, detergent-stable outer membrane protein complexes from large batch cultures of T. denticola. • The protocol involves large-scale preparative electrophoresis using a Model 491 Prep Cell. • We then use gelatin zymography to demonstrate the activity of the purified dentilisin complex by its ability to activate matrix metalloproteinase 2 (MMP-2).

A nanobody-based microfluidic chip for fast and automated purification of protein complexes.

Many proteins, especially eukaryotic proteins, membrane proteins and protein complexes, are challenging to study because they are difficult to purify in their native state without disrupting the interactions with their partners. Hence, our lab developed a novel purification technique employing Nanobodies® (Nbs). This technique, called nanobody exchange chromatography (NANEX), utilises an immobilised low-affinity Nb to capture the target protein, which is subsequently eluted - along with its interaction partners - by introducing a high-affinity Nb. In line with the growing trend towards studying proteins in smaller sample sizes, the present study validates miniaturisation of NANEX in a packed bed microfluidic (μNANEX) chip. This μNANEX setup integrates up to five submicroliter silicon chips, enabling fully automated and reproducible purifications within minutes. Additionally, a digital twin model of the μNANEX column, which accurately predicts the effect of the reaction kinetics and mass transfer on the elution peaks, has been validated over a broad range of experimental conditions. The effectiveness of the method is demonstrated with Nbs binding to the green fluorescent protein (GFP), allowing streamlined purification of any GFP fusion protein from biological samples. Specifically, we used μNANEX to purify 0.1-1 μg of GFP-fused yeast proteins from 20 μL crude lysate and identified their interaction partners via mass spectrometry, showing that μNANEX purification preserves protein complexes.

Engineering bacterial biomanufacturing: characterization and manipulation of Sphingomonas sp. LM7 extracellular polymers.

Biologically produced materials are an attractive alternative to traditional materials such as metals and plastics and offer improved functionalities such as better biodegradability and biocompatibility. Polysaccharides are an example of biologically produced materials that can have a range of chemical and physical properties including high stiffness to weight ratios and thermal stability. Polysaccharides synthesized by bacteria can come with many advantages such as being non-toxic and are mechanically robust relative to proteins and lipids, which are also secreted by bacteria to generate a biofilm. Biomanufacturing offers benefits compared to traditional manufacturing including low resource investment and equipment requirements, providing an alternative to sourcing fossil fuel byproducts, and relatively low temperatures needed for production. However, many biologically produced materials require complex and lengthy purification processes before use. This paper (1) identifies the material properties of a novel polysaccharide, dubbed promonan, isolated from the extracellular polymeric substances of Sphingomonas sp. LM7; (2) demonstrates that these properties can be manipulated to suit specific applications; and (3) presents two alternative methods of processing to shorten purification time by more than 50% while maintaining comparable material properties.

A simple protocol for the synthesis of perylene bisimides from perylene tetracarboxylic dianhydride.

Perylene bisimides are highly attractive polycyclic aromatic hydrocarbons due to their photostability associated to unique and characteristic photochemical properties. They have been widely used for analytical purposes, despite the hydrophobicity of most of these compounds. The ring substitution pattern plays an important role in fine-tuning the physicochemical properties that govern solubility and aggregation. In this work, a selection of perylene bisimides were prepared from the reaction of perylenetetracarboxylic dianhydride with α-amino acids or primary aliphatic and aromatic amines. These molecules were obtained in good yield by a simple synthetic protocol based on the use of imidazole as a green solvent and avoiding the need for complex purification methods, a major advantage for future applications. Functionalization of the exocyclic substituent can also be performed and was exemplified by the incorporation of the maleimide and anthraquinone moieties.

