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11C-radiolabeled aptamer for imaging of tumors and metastases using positron emission tomography-computed tomography / A. V. Ozerskaya, T. N. Zamay, O. S. Kolovskaya [et al.] // Mol. Ther. Nucl. Acids. - 2021. - Vol. 26. - P. 1159-1172, DOI 10.1016/j.omtn.2021.10.020. - Cited References: 44 . - ISSN 2162-2531
Кл.слова (ненормированные):
11C radiolabeling -- radiopharmaceuticals -- PET/CT -- in vivo imaging -- DNA aptamers -- Ehrlich ascites carcinoma -- metastasis
Аннотация: Identification of primary tumors and metastasis sites is an essential step in cancer diagnostics and the following treatment. Positron emission tomography-computed tomography (PET/CT) is one of the most reliable methods for scanning the whole organism for malignancies. In this work, we synthesized an 11C-labeled oligonucleotide primer and hybridized it to an anti-cancer DNA aptamer. The 11C-aptamer was applied for in vivo imaging of Ehrlich ascites carcinoma and its metastases in mice using PET/CT. The imaging experiments with the 11C-aptamer determined very small primary and secondary tumors of 3 mm2 and less. We also compared 11C imaging with the standard radiotracer, 2-deoxy-2-[fluorine-18]fluoro-D-glucose (18F-FDG), and found better selectivity of the 11C-aptamer to metastatic lesions in the metabolically active organs than 18F-FDG. 11C radionuclide with an ultra-short (20.38 min) half-life is considered safest for PET/CT imaging and does not cause false-positive results in heart imaging. Its combination with aptamers gives us high-specificity and high-contrast imaging of cancer cells and can be applied for PET/CT-guided drug delivery in cancer therapies.

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Federal Siberian Research Clinical Centre Under the Federal Medical Biological Agency, Krasnoyarsk, Russian Federation
Krasnoyarsk State Medical University named after Prof. V.F. Voino-Yasenetsky, Krasnoyarsk, Russian Federation
Federal Research Center Krasnoyarsk Science- Center SB RAS, Krasnoyarsk, Russian Federation
Kirensky Institute of Physics, Krasnoyarsk, Russian Federation
Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of the Russian Academy of Sciences, Novosibirsk, Russian Federation
Department of Chemistry and Biomolecular Sciences, University of Ottawa, Ottawa, Canada
Krasnoyarsk Regional Pathology-Anatomic Bureau, Krasnoyarsk, Russian Federation

Доп.точки доступа:
Ozerskaya, A. V.; Zamay, T. N.; Kolovskaya, O. S.; Tokarev, N. A.; Belugin, K. V.; Chanchikova, N. G.; Badmaev, O. N.; Zamay, G. S.; Shchugoreva, I. A.; Moryachkov, R. V.; Морячков, Роман Владимирович; Zabluda, V. N.; Заблуда, Владимир Николаевич; Khorzhevskii, V. A.; Shepelevich, N.; Gappoev, S. V.; Karlova, E. A.; Saveleva, A. S.; Volzhentsev, A. A.; Blagodatova, A. N.; Lukyanenko, K. A.; Veprintsev, D. V.; Smolyarova, T. E.; Смолярова, Татьяна Евгеньевна; Tomilin, F. N.; Томилин, Феликс Николаевич; Zamay, S. S.; Silnikov, V. N.; Berezovski, M. V.; Kichkailo, A. S.
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Applying joint theoretical experimental research to aptamer modeling / I. A. Shchugoreva, P. V. Artyushenko, F. N. Tomilin [et al.] // Sib. Med. Rev. - 2021. - Vol. 2021, Is. 2. - P. 105-106 ; Сиб. мед. обозрение, DOI 10.20333/2500136-2021-2-105-106. - Cited References: 4 . - ISSN 1819-9496
Кл.слова (ненормированные):
LC-18 -- DNA aptamer -- lung adenocarcinoma -- SAXS -- DFTB3
Аннотация: The aim of the research. In this work we studied the structure of LC-18 DNA aptamer, which exhibits specific binding to lung adenocarcinoma cells. Obtain-ing the 3D structure of the aptamer is necessary for understanding the mechanism of binding of the aptamer to the target. Therefore, the aim of the research was modeling of the LC-18 aptamer spatial structure using combination of theoretical methods: DNA folding tools, quantum-chemical calculations and molecular dynamic simulations. Material and methods. The secondary structure of the LC-18 aptamer was predicted by using OligoAnalyzer and MFold online software under the conditions typical small-angle X-ray scattering (SAXS) experiment. The molecular modeling of the aptamer was carried out using the Avogadro program. For prediction of the structure two computational methods were used: quantum-mechanical method with third-order density-functional tight-binding (DFTB3) and molecular dynamics (MD) with force fields. Results. In this paper it was shown that molecular simulations can predict structures from the SAXS experiments. OligoAnalyzer and MFold web servers have been used to generate a set of several likely models. However, more accurate calculations have showed that these models do not predict the relative importance of isomers. Meanwhile, application of quantum-chemical and molecular dynamics calculations have showed reliable molecular structures which have a small deviations from the experimental SAXS curves. Conclusion. This study demonstrates the approach for modeling 3D structures of DNA-aptamers in solution using both experimental and theoretical meth-ods. It could be very helpful in designing more efficient aptamers based on results obtained from molecular simulations.

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Держатели документа:
Laboratory for Digital Controlled Drugs and Theranostics, Federal Research Center "Krasnoyarsk Science Center SB RAS”, Krasnoyarsk, 660036, Russian Federation
Department of Chemistry, Siberian Federal University, Krasnoyarsk, 660041, Russian Federation
Laboratory of Physics of Magnetic Phenomena, Kirensky Institute of Physics, Krasnoyarsk, 660012, Russian Federation
Nanoscience Center and Department of Chemistry, University of Jyvaskyla, Jyvaskyla, 40014, Finland
Department of Chemistry, Lomonosov Moscow State University, Moscow, 119234, Russian Federation

Доп.точки доступа:
Shchugoreva, I. A.; Artyushenko, P. V.; Tomilin, F. N.; Morozov, D. I.; Mironov, V. A.; Moryachkov, R. V.; Морячков, Роман Владимирович; Kichkailo, A. S.

}
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Gorban, A.
Codon usage trajectories and 7-cluster structure of 143 complete bacterial genornic sequences / A. . Gorban, T. . Popova, A. . Zinovyev // Physica A. - 2005. - Vol. 353. - P. 365-387, DOI 10.1016/j.physa.2005.01.043. - Cited References: 46 . - ISSN 0378-4371

РУБ Physics, Multidisciplinary
Рубрики:
DNA-BASE COMPOSITION
   ASYMMETRIC SUBSTITUTION PATTERNS
   PROTEIN-CODING REGIONS
   MICROBIAL GENOMES
   GENE IDENTIFICATION
   MARKOV-MODELS
   G+C CONTENT
   BIAS
   PREDICTION
   SELECTION
Кл.слова (ненормированные):
genome -- cluster -- codon usage -- correlations -- entropy -- mean field -- Cluster -- Codon usage -- Correlations -- Entropy -- Genome -- Mean field -- Approximation theory -- Correlation methods -- Database systems -- Entropy -- Functions -- Genes -- Mathematical models -- Clusters -- Codon usage -- Genomes -- Mean field -- Bacteria
Аннотация: Three results are presented. First, we prove the existence of a universal 7-cluster structure in all 143 completely sequenced bacterial genomes available in Genbank in August 2004, and explained its properties. The 7-cluster structure is responsible for the main part of sequence heterogeneity in bacterial genomes. In this sense, our 7 clusters is the basic model of bacterial genome sequence. We demonstrated that there are four basic "pure" types of this model, observed in nature: "parallel triangles", "perpendicular triangles", degenerated case and the flower-like type. Second, we answered the question: how big are the position-specific information and the contribution connected with correlations between nucleotide. The accuracy of the mean-field (context-free) approximation is estimated for bacterial genomes. We show that codon us-age of bacterial genomes is a multi-linear function of their genomic G+C-content with high accuracy (more precisely, by two similar functions, one for eubacterial genomes and the other one for archaea). Description of these two codon-usage trajectories is the third result. All 143 cluster animated 3D-scatters are collected in a database and is made available on our web-site: http://www.ihes.fr/similar to zinovyev/7clusters. (c) 2005 Elsevier B.V. All rights reserved.

