ArticleNucleic acids research2019
Structure-guided post-SELEX optimization of an ochratoxin A aptamer.
Article in Nucleic acids research, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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31 citing papers in PubMed, 108 citations in OpenAlex.
- Intracellular artificial DNA receptor-loaded gelated cells for aflatoxin theranostics.Nature communications · 2026Article
- Reconsidering Molecular Docking Practices in Aptamer Research.Chembiochem : a European journal of chemical biology · 2026Article
- Dual-mode aptamer-driven biosensing platform for ultrasensitive and mutation-resilient detection of the SARS-CoV-2 nucleocapsid protein.Genes & diseases · 2026Article
- Assessing Molecular Dynamics in Predicting Aptamer-Ligand Binding Thermodynamics: Insights from the OTA Binding Aptamers.Journal of chemical information and modeling · 2026Article
- Structural basis of DNA aptamer A58 targeting the N-terminal domain of sarbecoviruses nucleocapsid protein.The Journal of biological chemistry · 2026Article
- High-Sensitivity DNA Aptasensors for Detecting Salivary Biomarker S100A7 in Heart Failure.ACS omega · 2026Article
- Sequence optimization of a DNA aptamer inhibiting COVID-19 infection guided by analysis of secondary structure distribution.Computational and structural biotechnology journal · 2026Article
- Design and Characterization of Aptamers to Antibiotic Kanamycin with Improved Affinity.International journal of molecular sciences · 2025Article
- 8-Oxo-7,8-dihydropurines as Building Blocks to Enhance the Selectivity of an RNA Aptamer for Aminoglycosides.ACS chemical biology · 2025Article
- Structural basis and affinity improvement for an ATP-binding DNA aptamer.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Engineering functionally-optimized aptamers against SARS-Cov-2 for blocking spike-ACE2 interaction and aptasensor detection.Materials today. Bio · 2025Article
- Aptamer-engaged nanotherapeutics against SARS-CoV-2.Discover nano · 2025Review
- Exploring the relationship between aptamer binding thermodynamics, affinity, and specificity.Nucleic acids research · 2025Article
- Advances in Aptamer-Based Biosensors for the Detection of Foodborne Mycotoxins.Molecules (Basel, Switzerland) · 2024Review
- Blocker-SELEX: a structure-guided strategy for developing inhibitory aptamers disrupting undruggable transcription factor interactions.Nature communications · 2024Article
- Engineered aptamers for molecular imaging.Chemical science · 2023Review
- Comparative Study of Single-stranded Oligonucleotides Secondary Structure Prediction Tools.BMC bioinformatics · 2023Article
- A novel ternary Y-DNA walker amplification strategy designed fluorescence aptasensor based on Au@SiOMikrochimica acta · 2023Article
- Structural basis for high-affinity recognition of aflatoxin B1 by a DNA aptamer.Nucleic acids research · 2023Article
- Aptamer-functionalized field-effect transistor biosensors for disease diagnosis and environmental monitoring.Exploration (Beijing, China) · 2023Review
Corrections and comments
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Authors and funding
7 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
SELEX is the cornerstone for aptamer research with broad applications in biosensors and medicine. To improve the affinity of selected aptamers, we propose a structure-guided post-SELEX approach, an optimization method based on the precise secondary structure of the aptamer-ligand complex. We demonstrate this approach using the Ochratoxin A (OTA) aptamer. Guided by the structure, we designed a new aptamer whose affinity is improved by more than 50-fold. We also determined the high-resolution NMR structure of the new aptamer-OTA complex and elucidated the discriminatory recognition mechanism of one atomic difference between two analogs, OTA and OTB. The aptamer forms an unusual hairpin structure containing an intramolecular triple helix, which is not seen in the previously determined aptamer complex. The π-π stacking, the hydrophobic interaction, hydrogen bonds and halogen bonds between OTA and the aptamer contribute to the recognition of OTA, and the halogen bonds play an important role in discriminating between OTA and OTB. Our results demonstrate that the structure-guided post-SELEX approach improves aptamers affinity. An improved OTA biosensor system might be developed using this new strategy.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.