1
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Zhang J, Phetsanthad A, Li L. Investigating Anion Effects on Metal Ion Binding Interactions With Amyloid β Peptide by Ion Mobility Mass Spectrometry. JOURNAL OF MASS SPECTROMETRY : JMS 2024; 59:e5090. [PMID: 39328006 PMCID: PMC11446473 DOI: 10.1002/jms.5090] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/27/2024] [Revised: 07/22/2024] [Accepted: 07/31/2024] [Indexed: 09/28/2024]
Abstract
The study of metal ion's role in the biological processes of Alzheimer's disease has spurred investigations into the coordination chemistry of amyloid beta peptide and its fragments. Nano-electrospray ionization mass spectrometry (nESI-MS) has been utilized to examine the stabilization of bound anions on multiprotein complexes without bulk solvent. However, the effects of anions on metal ion binding interactions with amyloid beta peptide have not been explored. This study directly examined metal-peptide complexes using nESI-MS and investigated the effects of various anions on the binding ratio and stability of these complexes from ammonium salt solutions. The results indicate that different anions have distinct effects on the binding ratio and stability of various metal-peptide complexes. Of these, the bicarbonate ion exhibits the highest binding ratios for metal-peptide complexes, while binding ratios for these complexes in phosphate are comparatively low. Our results suggest that acetate, formate, bicarbonate, and phosphate have weak affinities and act as weak stabilizers of the metal-peptide complex structure in the gas phase. Intriguingly, chloride and sulfate act as stabilizers of the metal-peptide complex in the gas phase. The rank order determined from these data is substantially different from the Hofmeister salt series in solution. Although this outcome was anticipated due to the reduced influence of anions and water solvation, our findings correlate well with expected anion binding in solution and emphasize the importance of both hydration layer and anion-metal-peptide binding effects for Hofmeister-type stabilization in solution. This approach proved useful in examining the interactions between metal ions and amyloid beta peptide, which are relevant to Alzheimer's disease, using direct ESI-MS.
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Affiliation(s)
- Jingwei Zhang
- Department of Chemistry, University of Wisconsin–Madison, Madison, Wisconsin 53705, United States
| | - Ashley Phetsanthad
- Department of Chemistry, University of Wisconsin–Madison, Madison, Wisconsin 53705, United States
| | - Lingjun Li
- Department of Chemistry, University of Wisconsin–Madison, Madison, Wisconsin 53705, United States
- School of Pharmacy, University of Wisconsin–Madison, Madison, Wisconsin 53705, United States
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2
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Albadawi H, Zhang Z, Keum H, Cevik E, Nagalo BM, Gunduz S, Kita H, Oklu R. Percutaneous Delivery of Oncogel for Targeted Liver Tumor Ablation and Controlled Release of Therapeutics. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2024:e2406080. [PMID: 39148179 DOI: 10.1002/adma.202406080] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/28/2024] [Revised: 07/30/2024] [Indexed: 08/17/2024]
Abstract
Advanced-stage liver cancers are associated with poor prognosis and have limited treatment options, often leading the patient to hospice care. Percutaneous intratumoral injection of anticancer agents has emerged as a potential alternative to systemic therapy to overcome tumor barriers, increase bioavailability, potentiate immunotherapy, and avoid systemic toxicity, which advanced-stage cancer patients cannot tolerate. Here, an injectable OncoGel (OG) comprising of a nanocomposite hydrogel loaded with an ionic liquid (IL) is developed for achieving a predictable and uniform tumor ablation and long-term slow release of anticancer agents into the ablation zone. Rigorous mechanical, physiochemical, drug release, cytotoxicity experiments, and ex vivo human tissue testing identify an injectable version of the OG with bactericidal properties against highly resistant bacteria. Intratumoral injection of OG loaded with Nivolumab (Nivo) and doxorubicin (Dox) into highly malignant tumor models in mice, rats, and rabbits demonstrates enhanced survival and tumor regression associated with robust tissue ablation and drug distribution throughout the tumor. Mass cytometry and proteomic studies in a mouse model of colorectal cancer that often metastasizes to the liver indicate an enhanced anticancer immune response following the intratumoral injection of OG. OG may augment immunotherapy and potentially improve outcomes in liver cancer patients.
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Affiliation(s)
- Hassan Albadawi
- Division of Vascular & Interventional Radiology, Laboratory for Patient Inspired Engineering, Mayo Clinic, 13400 East Shea Blvd., Scottsdale, AR, 85259, USA
| | - Zefu Zhang
- Division of Vascular & Interventional Radiology, Laboratory for Patient Inspired Engineering, Mayo Clinic, 13400 East Shea Blvd., Scottsdale, AR, 85259, USA
| | - Hyeongseop Keum
- Division of Vascular & Interventional Radiology, Laboratory for Patient Inspired Engineering, Mayo Clinic, 13400 East Shea Blvd., Scottsdale, AR, 85259, USA
| | - Enes Cevik
- Division of Vascular & Interventional Radiology, Laboratory for Patient Inspired Engineering, Mayo Clinic, 13400 East Shea Blvd., Scottsdale, AR, 85259, USA
| | - Bolni M Nagalo
- University of Arkansas for Medical Sciences, College of Medicine, Department of Pathology, 301 West Markham Street, Little Rock, AR, 72205, USA
| | - Seyda Gunduz
- Division of Vascular & Interventional Radiology, Laboratory for Patient Inspired Engineering, Mayo Clinic, 13400 East Shea Blvd., Scottsdale, AR, 85259, USA
- Department of Medical Oncology, Istinye University; Bahcesehir Liv Hospital, Istanbul, 34517, Turkey
| | - Hirohito Kita
- Department of Immunology, Division of Allergy, Asthma, and Clinical Immunology and the Department of Medicine, Mayo Clinic Arizona, Scottsdale, AR, 85259, USA
| | - Rahmi Oklu
- Division of Vascular & Interventional Radiology, Laboratory for Patient Inspired Engineering, Mayo Clinic, 13400 East Shea Blvd., Scottsdale, AR, 85259, USA
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3
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Sanchez-Fernandez A, Poon JF, Leung AE, Prévost SF, Dicko C. Stabilization of Non-Native Folds and Programmable Protein Gelation in Compositionally Designed Deep Eutectic Solvents. ACS NANO 2024; 18:18314-18326. [PMID: 38949563 PMCID: PMC11256765 DOI: 10.1021/acsnano.4c01950] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/08/2024] [Revised: 06/17/2024] [Accepted: 06/18/2024] [Indexed: 07/02/2024]
Abstract
Proteins are adjustable units from which biomaterials with designed properties can be developed. However, non-native folded states with controlled topologies are hardly accessible in aqueous environments, limiting their prospects as building blocks. Here, we demonstrate the ability of a series of anhydrous deep eutectic solvents (DESs) to precisely control the conformational landscape of proteins. We reveal that systematic variations in the chemical composition of binary and ternary DESs dictate the stabilization of a wide range of conformations, that is, compact globular folds, intermediate folding states, or unfolded chains, as well as controlling their collective behavior. Besides, different conformational states can be visited by simply adjusting the composition of ternary DESs, allowing for the refolding of unfolded states and vice versa. Notably, we show that these intermediates can trigger the formation of supramolecular gels, also known as eutectogels, where their mechanical properties correlate to the folding state of the protein. Given the inherent vulnerability of proteins outside the native fold in aqueous environments, our findings highlight DESs as tailorable solvents capable of stabilizing various non-native conformations on demand through solvent design.
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Affiliation(s)
- Adrian Sanchez-Fernandez
- Center
for Research in Biological Chemistry and Molecular Materials (CiQUS),
Department of Chemical Engineering, Universidade
de Santiago de Compostela, Santiago de Compostela 15705, Spain
| | - Jia-Fei Poon
- European
Spallation Source, Lund University, Lund SE-22100, Sweden
| | | | | | - Cedric Dicko
- Pure
and Applied Biochemistry, Department of Chemistry, Lund University, Lund SE-22100, Sweden
- Lund
Institute of Advanced Neutron and X-ray Science, Lund SE-22370, Sweden
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4
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Bharmoria P, Tietze AA, Mondal D, Kang TS, Kumar A, Freire MG. Do Ionic Liquids Exhibit the Required Characteristics to Dissolve, Extract, Stabilize, and Purify Proteins? Past-Present-Future Assessment. Chem Rev 2024; 124:3037-3084. [PMID: 38437627 PMCID: PMC10979405 DOI: 10.1021/acs.chemrev.3c00551] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2023] [Revised: 02/08/2024] [Accepted: 02/19/2024] [Indexed: 03/06/2024]
Abstract
Proteins are highly labile molecules, thus requiring the presence of appropriate solvents and excipients in their liquid milieu to keep their stability and biological activity. In this field, ionic liquids (ILs) have gained momentum in the past years, with a relevant number of works reporting their successful use to dissolve, stabilize, extract, and purify proteins. Different approaches in protein-IL systems have been reported, namely, proteins dissolved in (i) neat ILs, (ii) ILs as co-solvents, (iii) ILs as adjuvants, (iv) ILs as surfactants, (v) ILs as phase-forming components of aqueous biphasic systems, and (vi) IL-polymer-protein/peptide conjugates. Herein, we critically analyze the works published to date and provide a comprehensive understanding of the IL-protein interactions affecting the stability, conformational alteration, unfolding, misfolding, and refolding of proteins while providing directions for future studies in view of imminent applications. Overall, it has been found that the stability or purification of proteins by ILs is bispecific and depends on the structure of both the IL and the protein. The most promising IL-protein systems are identified, which is valuable when foreseeing market applications of ILs, e.g., in "protein packaging" and "detergent applications". Future directions and other possibilities of IL-protein systems in light-harvesting and biotechnology/biomedical applications are discussed.