Bridging Li-Ion Batteries and Fuel Cells: From Cathode Leaching Residue to Atomic-Scale Catalytic System

The direct manufacturing and cross-domain reuse of advanced functional materials locates on a higher position in the spent lithium-ion batteries (LIBs) waste management hierarchy, compared with the traditional metallurgies of spent LIBs involving the complex chemical extraction and purification. Energy conversion devices such as fuel cell (FC), share similar features with LIBs in terms of the electrode materials design principle, indicating an inherently close link between energy conversion and storage applications. Given that sustainability is the third dimension of the electrode in addition to structure and property, fabricating FC electrodes via simple modifications of spent LIBs materials would represent a paradigm-shifting concept of upcycling and break the boundary of different technologies. We report herein a case study of upcycling a typical LIBs cathode, LiFePO4 particles embedded in N-doped carbon spheres (LFP/C), to a highly efficient single atomic (SA) electrocatalyst for oxygen reduction reaction (ORR). The top-down partial leaching method was used to convert LFP/C into metal leachates and residual carbon-based precipitates, the latter appeared as Fe SA-embedded hollow carbon spheres, with the minority of FeOx nanoclusters and FePO4 nanoparticles. The FeOx/FePO4 species display low direct contribution towards catalytic activity, but adjust the charge distribution of neighboring SA, thereby optimizing the intermediate adsorption energy at the rate-determining step occurring on SA sites, boosting the alkaline ORR activity as manifested by the high E onset of 0.97 V. Furthermore, the membrane electrode fabricated with the upcycled materials demonstrates great potentials in a practical energy conversion device, direct ammonia fuel cell. The etching strategy breaks a long-standing stereotype by innovatively constructing atomic catalytic sites via a top-down etching approach. More importantly, this work demonstrates the potential value of spent LIB electrodes in the half-cell reaction of FC, and builds a bridge between energy storage and conversion systems through the facile upcycling method. Figure 1

Engineered Conductive Proteins for Supercapacitors

Proteins can be used as building blocks of functional materials for electrochemical applications due to their structural properties and the possibility to tailor their ionic and electronic conductive properties.[1] One of the most attractive applications is in the bioelectronics field, for example as energy storage devices such as Electrical Double Layer Capacitors (EDLCs), due to the nontoxicity and biocompatibility of the materials.[2] EDLCs are primarily used for applications where high power is required during a short period of time. They present several advantages, such as fast charge-discharge cycling, high power density, and outstanding long-term stability.[3]Traditionally, the incorporation of biomaterials in EDCLs is limited because they can be denaturalized in contact with organic solvents or salts. In addition, they easily interact with other cell components resulting in parasitic reactions and their complex purification processes hinder their commercialization.[4] These drawbacks can be overcome by introducing engineered proteins, since their amino acid sequences can be tuned resulting in 3D structures with varying degrees of complexity. Based on this approach, engineered proteins with improved conductivity will be introduced as interlayers with good stability and wettability, to ensure that the ions can shuttle freely between the two electrodes.In our case, consensus tetratricopeptide repeat (CTPR) proteins have been chosen [5] and engineered with the aim of increasing the ionic conductivity of the resulting variants. CTPR variants have been mixed with 5% PEG solutions and drop cast to obtain self-standing films. After being cross-linked, the films have been sandwiched in a two electrodes Swagelok-cell configuration between two electrodes made of activated carbon. KCl (3M) aqueous solution has been used as electrolyte for evaluating the electrochemical performance of the devices.The electrochemical characterization of the EDLC devices has been carried out using cyclic voltammetry (CV) and galvanostatic cycling (GC) to study the effect of the of the engineering strategy of the CTPR proteins on the EDLC performances. The CV curves of the devices using thin films of proteins with distinct mutations show quadratic capacitive responses for all the assembled EDLCs, demonstrating both its ability to isolate the two electrodes and to allow the diffusion of ions. The EDLCs capacitances were calculated and analyzed from the GC characteristics at different charge-discharge currents and compared with commercial glass fiber separators confirming their feasibility as safe and environmentally friendly separators. The ionic diffusive behavior of the devices has been also studied by electrochemical impedance spectroscopy (EIS). Finally, the effect of the thickness, porosity, polarity, wettability, and ionic conductivity of the different protein separators has been addressed to explore the role of the engineered proteins in EDLC devices. Acknowledgements This abstract is part of R&D&I project TED2021-131641B-C44, funded by MCIN/AEI/10.13039/501100011033 and by European Union NextGenerationEU/PRTR. This project has received funding from the European Union’s Horizon 2020 FET Open under the grant agreement No: 964593

Au nano-cone array for SERS detection of associated miRNA in lymphoma patients.