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Держатели документа:
Univ Leicester, Dept Math, Leicester LE1 7RH, Leics, England
RAS, SB, Inst Computat Modelling, Krasnoyarsk, Russia
Bures Sur Yvette & Bioinformat Serv Inst Curie, Inst Hautes Etudes Sci, Paris, France
ИВМ СО РАН
Department of Mathematics, University of Leicester, Leicester, University Road, Leicester LE1 7RH, United Kingdom
Institute of Computational Modelling, SB RAS, Krasnoyarsk, Russian Federation
Institut des Hautes Etudes Scientifiques, Bures-sur-Yvette and Bioinformatics Service of Institut Curie, Paris, France

Доп.точки доступа:
Popova, T.; Zinovyev, A.
}
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Conformational changes in DNA aptamers upon binding to Pb ions / R. V. Moryachkov, A. N. Berlina, P. V. Artyushenko [et al.] // The Fifth Asian School-Conference on Physics and Technology of Nanostructured Materials : Proceedings. - VLadivostok : Dalnauka Publishing, 2020. - Ст. VII.31.01p. - P. 193. - The reported study was funded by RFBR, project number 19-32-90266. . - ISBN 978-5-8044-1698-1

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Доп.точки доступа:
Moryachkov, R. V.; Морячков, Роман Владимирович; Berlina, A. N.; Artyushenko, P. V.; Zabluda, V. N.; Заблуда, Владимир Николаевич; Peters, G. S.; Sokolov, A. Е.; Соколов, Алексей Эдуардович; Asian School-Conference on Physics and Technology of Nanostructured Materials(5 ; 2020 ; 30 Jul - 3 Aug ; Vladivostok); Азиатская школа-конференция по физике и технологии наноструктурированных материалов(5 ; 2013 ; 30 июля - 3 авг. ; Владивосток)
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Development of DNA aptamers for visualization of glial brain tumors and detection of circulating tumor cells / A. S. Kichkailo, A. A. Narodov, M. A. Komarova [et al.] // Mol. Ther. - Nucleic Acids. - 2023. - Vol. 32. - P. 267-288, DOI 10.1016/j.omtn.2023.03.015. - Cited References: 69. - The authors are grateful to all the patients and hospital staff participating in this research. We acknowledge the assistance of the AptamerLab LCC (www.aptamerlab.com) and personally Mr. Vasily Mezko for the aptamer 3D structure optimization and financial and technical support. The authors thank Mr. Alexey Kichkailo, Dr. Arkady B. Kogan, and Dr. Rinat G. Galeev for their general support. Mrs. Valentina L. Grigoreva, and Irina V. Gildebrand for the help with histological staining. Technical and instrumental support was provided by the Multiple-Access Center at Tomsk State University; the Krasnoyarsk Inter-District Ambulance Hospital, named after N.S. Karpovich; John L. Holmes Mass Spectrometry Facility at the University of Ottawa; Federal Siberian Research Clinical Centre under the Federal Medical Biological Agency; Shared Core Facilities of Molecular and Cell Technologies at Krasnoyarsk State Medical University and Krasnoyarsk Regional Centre for Collective Use at the Federal Research Centre “KSC SB RAS”. The confocal fluorescence microscopy research was carried out with the equipment of the Tomsk Regional Core Shared Research Facilities Center of the National Research Tomsk State University. The Center was supported by the Ministry of Science and Higher Education of the Russian Federation, grant no. 075-15-2021-693 (no. 13.RFC.21.0012). Acute toxicity studies were performed in a laboratory certified for preclinical studies, Laboratory of Biological Testing, Institute of Bioorganic Chemistry named after academics M.M. Shemyakin and Y.A. Ovchinnikov Russian Academy of Sciences. The authors are grateful to the Joint Super Computer Center of the Russian Academy of Sciences for providing supercomputers for computer simulations. Development of the glioma tumor model in immunosuppressed mice was supported by the Russian Science Foundation grant No. 22-64-00041 (M.A.D.), https://rscf.ru/en/project/22-64-00041/. Synthesis of 11C-aptamer and PET/CT visualization was funded by the Federal Medical Biological Agency; project 122041800132-2 (A.V.O.). Aptamer selection and their clinical applications were funded by the Ministry of Healthcare of the Russian Federation; project АААА-Б19-219090690032-5 (T.N.Z.). The Ministry of Science and Higher Education of the Russian Federation project FWES-2022-0005 (A.S.K.) supported aptamer characterization, molecular modelling, and in vivo experiments. Mass spectrometry analyses, DNA sequencing, and synthesis were supported by NSERC Discovery Grant (M.V.B.). We acknowledge the European Synchrotron Radiation Facility for SAXS experiments and thank Dr. Bart Van Laer for assistance in using a beamline BM29. SAXS measurements were supported by RFBR № 18-32-00478 for young scientists (R.V.M.). The synchrotron SEC-SAXS data for Gli-55 aptamer were also collected at beamline P12 operated by EMBL Hamburg at the PETRA III storage ring (DESY, Hamburg, Germany) . - ISSN 2162-2531
Аннотация: Here, we present DNA aptamers capable of specific binding to glial tumor cells in vitro, ex vivo, and in vivo for visualization diagnostics of central nervous system tumors. We selected the aptamers binding specifically to the postoperative human glial primary tumors and not to the healthy brain cells and meningioma, using a modified process of systematic evolution of ligands by exponential enrichment to cells; sequenced and analyzed ssDNA pools using bioinformatic tools and identified the best aptamers by their binding abilities; determined three-dimensional structures of lead aptamers (Gli-55 and Gli-233) with small-angle X-ray scattering and molecular modeling; isolated and identified molecular target proteins of the aptamers by mass spectrometry; the potential binding sites of Gli-233 to the target protein and the role of post-translational modifications were verified by molecular dynamics simulations. The anti-glioma aptamers Gli-233 and Gli-55 were used to detect circulating tumor cells in liquid biopsies. These aptamers were used for in situ, ex vivo tissue staining, histopathological analyses, and fluorescence-guided tumor and PET/CT tumor visualization in mice with xenotransplanted human astrocytoma. The aptamers did not show in vivo toxicity in the preclinical animal study. This study demonstrates the potential applications of aptamers for precise diagnostics and fluorescence-guided surgery of brain tumors.