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Affiliation(s)
- Pankaj Bharmoria
- CICECO
- Aveiro Institute of Materials, Chemistry Department, University of Aveiro, 3810-193 Aveiro, Portugal
- Department
of Smart Molecular, Inorganic and Hybrid Materials, Institute of Materials Science of Barcelona (ICMAB-CSIC), 08193 Bellaterra, Barcelona, Spain
- Department
of Chemistry and Molecular Biology, Wallenberg Centre for Molecular
and Translational Medicine, University of
Gothenburg, SE-412 96 Göteborg, Sweden
| | - Alesia A. Tietze
- Department
of Chemistry and Molecular Biology, Wallenberg Centre for Molecular
and Translational Medicine, University of
Gothenburg, SE-412 96 Göteborg, Sweden
| | - Dibyendu Mondal
- CICECO
- Aveiro Institute of Materials, Chemistry Department, University of Aveiro, 3810-193 Aveiro, Portugal
- Institute
of Plant Genetics (IPG), Polish Academy of Sciences, Strzeszyńska 34, 60-479 Poznań, Poland
- Centre
for Nano and Material Sciences, JAIN (Deemed-to-be
University), Jain Global
Campus, Bangalore 562112, India
| | - Tejwant Singh Kang
- Department
of Chemistry, UGC Center for Advance Studies-II,
Guru Nanak Dev University (GNDU), Amritsar 143005, Punjab, India
| | - Arvind Kumar
- Salt
and Marine Chemicals Division, CSIR-Central
Salt and Marine Chemicals Research Institute, G. B. Marg, Bhavnagar 364002, Gujarat, India
| | - Mara G Freire
- CICECO
- Aveiro Institute of Materials, Chemistry Department, University of Aveiro, 3810-193 Aveiro, Portugal
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5
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Lee PY, Singh O, Nanajkar N, Bermudez H, Matysiak S. Opposing roles of organic salts on mini-protein structure. Phys Chem Chem Phys 2024; 26:8973-8981. [PMID: 38436427 DOI: 10.1039/d3cp05607d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/05/2024]
Abstract
We investigated the effects of 1-ethyl-3-methylimidazolium chloride ([EMIM][Cl]) and choline chloride ([Chol][Cl]) on the local environment and conformational landscapes of Trp-cage and Trpzip4 mini-proteins using experimental and computational approaches. Fluorescence experiments and computational simulations revealed distinct behaviors of the mini-proteins in the presence of these organic salts. [EMIM][Cl] showed a strong interaction with Trp-cage, leading to fluorescence quenching and destabilization of its native structural interactions. Conversely, [Chol][Cl] had a negligible impact on Trp-cage fluorescence at low concentrations but increased it at high concentrations, indicating a stabilizing role. Computational simulations elucidated that [EMIM][Cl] disrupted the hydrophobic core packing and decreased proline-aromatic residue contacts in Trp-cage, resulting in a more exposed environment for Trp residues. In contrast, [Chol][Cl] subtly influenced the hydrophobic core packing, creating a hydrophobic environment near the tryptophan residues. Circular dichroism experiments revealed that [Chol][Cl] stabilized the secondary structure of both mini-proteins, although computational simulations did not show significant changes in secondary content at the explored concentrations. The simulations also demonstrated a more rugged free energy landscape for Trp-cage and Trpzip4 in [EMIM][Cl], suggesting destabilization of the tertiary structure for Trp-cage and secondary structure for Trpzip4. Similar fluorescence trends were observed for Trpzip4, with [EMIM][Cl] quenching fluorescence and exhibiting stronger interaction, while [Chol][Cl] increased the fluorescence at high concentrations. These findings highlight the interplay between [EMIM][Cl] and [Chol][Cl] with the mini-proteins and provide a detailed molecular-level understanding of how these organic salts impact the nearby surroundings and structural variations. Understanding such interactions is valuable for diverse applications, from biochemistry to materials science.
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Affiliation(s)
- Pei-Yin Lee
- Chemical Physics Program, Institute for Physical Science and Technology, University of Maryland, College Park, USA
| | - Onkar Singh
- Department of Polymer Science and Engineering, University of Massachusetts, Amherst, MA, USA.
| | - Neha Nanajkar
- Department of Biology, University of Maryland, College Park, USA
| | - Harry Bermudez
- Department of Polymer Science and Engineering, University of Massachusetts, Amherst, MA, USA.
| | - Silvina Matysiak
- Fischell Department of Bioengineering, University of Maryland, College Park, USA.
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6
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Garbe M, Lehmann LT, Berger RG, Ersoy F. Improvement in the Stability and Enzymatic Activity of Pleurotus sapidus Lipoxygenase Dissolved in Natural Deep Eutectic Solvents (NADESs). Life (Basel) 2024; 14:271. [PMID: 38398780 PMCID: PMC10890681 DOI: 10.3390/life14020271] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2024] [Revised: 02/12/2024] [Accepted: 02/16/2024] [Indexed: 02/25/2024] Open
Abstract
Natural deep eutectic solvents (NADESs) can serve as solvents for enzymes, are biodegradable, and have low toxicities. Eight NADESs with different hydrogen bond acceptors and donors were tested to improve the stability and activity of a lipoxygenase from Basidiomycete Pleurotus sapidus (LOXPSA). Betaine:sorbitol:water (1:1:3, BSorbW) and betaine:ethylene glycol (1:3, BEtGly) had the best impact on the peroxidation of linoleic acid and the side reaction of piperine to the vanilla-like scented compound piperonal. The yield of piperonal in NADESs increased by 43% in BSorbW and 40% in BEtGly compared to the control. The addition of BSorbW also enhanced the enzyme's stability at various temperatures and increased its activity during incubation at 60 °C. The demonstrated improvement in lipoxygenase activity and stability indicates versatile applications in industry, expanding the potential uses of the enzyme.
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Affiliation(s)
- Maria Garbe
- Institute of Food Chemistry, Leibniz University Hannover, 30167 Hannover, Germany; (L.T.L.); (F.E.)
| | | | - Ralf Günter Berger
- Institute of Food Chemistry, Leibniz University Hannover, 30167 Hannover, Germany; (L.T.L.); (F.E.)
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7
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Brown SJ, Ryan TM, Drummond CJ, Greaves TL, Han Q. Lysozyme aggregation and unfolding in ionic liquid solvents: Insights from small angle X-ray scattering and high throughput screening. J Colloid Interface Sci 2024; 655:133-144. [PMID: 37931553 DOI: 10.1016/j.jcis.2023.10.139] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2023] [Revised: 10/09/2023] [Accepted: 10/25/2023] [Indexed: 11/08/2023]
Abstract
Understanding protein behaviour is crucial for developing functional solvent systems. Ionic liquids (ILs) are designer salts with versatile ion combinations, where some suppress unfavourable protein behaviour. This work utilizes small angle X-ray scattering (SAXS) to investigate the size and shape changes of model protein hen egg white lysozyme (HEWL) in 137 IL and salt solutions. Guinier, Kratky, and pair distance distribution analysis were used to evaluate the protein size, shape, and aggregation changes in these solvents. At low IL and salt concentration (1 mol%), HEWL remained monodispersed and globular. Most ILs increased HEWL size compared to buffer, while the nitrate and mesylate anions induced the most significant size increases. IL cation branching, hydroxyl groups, and longer alkyl chains counteracted this size increase. Common salts exhibited specific ion effects, while the IL effect varied with concentration due to complex ion-pairing. Protein aggregation and unfolding occurred at 10 mol% IL, altering the protein shape, especially for ILs with multiple alkyl chains on the cation, or with a mesylate/nitrate anion. This study highlights the usefulness of adopting a high-throughput SAXS strategy for understanding IL effects on protein behaviour and provides insights on controlling protein aggregation and unfolding with ILs.
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Affiliation(s)
- Stuart J Brown
- School of Science, STEM College, RMIT University, Melbourne, VIC 3000, Australia
| | - Timothy M Ryan
- SAXS/WAXS Beamline, Australian Synchrotron, 800 Blackburn Rd, Clayton, VIC 3168, Australia
| | - Calum J Drummond
- School of Science, STEM College, RMIT University, Melbourne, VIC 3000, Australia
| | - Tamar L Greaves
- School of Science, STEM College, RMIT University, Melbourne, VIC 3000, Australia.
| | - Qi Han
- School of Science, STEM College, RMIT University, Melbourne, VIC 3000, Australia.
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8
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Uniyal P, Das S, Panwar S, Kukreti N, Nainwal P, Bhatia R. A Comprehensive Review on Imperative Role of Ionic Liquids in Pharmaceutical Sciences. Curr Drug Deliv 2024; 21:1197-1210. [PMID: 37815183 DOI: 10.2174/0115672018255191230921035859] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2023] [Revised: 07/09/2023] [Accepted: 07/24/2023] [Indexed: 10/11/2023]
Abstract
Ionic liquids (ILs) are poorly-coordinated ionic salts that can exist as a liquid at room temperatures (or <100 °C). ILs are also referred to as "designer solvents" because so many of them have been created to solve particular synthetic issues. ILs are regarded as "green solvents" because they have several distinctive qualities, including better ionic conduction, recyclability, improved solvation ability, low volatility, and thermal stability. These have been at the forefront of the most innovative fields of science and technology during the past few years. ILs may be employed in new drug formulation development and drug design in the field of pharmacy for various functions such as improvement of solubility, targeted drug delivery, stabilizer, permeability enhancer, or improvement of bioavailability in the development of pharmaceutical or vaccine dosage formulations. Ionic liquids have become a key component in various areas such as synthetic and catalytic chemistry, extraction, analytics, biotechnology, etc., due to their superior abilities along with highly modifiable potential. This study concentrates on the usage of ILs in various pharmaceutical applications enlisting their numerous purposes from the delivery of drugs to pharmaceutical synthesis. To better comprehend cuttingedge technologies in IL-based drug delivery systems, highly focused mechanistic studies regarding the synthesis/preparation of ILs and their biocompatibility along with the ecotoxicological and biological effects need to be studied. The use of IL techniques can address key issues regarding pharmaceutical preparations such as lower solubility and bioavailability which plays a key role in the lack of effectiveness of significant commercially available drugs.
