Anton Zalygin - Academia.edu (original) (raw)

Papers by Anton Zalygin

Research paper thumbnail of Effect of ligand and shell densities on surface structure of core-shell nanoparticles self-assembled from function-spacer-lipid constructs

Biomolecular corona is the major obstacle in clinical translation of nanomedicines. To overcome t... more Biomolecular corona is the major obstacle in clinical translation of nanomedicines. To overcome this problem, comprehensive studies of the processes leading to the formation of a biomolecular corona are required. Since such dynamical studies require high spatial and temporal resolution, nanoparticles utilized in it should enable combined experimental and simulation studies. Interactions at nano-bio interface are defined by nanoparticle surface properties such as topography, charge and surface chemistry. Hence, as the preliminary step towards deep understanding of the processes of corona formation it is necessary to develop nanoparticles employing various biocompatible materials and characterize their surface properties. In this work, we applied molecular dynamics simulation to study surface structure of organic core-shell nanoparticles formed by self-assembly of synthetic molecules composed of DOPE lipid, carboxymethylglycine spacer and biotin. Lipid moieties form the hydrophobic co...

Research paper thumbnail of Assessment of core-shell nanoparticles surface structure heterogeneity by SAXS contrast variation and ab initio modeling

Colloids and Surfaces B: Biointerfaces, Apr 1, 2023

Research paper thumbnail of Hyperglycemia exacerbates ischemic stroke not through increased generation of hydrogen peroxide

Free Radical Biology and Medicine

Research paper thumbnail of Comparative analysis of SERS-active colloidal silver solutions of various type and prospects of their applications

Journal of Physics: Conference Series, 2021

Raman spectroscopy is a promising method for optical vibrational spectroscopy. Nowadays, Raman sp... more Raman spectroscopy is a promising method for optical vibrational spectroscopy. Nowadays, Raman spectroscopy finds many applications, in particular, in biological and medical diagnostics. However, the Raman scattering can be enhanced using the Surface-enhanced Raman scattering method. Colloidal solutions of noble metals are used as SERS-active systems. In this work, the enhancing factors were estimated for colloidal silver solutions of three different types (citrate, borohydride, chloride) with two substances (phenylalanine, cytochrome C). Phenylalanine is a widely used model substance for Raman and Surface-enhanced Raman spectroscopy. Cytochrome C is one of the most researched proteins. It involves in the electron transport chain of the mitochondrial inner membrane and provides cellular respiration. Borohydride, citrate and chloride sols with phenylalanine gave an enhancement about 50, 200 and 30 times, respectively, and with cytochrome C about 30, 160 and 20, respectively. A compar...

Research paper thumbnail of Small-angle X-ray (SAXS) and Raman spectroscopy studies of biot-CMG(2)-DOPE quasicrystalline phases

Journal of Physics: Conference Series, 2021

Neoglycolipids due to their amphiphilic properties exhibit self-assembly in aqueous phases. In hi... more Neoglycolipids due to their amphiphilic properties exhibit self-assembly in aqueous phases. In high concentrations the liquid crystalline or gel phases may form. So-called soft-material are a subject of interest of many scientists especially as biosensors and wound healing materials. In this study we examine the structure of a quasicrystalline phase of biot-CMG(2)-DOPE obtained at the concentration of 150 mg/ml (13wt.%) in PBS. The structural data such as interplanar spacing, order parameter and long-range order were obtained by SAXS, while the changes in chemical structure were studied by Raman spectroscopy. It was also in our interest to examine a correlation between the ionic strength and the self-assembly, so we also studied a similar quasicrystalline phase of the same compound but in a buffer containing CaCl2 at the concentration of 4wt.%. According to SAXS data, FSL-biotin construct formed a complex ordered phase consisting of overlapping latices of different kind. The additio...

Research paper thumbnail of Loading efficiency of doxorubicin into the micelle-like structures formed by function-spacer-lipid constructs self-assembly depends on constructs’ functional part

Journal of Physics: Conference Series, 2021

Supramolecular self-assemble systems based on neoglycolipids: Galili-Ad-CMG2-Ad-DOPE, A(type2)-Ad... more Supramolecular self-assemble systems based on neoglycolipids: Galili-Ad-CMG2-Ad-DOPE, A(type2)-Ad-CMG2-Ad-DOPE are studied here and compared with the well-studied Biotin-CMG2-Ad-DOPE, as well as with their combinations with NH2-CMG2-Ad-DOPE. They are function-spacer-lipid constructs with unique structure that allows them to form micelle-like supramers and be stable, what makes them a potential drug nanocarriers. The structural properties of the obtained supramolecular systems are studied depending on their functional part, and the loading efficiency of doxorubicin into the supramers is determined to reveal the influence of the functional part. The resulting supramers were separated from the unbound molecules by dialysis, the nanoparticles morphology were studied by atomic force microscopy, and the loading efficiency was calculated based on spectrophotometry data. The encapsulation of doxorubicin was confirmed based on changes in the size and shape of the supramers, as well as a decr...