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Держатели документа:
Prof. V.F. Voino-Yasenetsky Krasnoyarsk State Medical University, 1 Partizana Zheleznyaka, Krasnoyarsk 660022, Russia
Federal Research Center “Krasnoyarsk Science Center of the Siberian Branch of the Russian Academy of Sciences,” 50 Akademgorodok, Krasnoyarsk 660036, Russia
Krasnoyarsk Inter-District Ambulance Hospital named after N.S. Karpovich, 17 Kurchatova, Krasnoyarsk 660062, Russia
Laboratory of Physics of Magnetic Phenomena, Kirensky Institute of Physics, 50/38 Akademgorodok, Krasnoyarsk 660036, Russia
Siberian Federal University, 79 Svobodny pr., Krasnoyarsk 660041, Russia
Department of Molecular Electronics, Federal Research Center “Krasnoyarsk Science Center of the Siberian Branch of the Russian Academy of Sciences”, 50 Akademgorodok, Krasnoyarsk 660036, Russia
National Research Center Kurchatov Institute, 1 Akademika Kurchatova, Moscow 123182, Russia
Laboratory of Advanced Materials and Technology, Siberian Physical-Technical Institute of Tomsk State University, 36 Lenina, Tomsk 634050, Russia
Krasnoyarsk Regional Pathology-Anatomic Bureau, 3d Partizana Zheleznyaka, Krasnoyarsk 660022, Russia
Department of Chemistry, Lomonosov Moscow State University, 1/3 Leninskie gory, Moscow 119991, Russia
Department of Chemistry, Kyungpook National University, 80 Daehak-ro, Buk-gu, Daegu, 702-701, South Korea
Nanoscience Center and Department of Chemistry, University of Jyväskylä, P.O. Box 35, Jyväskylä 40014, Finland
A.V. Shubnikov Institute of Crystallography of Federal Scientific Research Centre “Crystallography and Photonics” RAS, 59 Leninsky pr., Moscow, 119333, Russia
Federal Siberian Research Clinical Centre under the Federal Medical Biological Agency, Krasnoyarsk, Russia
Krasnoyarsk Regional Clinical Cancer Center, 16 1-ya Smolenskaya, Krasnoyarsk 660133, Russia
Institute of Chemistry and Chemical Technology SB RAS – The Branch of Federal Research Center “Krasnoyarsk Science Center of the Siberian Branch of the Russian Academy of Sciences”, 660036 Krasnoyarsk, Russia
Department of Chemistry and Biomolecular Sciences, University of Ottawa, 10 Marie-Curie, Ottawa, Ontario K1N6N5, Canada
Institute of Chemical Biology and Fundamental Medicine, Siberian Branch, Russian Academy of Sciences, 8 Lavrentyev Avenue, 630090 Novosibirsk, Russia

Доп.точки доступа:
Kichkailo, A. S.; Narodov, A. A.; Komarova, M. A.; Zamay, T. N.; Zamay, G. S.; Kolovskaya, O. S.; Erakhtin, E. E.; Glazyrin, Y. E.; Veprintsev, D. V.; Moryachkov, R. V.; Zabluda, V. N.; Заблуда, Владимир Николаевич; Shchugoreva, I.; Artyushenko, P.; Mironov, V. A.; Morozov, D. I.; Gorbushin, A. V.; Khorzhevskii, V. A.; Koshmanova, A. A.; Nikolaeva, E. D.; Grinev, I. P.; Voronkovskii, I. I.; Grek, D. S.; Belugin, K. V.; Volzhentsev, A. A.; Badmaev, O. N.; Luzan, N.; Lukyanenko, K. A.; Peters, G.; Lapin, I. N.; Лапин, И. Н.; Kirichenko, A. K.; Konarev, P. V.; Morozov, E. V; Mironov, G. G.; Gargaun, A.; Muharemagic, D.; Zamay, S. S.; Kochkina, E. V.; Dymova, M. A.; Smolyarova, T. E.; Sokolov, A. Е.; Соколов, Алексей Эдуардович; Modestov, A. A.; Tokarev, N. A.; Shepelevich, N.; Ozerskaya, A. V.; Chanchikova, N. G.; Krat, A. V.; Zukov, R. A.; Bakhtina, V. I.; Shnyakin, P. G.; Shesternya, P. A.; Svetlichnyi, V. A.; Petrova, M. M.; Artyukhov, I. P.; Tomilin, F. N.; Томилин, Феликс Николаевич; Berezovski, Maxim V.
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Discovery of DNA aptamers targeting SARS-CoV-2 nucleocapsid protein and protein-binding epitopes for label-free COVID-19 diagnostics / S. Poolsup, E. Zaripov, N. Huttmann [et al.] // Mol. Ther. Nucleic Acids. - 2023. - Vol. 31. - P. 731-743, DOI 10.1016/j.omtn.2023.02.010. - Cited References: 74. - M.V.B. thanks the Canadian Institutes of Health Research grant OV1-170353 for providing financial support. Molecular modeling and docking were supported by a grant from the Russian Science Foundation (project number 21-73-20240) for A.S.K. S.P. is thankful to Dr. Bob Dass, Dylan Tanner, and Dr. Degang Liu, Sartorius for generously providing excellent technical training and consumable support for binding assay on BLI, and Aldo Jordan for assisting with creating the figures. The authors also thank John L. Holmes’s mass spectrometry facility for providing access to perform nLC-MS/MS. Lastly, the authors thank the JCSS Joint Super Computer Center of the Russian Academy of Sciences for providing supercomputers for computer simulations . - ISSN 2162-2531
Кл.слова (ненормированные):
MT: Oligonucleotides: Diagnostics and Biosensors -- COVID-19 diagnosis -- SARS-CoV-2 nucleocapsid detection -- label-free optical aptasensor -- aptamer selection -- biolayer interferometry -- binding motif identification
Аннотация: The spread of COVID-19 has affected billions of people across the globe, and the diagnosis of viral infection still needs improvement. Because of high immunogenicity and abundant expression during viral infection, SARS-CoV-2 nucleocapsid (N) protein could be an important diagnostic marker. This study aimed to develop a label-free optical aptasensor fabricated with a novel single-stranded DNA aptamer to detect the N protein. The N-binding aptamers selected using asymmetric-emulsion PCR-SELEX and their binding affinity and cross-reactivity were characterized by biolayer interferometry. The tNSP3 aptamer (44 nt) was identified to bind the N protein of wild type and Delta and Omicron variants with high affinity (KD in the range of 0.6–3.5 nM). Utilizing tNSP3 to detect the N protein spiked in human saliva evinced the potential of this aptamer with a limit of detection of 4.5 nM. Mass spectrometry analysis was performed along with molecular dynamics simulation to obtain an insight into how tNSP3 binds to the N protein. The identified epitope peptides are localized within the RNA-binding domain and C terminus of the N protein. Hence, we confirmed the performance of this aptamer as an analytical tool for COVID-19 diagnosis.

