An In-Silico Pipeline for Rapid Screening of DNA Aptamers against Mycotoxins: The Case-Study of Fumonisin B1, Aflatoxin B1 and Ochratoxin A

Aptamers are single-stranded oligonucleotides selected by SELEX (Systematic Evolution of Ligands by EXponential Enrichment) able to discriminate target molecules with high affinity and specificity, even in the case of very closely related structures. Aptamers have been produced for several targets i...

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Bibliographic Details
Published in:Polymers 2020-12, Vol.12 (12), p.2983
Main Authors: Ciriaco, Fulvio, De Leo, Vincenzo, Catucci, Lucia, Pascale, Michelangelo, Logrieco, Antonio F, DeRosa, Maria C, De Girolamo, Annalisa
Format: Article
Language:English
Subjects:
Affinity
Aflatoxins
Beads
Biosensors
Deoxyribonucleic acid
DNA
Fluorescence
Food products
Fumonisin B1
Ligands
Mycotoxins
Oligonucleotides
Screening
Software
Thermophoresis
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Summary:Aptamers are single-stranded oligonucleotides selected by SELEX (Systematic Evolution of Ligands by EXponential Enrichment) able to discriminate target molecules with high affinity and specificity, even in the case of very closely related structures. Aptamers have been produced for several targets including small molecules like mycotoxins; however, the high affinity for their respective target molecules is a critical requirement. In the last decade, the screening through computational methods of aptamers for their affinity against specific targets has greatly increased and is becoming a commonly used procedure due to its convenience and low costs. This paper describes an in-silico approach for rapid screening of ten ssDNA aptamer sequences against fumonisin B1 (FB1, = 3), aflatoxin B1 (AFB1, = 2) and ochratoxin A (OTA, = 5). Theoretical results were compared with those obtained by testing the same aptamers by fluorescent microscale thermophoresis and by magnetic beads assay for their binding affinity ( ) revealing a good agreement.
ISSN:2073-4360
2073-4360
DOI:10.3390/polym12122983