Computational tools for aptamer identification and optimization DOI
Di Sun, Miao Sun, Jialü Zhang

et al.

TrAC Trends in Analytical Chemistry, Journal Year: 2022, Volume and Issue: 157, P. 116767 - 116767

Published: Sept. 13, 2022

Language: Английский

High‐Affinity Dimeric Aptamers Enable the Rapid Electrochemical Detection of Wild‐Type and B.1.1.7 SARS‐CoV‐2 in Unprocessed Saliva DOI Creative Commons
Zijie Zhang, Richa Pandey, Jiuxing Li

et al.

Angewandte Chemie International Edition, Journal Year: 2021, Volume and Issue: 60(45), P. 24266 - 24274

Published: Aug. 31, 2021

We report a simple and rapid saliva-based SARS-CoV-2 antigen test that utilizes newly developed dimeric DNA aptamer, denoted as DSA1N5, specifically recognizes the spike proteins of wildtype virus its Alpha Delta variants with dissociation constants 120, 290 480 pM, respectively, binds pseudotyped lentiviruses expressing alpha trimeric affinity 2.1 pM 2.3 respectively. To develop highly sensitive test, DSA1N5 was immobilized onto gold electrodes to produce an electrochemical impedance sensor, which capable detecting 1000 viral particles per mL in 1:1 diluted saliva under 10 min without any further sample processing. Evaluation 36 positive 37 negative patient samples produced clinical sensitivity 80.5 % specificity 100 sensor could detect well samples, is first reported can emerging variant SARS-CoV-2.

Language: Английский

Citations

140
A SARS‐CoV‐2 Spike Binding DNA Aptamer that Inhibits Pseudovirus Infection by an RBD‐Independent Mechanism** DOI Creative Commons

Anton Schmitz,

Anna M. Weber,

Mehtap Bayin

et al.

Angewandte Chemie International Edition, Journal Year: 2021, Volume and Issue: 60(18), P. 10279 - 10285

Published: March 8, 2021

The receptor binding domain (RBD) of the spike glycoprotein coronavirus SARS-CoV-2 (CoV2-S) binds to human angiotensin-converting enzyme 2 (ACE2) representing initial contact point for leveraging infection cascade. We used an automated selection process and identified aptamer that specifically interacts with CoV2-S. does not bind RBD CoV2-S block interaction ACE2. Nevertheless, studies revealed potent specific inhibition pseudoviral by aptamer. present study opens up new vistas in developing SARS-CoV2 inhibitors, independent blocking ACE2 virus, harnesses aptamers as potential drug candidates tools disentangle hitherto inaccessible modalities, which is particular interest light increasing number escape mutants are currently being reported.

Language: Английский

Citations

131
Direct detection of human adenovirus or SARS-CoV-2 with ability to inform infectivity using DNA aptamer-nanopore sensors DOI Creative Commons
Ana Sol Peinetti, Ryan J. Lake, Wen Cong

et al.

Science Advances, Journal Year: 2021, Volume and Issue: 7(39)

Published: Sept. 22, 2021

Novel sensors can not only detect SARS-CoV-2 or other viruses in real-world samples but also determine if they are infectious.

Language: Английский

Citations

122
Strategies to manipulate the performance of aptamers in SELEX, post-SELEX and microenvironment DOI
Shuo Qi, Nuo Duan, Imran Mahmood Khan

et al.

Biotechnology Advances, Journal Year: 2022, Volume and Issue: 55, P. 107902 - 107902

Published: Jan. 10, 2022

Language: Английский

Citations

116
Screening, identification, and application of nucleic acid aptamers applied in food safety biosensing DOI

Ruobing Liu,

Fuyuan Zhang, Yaxin Sang

et al.

Trends in Food Science & Technology, Journal Year: 2022, Volume and Issue: 123, P. 355 - 375

Published: March 30, 2022

Language: Английский

Citations

87
Aptamers 101: aptamer discovery andin vitroapplications in biosensors and separations DOI Creative Commons
Lucy Yang,

Melissa Ling,

Nataly Kacherovsky

et al.