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Department of Chemistry and Biomolecular Sciences, University of Ottawa, Ottawa, ON K1N 6N5, Canada
John L. Holmes Mass Spectrometry Facility, Faculty of Science, University of Ottawa, Ottawa, ON K1N 6N5, Canada
Laboratory for Digital Controlled Drugs and Theranostics, Federal Research Center “Krasnoyarsk Science Center SB RAS”, Krasnoyarsk 660036, Russia
Prof. V.F. Voino-Yasenetsky Krasnoyarsk State Medical University, Krasnoyarsk 660022, Russia
Department of Chemistry, Siberian Federal University, Krasnoyarsk 660041, Russia
Laboratory of Physics of Magnetic Phenomena, Kirensky Institute of Physics, Krasnoyarsk 660036, Russia

Доп.точки доступа:
Poolsup, S.; Zaripov, E.; Huttmann, N.; Minic, Z.; Artyushenko, P. V.; Shchugoreva, I. A.; Tomilin, F. N.; Томилин, Феликс Николаевич; Kichkailo, A. S.; Berezovski, M. V.
}
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In vivo cancer cells elimination guided by aptamer-functionalized gold-coated magnetic nanoparticles and controlled with low frequency alternating magnetic field / I. V. Belyanina [et al.] // Theranostics. - 2017. - Vol. 7, Is. 13. - P. 3326-3337, DOI 10.7150/thno.17089. - Cited References:35. - The authors are grateful to George Y. Vorogeikin, Yuri I. Vorogeikin and "OKB ART". Andrey Barinov and "OPTEC Group" for help with 3D laser scanning imaging. Microscopic analyses using Carl Zeiss LSM 800 were done in the "Center for bioassay, nanotechnology and nanomaterials safety" ("Biotest-Nano") (Multiple-Access Center, Tomsk State University, Tomsk, Russia). Toxicity studies have been performed in Multiple-Access Center, Central Scientific Research Laboratory in Krasnoyarsk State Medical University named after prof. V.F. Voino-Yasenecky. This work was supported by the Russian Scientific Fund (grant #14-15-00805). . - ISSN 1838-7640

РУБ Medicine, Research & Experimental
Рубрики:
PHOTOTHERMAL THERAPY
   INTEGRIN ACTIVATION
   FIBRONECTIN
   STIMULATION
Кл.слова (ненормированные):
cancer therapy -- gold coated magnetic nanoparticles -- DNA aptamers -- low -- frequency alternating magnetic field -- fibronectin -- integrin -- apoptosis -- necrosis
Аннотация: Biomedical applications of magnetic nanoparticles under the influence of a magnetic field have been proved useful beyond expectations in cancer therapy. Magnetic nanoparticles are effective heat mediators, drug nanocarriers, and contrast agents; various strategies have been suggested to selectively target tumor cancer cells. Our study presents magnetodynamic nanotherapy using DNA aptamer-functionalized 50 nm gold-coated magnetic nanoparticles exposed to a low frequency alternating magnetic field for selective elimination of tumor cells in vivo. The cell specific DNA aptamer AS-14 binds to the fibronectin protein in Ehrlich carcinoma hence helps deliver the gold-coated magnetic nanoparticles to the mouse tumor. Applying an alternating magnetic field of 50 Hz at the tumor site causes the nanoparticles to oscillate and pull the fibronectin proteins and integrins to the surface of the cell membrane. This results in apoptosis followed by necrosis of tumor cells without heating the tumor, adjacent healthy cells and tissues. The aptamer-guided nanoparticles and the low frequency alternating magnetic field demonstrates a unique non-invasive nanoscalpel technology for precise cancer surgery at the single cell level.

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Держатели документа:
Krasnoyarsk State Med Univ, Krasnoyarsk, Russia.
Russian Acad Sci, KSC Siberian Branch, Fed Res Ctr, Krasnoyarsk, Russia.
Siberian Fed Univ, Krasnoyarsk, Russia.
Univ Ottawa, Dept Chem & Biomol Sci, Ottawa, ON, Canada.
Inst Computat Modeling RAS SB, Krasnoyarsk, Russia.

Доп.точки доступа:
Belyanina, I. V.; Zamay, T. N.; Замай Т. Н.; Zamay, G. S.; Замай, Галина Сергеевна; Zamay, S. S.; Замай С. С.; Kolovskaya, Olga S.; Ivanchenko, Tatiana I.; Denisenko, Valery V.; Kirichenko, Andrey K.; Glazyrin, Yury E.; Garanzha, Irina V.; Grigorieva, Valentina V.; Shabanov, A. V.; Шабанов, Александр Васильевич; Veprintsev, Dmitry V.; Sokolov, A. E.; Соколов, Алексей Эдуардович; Sadovskii, Vladimir M.; Gargaun, Ana; Berezovski, M. V.; Kichkailo, Anna S.; Russian Scientific Fund [14-15-00805]
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    International workshop on actual problems of condensed matter physics : Program. Book of abstracts / Fed. Res. Center KSC SB RAS, Kirensky Inst. of phys., Sib. Fed. Univ. ; предс. прогр. ком. S. G. Ovchinnikov. - Krasnoyarsk : [s. n.], 2017. - 30 p.
    Содержание:
Bondarev, I. A. Magnetic and transport properties of the epitaxial Fe3Si film on a Si substrate / I. A. Bondarev. - P .25
Yakovlev, I. A. The magnetic anisotropy of the Fe and Fe(1-x)Si(x) thin films depend on / I. A. Yakovlev [и др.]. - P .12
Другие авторы: Belyaev B. A., Rautskii M. V., Tarasov, I. A., Varnakov S. N, Ovchinnikov, S. G.
Popkov, S. I. Inverted opals as the Josephson networks of weak links : Invited / S. I. Popkov [и др.]. - P .24
Другие авторы: Gokhfeld D. M., Bykov A., Mistonov A., Shabanov A., Terentiev K.
Nikolaev, S. Electronic structure and Fermi surface within the cluster perturbation theory in X-operators representation : Invited / S. Nikolaev, V. I. Kuz'min, S. G. Ovchinnikov. - P .27
Fedorov, A. S. DFT investigation of electronic and optical magnetic properties of one dimensional transition metal halide structuresTmHaI3 : Invited / A. S. Fedorov [и др.]. - P .20
Другие авторы: Kuzubov A. A., Kovaleva E. A., Popova M. I., Kholtobina A. S., Mikhaleva N. S., Visotin M. A.
Ovchinnikov, S. G. Effect of interatomic exchange interaction on spin crossover and Mott-Hubbard transition under high pressure and the physical properties of the low Earth’s mantle : Invited / S. G. Ovchinnikov [и др.]. - P .26
Другие авторы: Orlov Yu. S., Nikolaev S., Nesterov A., Ovchinnikova T.
Tarasov, I. A. Extremely high magnetic-field sensitivity of charge transport in the Mn/SiO2/p-Si hybrid structure / I. A. Tarasov [и др.]. - P .21
Другие авторы: Smolyakov D. A., Rautskii M. V., Lukyanenko A. V., Yakovlev I. A., Ovchinnikov S. G., Volkov N. V.
Volkov, N. V. Marnetic-field sensitivity of charge transport in silicon-based hybrid structures : Invited / N. V. Volkov [et al.]. - P .10
Другие авторы: Tarasov A. S., Rautskii M. V., Lukyanenko A. V., Varnakov S. N., Bondarev I. A., Ovchinnikov S. G.
Lukyanenko, A. V. Fabrication of multi-terminal planar devices based on epitaxial Fe1-xSix films grown on Si(111) / A. V. Lukyanenko, A. S. Tarasov, I. A. Tarasov [et al.] ; A. V. Luyanenko [и др.]. - P .28
Другие авторы: Tarasov A. S., Tarasov I. A., Bondarev I. A., Smolyarova T. E., Yakovlev I. A., Volochaev M. N., Varnakov S. N., Ovchinnikov S. G., Volkov N. V.
Rautskii, M. V. Magnetic field-driven lateral photovoltaic effect in the Fe/SiO2/p-Si hibrid structure with the Scottky barrier / M. V. Rautskii [и др.]. - P .29
Другие авторы: Tarasov A. S., Varnakov S. N., Bondarev I. A., Volochaev M. N., Lukyanenko A. V., Volkov N. V.
Moryachkov, R. Small angle X-ray scattering and atomic structure of aptamer biomolecules / R. Moryachkov [и др.]. - P .14-15
Другие авторы: Tomilin F. N., Shchugoreva I., Spiridonova V., Peters G., Zabluda V.
Tarasov, I. A. Iron silicides and pure iron epitaxial and highly-textured nanostructures on silicon: growth and their physical properties : Invited / I. A. Tarasov [и др.]. - P .23
Другие авторы: Visotin M. A., Solovyov L. A., Rautskii M. V., Zhandun, V. S., Nemtsev I. V., Yakovlev I. A., Varnakov S. N, Ovchinnikov, S. G.
Sokolov, A. E. Magnetic nanoparticles and DNA-aptamers conjugates for diagnostics and therapy of cancer : Invited / A. E. Sokolov [и др.]. - P .13
Другие авторы: Zamay S., Zamay T., Svetlichnyi V., Velikanov D.
Sandalov, I. S. The microscopic origin of ferromagnetism in Fe silicides : Invited / I. S. Sandalov [и др.]. - P .16
Другие авторы: Zamkova N. G., Zhandun V. S., Ovchinnikov, S. G.

