Pyoverdine binding aptamers and label-free electrochemical detection of pseudomonads
Date
2024-08-01
Authors
Anisuzzaman, Sharif
Alimoradi, Nima
Singappuli-Arachchige, Dilini
Banerjee, Soma
Pogorelko, Gennady V.
Kaiyum, Yunus A.
Johnson, Philip E.
Major Professor
Advisor
Committee Member
Journal Title
Journal ISSN
Volume Title
Publisher
Frontiers in Chemistry
Abstract
Pyoverdines are iron-chelating siderophores employed by various pseudomonads to promote their growth in iron-limited environments, facilitating both beneficial and detrimental interactions with co-inhabiting microbes or hosts, including plants and animals. The fluorescent pseudomonads produce fluorescent pyoverdines comprised of a conserved central chromophore and a unique strain-specific peptidic side chain produced by non-ribosomal peptide synthetases. Pyoverdine Pf5 (PVD-Pf5) is produced by Pseudomonas protegens Pf-5, a species known for supporting plant growth and its involvement in plant pathogen control. To develop a means of exploring the dynamics of P. protegens activity in soil and in the rhizosphere, we selected DNA aptamers that specifically recognize PVD-Pf5 with high affinities. Two selected aptamers with only 16% identity in sequence were examined for structure and function. We found evidence that both aptamers form structures in their apo-forms and one aptamer has structural features suggesting the presence of a G-quadruplex. Although their tertiary structures are predicted to be different, both aptamers bind the target PVD-Pf5 with similar affinities and do not bind other siderophores, including the related pyoverdine, pseudobactin, produced by Pseudomonas sp. B10. One aptamer binds the pyoverdine peptide component and may also interact with the chromophore. This aptamer was integrated into a nanoporous aluminum oxide biosensor and demonstrated to successfully detect PVD-Pf5 and not to detect other siderophores that do not bind to the aptamer when evaluated in solution. This sensor provides a future opportunity to track the locations of P. protegens around plant roots and to monitor PVD-Pf5 production and movement through the soil.
Series Number
Journal Issue
Is Version Of
Versions
Series
Academic or Administrative Unit
Type
article
Comments
This article is published as Nilsen-Hamilton, Marit, Sharif Anisuzzaman, Dilini Singappuli-Arachchige, Nima Alimoradi, Gennady V. Pogorelko, Soma Banerjee, Yunus Kaiyum, Philip Johnson, and Pranav Shrotriya. "Pyoverdine Binding Aptamers and Label-Free Electrochemical Detection of Pseudomonads." Frontiers in Chemistry 12: 1438710.
doi: https://doi.org/10.3389/fchem.2024.1438710. © 2024 Anisuzzaman, Alimoradi, Singappuli-Arachchige, Banerjee, Pogorelko, Kaiyum, Johnson, Shrotriya and Nilsen-Hamilton. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY) (https://creativecommons.org/licenses/by/4.0/).