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Affiliation(s)
- Prerna Uniyal
- School of Pharmacy, Graphic Era Hill University, Dehradun-248002, India
| | - Shibam Das
- Department of pharmaceutical technology, Meerut Institute of Engineering and Technology, Meerut, Uttar Pradesh, India
| | - Surbhi Panwar
- School of Pharmacy, Graphic Era Hill University, Dehradun-248002, India
| | - Neelima Kukreti
- School of Pharmacy, Graphic Era Hill University, Dehradun-248002, India
| | - Pankaj Nainwal
- School of Pharmacy, Graphic Era Hill University, Dehradun-248002, India
| | - Rohit Bhatia
- Department of Pharmaceutical Chemistry and Analysis, ISF College of Pharmacy, Ghal Kalan, Ferozpur G.T. Road MOGA-142001, Punjab, India
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9
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Hari Krishnan S, Eswaran VDD, Lobo NP, Phani Kumar BVN. Comprehensive NMR Investigation of Imidazolium-Based Ionic Liquids [BMIM][OSU] and [BMIM][Cl] Impact on Binding and Dynamics of the Anticancer Drug Doxorubicin Hydrochloride. J Phys Chem B 2023; 127:10226-10235. [PMID: 37975332 DOI: 10.1021/acs.jpcb.3c06036] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2023]
Abstract
For the design of an efficient drug delivery system utilizing an ionic liquid (IL) as a carrier, it is prudent to gain molecular/atomistic level insights of a drug with IL in terms of binding and dynamics. In this scenario, the influence of anionic counterpart of imidazolium-based ILs, namely, 1-butyl-3-methyl-imidazolium octyl sulfate [BMIM][OSU] and 1-butyl-3-methyl-imidazolium chloride [BMIM][Cl] in their submicellar region ([IL] = 20 mM) on the model water-soluble anticancer drug doxorubicin hydrochloride (DOX) was probed by employing an arsenal of nuclear magnetic resonance (NMR) approaches. The salient feature of the present study includes the significant interaction of DOX with [BMIM][OSU], whereas the lack of such an interaction with [BMIM][Cl] is gauged by 1H NMR translation self-diffusometry and is further corroborated by 13C chemical shift perturbation. The two-step model was utilized to estimate the bound fraction (pb) and equivalent partition coefficient (K) of DOX with [BMIM][OSU]. A combination of selective and nonselective spin-lattice relaxation rates (R1SEL and R1NS, respectively) enables to gauze the significant interaction of DOX with [BMIM][OSU] over [BMIM][Cl]. Furthermore, 1D transient and truncated driven nuclear Overhauser enhancement (NOE) data analyses in the initial rate limit permits the evaluation of the cross-relaxation efficacy of DOX with the investigated ILs. An Arrhenius-type temperature dependence of the drug's self-diffusion was observed for DOX, DOX-[BMIM][OSU], and DOX-[BMIM][Cl] aqueous mixtures and the corresponding activation energies were evaluated.
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Affiliation(s)
- Sanjana Hari Krishnan
- NMR, Centre for Analysis, Testing, Evaluation & Reporting Services (CATERS), CSIR-Central Leather Research Institute, Chennai 600020, India
| | - Vaishnavi Devi D Eswaran
- NMR, Centre for Analysis, Testing, Evaluation & Reporting Services (CATERS), CSIR-Central Leather Research Institute, Chennai 600020, India
| | - Nitin Prakash Lobo
- NMR, Centre for Analysis, Testing, Evaluation & Reporting Services (CATERS), CSIR-Central Leather Research Institute, Chennai 600020, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
| | - Bandaru V N Phani Kumar
- NMR, Centre for Analysis, Testing, Evaluation & Reporting Services (CATERS), CSIR-Central Leather Research Institute, Chennai 600020, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
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10
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Han Q, Su Y, Smith KM, Binns J, Drummond CJ, Darmanin C, Greaves TL. Probing ion-binding at a protein interface: Modulation of protein properties by ionic liquids. J Colloid Interface Sci 2023; 650:1393-1405. [PMID: 37480654 DOI: 10.1016/j.jcis.2023.07.045] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2023] [Revised: 07/05/2023] [Accepted: 07/08/2023] [Indexed: 07/24/2023]
Abstract
Ions are important to modulate protein properties, including solubility and stability, through specific ion effects. Ionic liquids (ILs) are designer salts with versatile ion combinations with great potential to control protein properties. Although protein-ion binding of common metals is well-known, the IL effect on proteins is not well understood. Here, we employ the model protein lysozyme in dilute and concentrated IL solutions to determine the specific ion binding effect on protein phase behaviour, activity, size and conformational change, aggregation and intermolecular interactions. A combination of spectroscopic techniques, activity assays, small-angle X-ray scattering, and crystallography highlights that ILs, particularly their anions, bind to specific sites in the protein hydration layer via polar contacts on charged, polar and aromatic residues. The specific ion binding can induce more flexible loop regions in lysozyme, while the ion binding in the bulk phase can be more dynamic in solution. Overall, the protein behaviour in ILs depends on the net effect of nonspecific interactions and specific ion binding. Compared to formate, the nitrate anion induced high protein solubility, low activity, elongated shape and aggregation, which is largely owing to its higher propensity for ion binding. These findings provide new insights into protein-IL binding interactions and using ILs to modulate protein properties.
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Affiliation(s)
- Qi Han
- School of Science, STEM College, RMIT University, Melbourne, VIC 3000, Australia
| | - Yuyu Su
- School of Engineering, STEM College, RMIT University, Melbourne, VIC 3000, Australia
| | - Kate M Smith
- Australian Synchrotron, Australian Nuclear Science and Technology Organisation, 800 Blackburn Road, Clayton, VIC 3168, Australia; Swiss Light Source, Paul Scherrer Institute, Forschungsstrasse 111, Villigen-PSI, 5232 Villigen, Switzerland
| | - Jack Binns
- School of Science, STEM College, RMIT University, Melbourne, VIC 3000, Australia
| | - Calum J Drummond
- School of Science, STEM College, RMIT University, Melbourne, VIC 3000, Australia.
| | - Connie Darmanin
- La Trobe Institute for Molecular Science, Department of Mathematical and Physical Sciences, School of Computing Engineering and Mathematical Science, La Trobe University, Bundoora, VIC 3086, Australia.
| | - Tamar L Greaves
- School of Science, STEM College, RMIT University, Melbourne, VIC 3000, Australia.
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11
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Han Q, El Mohamad M, Brown S, Zhai J, Rosado CJ, Shen Y, Blanch EW, Drummond CJ, Greaves TL. Small angle X-ray scattering investigation of ionic liquid effect on the aggregation behavior of globular proteins. J Colloid Interface Sci 2023; 648:376-388. [PMID: 37302221 DOI: 10.1016/j.jcis.2023.05.130] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2023] [Revised: 05/02/2023] [Accepted: 05/18/2023] [Indexed: 06/13/2023]
Abstract
Globular proteins are well-folded model proteins, where ions can substantially influence their structure and aggregation. Ionic liquids (ILs) are salts in the liquid state with versatile ion combinations. Understanding the IL effect on protein behavior remains a major challenge. Here, we employed small angle X-ray scattering to investigate the effect of aqueous ILs on the structure and aggregation of globular proteins, namely, hen egg white lysozyme (Lys), human lysozyme (HLys), myoglobin (Mb), β-lactoglobulin (βLg), trypsin (Tryp) and superfolder green fluorescent protein (sfGFP). The ILs contain ammonium-based cations paired with the mesylate, acetate or nitrate anion. Results showed that only Lys was monomeric, whereas the other proteins formed small or large aggregates in buffer. Solutions with over 17 mol% IL resulted in significant changes in the protein structure and aggregation. The Lys structure was expanded at 1 mol% but compact at 17 mol% with structural changes in loop regions. HLys formed small aggregates, with the IL effect similar to Lys. Mb and βLg mostly had distinct monomer and dimer distributions depending on IL type and IL concentration. Complex aggregation was noted for Tryp and sfGFP. While the anion had the largest ion effect, changing the cation also induced the structural expansion and protein aggregation.
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Affiliation(s)
- Qi Han
- School of Science, STEM College, RMIT University, Melbourne, VIC 3000, Australia.
| | - Mohamad El Mohamad
- School of Science, STEM College, RMIT University, Melbourne, VIC 3000, Australia
| | - Stuart Brown
- School of Science, STEM College, RMIT University, Melbourne, VIC 3000, Australia
| | - Jiali Zhai
- School of Science, STEM College, RMIT University, Melbourne, VIC 3000, Australia
| | - Carlos J Rosado
- Department of Diabetes, Central Clinical School, Monash University, VIC 3004, Australia; Department of Biochemistry, Monash University, VIC 3800, Australia
| | - Yi Shen
- School of Chemical and Biomolecular Engineering, The University of Sydney, Sydney, NSW 2006, Australia; The University of Sydney Nano Institute, The University of Sydney, Sydney, NSW 2006, Australia
| | - Ewan W Blanch
- School of Science, STEM College, RMIT University, Melbourne, VIC 3000, Australia
| | - Calum J Drummond
- School of Science, STEM College, RMIT University, Melbourne, VIC 3000, Australia
| | - Tamar L Greaves
- School of Science, STEM College, RMIT University, Melbourne, VIC 3000, Australia.
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12
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Laird NZ, Phruttiwanichakun P, Zhu M, Banas JA, Elangovan S, Salem AK. Choline and geranic acid (CAGE) ionic liquids inhibit both elastase activity and growth of oral bacteria. J Biomed Mater Res A 2023; 111:682-687. [PMID: 36565165 DOI: 10.1002/jbm.a.37485] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2022] [Revised: 12/07/2022] [Accepted: 12/10/2022] [Indexed: 12/25/2022]
Abstract
Choline and geranic acid (CAGE) ionic liquids have recently been shown to have applications in the delivery of macromolecules and poorly soluble drugs across epithelial barriers and in bacterial growth inhibition. Ionic liquids are known to denature proteins by the disruption of forces that guide natural protein folding, and the inflammatory enzyme elastase was recently shown to be inhibited by a variety of ionic liquids other than CAGE. Inhibition of collagenolytic enzymes, including elastase, has been shown to improve outcomes in cases of periodontitis via amelioration of periodontal inflammation and alveolar bone resorption. In this study, we investigated whether CAGE prepared with varying stoichiometries was able to inhibit elastase at varying concentrations and whether these CAGE formulations could inhibit the growth of key pathogenic bacterial species associated with oral health conditions. We found that CAGE was capable of inhibiting both porcine elastase and human neutrophil elastase at concentrations as low as 5 mM, and that CAGE formulations were effective at inhibiting the growth of all tested pathogenic oral bacteria. The inhibition of elastase by CAGE may be a mechanism by which CAGE can improve outcomes in periodontitis independent from CAGE's known antibacterial properties.