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Держатели документа:
Институт физики им. Л.В. Киренского СО РАН

Доп.точки доступа:
Ovchinnikov, S. G. \предс. прогр. ком.\; Овчинников, Сергей Геннадьевич; Lukyanenko, A. V.; Varnakov, S. N.; Bondarev, I. A.; Ovchinnikov, S. G.; Tarasov, I. A.; Svetlichnyi, V.; Velikanov, D. A.; Spiridonova, V.; Peters, G.; Zabluda, V. N.; Popova, M. I.; Kholtobina, A. S.; Mikhaleva, N. S.; Visotin, M. A.; Yakovlev, I. A.; Volkov, N. V.; Rautskii, M. V.; Zhandun, V. S.; Nemtsev, I. V.; Varnakov, S. N; Mistonov, A.; Shabanov, A. V.; Terentiev, K. Yu.; Nesterov, A.; Ovchinnikova, T.; Smolyarova, T. E.; Volochaev, M. N.; Federal Research Center KSC SB RAS; Kirensky Institute of Physics; Siberian Federal Univercity; International Workshop on Actual Problems of Condensed Matter Physics (27 Mar. - 1 Apr. 2017 ; Krasnoyarsk / Cheremushki)
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Investigation of the spatial structure of bionanoconjugates based on DNA aptamers by synchrotron methods / R. V. Moryachkov, V. N. Zabluda, I. A. Shchugoreva [et al.] // International conference "Functional materials" : book of abstracts / ed. V. N. Berzhansky ; org. com. S. G. Ovchinnikov [et al.]. - Simferopol, 2021. - P. 310. - Библиогр.: 3 назв. - The research was carried out with a grant from the Russian Science Foundation № 21-12-00226, https://rscf.ru/project/21-12-00226/

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Доп.точки доступа:
Berzhansky, V. N. \ed.\; Бержанский, Владимир Наумович; Ovchinnikov, S. G. \org. com.\; Овчинников, Сергей Геннадьевич; Moryachkov, R. V.; Морячков, Роман Владимирович; Zabluda, V. N.; Заблуда, Владимир Николаевич; Shchugoreva, Irina A.; Artyushenko, P. V.; Kichkaylo, A.S.; Spiridonova, V. A.; Berlina, A. N.; Sokolov, A. Е.; Соколов, Алексей Эдуардович; "Functional materials", International conference(2021 ; Oct. 4-8 ; Alushta, Russia); Крымский федеральный университет имени В.И. Вернадского
}
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10.

Iron oxide nanoparticles for isolating DNA from blood cells / A. V. Tyumentseva, A. S. Gorbenko, R. N. Yaroslavtsev [et al.] // Bull. Russ. Acad. Sci. Phys. - 2021. - Vol. 85, Is. 9. - P. 965-969, DOI 10.3103/S1062873821090185. - Cited References: 13. - This work was supported by the Russian Foundation for Basic Research; the Government of Krasnoyarsk Territory; the Krasnoyarsk Regional Fund for the Support of Scientific and Scientific and Technical Activities, project no. 20-42-242902; and the RF Presidential Council of Grants for the State Support of Young Russian Scientists (Candidates of Science), project no. MK-1263.2020.3 . - ISSN 1062-8738
Кл.слова (ненормированные):
Blood -- Cells -- Cytology -- Iron oxides -- Metal nanoparticles -- Nanomagnetics -- Silicates -- Synthesis (chemical) -- Blood cells -- Cell-be -- Cell/B.E -- Cell/BE -- Leucocytes -- Magnetic iron-oxide nanoparticles -- Physical and chemical properties -- Silicate coatings -- Synthesised -- DNA
Аннотация: Magnetic iron oxide nanoparticles for separating DNA from blood cells are synthesized. Magnetic nanoparticles with a silicate coating are obtained, and their physical and chemical properties are studied. The possibility of using the nanocomposites to isolate DNA from leukocytes for hematological studies is confirmed experimentally.

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Публикация на русском языке Наночастицы оксидов железа для выделения ДНК из клеток крови [Текст] / А. В. Тюменцева, А. С. Горбенко, Р. Н. Ярославцев [и др.] // Изв. РАН. Сер. физич. - 2021. - Т. 85 № 9. - С. 1257-1262

Держатели документа:
Krasnoyarsk Science Center, Siberian Branch, Russian Academy of Sciences, Krasnoyarsk, 660036, Russian Federation
Hematological Scientific Center, RF Ministry of Health and Social Development, Krasnoyarsk Branch, Krasnoyarsk, 660036, Russian Federation
Kirensky Institute of Physics, Krasnoyarsk Science Center, Siberian Branch, Russian Academy of Sciences, Krasnoyarsk, 660036, Russian Federation
Siberian Federal University, Krasnoyarsk, 660041, Russian Federation

Доп.точки доступа:
Tyumentseva, A. V.; Gorbenko, A. S.; Yaroslavtsev, R. N.; Ярославцев, Роман Николаевич; Stolyar, S. V.; Столяр, Сергей Викторович; Gerasimova, Yu. V.; Герасимова, Юлия Валентиновна; Komogortsev, S. V.; Комогорцев, Сергей Викторович; Bayukov, O. A.; Баюков, Олег Артемьевич; Knyazev, Yu. V.; Князев, Юрий Владимирович; Volochaev, M. N.; Волочаев, Михаил Николаевич; Olkhovskiy, I. A.; Iskhakov, R. S.; Исхаков, Рауф Садыкович
}
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11.