Chemical Science, Journal Year: 2023, Volume and Issue: 14(19), P. 4961 - 4978

Published: Jan. 1, 2023

A primer that covers the discovery and validation process for novel aptamers highlights recent applications of in biosensing cell separations.

Language: Английский

Citations

83
Spatial imaging of glycoRNA in single cells with ARPLA DOI

Yuan Ma,

Weijie Guo, Quanbing Mou

et al.

Nature Biotechnology, Journal Year: 2023, Volume and Issue: 42(4), P. 608 - 616

Published: May 22, 2023

Language: Английский

Citations

58
Diverse high-affinity DNA aptamers for wild-type and B.1.1.7 SARS-CoV-2 spike proteins from a pre-structured DNA library DOI Creative Commons
Jiuxing Li, Zijie Zhang, Jimmy Gu

et al.

Nucleic Acids Research, Journal Year: 2021, Volume and Issue: 49(13), P. 7267 - 7279

Published: June 18, 2021

We performed in vitro selection experiments to identify DNA aptamers for the S1 subunit of SARS-CoV-2 spike protein (S1 protein). Using a pool pre-structured random sequences, we obtained over 100 candidate after 13 cycles enrichment under progressively more stringent pressure. The top 10 sequences all exhibited strong binding protein. Two aptamers, named MSA1 (Kd = 1.8 nM) and MSA5 2.7 nM), were assessed heat-treated protein, untreated spiked into 50% human saliva trimeric both wildtype B.1.1.7 variant, demonstrating comparable affinities cases. also recognized pseudotyped lentivirus with respective Kd values 22.7 pM 11.8 pM. Secondary structure prediction sequence truncation revealed that adopted hairpin structure, which was motif pre-designed original library. A colorimetric sandwich assay developed using as recognition element detection element, capable detecting limit 400 fM, confirming potential these diagnostic tools COVID-19 detection.

Language: Английский

Citations

104
Discovery and Characterization of Spike N‐Terminal Domain‐Binding Aptamers for Rapid SARS‐CoV‐2 Detection DOI Open Access

Nataly Kacherovsky,

Lucy Yang, Ha V. Dang

et al.

Angewandte Chemie International Edition, Journal Year: 2021, Volume and Issue: 60(39), P. 21211 - 21215

Published: July 30, 2021

The coronavirus disease 2019 (COVID-19) pandemic has devastated families and disrupted healthcare, economies societies across the globe. Molecular recognition agents that are specific for distinct viral proteins critical components rapid diagnostics targeted therapeutics. In this work, we demonstrate selection of novel DNA aptamers bind to SARS-CoV-2 spike glycoprotein with high specificity affinity (<80 nM). Through binding assays resolution cryo-EM, SNAP1 (SARS-CoV-2 protein N-terminal domain-binding aptamer 1) binds S domain. We applied in lateral flow (LFAs) ELISAs detect UV-inactivated at concentrations as low 5×10

Language: Английский

Citations

89
Spherical Neutralizing Aptamer Inhibits SARS-CoV-2 Infection and Suppresses Mutational Escape DOI
Miao Sun, Siwen Liu, Ting Song

et al.

Journal of the American Chemical Society, Journal Year: 2021, Volume and Issue: 143(51), P. 21541 - 21548

Published: Dec. 2, 2021

New neutralizing agents against SARS-CoV-2 and associated mutant strains are urgently needed for the treatment prophylaxis of COVID-19. Herein, we develop a spherical cocktail aptamer-gold nanoparticle (SNAP) to block interaction between receptor-binding domain (RBD) host ACE2. With multivalent aptamer assembly as well steric hindrance effect gold scaffold, SNAP exhibits exceptional binding affinity RBD with dissociation constant 3.90 pM potent neutralization authentic half-maximal inhibitory concentration 142.80 fM, about 2 or 3 orders magnitude lower than that reported aptamers antibodies. More importantly, synergetic blocking strategy multisite ensures broad activity SNAP, almost completely infection three pseudoviruses. Overall, provides new direction development antivirus other emerging coronaviruses.

Language: Английский

Citations

77