Based on Au nano-cone array (Au-NCA) and a three-segment hybridization strategy, a novel SERS biosensor is proposed for the ultrasensitive detection of the microRNA miR-21. The uniform, stable, and reproducible Au-NCA was prepared by the single-layer colloidal ball template method. Subsequently, the target was hybridized with sequence 2. The resulting target-sequence 2 complex was then hybridized with sequence 1 anchored on Au-NCA. Thus, a three-segment sequence complex was formed. SERS measurements can be performed without the need for complex purification and amplification steps. Due to the ability of miR-21 to perform specific complementary hybridization with two sequences, SERS biosensors have superior specificity for miR-21 without interference from other miRNAs. Under the optimal conditions, the SERS biosensor was applied and the limit of detection (LOD) was as low as 3.02 aM. This method has been successfully used to the detection of miR-21 in the serum of lymphoma patients and healthy volunteers. The results are consistent with the traditional test methods. Therefore, this novel SERS biosensor shows excellent clinical translational potential in the detection of lymphoma.

A trifecta membrane modified by multifunctional superhydrophilic coating for Oil/Water separation and simultaneous absorption of dyes and heavy metal

Adsorption and separation are the most important chemical engineering processes for wastewater treatment. Exerting microfiltration membranes as the central separation technology and decorating them with absorption property, forming absorptive membranes, result in the separation and purification of diverse wastewaters in an energy-efficient manner. Herein, a versatile polyanionic coating with superhydrophilicity/underwater superoleophobicity, superior anti-oil-fouling, and efficient charges is acquired through mussel-inspired co-deposition, followed by b-PEI functionalization, N-alkylation, and anionization. Thanks to the superhydrophilicity/underwater superoleophobicity, the as-prepared microfiltration membrane achieves selective separation of oil/water emulsions. Meanwhile, the functional membranes exhibited excellent selective and efficient adsorption capacity for organic dyes and heavy metal ions due to the abundant surface charges. Interestingly, benefiting from superhydrophilicity and considerable surface charges, the as-designed microfiltration membrane can realize selective and efficient simultaneous adsorption and separation of wastewaters with complicated components, including oil/water emulsions, organic dyes, and heavy metal ions by the concept of “achieving three things at one stroke”. Such a versatile and feasible strategy could pave a new path for constructing multifunctional membranes for complex wastewater treatment and purification.

A nanobody-based strategy for rapid and scalable purification of human protein complexes.

The isolation of proteins in high yield and purity is a major bottleneck for the analysis of their three-dimensional structure, function and interactome. Here, we present a streamlined workflow for the rapid production of proteins or protein complexes using lentiviral transduction of human suspension cells, combined with highly specific nanobody-mediated purification and proteolytic elution. Application of the method requires prior generation of a plasmid coding for a protein of interest (POI) fused to an N- or C-terminal GFP or ALFA peptide tag using a lentiviral plasmid toolkit we have designed. The plasmid is then used to generate human suspension cell lines stably expressing the tagged fusion protein by lentiviral transduction. By leveraging the picomolar affinity of the GFP and ALFA nanobodies for their respective tags, the POI can be specifically captured from the resulting cell lysate even when expressed at low levels and under a variety of conditions, including detergents and mild denaturants. Finally, rapid and specific elution of the POI (in its tagged or untagged form) under native conditions is achieved within minutes at 4 °C, using the engineered SUMO protease SENPEuB. We demonstrate the wide applicability of the method by purifying multiple challenging soluble and membrane protein complexes to high purity from human cells. Our strategy is also directly compatible with many widely used GFP-expression plasmids, cell lines and transgenic model organisms. Finally, our method is faster than alternative approaches, requiring only 8 d from plasmid to purified protein, and results in substantially improved yields and purity.

Synthesis of biologically active proteins as L6KD-SUMO fusions forming inclusion bodies in Escherichia coli.