Maghemite nanoparticles for DNA extraction: Performance and blocking temperature / S. V. Stolyar, S. V. Komogortsev, A. S. Gorbenko [et al.] // J. Supercond. Novel Magn. - 2022. - Vol. 35, Is. 7. - P. 1929-1936, DOI 10.1007/s10948-022-06233-5. - Cited References: 33. - This work was supported by Russian Foundation for Basic Research, Government of Krasnoyarsk Territory, Krasnoyarsk Region Science and Technology Support Fund, with research projects no. 20–42-242902. We are grateful to the Center of Collective Use of FRC KSC SB RAS for the provided equipment . - ISSN 1557-1939
Кл.слова (ненормированные):
Magnetic nanoparticles -- Superparamagnetism -- Blocking temperature -- Magnetic separation
Аннотация: Iron oxide nanoparticles coated with polyethylene glycol were synthesized by coprecipitation for use in the magnetic separation of DNA (deoxyribonucleic acid). The blocking temperature of nanoparticles was studied by the methods of Mossbauer spectroscopy, ferromagnetic resonance, and using magnetometric measurements. The blocking temperature calculated from the temperature dependence of the coercive force was ~ 200 K. The calculation of the blocking temperature from the relaxation time obtained using Mossbauer spectroscopy gave a value of ~ 450 K. The blocking temperature obtained using ferromagnetic resonance was ~ 910 K. The relationship between the obtained blocking temperatures is in good agreement with the Neel-Brown formula. The constants of effective and surface anisotropy were determined by the method of ferromagnetic resonance. Isolation of DNA from blood using prepared particles and separation in a permanent magnet field revealed sufficient productivity, high speed, and the “chemical delicacy” of this approach.

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Держатели документа:
Krasnoyarsk Scientific Center, Federal Research Center KSC SB RAS, Krasnoyarsk, Russian Federation
Kirensky Institute of Physics, Federal Research Center KSC SB RAS, Krasnoyarsk, Russian Federation
Siberian Federal University, Krasnoyarsk, Russian Federation
Ural Federal University, Ekaterinburg, Russian Federation

Доп.точки доступа:
Stolyar, S. V.; Столяр, Сергей Викторович; Komogortsev, S. V.; Комогорцев, Сергей Викторович; Gorbenko, A. S.; Knyazev, Yu. V.; Князев, Юрий Владимирович; Yaroslavtsev, R. N.; Ярославцев, Роман Николаевич; Olkhovskiy, I. A.; Neznakhin, D. S.; Tyumentseva, A. V.; Bayukov, O. A.; Баюков, Олег Артемьевич; Iskhakov, R. S.; Исхаков, Рауф Садыкович
}
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12.

Magnetic and magnetooptical properties of magnetic nanoparticles and DNA-Aptamers conjugates for medical application / A. E. Sokolov [et al.] // VI Euro-Asian Symposium "Trends in MAGnetism" (EASTMAG-2016) : abstracts / ed.: O. A. Maksimova, R. D. Ivantsov. - Krasnoyarsk : KIP RAS SB, 2016. - Ст. P12.4. - P. 561. - The work was supported by the Ministry of Education and Science (Agreement No.14.607.21.0104 (RFMEFI60714X0104)) . - ISBN 978-5-904603-06-9
Кл.слова (ненормированные):
magnetic nanoparticles -- magnetization -- natural and magnetic circular dichroism -- aptamers -- bionanoconjugates

Доп.точки доступа:
Sokolov, A. E.; Соколов, Алексей Эдуардович; Ivanova, O. S.; Иванова, Оксана Станиславовна; Zabluda, V. N.; Заблуда, Владимир Николаевич; Dubynina, A. V.; Дубынина, А. В.; Semina, P. N.; Семина, Полина Николаевна; Zamay, G. S.; Замай, Г. С.; Zamay, T. N.; Замай, Татьяна Н.; Zamay, A. S.; Замай, Анна Сергеевна; Volochaev, M. N.; Волочаев, Михаил Николаевич; Svetlichnyi, V.; Светличный, Валерий; Lapin, I. N.; Лапин, И. Н.; Shabalina, A.; Шабалина, Анастасия; Euro-Asian Symposium "Trends in MAGnetism"(6 ; 2016 ; Aug. ; 15-19 ; Krasnoyarsk); "Trends in MAGnetism", Euro-Asian Symposium(6 ; 2016 ; Aug. ; 15-19 ; Krasnoyarsk); Институт физики им. Л.В. Киренского Сибирского отделения РАН

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13.

Magnetic nanoconstructions of iron oxides coated with arabinogalactan functionalized with DNA aptamer / S. V. Stolyar [et al.] // J. Phys. Conf. Ser. - 2019. - Vol. 1399. - Ст. 022026, DOI 10.1088/1742-6596/1399/2/022026. - Cited References: 6 . - ISSN 1742-6588. - ISSN 1742-6596
Рубрики:
Applied Physics
Аннотация: New composite nanoparticles for biomedical applications have been manufactured. The particles consist of an anisomeric magnetite core coated with arabinogalactan and are functionalized with cameras for As-14 ascites cells (Ehrlich carcinoma). The binding of ascitic Ehrlich carcinoma cells to magnetic nanoparticles was evaluated using fluorescence microscopy.

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Держатели документа:
Siberian Federal University, Krasnoyarsk, Russia
Kirensky Institute of Physics, Federal Research Center KSC SB RAS, Krasnoyarsk, Russia
Krasnoyarsk Scientific Center, Federal Research Center KSC SB RAS Krasnoyarsk, Russia
Krasnoyarsk State Medical University named after prof. V.F. Voino-Yasenecki, Krasnoyarsk, 660022, Russia
Astrakhan State University, Tatisheva 20 A, Astrakhan, 414056, Russia
College of Biotechnology, Al-Qasim Green University, Iraq

Доп.точки доступа:
Stolyar, S. V.; Столяр, Сергей Викторович; Chekanova, L. A.; Чеканова, Лидия Александровна; Yaroslavtsev, R. N.; Ярославцев, Роман Николаевич; Komogortsev, S. V.; Комогорцев, Сергей Викторович; Gerasimova, Yu. V.; Герасимова, Юлия Валентиновна; Bayukov, O. A.; Баюков, Олег Артемьевич; Volochaev, M. N.; Волочаев, Михаил Николаевич; Iskhakov, R. S.; Исхаков, Рауф Садыкович; Garanzha, I. V.; Kolovskaya, O. S.; Bairmani, M. Sh.; Zamay, T. N.; International Scientific Conference "Conference on Applied Physics, Information Technologies and Engineering"(25-27 September 2019 ; Krasnoyarsk, Russian Federation)
}
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14.

Magnetic nanoparticles and DNA-aptamers conjugates for cancer therapy / A. Е. Sokolov [et al.] // Int. Baltic Conf. Magnet. (IBCM-2017) : Focus on funcshionalized magnetic struct. for energy and biotech. : book of abstracts. - 2017. - P. 77. - Библиогр.: 4

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Доп.точки доступа:
Sokolov, A. Е.; Соколов, Алексей Эдуардович; Ivanova, O. S.; Иванова, Оксана Станиславовна; Zabluda, V. N.; Заблуда, Владимир Николаевич; Dubinina, A. V.; Semina, P. N.; Семина, Полина Николаевна; Zamay, G. S.; Замай Г. С.; Zamay, T. N.; Zamay, S. S.; Замай С. С.; Volochaev, M. N.; Волочаев, Михаил Николаевич; Svetlichnyi, V.; Светличный В.; Lapin, I. N.; Лапин Иван; Shabalina, A.; Шабалина Анастасия; Solodova, O. V.; Солодова О. В.; International Baltic Conference on Magnetism: Focus on funcshionalized magnetic structures for energy and biotechnology (2 ; 2017 ; 20-24 Aug. ; Svetlogorsk); Балтийский федеральный университет им. И. Канта
}
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15.

