Speckle-interferometry and speckle-correlometry of GB-speckles

Abstract

Introduction 3. Transformation of sequence of nucleotides in gene-based speckle pattern 3.1. Algorithm of re-coding of a nucleotide sequence 3.2. Algorithm of generating of 2D speckle pattern, based on a nucleotide sequence 3.3. Generating of gene-based speckles 4. Comparison of GB-speckles, based on similar genovars: cross-correlation technique 5. Comparison of GB-speckles, based on similar С. trachomatis genovars of different subtypes: speckle-interferometry 6. Optical processing of GB-speckles: detection of genetic mutations in a gene of microorganisms 7. Conclusions 8. Acknowledgment 9. References

Could LASCA-imaging of GB-speckles be applied for a high discrimination and typing of pathogenic bacteria?

“…Considerable progress in the field of GB-speckles has been achieved in recent years. As it has been shown earlier [4][5][6][7][8]10], the application of speckle-interferometry and speckle-correlometry to processing GB-speckles will lead both to the significant improvement in the existing bioinformatics tools and to the creation of novel ones. This is critical for improving the methods of laboratory diagnostics of the infectious and non-infectious diseases of humans and animals.…”

“…Usually, biospeckles are used in the analysis of velocity of blood microcirculation [3]. Recently it has been demonstrated [4][5][6][7][8] that the nucleotide sequence also can be transformed into a 2D speckle pattern. Such a principally new kind of speckles is called GB-speckles [5,7,8], which is the acronym for gene-based speckles.…”

“…The statistics of GB-speckles has been particularly investigated by Ulyanov S. S. et al [5][6][7]. As it has been shown in the reports [4][5][6][7][8], the usage of such methods of speckleoptics as speckle-correlometry, speckle-interferometry and subtraction of speckle-images allows defining the presence of natural mutations when comparing strains even in the case of a single SNP. It has been demonstrated by Ulyanov S.S. et al [4] that the appearance of any type of mutations leads to the formation of the system of interferential fringes in the interference pattern when speckle-interferometric technique is being used.…”

Discrimination of the SARS–CoV-2 strains using of coloured s-LASCA-imaging of GB-speckles, developed for the gene “S” nucleotide sequences

“…[1][2][3] Recently, the possibility of transforming a nucleotide sequence into a pattern of 2D speckles had been demonstrated. [4][5][6][7][8][9] This new type of speckle pattern has been called "GB-speckles" (gene-based speckles). 5,7,9 Changes within in the structure of the GB-speckles can reflect even negligible changes in the nucleotide sequence, caused by inartificial mutations.…”

“…[4][5][6][7][8][9] This new type of speckle pattern has been called "GB-speckles" (gene-based speckles). 5,7,9 Changes within in the structure of the GB-speckles can reflect even negligible changes in the nucleotide sequence, caused by inartificial mutations. This allows detection of single-nucleotide polymorphisms (SNP) using virtual GB-speckles with outstanding precision.…”