title: Design and evaluation of an apta-nano-sensor to detect Acetamiprid in vitro and in silico.
abstract: Pesticide detection is a main concern of food safety experts. Therefore, it is urgent to design an accurate, rapid, and cheap test. Biosensors that detect pesticide residues could replace current methods, such as HPLC or GC-MC. This research designs a biosensor based on aptamer (Oligonucleotide ss-DNA) in the receptor role, silver nanoparticles (AgNPs) as optical sensors and salt (NaCl) as the aggregative inducer of AgNPs to detect the presence of Acetamiprid. After optimization, .6 μM aptamer and 100 mM salt were employed. The selectivity and sensitivity of the complex were examined by different pesticides and different Acetamiprid concentrations. To simulate in vitro experimental conditions, bioinformatics software was used as in silico analysis. The results showed the detection of Acetamiprid at the .02 ppm (89.8 nM) level in addition to selectivity. Docking outputs introduced two loops as active sites in aptamer and confirmed aptamer-Acetamiprid bonding. Circular dichroism spectroscopy (CD) confirmed upon Acetamiprid binding, aptamer was folded due to stem-loop formation. Stability of the Apt-Acetamiprid complex in a simulated aqueous media was examined by molecular dynamic studies.
authors.affiliation: a Department of Entomology and Plant Pathology , Urmia University , Urmia , Iran.
authors.forename: Mahmoud
authors.initials: M
authors.lastname: Jokar
authors.affiliation: a Department of Entomology and Plant Pathology , Urmia University , Urmia , Iran.
authors.forename: Mohammad Hassan
authors.initials: MH
authors.lastname: Safaralizadeh
authors.affiliation: b Biotechnology Research Center, School of Pharmacy , Mashhad University of Medical Sciences , Mashhad , Iran.
authors.forename: Farzin
authors.initials: F
authors.lastname: Hadizadeh
authors.affiliation: c Faculty of Sciences, Department of Biology , Urmia University , Urmia , Iran.
authors.forename: Fatemeh
authors.initials: F
authors.lastname: Rahmani
authors.affiliation: d School of Medicine , Mashhad University of Medical Sciences , Mashhad , Iran.
authors.forename: Mohammad Reza
authors.initials: MR
authors.lastname: Kalani
mesh_terms: D052157:Aptamers, Nucleotide / Q000737:chemistry*; D015374:Biosensing Techniques; D002942:Circular Dichroism; D006860:Hydrogen Bonding; D053768:Metal Nanoparticles / Q000737:chemistry*; D008958:Models, Molecular; D008968:Molecular Conformation; D062105:Molecular Docking Simulation; D056004:Molecular Dynamics Simulation; D036103:Nanotechnology; D000073943:Neonicotinoids; D011725:Pyridines / Q000737:chemistry*; D012834:Silver; D013329:Structure-Activity Relationship
chemical_list: D052157:Aptamers, Nucleotide; D000073943:Neonicotinoids; D011725:Pyridines; D012834:Silver; C464485:acetamiprid
keywords: Acetamiprid; apta-nano-sensor; docking; molecular dynamics; pesticide residues