Magnetic nanoparticles and DNA-aptamers conjugates for diagnostics and therapy of cancer : Invited / A. E. Sokolov [et al.] // International workshop on actual problems of condensed matter physics : Program. Book of abstracts / Fed. Res. Center KSC SB RAS, Kirensky Inst. of phys., Sib. Fed. Univ. - Krasnoyarsk, 2017. - P. 13

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Доп.точки доступа:
Ovchinnikov, S. G. \предс. прогр. ком.\; Овчинников, Сергей Геннадьевич; Sokolov, A. Е.; Соколов, Алексей Эдуардович; Zamay, S. S.; Замай С. С.; Zamay, T. ; Замай Татьяна; Svetlichnyi, V.; Светличный В.; Velikanov, D. A.; Великанов, Дмитрий Анатольевич; Federal Research Center KSC SB RAS; Kirensky Institute of Physics; Siberian Federal Univercity; International Workshop on Actual Problems of Condensed Matter Physics(27 Mar. - 1 Apr. 2017 ; Krasnoyarsk / Cheremushki)
Нет сведений об экземплярах (Источник в БД не найден)
}
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16.

Magnetic Nanoparticles for Extracting DNA from Blood Cells / A. V. Komina, R. N. Yaroslavtsev, Y. V. Gerasimova [et al.] // Bull. Russ. Acad. Sci. Phys. - 2020. - Vol. 84, Is. 11. - P. 1362-1365, DOI 10.3103/S1062873820110155. - Cited References: 15 . - ISSN 1062-8738
Кл.слова (ненормированные):
Blood cells -- Extraction process -- Genomic DNA -- Iron nanoparticles -- Magnetic particle
Аннотация: A technique for extracting DNA from blood cells using magnetic particles offers the advantage of saving time and prospects of automating the extraction process. A way of obtaining magnetic iron nanoparticles for extracting DNA from blood cells is developed. Magnetic nanoparticles with characteristics suitable for extracting genomic DNA from leukocytes are obtained and investigated.

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Публикация на русском языке Магнитные частицы для выделения ДНК из клеток крови [Текст] / А. В. Комина, Р. Н. Ярославцев, Ю. В. Герасимова [и др.] // Изв. РАН. Сер. физич. - 2020. - Т. 84 № 11. - С. 1597-1600

Держатели документа:
Krasnoyarsk Scientific Center, Siberian Branch, Russian Academy of Sciences, Krasnoyarsk, 660036, Russian Federation
National Research Center for Hematology, Krasnoyarsk Branch, Krasnoyarsk, 660036, Russian Federation
Kirensky Institute of Physics, Krasnoyarsk Scientific Center, Siberian Branch, Russian Academy of Sciences, Krasnoyarsk, 660036, Russian Federation
Astrakhan State University, Astrakhan, 414056, Russian Federation
Al-Qasim Green University, College of Biotechnology, Babylon, 00964, Iraq

Доп.точки доступа:
Komina, A. V.; Yaroslavtsev, R. N.; Ярославцев, Роман Николаевич; Gerasimova, Yu. V.; Герасимова, Юлия Валентиновна; Stolyar, S. V.; Столяр, Сергей Викторович; Olkhovsky, I. A.; Bairmani, M. S.
}
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17.

Magnetic nanoscalpel for the effective treatment of ascites tumors / T. Zamay, S. Zamay, N. Luzan [et al.] // J. Funct. Biomater. - 2023. - Vol. 14, Is. 4. - Ст. 179, DOI 10.3390/jfb14040179. - Cited References: 36. - This research was funded by the Regional State Autonomous Institution “Krasnoyarsk Regional Fund for Support of Scientific and Scientific and Technical Activities”, Competition of scientific, technical, and innovative projects in the interests of the first world-class climate scientific and educational center “Yenisei Siberia”, grant “Carrying out applied research and development aimed at creating technologies for the production of nanoscalpels based on magnetic nanodisks for microsurgery of glial brain tumors” No. 2022060108781 and with the support of a partner company JSC «NPP «Radiosviaz» . - ISSN 2079-4983
Кл.слова (ненормированные):
magnetic nanodisks -- ascitic tumor -- magneto-mechanical therapy -- “smart nanoscalpel” -- DNA aptamers -- apoptosis -- necrosis
Аннотация: One of the promising novel methods for radical tumor resection at a single-cell level is magneto-mechanical microsurgery (MMM) with magnetic nano- or microdisks modified with cancer-recognizing molecules. A low-frequency alternating magnetic field (AMF) remotely drives and controls the procedure. Here, we present characterization and application of magnetic nanodisks (MNDs) as a surgical instrument (“smart nanoscalpel”) at a single-cell level. MNDs with a quasi-dipole three-layer structure (Au/Ni/Au) and DNA aptamer AS42 (AS42-MNDs) on the surface converted magnetic moment into mechanical and destroyed tumor cells. The effectiveness of MMM was analyzed on Ehrlich ascites carcinoma (EAC) cells in vitro and in vivo using sine and square-shaped AMF with frequencies from 1 to 50 Hz with 0.1 to 1 duty-cycle parameters. MMM with the “Nanoscalpel” in a sine-shaped 20 Hz AMF, a rectangular-shaped 10 Hz AMF, and a 0.5 duty cycle was the most effective. A sine-shaped field caused apoptosis, whereas a rectangular-shaped field caused necrosis. Four sessions of MMM with AS42-MNDs significantly reduced the number of cells in the tumor. In contrast, ascites tumors continued to grow in groups of mice and mice treated with MNDs with nonspecific oligonucleotide NO-MND. Thus, applying a “smart nanoscalpel” is practical for the microsurgery of malignant neoplasms.

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Держатели документа:
Federal Research Center “Krasnoyarsk Science Center” of the Siberian Branch, Russian Academy of Sciences, Krasnoyarsk 660036, Russia
Laboratory for Biomolecular and Medical Technologies, Prof. V.F. Voino-Yasenetsky Krasnoyarsk State Medical University, Krasnoyarsk 660022, Russia
JSC «NPP «Radiosviaz», Krasnoyarsk 660021, Russia
Laboratory of Advanced Materials and Technology, Siberian Physical Technical Institute, Tomsk State University, Tomsk 634050, Russia
L.V. Kirensky Institute of Physics, Siberian Branch of the Russian Academy of Sciences, Krasnoyarsk 660036, Russia
Institute of Automation and Control Processes (IACP), Far Eastern Branch of the Russian Academy of Science, Vladivostok 690041, Russia
Far Eastern Federal University, Vladivostok 690950, Russia
V.P. Astafiev Krasnoyarsk State Pedagogical University, Krasnoyarsk 660049, Russia

Доп.точки доступа:
Zamay, Tatiana; Zamay, Sergey; Luzan, Natalia; Fedotovskaya, Victoriya; Masyugin, Albert; Zelenov, F.; Koshmanova, Anastasia; Nikolaeva, Elena; Kirichenko, Daria; Veprintsev, Dmitry; Kolovskaya, Olga; Shchugoreva, Irina; Zamay, Galina; Lapin, I. N.; Lukyanenko, A. V.; Лукьяненко, Анна Витальевна; Borus, Andrey; Борус, Андрей Андреевич; Sukhachev, A. L.; Сухачев, Александр Леонидович; Volochaev, M. N.; Волочаев, Михаил Николаевич; Lukyanenko, Kirill; Shabanov, Alexandr; Zabluda, V. N.; Заблуда, Владимир Николаевич; Zhizhchenko, Alexey; Kuchmizhak, Aleksandr; Sokolov, A. Е.; Соколов, Алексей Эдуардович; Narodov, Andrey; Prokopenko, Vladimir; Galeev, Rinat; Svetlichnyi, Valery; Kichkailo, Anna
}
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18.

