Preprint Communication Version 1 Preserved in Portico This version is not peer-reviewed

Screening of Aptamers That Bind to the Multivalent Aminoglycoside Amikacin

Version 1 : Received: 23 August 2021 / Approved: 25 August 2021 / Online: 25 August 2021 (12:42:20 CEST)

How to cite: Alam, A.K.; Miura, Y.; Tsukahara, T. Screening of Aptamers That Bind to the Multivalent Aminoglycoside Amikacin. Preprints 2021, 2021080493 (doi: 10.20944/preprints202108.0493.v1). Alam, A.K.; Miura, Y.; Tsukahara, T. Screening of Aptamers That Bind to the Multivalent Aminoglycoside Amikacin. Preprints 2021, 2021080493 (doi: 10.20944/preprints202108.0493.v1).

Abstract

Increased awareness of the multiple roles of RNA molecules has led to the realization that, in addition to their structural and functional roles, RNAs can be drug targets for small molecular therapy. The aim of this study was to identify multivalent amikacin specific RNA aptamers that can be a new target sites for aminoglycoside antibiotics, including amikacin using the systemic evolution of ligands by exponential enrichment (SELEX) method. Amikacin, a member of the aminoglycoside group of antibiotics, binds to specific sites in bacterial 16S ribosomal RNAs (rRNAs) and interferes with protein synthesis, leading to cell death. Here, we used the SELEX method to isolate high affinity RNA fragments (aptamers) that bind to amikacin. After five rounds of SELEX selection, in which a linear N25 DNA template was used for the first selection cycle, the resulting RNA was cloned and sequenced. Among the 38 clones generated, five groups of sequences (groups A through E) containing nine conserved motifs were identified. The sequences of groups A and B were almost identical, indicating that the selected RNA was enriched. Subsequently, the Basic Local Alignment Search Tool program was used to search for the conserved motifs in bacterial 16S rRNA sequences. Strikingly, no sequence homology was observed, suggesting that the conserved sequences (motifs) identified in this study may be novel target sites for amikacin.

Keywords

SELEX; aptamer; amikacin

Comments (0)

We encourage comments and feedback from a broad range of readers. See criteria for comments and our diversity statement.

Leave a public comment
Send a private comment to the author(s)
Views 0
Downloads 0
Comments 0
Metrics 0


×
Alerts
Notify me about updates to this article or when a peer-reviewed version is published.
We use cookies on our website to ensure you get the best experience.
Read more about our cookies here.