Research paper thumbnail of Synthesizing of the SERS-active substrates

Journal of Physics: Conference Series, 2019

We investigated the presence of plasmon resonances (PRs) for substrates with the metallic nanowir... more We investigated the presence of plasmon resonances (PRs) for substrates with the metallic nanowires (NWs) that were obtained by the matrix (template) synthesis method in the pores of the track membranes. We found experimentally that the location and width of the PRs depend on the diameter of the NWs and on the distance between them. The presence of PRs indicates the potential applicability of such substrates as SERS-active substrates.

Research paper thumbnail of Multicomponent Lipid Nanoparticles for RNA Transfection

Pharmaceutics

Despite the wide variety of available cationic lipid platforms for the delivery of nucleic acids ... more Despite the wide variety of available cationic lipid platforms for the delivery of nucleic acids into cells, the optimization of their composition has not lost its relevance. The purpose of this work was to develop multi-component cationic lipid nanoparticles (LNPs) with or without a hydrophobic core from natural lipids in order to evaluate the efficiency of LNPs with the widely used cationic lipoid DOTAP (1,2-dioleoyloxy-3-[trimethylammonium]-propane) and the previously unstudied oleoylcholine (Ol-Ch), as well as the ability of LNPs containing GM3 gangliosides to transfect cells with mRNA and siRNA. LNPs containing cationic lipids, phospholipids and cholesterol, and surfactants were prepared according to a three-stage procedure. The average size of the resulting LNPs was 176 nm (PDI 0.18). LNPs with DOTAP mesylate were more effective than those with Ol-Ch. Core LNPs demonstrated low transfection activity compared with bilayer LNPs. The type of phospholipid in LNPs was significant f...

Research paper thumbnail of Structure of Supramers Formed by the Amphiphile Biotin-CMG-DOPE

ChemistryOpen

The synthetic function-spacer-lipid (FSL) amphiphile biotin-CMG-DOPE is widely used for delicate ... more The synthetic function-spacer-lipid (FSL) amphiphile biotin-CMG-DOPE is widely used for delicate ligation of living cells with biotin residues under physiological conditions. Since this molecule has an "apolar-polar-hydrophobic" gemini structure, the supramolecular organization is expected to differ significantly from the classical micelle. Its organization is investigated with experimental methods and molecular dynamics simulations (MDS). Although the linear length of a single biotin-CMG-DOPE molecule is 9.5 nm, the size of the dominant supramer globule is only 14.6 nm. Investigations found that while the DOPE tails form a hydrophobic core, the polar CMG spacer folds back upon itself and predominantly places the biotin reside inside the globule or planar layer. MDS demonstrates that < 10 % of biotin residues on the highly water dispersible globules and only 1 % of biotin residues in layer coatings are in an linear conformation and exposing biotin into the aqueous medium. This explains why in biotin-CMG-DOPE apolar biotin residues both in water dispersible globules and coatings on solid surfaces are still capable of interacting with streptavidin. This is an open access article under the terms of the Creative Commons Attribution Non-Commercial NoDerivs License, which permits use and distribution in any medium, provided the original work is properly cited, the use is non-commercial and no modifications or adaptations are made. Figure 1. Structure of biot-CMG-DOPE;DOPE is 1,2-O-dioleoyl-sn-glycero-3phosphatidyl ethanolamine; CMG is repeating glycyl-glycyl-N-carboxymethylglycyl motif; biot is 5-[(3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentanoyl moiety. A and B, the molecule in extended and (~9.5 nm) folded (~5.8 nm) conformations correspondingly. . Shape restoration of the biot-CMG-DOPE globules. (a): SAXS data (1), scattering patterns computed from the ab initio model (2), transformed from p(r)and extrapolated to zero scattering angle intensity (3). Insert: distance distribution function p(r) computed by GNOM. (b): stereo image of structural model reconstructed by ab initio modeling. The apparent central "void" does not represent an absence of atoms, hydrocarbon nucleus is transparent to X-rays.