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Affiliation(s)
- Noah Z Laird
- Department of Pharmaceutical Sciences and Experimental Therapeutics, College of Pharmacy, University of Iowa, Iowa City, Iowa, USA
| | - Pornpoj Phruttiwanichakun
- Department of Pharmaceutical Sciences and Experimental Therapeutics, College of Pharmacy, University of Iowa, Iowa City, Iowa, USA
| | - Min Zhu
- Iowa Institute for Oral Health Research, University of Iowa College of Dentistry, Iowa City, Iowa, USA
| | - Jeffrey A Banas
- Iowa Institute for Oral Health Research, University of Iowa College of Dentistry, Iowa City, Iowa, USA
| | - Satheesh Elangovan
- Department of Periodontics, College of Dentistry and Dental Clinics, The University of Iowa, Iowa City, Iowa, USA
| | - Aliasger K Salem
- Department of Pharmaceutical Sciences and Experimental Therapeutics, College of Pharmacy, University of Iowa, Iowa City, Iowa, USA
- Department of Periodontics, College of Dentistry and Dental Clinics, The University of Iowa, Iowa City, Iowa, USA
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13
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Judy E, Kishore N. Prevention of insulin fibrillation by biocompatible choline-amino acid based ionic liquids: Biophysical insights. Biochimie 2023; 207:20-32. [PMID: 36471542 DOI: 10.1016/j.biochi.2022.11.013] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2022] [Revised: 11/21/2022] [Accepted: 11/22/2022] [Indexed: 11/27/2022]
Abstract
We have synthesized biocompatible ionic liquids (ILs) with choline as cation and amino acids as anions to explore their potential towards prevention of fibrillation in insulin and the obtain corresponding mechanistic insights. This has been achieved by examining the effect of these ILs on insulin at the nucleation, elongation and maturation stages of the fibrillation process. A combination of high sensitivity isothermal titration calorimetry (ITC) and differential scanning calorimetry (DSC) have been employed along with spectroscopy and microscopy to evaluate interaction of the ILs at each stage of fibrillation quantitatively. Choline glycinate is observed to provide maximum stabilization to insulin compared to that provided by choline prolinate, choline leucinate, and choline valinate. This increased thermal stabilization has direct correlation with the extent of reduction in the fibrillation of insulin by ILs determined using Thioflavin T and 8-anilinonaphthalene sulfonate based fluorescence assays. ITC has permitted understanding nature of interaction of the ILs with the protein at different fibrillation stages in terms of standard molar enthalpy of interaction whereas DSC has enabled understanding the extent of reduction in thermal stability of the protein at these stages. These ILs are able to completely inhibit formation of insulin aggregates at a concentration of 50 mM. Stabilization of proteins by ILs could be explained based on involvement of preferential hydration process. The work provides biocompatible IL based approach in achieving stability and prevention of fibrillation in insulin.
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Affiliation(s)
- Eva Judy
- Department of Chemistry, Indian Institute of Technology Bombay, Powai, Mumbai, 400076, India
| | - Nand Kishore
- Department of Chemistry, Indian Institute of Technology Bombay, Powai, Mumbai, 400076, India.
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14
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Ravikanth Reddy R, Saha D, Pan A, Aswal VK, Mati SS, Moulik SP, Phani Kumar BVN. pH-Induced Biophysical Perspectives of Binding of Surface-Active Ionic Liquid [BMIM][OSU] with HSA and Dynamics of the Formed Complex. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2023; 39:3729-3741. [PMID: 36857652 DOI: 10.1021/acs.langmuir.2c03472] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
The influence of pH on the human serum albumin (HSA) interaction with ionic liquid (IL)1-butyl 3-methylimidazolium octyl sulfate ([BMIM][OSU]) at its sub-micellar concentration of 5 mM (well below CMC ∼31 mM at 25 °C) in aqueous solution has been monitored employing different methods, viz., circular dichroism (CD), fluorescence, electrokinetic determination of the zeta potential (ZP), nuclear magnetic resonance (NMR), small-angle neutron scattering (SANS), and molecular docking (MD). CD analysis indicated a noticeable reduction of the α-helical content of HSA by IL at pH 3. A significant interaction of the anionic part of IL with HSA was evident from the 1H chemical shifts and saturation transfer difference (STD) NMR. A strong binding between IL and HSA was observed at pH 3 relative to pH 5, revealing the importance of electrostatic and hydrophobic interactions assessed from global binding affinities and molecular correlation times derived from STD NMR and a combined selective/nonselective spin-relaxation analysis, respectively. ZP data supported the electrostatic interaction between HSA and the anionic part of IL. The nature of IL self-diffusion with HSA was assessed from the translational self-diffusion coefficients by pulse field gradient NMR. SANS results revealed the formation of prolate ellipsoidal geometry of the IL-HSA complex. MD identified the preferential binding sites of IL to the tryptophan centers on HSA. The association of IL with HSA was supported by fluorescence measurements, in addition to the structural changes that occurred in the protein by the interaction with IL. The anionic part of IL contributed a major interaction with HSA at the pH levels of study (3, 5, 8, and 11.4); at pH > 8 (effectively 11.4), the protein also interacted weakly with the cationic component of IL.
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Affiliation(s)
- R Ravikanth Reddy
- NMR, Centre for Analysis, Testing, Evaluation & Reporting Services (CATERS), CSIR-Central Leather Research Institute, Chennai 600020, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
| | - Debasish Saha
- Solid State Physics Division, Bhabha Atomic Research Centre, Trombay, Mumbai 400085, India
| | - Animesh Pan
- Department of Chemical Engineering, University of Rhode Island, 2 East Alumni Avenue, Kingston, Rhode Island 02881, United States
| | - Vinod Kumar Aswal
- Solid State Physics Division, Bhabha Atomic Research Centre, Trombay, Mumbai 400085, India
| | - Soumya Sundar Mati
- Department of Chemistry, Government General Degree College, Keshiary, Singur 721135, West Bengal, India
| | - Satya Priya Moulik
- Centre for Surface Science, Department of Chemistry, Jadavpur University, Kolkata 700032, India
| | - Bandaru V N Phani Kumar
- NMR, Centre for Analysis, Testing, Evaluation & Reporting Services (CATERS), CSIR-Central Leather Research Institute, Chennai 600020, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
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15
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Haskew MJ, Nikman S, O'Sullivan CE, Galeb HA, Halcovitch NR, Hardy JG, Murphy ST. Mg/Zn metal‐air primary batteries using silk fibroin‐ionic liquid polymer electrolytes. NANO SELECT 2022. [DOI: 10.1002/nano.202200200] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
Affiliation(s)
- Mathew J. Haskew
- School of Engineering Lancaster University Bailrigg Lancaster UK
- Department of Chemistry Lancaster University Faraday Building Bailrigg Lancaster UK
| | - Shahin Nikman
- Department of Chemistry Lancaster University Faraday Building Bailrigg Lancaster UK
| | - Carys E. O'Sullivan
- Department of Chemistry Lancaster University Faraday Building Bailrigg Lancaster UK
| | - Hanaa A. Galeb
- Department of Chemistry Lancaster University Faraday Building Bailrigg Lancaster UK
- Department of Chemistry Science and Arts College, Rabigh Campus King Abdulaziz University Jeddah Saudi Arabia
| | - Nathan R. Halcovitch
- Department of Chemistry Lancaster University Faraday Building Bailrigg Lancaster UK
| | - John G. Hardy
- Department of Chemistry Lancaster University Faraday Building Bailrigg Lancaster UK
- Materials Science Institute Lancaster University Faraday Building, John Creed Avenue Bailrigg Lancaster UK
| | - Samuel T. Murphy
- School of Engineering Lancaster University Bailrigg Lancaster UK
- Materials Science Institute Lancaster University Faraday Building, John Creed Avenue Bailrigg Lancaster UK
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16
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Ionic liquids as protein stabilizers for biological and biomedical applications: A review. Biotechnol Adv 2022; 61:108055. [DOI: 10.1016/j.biotechadv.2022.108055] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2022] [Revised: 10/13/2022] [Accepted: 10/23/2022] [Indexed: 11/22/2022]
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17
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Rani A, Sindhu A, Yao TJ, Horng JC, Venkatesu P. Profiling the impact of choline chloride on the self-assembly of collagen mimetic peptide (Pro-Hyp-Gly)10. Process Biochem 2022. [DOI: 10.1016/j.procbio.2022.06.024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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18
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Shmool T, Martin LK, Matthews RP, Hallett JP. Ionic Liquid-Based Strategy for Predicting Protein Aggregation Propensity and Thermodynamic Stability. JACS AU 2022; 2:2068-2080. [PMID: 36186557 PMCID: PMC9516703 DOI: 10.1021/jacsau.2c00356] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/17/2022] [Revised: 08/17/2022] [Accepted: 08/18/2022] [Indexed: 05/26/2023]
Abstract
Novel drug candidates are continuously being developed to combat the most life-threatening diseases; however, many promising protein therapeutics are dropped from the pipeline. During biological and industrial processes, protein therapeutics are exposed to various stresses such as fluctuations in temperature, solvent pH, and ionic strength. These can lead to enhanced protein aggregation propensity, one of the greatest challenges in drug development. Recently, ionic liquids (ILs), in particular, biocompatible choline chloride ([Cho]Cl)-based ILs, have been used to hinder stress-induced protein conformational changes. Herein, we develop an IL-based strategy to predict protein aggregation propensity and thermodynamic stability. We examine three key variables influencing protein misfolding: pH, ionic strength, and temperature. Using dynamic light scattering, zeta potential, and variable temperature circular dichroism measurements, we systematically evaluate the structural, thermal, and thermodynamic stability of fresh immunoglobin G4 (IgG4) antibody in water and 10, 30, and 50 wt % [Cho]Cl. Additionally, we conduct molecular dynamics simulations to examine IgG4 aggregation propensity in each system and the relative favorability of different [Cho]Cl-IgG4 packing interactions. We re-evaluate each system following 365 days of storage at 4 °C and demonstrate how to predict the thermodynamic properties and protein aggregation propensity over extended storage, even under stress conditions. We find that increasing [Cho]Cl concentration reduced IgG4 aggregation propensity both fresh and following 365 days of storage and demonstrate the potential of using our predictive IL-based strategy and formulations to radically increase protein stability and storage.
