A naked-eye (equipment-free), label-free (cost-effective),
and
RNA extraction-free (to speed up) method for SARS-CoV-2 (as a case
study of RNA viruses) detection is developed. Here, the DNA is being
used as a template for in situ formation of anisotropic gold nanoparticles
(AuNPs) without any chemical modification or DNA labeling. In this
study, synthesized AuNPs for the direct detection of N-gene (nucleocapsid
phosphoprotein) of SARS-CoV-2 are exploited. To this aim, antisense
oligonucleotides (ASOs) with an extra poly guanine tail (G12) were
designed. Thus, in the presence of its viral target RNA gene and ASOs@AuNPs-RNA
hybridization, there was a red shift in its localized surface plasmon
resonance (LSPR), and the intensity of the LSPR peak at 690 nm of
throat swab samples was compared to the threshold cycle (Ct) of a
reverse-transcriptase real-time polymerase chain reaction (RT-qPCR)
(as a gold standard). Results suggested that the plasmonic biosensor
can detect a very low amount of SARS-CoV-2 with a detection limit
close to RT-qPCR. Simplicity of the new conjugation method with hybridization
and annealing without amplification and denaturation steps enabled
it to perform in a microfluidic paper-based analytical device.