Research paper thumbnail of Effect of ligand and shell densities on surface structure of core-shell nanoparticles self-assembled from function-spacer-lipid constructs

Biomolecular corona is the major obstacle in clinical translation of nanomedicines. To overcome t... more Biomolecular corona is the major obstacle in clinical translation of nanomedicines. To overcome this problem, comprehensive studies of the processes leading to the formation of a biomolecular corona are required. Since such dynamical studies require high spatial and temporal resolution, nanoparticles utilized in it should enable combined experimental and simulation studies. Interactions at nano-bio interface are defined by nanoparticle surface properties such as topography, charge and surface chemistry. Hence, as the preliminary step towards deep understanding of the processes of corona formation it is necessary to develop nanoparticles employing various biocompatible materials and characterize their surface properties. In this work, we applied molecular dynamics simulation to study surface structure of organic core-shell nanoparticles formed by self-assembly of synthetic molecules composed of DOPE lipid, carboxymethylglycine spacer and biotin. Lipid moieties form the hydrophobic co...

Research paper thumbnail of Assessment of core-shell nanoparticles surface structure heterogeneity by SAXS contrast variation and ab initio modeling

Colloids and Surfaces B: Biointerfaces, Apr 1, 2023

Research paper thumbnail of Hyperglycemia exacerbates ischemic stroke not through increased generation of hydrogen peroxide

Free Radical Biology and Medicine

Research paper thumbnail of Comparative analysis of SERS-active colloidal silver solutions of various type and prospects of their applications

Journal of Physics: Conference Series, 2021

Raman spectroscopy is a promising method for optical vibrational spectroscopy. Nowadays, Raman sp... more Raman spectroscopy is a promising method for optical vibrational spectroscopy. Nowadays, Raman spectroscopy finds many applications, in particular, in biological and medical diagnostics. However, the Raman scattering can be enhanced using the Surface-enhanced Raman scattering method. Colloidal solutions of noble metals are used as SERS-active systems. In this work, the enhancing factors were estimated for colloidal silver solutions of three different types (citrate, borohydride, chloride) with two substances (phenylalanine, cytochrome C). Phenylalanine is a widely used model substance for Raman and Surface-enhanced Raman spectroscopy. Cytochrome C is one of the most researched proteins. It involves in the electron transport chain of the mitochondrial inner membrane and provides cellular respiration. Borohydride, citrate and chloride sols with phenylalanine gave an enhancement about 50, 200 and 30 times, respectively, and with cytochrome C about 30, 160 and 20, respectively. A compar...

Research paper thumbnail of Small-angle X-ray (SAXS) and Raman spectroscopy studies of biot-CMG(2)-DOPE quasicrystalline phases

Journal of Physics: Conference Series, 2021

Neoglycolipids due to their amphiphilic properties exhibit self-assembly in aqueous phases. In hi... more Neoglycolipids due to their amphiphilic properties exhibit self-assembly in aqueous phases. In high concentrations the liquid crystalline or gel phases may form. So-called soft-material are a subject of interest of many scientists especially as biosensors and wound healing materials. In this study we examine the structure of a quasicrystalline phase of biot-CMG(2)-DOPE obtained at the concentration of 150 mg/ml (13wt.%) in PBS. The structural data such as interplanar spacing, order parameter and long-range order were obtained by SAXS, while the changes in chemical structure were studied by Raman spectroscopy. It was also in our interest to examine a correlation between the ionic strength and the self-assembly, so we also studied a similar quasicrystalline phase of the same compound but in a buffer containing CaCl2 at the concentration of 4wt.%. According to SAXS data, FSL-biotin construct formed a complex ordered phase consisting of overlapping latices of different kind. The additio...

Research paper thumbnail of Loading efficiency of doxorubicin into the micelle-like structures formed by function-spacer-lipid constructs self-assembly depends on constructs’ functional part

Journal of Physics: Conference Series, 2021

Supramolecular self-assemble systems based on neoglycolipids: Galili-Ad-CMG2-Ad-DOPE, A(type2)-Ad... more Supramolecular self-assemble systems based on neoglycolipids: Galili-Ad-CMG2-Ad-DOPE, A(type2)-Ad-CMG2-Ad-DOPE are studied here and compared with the well-studied Biotin-CMG2-Ad-DOPE, as well as with their combinations with NH2-CMG2-Ad-DOPE. They are function-spacer-lipid constructs with unique structure that allows them to form micelle-like supramers and be stable, what makes them a potential drug nanocarriers. The structural properties of the obtained supramolecular systems are studied depending on their functional part, and the loading efficiency of doxorubicin into the supramers is determined to reveal the influence of the functional part. The resulting supramers were separated from the unbound molecules by dialysis, the nanoparticles morphology were studied by atomic force microscopy, and the loading efficiency was calculated based on spectrophotometry data. The encapsulation of doxorubicin was confirmed based on changes in the size and shape of the supramers, as well as a decr...