A new platform has been developed to facilitate the production of biologically active proteins and peptides in Escherichia coli. The platform includes an N-terminal self-associating L6 KD peptide fused to the SUMO protein (small ubiquitin-like protein modifier) from the yeast Saccharomyces cerevisiae, which is known for its chaperone activity. The target proteins are fused at the C termini of the L6 KD-SUMO fusions, and the resulting three-component fusion proteins are synthesized and self-assembled in E. coli into so-called active inclusion bodies (AIBs). In vivo, the L6 KD-SUMO platform facilitates the correct folding of the target proteins and directs them into AIBs, greatly simplifying their purification. In vitro, the platform facilitates the effective separation of AIBs by centrifugation and subsequent target protein release using SUMO-specific protease. The properties of the AIBs were determined using five proteins with different sizes, folding efficiencies, quaternary structure, and disulfide modifications. Electron microscopy shows that AIBs are synthesized in the form of complex fibrillar structures resembling "loofah sponges" with unusually thick filaments. The obtained results indicate that the new platform has promising features and could be developed to facilitate the synthesis and purification of target proteins and protein complexes without the use of renaturation.

Pharmacological Targeting of Interferon-Related DNA Damage Resistant Signature (IRDS) and XRCC4-Mediated DNA Repair Pathways ss a Novel Therapeutic Approach to DIPG Radio-Sensitization

Despite significant efforts to improve the outcomes of pediatric diffuse midline gliomas, such as diffuse intrinsic pontine glioma (DIPG), prognosis remains dismal with a 5-year survival of <1%. The standard of care treatment for DIPG is fractionated radiation, but the disease inevitably progresses in 6 months or less. There is a significant unmet need to improve the clinical outcomes for pediatric DIPG patients. Approximately 70-80% of DIPG tumors contain mutations in TP53 tumor suppressor protein. These TP53 mutations are associated with resistance to radiation treatments in DIPG patients. The mechanisms of increased radio-resistance of p53-mutant DIPG are poorly understood. The objective of this study was to identify novel pharmacological agents that would augment radiation sensitivity of p53 mutant DIPG cell lines, and to establish their molecular mechanism of action. SF8628 pediatric DIPG cell line harboring p53 mutation was obtained from MilliporeSigma. CellRad benchtop X-ray irradiator (Precision X-Ray) was used for radiation sensitization experiments. Vi-CELL BLU cell viability analyzer was used for high-throughput screening of small molecule compound libraries with and without radiation treatments. Proteomics Core facility was utilized for mass spec analysis of protein targets of Compound-X. To identify novel drug candidates that would sensitize DIPG to therapeutic radiation, we carried out an unbiased screen of curated libraries of small molecules with diverse scaffolds in p53 mutant DIPG cells. This radio-sensitization screen yielded a single molecule, Compound-X, that was found to have profound growth-inhibitory and radiation-sensitizing effects in DIPG cells. Compound-X was found to induce a robust cell cycle arrest of DIPG cells in G2/M, the most radio-sensitive phase of the cell cycle. Furthermore, Compound-X elicited a massive apoptotic cell death of DIPG cells. An unbiased RNA sequencing approach revealed that Compound-X inhibits expression of the Interferon-related DNA damage Resistant Signature (IRDS), a sub-group of interferon-stimulated genes (ISGs) known to promote radiation and chemotherapy resistance in high-grade gliomas. To identify the target of Compound-X, we carried out affinity purification of Compound-X associated complexes from p53 mutant DIPG cell lysates. Mass spectrometry analysis of Compound-X-purified protein complexes identified XRCC4 as a protein that uniquely associated with Compound-X. RNAi knock-down experiments revealed that XRCC4 is required for cytotoxic effects of Compound-X. Importantly, Compound-X-mediated XRCC4 targeting caused a delay in DNA DSBs repair after radiation treatment. An unbiased screen of small molecule drug candidates identified a novel XRCC4-targeting agent, Compound-X, as potent radiation sensitizer in p53 mutant DIPG cells. This work may lead to clinical trials investigating novel XRCC4-targeting agent in pediatric patients with DIPG.