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Affiliation(s)
- Talia
A. Shmool
- Department
of Chemical Engineering, Imperial College
London, South Kensington Campus, London SW7 2AZ, U.K.
| | - Laura K. Martin
- Department
of Engineering Science, University of Oxford, Parks Road, Oxford OX1 3PJ, U.K.
| | - Richard P. Matthews
- Department
of Chemical Engineering, Imperial College
London, South Kensington Campus, London SW7 2AZ, U.K.
| | - Jason P. Hallett
- Department
of Chemical Engineering, Imperial College
London, South Kensington Campus, London SW7 2AZ, U.K.
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19
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Hoppe J, Byzia E, Szymańska M, Drozd R, Smiglak M. Acceleration of lactose hydrolysis using beta-galactosidase and deep eutectic solvents. Food Chem 2022; 384:132498. [DOI: 10.1016/j.foodchem.2022.132498] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2021] [Revised: 12/21/2021] [Accepted: 02/15/2022] [Indexed: 12/25/2022]
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20
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Himani, Pratap Singh Raman A, Babu Singh M, Jain P, Chaudhary P, Bahadur I, Lal K, Kumar V, Singh P. An Update on Synthesis, Properties, Applications and Toxicity of the ILs. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2022.119989] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/16/2022]
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21
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Kobayashi T, Smiatek J, Fyta M. Probing the distribution of ionic liquid mixtures at charged and neutral interfaces via simulations and lattice-gas theory. Phys Chem Chem Phys 2022; 24:16471-16483. [PMID: 35766260 DOI: 10.1039/d2cp01346k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Room temperature ionic liquid solutions confined between neutral and charged surfaces are investigated by means of atomistic Molecular Dynamics simulations. We study 1-ethyl-3-methylimidazolium dicyanamide ([EMIm]+[DCA]-) in water or dimethylsulfoxide (DMSO) mixtures in confinement between two interfaces. The analysis is based on the comparison of the molecular species involved and the charged state of the surfaces. Focus is given on the influence of different water/DMSO concentrations on the microstructuring and accumulation of each species. Thermodynamic aspects, such as the entropic contributions in the observed trends are obtained from the simulations using a lattice-gas theory. The results clearly underline the differences in these properties for the water and DMSO mixtures and unravel the underlying mechanisms and inherent details. We were able to pinpoint the importance of the size and the relative permittivity of the molecules in guiding their microstructuring in the vicinity of the surfaces, as well as their interactions with the latter, i.e. the solute-surface interactions. The influence of water and DMSO on the overscreening at charged interfaces is also discussed. The analysis on the molecular accumulation at the interfaces allows us to predict whether the accumulation is entropy or enthalpy driven, which has an impact in the removal of the molecular species from the surfaces. We discuss the impact of this work in providing an essential understanding towards a careful design of electrochemical elements.
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Affiliation(s)
- Takeshi Kobayashi
- Institute for Computational Physics, University of Stuttgart, Allmandring 3, 70569 Stuttgart, Germany.
| | - Jens Smiatek
- Institute for Computational Physics, University of Stuttgart, Allmandring 3, 70569 Stuttgart, Germany.
| | - Maria Fyta
- Institute for Computational Physics, University of Stuttgart, Allmandring 3, 70569 Stuttgart, Germany.
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22
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Stevens JC, Shi J. Modifying Surface Charges of a Thermophilic Laccase Toward Improving Activity and Stability in Ionic Liquid. Front Bioeng Biotechnol 2022; 10:880795. [PMID: 35757805 PMCID: PMC9213733 DOI: 10.3389/fbioe.2022.880795] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2022] [Accepted: 04/28/2022] [Indexed: 11/13/2022] Open
Abstract
The multicopper oxidase enzyme laccase holds great potential to be used for biological lignin valorization alongside a biocompatible ionic liquid (IL). However, the IL concentrations required for biomass pretreatment severely inhibit laccase activity. Due to their ability to function in extreme conditions, many thermophilic enzymes have found use in industrial applications. The thermophilic fungal laccase from Myceliophthora thermophila was found to retain high levels of activity in the IL [C2C1Im][EtSO4], making it a desirable biocatalyst to be used for lignin valorization. In contrast to [C2C1Im][EtSO4], the biocompatibility of [C2C1Im][OAC] with the laccase was markedly lower. Severe inhibition of laccase activity was observed in 15% [C2C1Im][OAc]. In this study, the enzyme surface charges were modified via acetylation, succinylation, cationization, or neutralization. However, these modifications did not show significant improvement in laccase activity or stability in [C2C1Im][OAc]. Docking simulations show that the IL docks close to the T1 catalytic copper, likely interfering with substrate binding. Although additional docking locations for [OAc]- are observed after making enzyme modifications, it does not appear that these locations play a role in the inhibition of enzyme activity. The results of this study could guide future enzyme engineering efforts by showing that the inhibition mechanism of [C2C1Im][OAc] toward M. thermophila laccase is likely not dependent upon the IL interacting with the enzyme surface.
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Affiliation(s)
- Joseph C Stevens
- Biosystems and Agricultural Engineering, University of Kentucky, Lexington, KY, United States
| | - Jian Shi
- Biosystems and Agricultural Engineering, University of Kentucky, Lexington, KY, United States
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23
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Zhang Z, Wang H, Nie Y, Zhang X, Ji X. Natural Deep Eutectic Solvents Enhanced Electro-Enzymatic Conversion of CO2 to Methanol. Front Chem 2022; 10:894106. [PMID: 35692689 PMCID: PMC9184674 DOI: 10.3389/fchem.2022.894106] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2022] [Accepted: 04/07/2022] [Indexed: 11/27/2022] Open
Abstract
Electro-enzymatic conversion of CO2 offers a promising solution for CO2 utilization, while the conversion rate and efficiency were disappointing. To address the challenge, four kinds of natural deep eutectic solvents (NADES) with desirable biocompatibility were developed for the first time and used as the co-electrolyte in the electro-enzymatic conversion of CO2. As a result, the SerGly-based solution presents high CO2 solubility and high electrocatalytic activity, compared to the conventional buffer. By applying SerGly in the electro-enzymatic conversion of CO2, the yield of the product (methanol) is two times higher than that in the Tris-HCl buffer (0.22 mM) and 16 times higher than the control reaction.
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Affiliation(s)
- Zhibo Zhang
- Energy Engineering, Division of Energy Science, Luleå University of Technology, Luleå, Sweden
- *Correspondence: Zhibo Zhang, ; Xiaoyan Ji,
| | - Hui Wang
- State Key Laboratory of Materials-Oriented Chemical Engineering, Nanjing Tech University, Nanjing, China
| | - Yi Nie
- Zhengzhou Institute of Emerging Industrial Technology, Zhengzhou, China
- Beijing Key Laboratory of Ionic Liquids Clean Process, CAS Key Laboratory of Green Process and Engineering, State Key Laboratory of Multiphase Complex Systems, Institute of Process Engineering, Chinese Academy of Sciences, Beijing, China
| | - Xiangping Zhang
- Beijing Key Laboratory of Ionic Liquids Clean Process, CAS Key Laboratory of Green Process and Engineering, State Key Laboratory of Multiphase Complex Systems, Institute of Process Engineering, Chinese Academy of Sciences, Beijing, China
| | - Xiaoyan Ji
- Energy Engineering, Division of Energy Science, Luleå University of Technology, Luleå, Sweden
- *Correspondence: Zhibo Zhang, ; Xiaoyan Ji,
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24
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Lee PY, Singh O, Bermudez H, Matysiak S. Recovery of enzyme structure and activity following rehydration from ionic liquid. Phys Chem Chem Phys 2022; 24:10365-10372. [PMID: 35438103 DOI: 10.1039/d2cp00608a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Long-term preservation of proteins at room temperature continues to be a major challenge. Towards using ionic liquids (ILs) to address this challenge, here we present a combination of experiments and simulations to investigate changes in lysozyme upon rehydration from IL mixtures using two imidazolium-based ILs (1-ethyl-3-methylimidazolium ethylsulfate, [EMIM][EtSO4] and 1-ethyl-3-methylimidazolium diethylphosphate, [EMIM][Et2PO4]). Various spectroscopic experiments and molecular dynamics simulations are performed to ascertain the structure and activity of lysozyme. Circular dichroism spectroscopy confirms that lysozyme maintains its secondary structure upon rehydration, even after 295 days. Increasing the IL concentration decreases the activity of lysozyme and is ultimately quenched at sufficiently high IL concentrations, but the rehydration of lysozyme from high IL concentrations completely restores its activity. Such rehydration occurs in the most common lysozyme activity assay, but without careful attention, this effect on the IL concentration can be overlooked. From simulations we observe occupation of [EMIM+] ions near the vicinity of the active site and the ligand-lysozyme complex is less stable in the presence of ILs, which results in the reduction of lysozyme activity. Upon rehydration, fast leaving of [EMIM+] is observed and the availability of active site is restored. In addition, suppression of structural fluctuations is also observed when in high IL concentrations, which also explains the decrease of activity. This structure suppression is recovered after undergoing rehydration. The return of native protein structure and activity indicates that after rehydration lysozyme returns to its original state. Our results also suggest a simple route to protein recovery following extended storage.
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Affiliation(s)
- Pei-Yin Lee
- Chemical Physics Program, Institute for Physical Science and Technology, University of Maryland, College Park, USA
| | - Onkar Singh
- Department of Polymer Science and Engineering, University of Massachusetts, Amherst, MA, USA.
| | - Harry Bermudez
- Department of Polymer Science and Engineering, University of Massachusetts, Amherst, MA, USA.
| | - Silvina Matysiak
- Fischell Department of Bioengineering, University of Maryland, College Park, USA.