Research paper thumbnail of Synthesizing of the SERS-active substrates

Journal of Physics: Conference Series, 2019

We investigated the presence of plasmon resonances (PRs) for substrates with the metallic nanowir... more We investigated the presence of plasmon resonances (PRs) for substrates with the metallic nanowires (NWs) that were obtained by the matrix (template) synthesis method in the pores of the track membranes. We found experimentally that the location and width of the PRs depend on the diameter of the NWs and on the distance between them. The presence of PRs indicates the potential applicability of such substrates as SERS-active substrates.

Research paper thumbnail of Multicomponent Lipid Nanoparticles for RNA Transfection

Pharmaceutics

Despite the wide variety of available cationic lipid platforms for the delivery of nucleic acids ... more Despite the wide variety of available cationic lipid platforms for the delivery of nucleic acids into cells, the optimization of their composition has not lost its relevance. The purpose of this work was to develop multi-component cationic lipid nanoparticles (LNPs) with or without a hydrophobic core from natural lipids in order to evaluate the efficiency of LNPs with the widely used cationic lipoid DOTAP (1,2-dioleoyloxy-3-[trimethylammonium]-propane) and the previously unstudied oleoylcholine (Ol-Ch), as well as the ability of LNPs containing GM3 gangliosides to transfect cells with mRNA and siRNA. LNPs containing cationic lipids, phospholipids and cholesterol, and surfactants were prepared according to a three-stage procedure. The average size of the resulting LNPs was 176 nm (PDI 0.18). LNPs with DOTAP mesylate were more effective than those with Ol-Ch. Core LNPs demonstrated low transfection activity compared with bilayer LNPs. The type of phospholipid in LNPs was significant f...

Research paper thumbnail of Structure of Supramers Formed by the Amphiphile Biotin-CMG-DOPE

ChemistryOpen

The synthetic function-spacer-lipid (FSL) amphiphile biotin-CMG-DOPE is widely used for delicate ... more The synthetic function-spacer-lipid (FSL) amphiphile biotin-CMG-DOPE is widely used for delicate ligation of living cells with biotin residues under physiological conditions. Since this molecule has an "apolar-polar-hydrophobic" gemini structure, the supramolecular organization is expected to differ significantly from the classical micelle. Its organization is investigated with experimental methods and molecular dynamics simulations (MDS). Although the linear length of a single biotin-CMG-DOPE molecule is 9.5 nm, the size of the dominant supramer globule is only 14.6 nm. Investigations found that while the DOPE tails form a hydrophobic core, the polar CMG spacer folds back upon itself and predominantly places the biotin reside inside the globule or planar layer. MDS demonstrates that < 10 % of biotin residues on the highly water dispersible globules and only 1 % of biotin residues in layer coatings are in an linear conformation and exposing biotin into the aqueous medium. This explains why in biotin-CMG-DOPE apolar biotin residues both in water dispersible globules and coatings on solid surfaces are still capable of interacting with streptavidin. This is an open access article under the terms of the Creative Commons Attribution Non-Commercial NoDerivs License, which permits use and distribution in any medium, provided the original work is properly cited, the use is non-commercial and no modifications or adaptations are made. Figure 1. Structure of biot-CMG-DOPE;DOPE is 1,2-O-dioleoyl-sn-glycero-3phosphatidyl ethanolamine; CMG is repeating glycyl-glycyl-N-carboxymethylglycyl motif; biot is 5-[(3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentanoyl moiety. A and B, the molecule in extended and (~9.5 nm) folded (~5.8 nm) conformations correspondingly. . Shape restoration of the biot-CMG-DOPE globules. (a): SAXS data (1), scattering patterns computed from the ab initio model (2), transformed from p(r)and extrapolated to zero scattering angle intensity (3). Insert: distance distribution function p(r) computed by GNOM. (b): stereo image of structural model reconstructed by ab initio modeling. The apparent central "void" does not represent an absence of atoms, hydrocarbon nucleus is transparent to X-rays.