Discrimination of the SARS-CoV-2 strains using of coloured s-LASCA-imaging of GB-speckles, developed for the gene "S" nucleotide sequences [version 1; peer review: 1 approved with reservations]

Background: A recent bioinformatics technique involves changing nucleotide sequences into 2D speckles. This technique produces speckles called GB-speckles (Gene Based speckles). All classical strategies of speckle-optics, namely speckle-interferometry, subtraction of speckle-images as well as speckl...

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Bibliographic Details
Published in:F1000 research 2021-01, Vol.10, p.503-503
Main Authors: Ulianova, Onega, Saltykov, Yury, Ulyanov, Sergey, Zaytsev, Sergey, Ulyanov, Alexander, Feodorova, Valentina
Format: Article
Language:English
Subjects:
eng
GB-speckles
gene
LASCA
SARS–CoV-2
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Summary:Background: A recent bioinformatics technique involves changing nucleotide sequences into 2D speckles. This technique produces speckles called GB-speckles (Gene Based speckles). All classical strategies of speckle-optics, namely speckle-interferometry, subtraction of speckle-images as well as speckle-correlometry have been inferred for processing of GB-speckles. This indicates the considerable improvement in the present tools of bioinformatics.   Methods: Colour s-LASCA imaging of virtual laser GB-speckles, a new method of high discrimination and typing of pathogenic viruses, has been developed. This method has been adapted to the detecting of natural mutations in nucleotide sequences, related to the spike glycoprotein (coding the gene «S») of SARS-CoV-2 gene as the molecular target.    Results: The rate of the colouring images of virtual laser GB-speckles generated by s-LASCA can be described by the specific value of R. If the nucleotide sequences compared utilizing this approach the relevant images are completely identical, then the three components of the resulting colour image will be identical, and therefore the value of R will be equal to zero. However, if there are at least minimal differences in the matched nucleotide sequences, then the value of R will be positive.    Conclusion: The high effectiveness of an application of the colour images of GB-speckles that were generated by s-LASCA- has been demonstrated for discrimination between different variants of the SARS-CoV-2 spike glycoprotein gene.
ISSN:2046-1402
2046-1402
DOI:10.12688/f1000research.53214.1