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25
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Effect of Thiouronium-Based Ionic Liquids on the Formation and Growth of CO 2 (sI) and THF (sII) Hydrates. Int J Mol Sci 2022; 23:ijms23063292. [PMID: 35328713 PMCID: PMC8955390 DOI: 10.3390/ijms23063292] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2022] [Revised: 03/15/2022] [Accepted: 03/17/2022] [Indexed: 11/21/2022] Open
Abstract
In this manuscript, two thiouronium-based ionic liquids (ILs), namely 2-ethylthiouronium bromide [C2th][Br] and 2-(hydroxyethyl)thiouronium bromide [C2OHth][Br], were tested at different concentrations (1 and 10 wt%) for their ability to affect CO2 (sI) and tetrahydrofuran (THF) (sII) hydrate formation and growth. Two different methods were selected to perform a thermodynamic and kinetic screening of the CO2 hydrates using a rocking cell apparatus: (i) an isochoric pressure search method to map the hydrate phase behavior and (ii) a constant ramping method to obtain the hydrate formation and dissociation onset temperatures. A THF hydrate crystal growth method was also used to determine the effectiveness of the ILs in altering the growth of type sII hydrates at atmospheric pressure. Hydrate–liquid–vapor equilibrium measurements revealed that both ILs act as thermodynamic inhibitors at 10 wt% and suppress the CO2 hydrate equilibria ~1.2 °C. The constant ramping methodology provides interesting results and reveals that [C2OHth][Br] suppresses the nucleation onset temperature and delays the decomposition onset temperatures of CO2 hydrates at 1 wt%, whereas suppression by [C2th][Br] was not statistically significant. Normalized pressure plots indicate that the presence of the ILs slowed down the growth as well as the decomposition rates of CO2 hydrates due to the lower quantity of hydrate formed in the presence of 1 wt% ILs. The ILs were also found to be effective in inhibiting the growth of type sII THF hydrates without affecting their morphology. Therefore, the studied thiouronium ILs can be used as potential dual-function hydrate inhibitors. This work also emphasizes the importance of the methods and conditions used to screen an additive for altering hydrate formation and growth.
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26
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Han Q, Brown SJ, Drummond CJ, Greaves TL. Protein aggregation and crystallization with ionic liquids: Insights into the influence of solvent properties. J Colloid Interface Sci 2022; 608:1173-1190. [PMID: 34735853 DOI: 10.1016/j.jcis.2021.10.087] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2021] [Revised: 10/13/2021] [Accepted: 10/15/2021] [Indexed: 12/13/2022]
Abstract
Ionic liquids (ILs) have been used in solvents for proteins in many applications, including biotechnology, pharmaceutics, and medicine due to their tunable physicochemical and biological properties. Protein aggregation is often undesirable, and predominantly occurs during bioprocesses, while the aggregation process can be reversible or irreversible and the aggregates formed can be native/non-native and soluble/insoluble. Recent studies have clearly identified key properties of ILs and IL-water mixtures related to protein performance, suggesting the use of the tailorable properties of ILs to inhibit protein aggregation, to promote protein crystallization, and to control protein aggregation pathways. This review discusses the critical properties of IL and IL-water mixtures and presents the latest understanding of the protein aggregation pathways and the development of IL systems that affect or control the protein aggregation process. Through this feature article, we hope to inspire further advances in understanding and new approaches to controlling protein behavior to optimize bioprocesses.
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Affiliation(s)
- Qi Han
- School of Science, STEM College, RMIT University, 124 La Trobe Street, Melbourne, VIC 3000, Australia
| | - Stuart J Brown
- School of Science, STEM College, RMIT University, 124 La Trobe Street, Melbourne, VIC 3000, Australia
| | - Calum J Drummond
- School of Science, STEM College, RMIT University, 124 La Trobe Street, Melbourne, VIC 3000, Australia
| | - Tamar L Greaves
- School of Science, STEM College, RMIT University, 124 La Trobe Street, Melbourne, VIC 3000, Australia.
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27
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Intermolecular interactions between imidazolium- and cholinium-based ionic liquids and lysozyme: Regularities and peculiarities. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2021.118426] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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28
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Gavhane RJ, Bhosale BD, Dagade DH. Thermodynamic study of interaction effects in aqueous solutions of purine and pyrimidine nucleobases ionic liquids at 298.15 K. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2021.118362] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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29
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Protic Ionic Liquid Cation Alkyl Chain Length Effect on Lysozyme Structure. Molecules 2022; 27:molecules27030984. [PMID: 35164252 PMCID: PMC8839406 DOI: 10.3390/molecules27030984] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2021] [Revised: 01/11/2022] [Accepted: 01/12/2022] [Indexed: 11/16/2022] Open
Abstract
Solvents that stabilize protein structures can improve and expand their biochemical applications, particularly with the growing interest in biocatalytic-based processes. Aiming to select novel solvents for protein stabilization, we explored the effect of alkylammonium nitrate protic ionic liquids (PILs)-water mixtures with increasing cation alkyl chain length on lysozyme conformational stability. Four PILs were studied, that is, ethylammonium nitrate (EAN), butylammonium nitrate (BAN), hexylammonium nitrate (HAN), and octylammonium nitrate (OAN). The surface tension, viscosity, and density of PIL-water mixtures at low to high concentrations were firstly determined, which showed that an increasing cation alkyl chain length caused a decrease in the surface tension and density as well as an increase in viscosity for all PIL solutions. Small-angle X-ray scattering (SAXS) was used to investigate the liquid nanostructure of the PIL solutions, as well as the overall size, conformational flexibility and changes to lysozyme structure. The concentrated PILs with longer alkyl chain lengths, i.e., over 10 mol% butyl-, 5 mol% hexyl- and 1 mol% octylammonium cations, possessed liquid nanostructures. This detrimentally interfered with solvent subtraction, and the more structured PIL solutions prevented quantitative SAXS analysis of lysozyme structure. The radius of gyration (Rg) of lysozyme in the less structured aqueous PIL solutions showed little change with up to 10 mol% of PIL. Kratky plots, SREFLEX models, and FTIR data showed that the protein conformation was maintained at a low PIL concentration of 1 mol% and lower when compared with the buffer solution. However, 50 mol% EAN and 5 mol% HAN significantly increased the Rg of lysozyme, indicating unfolding and aggregation of lysozyme. The hydrophobic interaction and liquid nanostructure resulting from the increased cation alkyl chain length in HAN likely becomes critical. The impact of HAN and OAN, particularly at high concentrations, on lysozyme structure was further revealed by FTIR. This work highlights the negative effect of a long alkyl chain length and high concentration of PILs on lysozyme structural stability.
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Wu H, Ghaani MR, Nandi PK, English NJ. Investigation of Dipolar Response of the Hydrated Hen-Egg White Lysozyme Complex under Externally Applied Electric Fields: Insights from Non-equilibrium Molecular Dynamics. J Phys Chem B 2022; 126:858-868. [PMID: 35060735 PMCID: PMC8819654 DOI: 10.1021/acs.jpcb.1c07096] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- HaoLun Wu
- School of Chemical & Bioprocess Engineering, University College Dublin, Belfield, Dublin 4, Ireland
| | - Mohammad Reza Ghaani
- School of Chemical & Bioprocess Engineering, University College Dublin, Belfield, Dublin 4, Ireland
| | - Prithwish K. Nandi
- School of Chemical & Bioprocess Engineering, University College Dublin, Belfield, Dublin 4, Ireland
- Irish Centre for High-End Computing, Trinity Enterprise Centre, Pearse Street, Dublin 2, Ireland
| | - Niall J. English
- School of Chemical & Bioprocess Engineering, University College Dublin, Belfield, Dublin 4, Ireland
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31
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Farahani RK, Bagheri A. The interaction of the surface active ionic liquid with nonionic surfactants (Triton X-100 and Triton X-405) in aqueous solution by using tensiometry method. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2021.118260] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
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32
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Bardak F, Bardak C, Karaca C, Kose E, Bilgili S, Atac A. Anionic dependency of electronic and nonlinear optical properties of ionic liquids. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2021.117030] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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33
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Han Q, Binns J, Zhai J, Guo X, Ryan TM, Drummond CJ, Greaves TL. Insights on lysozyme aggregation in protic ionic liquid solvents by using small angle X-ray scattering and high throughput screening. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2021.117816] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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34
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Protein Modifications: From Chemoselective Probes to Novel Biocatalysts. Catalysts 2021. [DOI: 10.3390/catal11121466] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
Chemical reactions can be performed to covalently modify specific residues in proteins. When applied to native enzymes, these chemical modifications can greatly expand the available set of building blocks for the development of biocatalysts. Nucleophilic canonical amino acid sidechains are the most readily accessible targets for such endeavors. A rich history of attempts to design enhanced or novel enzymes, from various protein scaffolds, has paved the way for a rapidly developing field with growing scientific, industrial, and biomedical applications. A major challenge is to devise reactions that are compatible with native proteins and can selectively modify specific residues. Cysteine, lysine, N-terminus, and carboxylate residues comprise the most widespread naturally occurring targets for enzyme modifications. In this review, chemical methods for selective modification of enzymes will be discussed, alongside with examples of reported applications. We aim to highlight the potential of such strategies to enhance enzyme function and create novel semisynthetic biocatalysts, as well as provide a perspective in a fast-evolving topic.
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Giri P, Pagar AD, Patil MD, Yun H. Chemical modification of enzymes to improve biocatalytic performance. Biotechnol Adv 2021; 53:107868. [PMID: 34774927 DOI: 10.1016/j.biotechadv.2021.107868] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2021] [Revised: 11/02/2021] [Accepted: 11/05/2021] [Indexed: 12/23/2022]
Abstract
Improvement in intrinsic enzymatic features is in many instances a prerequisite for the scalable applicability of many industrially important biocatalysts. To this end, various strategies of chemical modification of enzymes are maturing and now considered as a distinct way to improve biocatalytic properties. Traditional chemical modification methods utilize reactivities of amine, carboxylic, thiol and other side chains originating from canonical amino acids. On the other hand, noncanonical amino acid- mediated 'click' (bioorthogoal) chemistry and dehydroalanine (Dha)-mediated modifications have emerged as an alternate and promising ways to modify enzymes for functional enhancement. This review discusses the applications of various chemical modification tools that have been directed towards the improvement of functional properties and/or stability of diverse array of biocatalysts.
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Affiliation(s)
- Pritam Giri
- Department of Systems Biotechnology, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Republic of Korea
| | - Amol D Pagar
- Department of Systems Biotechnology, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Republic of Korea
| | - Mahesh D Patil
- Department of Nanomaterials and Application Technology, Center of Innovative and Applied Bioprocessing (CIAB), Sector-81, PO Manauli, S.A.S. Nagar, Mohali 140306, Punjab, India
| | - Hyungdon Yun
- Department of Systems Biotechnology, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Republic of Korea.
