Rational Optimization of an Aptamer Specific to the Surface of Lung-Cancer Cells Using Mathematical Modeling and Small-Angle X-ray Scattering

IF 0.8 Q3 Engineering Nanotechnologies in Russia Pub Date : 2024-09-10 DOI:10.1134/S2635167624600731
P. V. Artyushenko, I. A. Shchugoreva, O. S. Kolovskaya, A. V. Rogova, R. V. Moryachkov, V. N. Zabluda, T. N. Zamay, A. V. Krat, R. A. Zukov, F. N. Tomilin, A. S. Kichkailo
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Abstract

Aptamers, short oligonucleotides, are capable of high-affinity binding to targets due to their unique structure. Shortening the aptamer while maintaining the active site will increase the affinity and reduce the cost of synthesis. Using the example of the aptamer LC-224, a method for rational optimization of its length and verification of the validity of the developed approach is tested. The use of computer modeling and small-angle X‑ray scattering shows the possibility of optimizing the aptamer structure by removing nucleotides that do not participate in binding to the target. It is shown that truncation of the aptamer does not reduce the affinity and specificity of the DNA aptamer. Thus, theoretical and experimental studies demonstrate successful experience in optimizing the structure of a DNA aptamer by shortening it without compromising its affinity and specificity for its target.

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利用数学建模和小角 X 射线散射合理优化肺癌细胞表面特异性适配体
适配体是一种短寡核苷酸,由于其独特的结构,能够与靶标高亲和力结合。在保持活性位点的同时缩短适配体的长度,可以提高亲和力并降低合成成本。我们以适配体 LC-224 为例,测试了合理优化其长度的方法,并验证了所开发方法的有效性。计算机建模和小角 X 射线散射的使用表明,可以通过去除不参与与目标物结合的核苷酸来优化适配体结构。研究表明,截短适配体不会降低 DNA 适配体的亲和力和特异性。因此,理论和实验研究证明,通过缩短 DNA 短接子来优化其结构,并不会降低其对目标物的亲和力和特异性,是一种成功的经验。
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来源期刊
Nanotechnologies in Russia
Nanotechnologies in Russia NANOSCIENCE & NANOTECHNOLOGY-
CiteScore
1.20
自引率
0.00%
发文量
0
期刊介绍: Nanobiotechnology Reports publishes interdisciplinary research articles on fundamental aspects of the structure and properties of nanoscale objects and nanomaterials, polymeric and bioorganic molecules, and supramolecular and biohybrid complexes, as well as articles that discuss technologies for their preparation and processing, and practical implementation of products, devices, and nature-like systems based on them. The journal publishes original articles and reviews that meet the highest scientific quality standards in the following areas of science and technology studies: self-organizing structures and nanoassemblies; nanostructures, including nanotubes; functional and structural nanomaterials; polymeric, bioorganic, and hybrid nanomaterials; devices and products based on nanomaterials and nanotechnology; nanobiology and genetics, and omics technologies; nanobiomedicine and nanopharmaceutics; nanoelectronics and neuromorphic computing systems; neurocognitive systems and technologies; nanophotonics; natural science methods in a study of cultural heritage items; metrology, standardization, and monitoring in nanotechnology.
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