Four steps for revealing and adjusting the 3D structure of aptamers in solution by small-angle X-ray scattering and computer simulation

Tomilin, Felix N.; Moryachkov, Roman V.; Shchugoreva, Irina A.; Zabluda, V. N.; Peters, G. S.; Платунов, М. С.; Спиридонова, В. А.; Melnichuk, A. V.; Atrokhova, Anastasia; Zamay, Sergey S.; Овчинников, С. Г.; Zamay, Galina S.; Sokolov, A. E.; Zamay, Tatiana N.; Berezovski, Maxim V.; Kichkailo, Anna S.

doi:10.1007/s00216-019-02045-0

Cited by 13 publications

(12 citation statements)

References 48 publications

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“…Moreover, the experiments allowed to derive the molecular weight and suggested the aptamer exists as a dimer in solution, while presenting a 1:1 stoichiometry aptamer-ghrelin. Tomilin et al [148] proposed a four-step process to obtain a 3D structure of a thrombin-binding aptamer. From SAXS results, a structural envelope was built.…”

Section: Small-angle X-ray Scatteringmentioning

confidence: 99%

Mapping the gaps in chemical analysis for the characterisation of aptamer-target interactions

Daems

Moro

Campos

et al. 2021

TrAC Trends in Analytical Chemistry

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Section: Small-angle X-ray Scatteringmentioning

confidence: 99%

Mapping the gaps in chemical analysis for the characterisation of aptamer-target interactions

Daems

Moro

Campos

et al. 2021

TrAC Trends in Analytical Chemistry

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“…Threedimensional structure depends on aptamer sequence, primary structure, pH, temperature and buffer composition of the sensor [28]. Target-aptamer interactions mainly depend on the nature of its binding analyte, three-dimensional structure of the aptamer and distribution of their charges [29]. Interaction types between aptamer target complex involve electrostatic interactions, van der Waals forces, shape complementarity, stacking of flat moieties and hydrogen bonding so that their dissociation constants (K d ) values range from pico-to nanomolar levels [30].…”

Section: Aptasensors and Aptamersmentioning

confidence: 99%

Advances in Gold Nanoparticles-Based Colorimetric Aptasensors for the Detection of Antibiotics: An Overview of the Past Decade

Zahra

Ali

et al. 2021

Nanomaterials

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Misuse of antibiotics has recently been considered a global issue because of its harmful effects on human health. Since conventional methods have numerous limitations, it is necessary to develop fast, simple, sensitive, and reproducible methods for the detection of antibiotics. Among numerous recently developed methods, aptasensors are fascinating because of their good specificity, sensitivity and selectivity. These kinds of biosensors combining aptamer with colorimetric applications of gold nanoparticles to recognize small molecules are becoming more popular owing to their advantageous features, for example, low cost, ease of use, on-site analysis ability using naked eye and no prerequisite for modern equipment. In this review, we have highlighted the recent advances and working principle of gold nanoparticles based colorimetric aptasensors as promising methods for antibiotics detection in different food and environmental samples (2011–2020). Furthermore, possible advantages and disadvantages have also been summarized for these methods. Finally, the recent challenges, outlook, and promising future perspectives for developing novel aptasensors are also considered.

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“…Various analytical methods have been used to understand the molecular interactions of aptamer structure and aptamer-target complexes [ 31 ]. ClustalW software is one of the most used and cited multiple-sequence alignment tools.…”

Section: Aptamersmentioning

confidence: 99%

Aptamers: Novel Therapeutics and Potential Role in Neuro-Oncology

Amero

Khatua

Rodríguez-Aguayo

et al. 2020

Cancers

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A relatively new paradigm in cancer therapeutics is the use of cancer cell–specific aptamers, both as therapeutic agents and for targeted delivery of anticancer drugs. After the first therapeutic aptamer was described nearly 25 years ago, and the subsequent first aptamer drug approved, many efforts have been made to translate preclinical research into clinical oncology settings. Studies of aptamer-based technology have unveiled the vast potential of aptamers in therapeutic and diagnostic applications. Among pediatric solid cancers, brain tumors are the leading cause of death. Although a few aptamer-related translational studies have been performed in adult glioblastoma, the use of aptamers in pediatric neuro-oncology remains unexplored. This review will discuss the biology of aptamers, including mechanisms of targeting cell surface proteins, various modifications of aptamer structure to enhance therapeutic efficacy, the current state and challenges of aptamer use in neuro-oncology, and the potential therapeutic role of aptamers in pediatric brain tumors.

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Four steps for revealing and adjusting the 3D structure of aptamers in solution by small-angle X-ray scattering and computer simulation

Cited by 13 publications

References 48 publications

Mapping the gaps in chemical analysis for the characterisation of aptamer-target interactions

Mapping the gaps in chemical analysis for the characterisation of aptamer-target interactions

Advances in Gold Nanoparticles-Based Colorimetric Aptasensors for the Detection of Antibiotics: An Overview of the Past Decade

Aptamers: Novel Therapeutics and Potential Role in Neuro-Oncology

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