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Curreri AM, Mitragotri S, Tanner EEL. Recent Advances in Ionic Liquids in Biomedicine. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2021; 8:e2004819. [PMID: 34245140 PMCID: PMC8425867 DOI: 10.1002/advs.202004819] [Citation(s) in RCA: 81] [Impact Index Per Article: 27.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/15/2020] [Revised: 03/04/2021] [Indexed: 05/04/2023]
Abstract
The use of ionic liquids and deep eutectic solvents in biomedical applications has grown dramatically in recent years due to their unique properties and their inherent tunability. This review will introduce ionic liquids and deep eutectics and discuss their biomedical applications, namely solubilization of drugs, creation of active pharmaceutical ingredients, delivery of pharmaceuticals through biological barriers, stabilization of proteins and other nucleic acids, antibacterial agents, and development of new biosensors. Current challenges and future outlooks are discussed, including biocompatibility, the potential impact of the presence of impurities, and the importance of understanding the microscopic interactions in ionic liquids in order to design task-specific solvents.
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Affiliation(s)
- Alexander M. Curreri
- John A. Paulson School of Engineering and Applied SciencesHarvard UniversityCambridgeMA02138USA
- Wyss Institute of Biologically Inspired EngineeringBostonMA02115USA
| | - Samir Mitragotri
- John A. Paulson School of Engineering and Applied SciencesHarvard UniversityCambridgeMA02138USA
- Wyss Institute of Biologically Inspired EngineeringBostonMA02115USA
| | - Eden E. L. Tanner
- John A. Paulson School of Engineering and Applied SciencesHarvard UniversityCambridgeMA02138USA
- Present address:
Department of Chemistry and BiochemistryThe University of MississippiUniversityMS38677USA
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Effect of Hydrated Ionic Liquid on Photocycle and Dynamics of Photoactive Yellow Protein. Molecules 2021; 26:molecules26154554. [PMID: 34361707 PMCID: PMC8348629 DOI: 10.3390/molecules26154554] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2021] [Revised: 07/15/2021] [Accepted: 07/23/2021] [Indexed: 12/03/2022] Open
Abstract
The mechanism by which proteins are solvated in hydrated ionic liquids remains an open question. Herein, the photoexcitation dynamics of photoactive yellow protein dissolved in hydrated choline dihydrogen phosphate (Hy[ch][dhp]) were studied by transient absorption and transient grating spectroscopy. The photocyclic reaction of the protein in Hy[ch][dhp] was similar to that observed in the buffer solution, as confirmed by transient absorption spectroscopy. However, the structural change of the protein during the photocycle in Hy[ch][dhp] was found to be different from that observed in the buffer solution. The known change in the diffusion coefficient of the protein was apparently suppressed in high concentrations of [ch][dhp], plausibly due to stabilization of the secondary structure.
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Wang X, Enomoto R, Murakami Y. Ionic additive strategy to control nucleation and generate larger single crystals of 3D covalent organic frameworks. Chem Commun (Camb) 2021; 57:6656-6659. [PMID: 34128021 DOI: 10.1039/d1cc01857d] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
To generate large single crystals of 3D covalent organic frameworks, the active use of ionic additives, which can greatly impact crystal size, is proposed. The crystal size ranking was found to be in accordance with the Hofmeister series and Gutmann donor number, providing a useful strategy to enhance crystal size and, consequently, generate COF-300 single crystals of >200 μm in size.
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Affiliation(s)
- Xiaohan Wang
- School of Engineering, Tokyo Institute of Technology, 2-12-1 Ookayama, Meguro-ku, Tokyo 152-8552, Japan.
| | - Riku Enomoto
- School of Engineering, Tokyo Institute of Technology, 2-12-1 Ookayama, Meguro-ku, Tokyo 152-8552, Japan.
| | - Yoichi Murakami
- School of Engineering, Tokyo Institute of Technology, 2-12-1 Ookayama, Meguro-ku, Tokyo 152-8552, Japan. and PRESTO, JST, 4-1-8 Honcho, Kawaguchi, Saitama 332-0012, Japan
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39
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Kobayashi T, Smiatek J, Fyta M. Energetic Arguments on the Microstructural Analysis in Ionic Liquids. ADVANCED THEORY AND SIMULATIONS 2021. [DOI: 10.1002/adts.202100114] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Takeshi Kobayashi
- Institute for Computational Physics University of Stuttgart Allmandring 3 Stuttgart 70569 Germany
| | - Jens Smiatek
- Institute for Computational Physics University of Stuttgart Allmandring 3 Stuttgart 70569 Germany
| | - Maria Fyta
- Institute for Computational Physics University of Stuttgart Allmandring 3 Stuttgart 70569 Germany
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40
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Dong Y, Laaksonen A, Huo F, Gao Q, Ji X. Hydrated Ionic Liquids Boost the Trace Detection Capacity of Proteins on TiO 2 Support. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2021; 37:5012-5021. [PMID: 33861604 PMCID: PMC8154861 DOI: 10.1021/acs.langmuir.1c00525] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/23/2021] [Revised: 04/06/2021] [Indexed: 05/05/2023]
Abstract
Trace detection based on surface-enhanced Raman scattering (SERS) has attracted considerable attention, and exploiting efficient strategies to stretch the limit of detection and understanding the mechanisms on molecular level are of utmost importance. In this work, we use ionic liquids (ILs) as trace additives in a protein-TiO2 system, allowing us to obtain an exceptionally low limit of detection down to 10-9 M. The enhancement factors (EFs) were determined to 2.30 × 104, 6.17 × 104, and 1.19 × 105, for the three systems: one without ILs, one with ILs in solutions, and one with ILs immobilized on the TiO2 substrate, respectively, corresponding to the molecular forces of 1.65, 1.32, and 1.16 nN quantified by the atomic force microscopy. The dissociation and following hydration of ILs, occurring in the SERS system, weakened the molecular forces but instead improved the electron transfer ability of ILs, which is the major contribution for the observed excellent detection. The weaker diffusion of the hydrated IL ions immobilized on the TiO2 substrate did provide a considerably greater EF value, compared to the ILs in the solution. This work clearly demonstrates the importance of the hydration of ions, causing an improved electron transfer ability of ILs and leading to an exceptional SERS performance in the field of trace detection. Our results should stimulate further development to use ILs in SERS and related applications in bioanalysis, medical diagnosis, and environmental science.
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Affiliation(s)
- Yihui Dong
- Beijing
Key Laboratory of Ionic Liquids Clean Process, CAS Key Laboratory
of Green Process and Engineering, State Key Laboratory of Multiphase
Complex Systems, Institute of Process Engineering,
Chinese Academy of Sciences, Beijing 100190, P. R. China
| | - Aatto Laaksonen
- Energy
Engineering, Division of Energy Science, Luleå University of Technology, 97187 Luleå, Sweden
- Department
of Materials and Environmental Chemistry, Arrhenius Laboratory, Stockholm University, Stockholm SE-10691, Sweden
- State
Key Laboratory of Materials-Oriented Chemical Engineering, Nanjing Tech University, Nanjing 210009, P. R. China
- Centre
of Advanced Research in Bionanoconjugates and Biopolymers, Petru Poni Institute of Macromolecular Chemistry, Iasi 700487, Romania
| | - Feng Huo
- Beijing
Key Laboratory of Ionic Liquids Clean Process, CAS Key Laboratory
of Green Process and Engineering, State Key Laboratory of Multiphase
Complex Systems, Institute of Process Engineering,
Chinese Academy of Sciences, Beijing 100190, P. R. China
| | - Qingwei Gao
- State Key
Laboratory of Chemical Engineering and School of Chemical Engineering, East China University of Science and Technology, Shanghai 200237, P. R. China
| | - Xiaoyan Ji
- Energy
Engineering, Division of Energy Science, Luleå University of Technology, 97187 Luleå, Sweden
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41
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Pagar AD, Patil MD, Flood DT, Yoo TH, Dawson PE, Yun H. Recent Advances in Biocatalysis with Chemical Modification and Expanded Amino Acid Alphabet. Chem Rev 2021; 121:6173-6245. [PMID: 33886302 DOI: 10.1021/acs.chemrev.0c01201] [Citation(s) in RCA: 58] [Impact Index Per Article: 19.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
The two main strategies for enzyme engineering, directed evolution and rational design, have found widespread applications in improving the intrinsic activities of proteins. Although numerous advances have been achieved using these ground-breaking methods, the limited chemical diversity of the biopolymers, restricted to the 20 canonical amino acids, hampers creation of novel enzymes that Nature has never made thus far. To address this, much research has been devoted to expanding the protein sequence space via chemical modifications and/or incorporation of noncanonical amino acids (ncAAs). This review provides a balanced discussion and critical evaluation of the applications, recent advances, and technical breakthroughs in biocatalysis for three approaches: (i) chemical modification of cAAs, (ii) incorporation of ncAAs, and (iii) chemical modification of incorporated ncAAs. Furthermore, the applications of these approaches and the result on the functional properties and mechanistic study of the enzymes are extensively reviewed. We also discuss the design of artificial enzymes and directed evolution strategies for enzymes with ncAAs incorporated. Finally, we discuss the current challenges and future perspectives for biocatalysis using the expanded amino acid alphabet.
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Affiliation(s)
- Amol D Pagar
- Department of Systems Biotechnology, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Korea
| | - Mahesh D Patil
- Department of Systems Biotechnology, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Korea
| | - Dillon T Flood
- Department of Chemistry, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, United States
| | - Tae Hyeon Yoo
- Department of Molecular Science and Technology, Ajou University, 206 World cup-ro, Yeongtong-gu, Suwon 16499, Korea
| | - Philip E Dawson
- Department of Chemistry, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, United States
| | - Hyungdon Yun
- Department of Systems Biotechnology, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Korea
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42
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Behera K, Wani FA, Bhat AR, Juneja S, Banjare MK, Pandey S, Patel R. Behavior of lysozyme within ionic liquid-in-water microemulsions. J Mol Liq 2021; 326:115350. [DOI: https:/doi.org/10.1016/j.molliq.2021.115350] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/04/2023]
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43
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Behera K, Wani FA, Bhat AR, Juneja S, Banjare MK, Pandey S, Patel R. Behavior of lysozyme within ionic liquid-in-water microemulsions. J Mol Liq 2021. [DOI: 10.1016/j.molliq.2021.115350] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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44
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Egorova KS, Posvyatenko AV, Larin SS, Ananikov V. Ionic liquids: prospects for nucleic acid handling and delivery. Nucleic Acids Res 2021; 49:1201-1234. [PMID: 33476366 PMCID: PMC7897475 DOI: 10.1093/nar/gkaa1280] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2020] [Revised: 12/18/2020] [Accepted: 01/04/2021] [Indexed: 12/13/2022] Open
Abstract
Operations with nucleic acids are among the main means of studying the mechanisms of gene function and developing novel methods of molecular medicine and gene therapy. These endeavours usually imply the necessity of nucleic acid storage and delivery into eukaryotic cells. In spite of diversity of the existing dedicated techniques, all of them have their limitations. Thus, a recent notion of using ionic liquids in manipulations of nucleic acids has been attracting significant attention lately. Due to their unique physicochemical properties, in particular, their micro-structuring impact and tunability, ionic liquids are currently applied as solvents and stabilizing media in chemical synthesis, electrochemistry, biotechnology, and other areas. Here, we review the current knowledge on interactions between nucleic acids and ionic liquids and discuss potential advantages of applying the latter in delivery of the former into eukaryotic cells.
