Target Affinity and Structural Analysis for a Selection of Norovirus Aptamers

Schilling-Loeffler, Katja; Rodriguez, Rachel; Williams-Woods, Jacquelina

doi:10.3390/ijms22168868

Title: Target Affinity and Structural Analysis for a Selection of Norovirus Aptamers

Journal Article · 18 August 2021 · International Journal of Molecular Sciences (Online)

DOI: https://doi.org/10.3390/ijms22168868 · OSTI ID:1904970

^[1]; Rodriguez, Rachel ^[2]; Williams-Woods, Jacquelina ^[2]

U.S. Food and Drug Administration (FDA), Dauphin Island, AL (United States); OSTI
U.S. Food and Drug Administration (FDA), Dauphin Island, AL (United States)

Aptamers, single-stranded oligonucleotides that specifically bind a molecule with high affinity, are used as ligands in analytical and therapeutic applications. For the foodborne pathogen norovirus, multiple aptamers exist but have not been thoroughly characterized. Consequently, there is little research on aptamer-mediated assay development. This study characterized seven previously described norovirus aptamers for target affinity, structure, and potential use in extraction and detection assays. Norovirus-aptamer affinities were determined by filter retention assays using norovirus genotype (G) I.1, GI.7, GII.3, GII.4 New Orleans and GII.4 Sydney virus-like particles. Of the seven aptamers characterized, equilibrium dissociation constants for GI.7, GII.3, GII.4 New Orleans and GII.4 Sydney ranged from 71 ± 38 to 1777 ± 1021 nM. Four aptamers exhibited affinity to norovirus GII.4 strains; three aptamers additionally exhibited affinity toward GII.3 and GI.7. Aptamer affinity towards GI.1 was not observed. Aptamer structure analysis by circular dichroism (CD) spectroscopy showed that six aptamers exhibit B-DNA structure, and one aptamer displays parallel/antiparallel G-quadruplex hybrid structure. CD studies also showed that biotinylated aptamer structures were unchanged from non-biotinylated aptamers. Finally, norovirus aptamer assay feasibility was demonstrated in dot-blot and pull-down assays. This characterization of existing aptamers provides a knowledge base for future aptamer-based norovirus detection and extraction assay development and aptamer modification.

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Research Organization:: Oak Ridge Inst. for Science and Education (ORISE), Oak Ridge, TN (United States)

Sponsoring Organization:: U.S. Food and Drug Administration (FDA); USDOE Office of Science (SC)

Grant/Contract Number:: SC0014664

OSTI ID:: 1904970

Journal Information:: International Journal of Molecular Sciences (Online), Journal Name: International Journal of Molecular Sciences (Online) Journal Issue: 16 Vol. 22; ISSN 1422-0067

Publisher:: MDPICopyright Statement

Country of Publication:: United States

Language:: English

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Related Subjects

59 BASIC BIOLOGICAL SCIENCES
Biochemistry & Molecular Biology
Chemistry
affinity
aptamers
norovirus
systematic evolution of ligands by exponential enrichment (SELEX)
virus like particles (VLPs)

Title: Target Affinity and Structural Analysis for a Selection of Norovirus Aptamers

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References (54)

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