Molecular design of aptamer structure by computer simulations / I. Shchugoreva [et al.] // VI Euro-Asian Symposium "Trends in MAGnetism" (EASTMAG-2016) : abstracts / ed.: O. A. Maksimova, R. D. Ivantsov. - Krasnoyarsk : KIP RAS SB, 2016. - Ст. P12.2. - P. 558. - We acknowledge the grant by the Ministry of Education and Science (Agreement No.14.607.21.0104 (RFMEFI60714X0104)) for the financial support of this work . - ISBN 978-5-904603-06-9
Кл.слова (ненормированные):
DNA -- SELEX -- SAXS -- QM/MM -- aptamer -- G-quartets

Доп.точки доступа:
Shchugoreva, I.; Moryachkov, R.; Zabluda, V. N.; Заблуда, Владимир Николаевич; Sokolov, A. E.; Соколов, Алексей Эдуардович; Spiridonova, V. A.; Спиридонова В. А.; Gruzinov, A.; Zamay, A. S.; Замай, Анна Сергеевна; Veprincev, D.; Zamay, G. S.; Замай Г. С.; Tomilin, F. N.; Томилин, Феликс Николаевич; Ovchinnikov, S. G.; Овчинников, Сергей Геннадьевич; Euro-Asian Symposium "Trends in MAGnetism"(6 ; 2016 ; Aug. ; 15-19 ; Krasnoyarsk); "Trends in MAGnetism", Euro-Asian Symposium(6 ; 2016 ; Aug. ; 15-19 ; Krasnoyarsk); Институт физики им. Л.В. Киренского Сибирского отделения РАН

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19.

Molecular epitope determination of aptamer complexes of the multidomain protein C-met by proteolytic affinity-mass spectrometry / L. Lupu, P. Wiegand, N. Huttmann [et al.] // ChemMedChem. - 2020. - Vol. 15, Is. 4. - P. 363-369, DOI 10.1002/cmdc.201900489. - Cited References: 40. - We gratefully acknowledge the advice and assistance of Prof. Friedemann Volklein and Oliver Muller, MSc in the preparation of chips for the SPR affinity determinations. We thank Dr. Stefan Maeser, Biogen GmbH, Munchen, for valuable advice and critical reading of the manuscript. This work has been partially funded (Chip-MS epitope analysis) by the LOEWE-3 Funding Agency, Hessen-Agentur, Wiesbaden, Germany; Grant 696/19-16 . - ISSN 1860-7179. - ISSN 1860-7187

РУБ Chemistry, Medicinal + Pharmacology & Pharmacy
Рубрики:
DNA APTAMERS
ANTIBODIES
RECOGNITION
Кл.слова (ненормированные):
C-Met protein -- tumor biomarkers -- aptamer-C-Met complexes -- aptamer epitopes -- affinity-mass spectrometry -- epitope peptide analysis
Аннотация: C‐Met protein is a glycosylated receptor tyrosine kinase of the hepatocyte growth factor (HGF), composed of an α and a β chain. Upon ligand binding, C‐Met transmits intracellular signals by a unique multi‐substrate docking site. C‐Met can be aberrantly activated leading to tumorigenesis and other diseases, and has been recognized as a biomarker in cancer diagnosis. C‐Met aptamers have been recently considered a useful tool for detection of cancer biomarkers. Herein we report a molecular interaction study of human C‐Met expressed in kidney cells with two DNA aptamers of 60 and 64 bases (CLN0003 and CLN0004), obtained using the SELEX (Systematic Evolution of Ligands by Exponential Enrichment) procedure. Epitope peptides of aptamer‐C‐Met complexes were identified by proteolytic affinity‐mass spectrometry in combination with SPR biosensor analysis (PROTEX‐SPR‐MS), using high‐pressure proteolysis for efficient digestion. High affinities (KD, 80–510 nM) were determined for aptamer‐C‐Met complexes, with two‐step binding suggested by kinetic analysis. A linear epitope, C‐Met (381–393) was identified for CLN0004, while the CLN0003 aptamer revealed an assembled epitope comprised of two peptide sequences, C‐Met (524–543) and C‐Met (557–568). Structure modeling of C‐Met‐aptamers were consistent with the identified epitopes. Specificities and affinities were ascertained by SPR analysis of the synthetic epitope peptides. The high affinities of aptamers to C‐Met, and the specific epitopes revealed render them of high interest for cellular diagnostic studies.

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Держатели документа:
Steinbeis Ctr Biopolymer Anal & Biomed Mass Spect, Marktstr 29, D-65428 Russelsheim, Germany.
Univ Ottawa, Dept Chem & Biomol Sci, Ottawa, ON K1N 6N5, Canada.
Rhein Main Univ, Dept Engn Sci, D-65428 Russelsheim, Germany.
Russian Acad Sci, Siberian Branch, Kirensky Inst Phys, Krasnoyarsk 660036, Russia.
Siberian Fed Univ, Krasnoyarsk 66041, Russia.
Russian Acad Sci, Fed Res Ctr, Lab Digital Controlled Drugs & Theranost, Siberian Branch,Krasnoyarsk Sci Ctr, Krasnoyarsk 660036, Russia.
Pressure Biosci Inc, 14 Norfolk Ave, South Easton, MA 02375 USA.

Доп.точки доступа:
Lupu, Loredana; Wiegand, Pascal; Huttmann, N.; Rawer, Stephan; Kleinekofort, Wolfgang; Shugureva, Irina; Kichkailo, Anna S.; Tomilin, F. N.; Томилин, Феликс Николаевич; Lazarev, Alexander; Berezovski, Maxim V.; Przybylski, Michael; LOEWE-3 Funding Agency, Hessen-Agentur, Wiesbaden, Germany [696/19-16]
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20.

Obtaining and properties of biomagnetic nanoconjugates based on DNA aptamers and magnetic nanoparticles for magnetodynamic cell therapy / A. Е. Sokolov, A. V. Kurilova, V. A. Svetlichniy [et al.] // The Fifth Asian School-Conference on Physics and Technology of Nanostructured Materials : Proceedings. - VLadivostok : Dalnauka Publishing, 2020. - Ст. V.01.17o. - P. 147 . - ISBN 978-5-8044-1698-1

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Доп.точки доступа:
Sokolov, A. Е.; Соколов, Алексей Эдуардович; Kurilova, A. V.; Svetlichniy, V. A.; Velikanov, D. A.; Великанов, Дмитрий Анатольевич; Sherepa, A. V.; Volochaev, M. N.; Волочаев, Михаил Николаевич; Goncharova, D. A.; Shabalina, A. V.; Asian School-Conference on Physics and Technology of Nanostructured Materials(5 ; 2020 ; 30 Jul - 3 Aug ; Vladivostok); Азиатская школа-конференция по физике и технологии наноструктурированных материалов(5 ; 2013 ; 30 июля - 3 авг. ; Владивосток)
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