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Affiliation(s)
- Ksenia S Egorova
- N.D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky prospect 47, Moscow 119991, Russia
| | - Alexandra V Posvyatenko
- N.D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky prospect 47, Moscow 119991, Russia
- Molecular Immunology Laboratory, Dmitry Rogachev National Medical Research Center of Pediatric Hematology, Oncology and Immunology, Samory Mashela St 1, Moscow 117997, Russia
| | - Sergey S Larin
- Molecular Immunology Laboratory, Dmitry Rogachev National Medical Research Center of Pediatric Hematology, Oncology and Immunology, Samory Mashela St 1, Moscow 117997, Russia
| | - Valentine P Ananikov
- N.D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky prospect 47, Moscow 119991, Russia
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45
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Hebal H, Boucherba N, Binay B, Turunen O. Activity and stability of hyperthermostable cellulases and xylanases in ionic liquids. BIOCATAL BIOTRANSFOR 2021. [DOI: 10.1080/10242422.2021.1882430] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
Affiliation(s)
- Hakim Hebal
- Laboratoire de Microbiologie Appliquée (LMA), Faculté des Sciences de La Nature et de La Vie (FSNV), Université de Bejaia, Bejaia, Algeria
- Faculty of Exact Sciences and Sciences of Nature and Life, Department of Biology, Mohamed Khider University of Biskra, Biskra, Algeria
| | - Nawel Boucherba
- Laboratoire de Microbiologie Appliquée (LMA), Faculté des Sciences de La Nature et de La Vie (FSNV), Université de Bejaia, Bejaia, Algeria
| | - Baris Binay
- Department of Bioengineering, Gebze Technical University, Kocaeli, Turkey
| | - Ossi Turunen
- School of Forest Sciences, University of Eastern Finland, Joensuu, Finland
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46
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47
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Patel AY, Jonnalagadda KS, Paradis N, Vaden TD, Wu C, Caputo GA. Effects of Ionic Liquids on Metalloproteins. Molecules 2021; 26:514. [PMID: 33478102 PMCID: PMC7835893 DOI: 10.3390/molecules26020514] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2020] [Revised: 01/04/2021] [Accepted: 01/08/2021] [Indexed: 01/28/2023] Open
Abstract
In the past decade, innovative protein therapies and bio-similar industries have grown rapidly. Additionally, ionic liquids (ILs) have been an area of great interest and rapid development in industrial processes over a similar timeline. Therefore, there is a pressing need to understand the structure and function of proteins in novel environments with ILs. Understanding the short-term and long-term stability of protein molecules in IL formulations will be key to using ILs for protein technologies. Similarly, ILs have been investigated as part of therapeutic delivery systems and implicated in numerous studies in which ILs impact the activity and/or stability of protein molecules. Notably, many of the proteins used in industrial applications are involved in redox chemistry, and thus often contain metal ions or metal-associated cofactors. In this review article, we focus on the current understanding of protein structure-function relationship in the presence of ILs, specifically focusing on the effect of ILs on metal containing proteins.
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Affiliation(s)
- Aashka Y. Patel
- Department of Chemistry and Biochemistry, Rowan University, Glassboro, NJ 08028, USA; (A.Y.P.); (N.P.); (T.D.V.); (C.W.)
| | | | - Nicholas Paradis
- Department of Chemistry and Biochemistry, Rowan University, Glassboro, NJ 08028, USA; (A.Y.P.); (N.P.); (T.D.V.); (C.W.)
| | - Timothy D. Vaden
- Department of Chemistry and Biochemistry, Rowan University, Glassboro, NJ 08028, USA; (A.Y.P.); (N.P.); (T.D.V.); (C.W.)
| | - Chun Wu
- Department of Chemistry and Biochemistry, Rowan University, Glassboro, NJ 08028, USA; (A.Y.P.); (N.P.); (T.D.V.); (C.W.)
- Department of Molecular and Cellular Biosciences, Rowan University, Glassboro, NJ 08028, USA
| | - Gregory A. Caputo
- Department of Chemistry and Biochemistry, Rowan University, Glassboro, NJ 08028, USA; (A.Y.P.); (N.P.); (T.D.V.); (C.W.)
- Department of Molecular and Cellular Biosciences, Rowan University, Glassboro, NJ 08028, USA
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48
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Dragojlović D, Popović L, Čakarević J, Spasevski N, Rakita S, Čolović D, Đuragić O. Determination of protein oxidation in aquaculture feed. FOOD AND FEED RESEARCH 2021. [DOI: 10.5937/ffr48-34712] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022] Open
Abstract
This research aimed to develop a reliable, easy-to-perform and cheap method for measuring protein oxidation in complex samples such as aquaculture feed within various protein sources. For that purpose modified 2,4-dinitrophenylhydrazine (DNPH)-based method for quantification of protein carbonyls was employed whilst the modification of the method consisted of using different solutions for the extraction (distilled water and different concentrations of KCl and NaCl solutions), time of protein extraction (after homogenization and over the night) and concentration of trichloroacetic acid (10 and 25% TCA) for protein precipitation. Extraction during the night, higher TCA concentration and the use of 0.5 M KCl extraction solution resulted in the highest protein amount measured by the Lowry method and 280 nm protein estimation. On the other hand, the lowest protein yield was obtained by using distilled water for the extraction. Furthermore, the lowest amount of protein carbonyls was in the case when extraction was performed with distilled water (DW), while the highest content of protein carbonyls was reached with 0.15 M KCl and 0.5 M KCl extraction solutions. It was observed that the amount of proteinbound carbonyls compounds was increasing during storage under accelerated conditions and, in comparison to the original method, the modified method for measuring protein oxidation resulted in a higher amount of carbonyls during all points of storage.
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Lin L, Pratt S, Crick O, Xia J, Duan H, Ye L. Salinity effect on freshwater Anammox bacteria: Ionic stress and ion composition. WATER RESEARCH 2021; 188:116432. [PMID: 33068907 DOI: 10.1016/j.watres.2020.116432] [Citation(s) in RCA: 39] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/12/2020] [Revised: 08/04/2020] [Accepted: 09/15/2020] [Indexed: 06/11/2023]
Abstract
The biggest challenge to apply Anammox to treat wastewater with elevated salt content is the inhibitory effect of salinity on freshwater Anammox bacteria (FAB). Most of the research into salinity inhibition has focused on the osmotic pressure effect, while the inhibitory effect and its mechanisms induced by ion composition are poorly understood. In this study, the individual and combined effect of NaCl, KCl and Na2SO4 on FAB (>99% belonging to Ca. Brocadia genera) were systematically investigated by batch tests. The corresponding responses of mRNA abundance of three functional genes (including nitrite reductase gene (nirS), hydrazine synthase gene (hzsB) and hydrazine dehydrogenase gene (hdh)) under different salt conditions were analyzed. The results indicated that NaCl, KCl and Na2SO4 have different inhibition effects, with the 50% inhibition at 0.106, 0.096 and 0.063 M, respectively. The combined inhibition of NaCl+KCl and NaCl+Na2SO4 on FAB were both synergistic; while the combined inhibition of NaCl+KCl+Na2SO4 was additive. The responses of mRNA (of genes: nirS, hzsB and hdh) suggested NaCl inhibited the transport of ammonium; Na2SO4 inhibited both nitrite and ammonium transport; high salinity inhibited functional enzyme activity. These results suggest both ionic stress and ion composition contributed to the observed inhibition.
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Affiliation(s)
- Limin Lin
- School of Chemical Engineering, The University of Queensland, St. Lucia, Brisbane, QLD 4072, Australia
| | - Steven Pratt
- School of Chemical Engineering, The University of Queensland, St. Lucia, Brisbane, QLD 4072, Australia
| | - Oliver Crick
- School of Chemical Engineering, The University of Queensland, St. Lucia, Brisbane, QLD 4072, Australia
| | - Jun Xia
- Advanced Water Management Centre (AWMC), The University of Queensland, St. Lucia, Brisbane, QLD 4072, Australia
| | - Haoran Duan
- School of Chemical Engineering, The University of Queensland, St. Lucia, Brisbane, QLD 4072, Australia
| | - Liu Ye
- School of Chemical Engineering, The University of Queensland, St. Lucia, Brisbane, QLD 4072, Australia.
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Electrochemical impedimetric biosensors, featuring the use of Room Temperature Ionic Liquids (RTILs): Special focus on non-faradaic sensing. Biosens Bioelectron 2020; 177:112940. [PMID: 33444897 DOI: 10.1016/j.bios.2020.112940] [Citation(s) in RCA: 27] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2020] [Revised: 11/25/2020] [Accepted: 12/24/2020] [Indexed: 01/26/2023]
Abstract
Over the last decade, significant advancements have been made in the field of biosensing technology. With the rising demand for personalized healthcare and health management tools, electrochemical sensors are proving to be reliable solutions; specifically, impedimetric sensors are gaining considerable attention primarily due to their ability to perform label-free sensing. The novel approach of using Room Temperature Ionic Liquids (RTILs) to improve the sensitivity and stability of these detection systems makes long-term continuous sensing feasible towards a wide range of sensing applications, predominantly biosensing. Through this review, we aim to provide an update on current scientific progress in using impedimetric biosensing combined with RTILs for the development of sensitive biosensing platforms. This review also summarizes the latest trends in the field of biosensing and provides an update on the current challenges that remain unsolved.
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