The nucleotide sequences of the neuraminidase gene of Highly Pathogenic Avian Influenza Virus (HPAIV) A strains have been transformed into 2D realizations of GB-speckles (Gene-Based speckles). Possibility of differentiation between different HPAIV strains using the analysis of statistical properties of corresponding GB-speckles has been shown.
Our previous study has revealed that specific ornithosis antigens extracted from Сhlamydia psittaci (CP) could possess some modulatory activity on the growth of malignant solid tumors in Wistar rats. Here, in the same model we studied dose-dependent dynamics of tumor growth under the influence of CP antigen derived from CP AMK-16 strain, in doses ranged from 0.025 mg/kg to 1.25 mg/kg given as a single subcutaneous injection. Velocity of tumor growth has been estimated by t-LASCA technique.
Gene-based speckles (GB-speckles) have been implied for interpretation of nucleotide sequences of the target genes of HPAIV. The 1st order statistics and correlation functions of 2D speckle structures corresponding to the several nucleotide sequences of HPAIV have been analyzed. The GB-speckles, generated for highly-pathogenic strains A/Gs/HK/739.2/02 (H5N1) and HPAIV (A/Chicken/Hong Kong/YU562/01 (H5N1)) neuraminidase (NA) have been compared with the speckles, related to three low-pathogenic strains (Influenza A virus (A/chicken/Ganzhou/GZ43/2016(H3N2)) segment 6 neuraminidase (NA) gene, Influenza A virus A/pheasant/Korea/LBM180/2008(H9N2)) segment 6 neuraminidase (NA) gene, and Influenza A virus A/chicken/Alkharj/910/2018(H5N8)) segment 6 neuraminidase (NA) gene). Perspectives of fast and precise discrimination of nucleotide sequences of the different avian influenza strains, including HPAIV variants, based on GBspeckles, are demonstrated.
Pulse wave from naïve fertilized chicken eggs has been clearly detected using laser photoplethysmography. Highfrequency modulation of intensity of illuminating laser light has been used to enhance output signal of experimental setup and to increase the S/N ratio. The form of pulse wave has been analyzed for naïve embryo on different stages of their development.
Prototype of laser scanning speckle-microscope has been designed. It has been demonstrated experimentally, that signal of speckle microscope is increased drastically in the presence of gold nanoparticles. It has been demonstrated the unique possibility of detection of a single C. trachomatis cell in a tested sample using speckle-microscopy.
As it has been demonstrated earlier, different types of re-coding of nucleotide sequences to gene-based speckle-patterns (GB-speckles) can be used. In this paper the advanced study, devoted to optimization of the basic algorithm, is presented. With this purpose, investigations of statistical properties of GB-speckles, generated on nucleotide sequences of omp1 gene of Chlamydia trachomatis, has been performed. First- and second-order statistics of intensity fluctuations in GB speckles has been analyzed. Part I of the paper is devoted to investigations of statistical properties of phase fluctuations in GB-speckles.
GB-speckles, simulated for nucleotide sequences of the omp1 gene of Chlamydia trachomatis, have been processed by s-LASCA technique. Properties of LASCA-images of the GB-speckles have been analyzed. Perspectives of application of suggested technique in modern bioinformatics have been demonstrated. Interference of the GB-speckle, generated for nucleotide sequences of the omp1 gene of different Chlamydia trachomatis strains has been also studied. It has been demonstrated that s-LASCA technique is very helpful tool for detection of natural mutations in bacteria.
For the first time gene-based speckles (GB-speckles) have been applied for analysis of nucleotide sequences of the gene GPCR of the Lumpy Skin Disease Virus (LSDV). The 1st and 2nd order statistics of the 2D speckle structures corresponding to nucleotide sequences of LSDV have been analyzed. It has been shown that these GB-speckles are forming in the case of small number of scatterers and they obey to non-gaussian statistics. It has been demonstrated that application of the GB-speckles, generated on the target virus nucleotide sequences has the great perspectives from viewpoint of modern bioinformatics.
Analysis of structural properties of the interfering GB-speckles, generated for nucleotide sequences of Lumpy Skin Disease Virus (LSDV), has been carried out. It has been shown, that at the interference of two LSDV GB-specklepatterns, three types of interference pictures are forming: quasi-random speckle structure without interference fringes, fringes, modulated by speckles, or having bends and pure regular fringes without visible speckle-modulation. It has been found, that width of fringes and their orientation depend on position of SNP in comparing nucleotide sequences. It has been demonstrated that implication of interference of two GB-speckles, generated on the target virus nucleotide sequences, can be considered as a new direction in modern bioinformatics.
Method of speckle-microscopy has been adapted to the problem of detection of Chlamydia trachomatis microbial cells in aqueous suspension and fixed on the glass. Combined system “C. trachomatis bacterial cell”-“monoclonal antibody”- “gold nanoparticle” has been used as a complicated scattering element in the case of formation of biospeckles with a small number of scatterers. Optical model of diffraction of strongly focused Gaussian beam on combined scattering system, containing gold nanoparticles, has been suggested. Simulation of speckles, forming with a small number of scattering nanoparticles, has been carried out. It has been demonstrated that the usage of nanoparticles allows to enhance essentially the output signal of speckle-microscope.
Methods of t-LASCA and s-LASCA imaging have been adapted to the problem of monitoring of blood microcirculation in naïve chicken embryo. Set-up for LASCA imaging of the model chicken embryo is mounted. The novel original technique of preparing of optical windows for observation of a naïve chicken embryo is suggested. This technique is based on a removal of part of the natural egg shell using a citric acid solution with further optical clearing using glycerol and glucose.
As it has been demonstrated earlier, different types of re-coding of nucleotide sequences to gene-based speckle-patterns (GB-speckles) can be used. In this paper the advanced study, devoted to optimization of the basic algorithm, is presented. Investigations of statistical properties of GB-speckles, generated on nucleotide sequences of omp1 gene of Chlamydia trachomatis, has been performed. Part II of the present paper is dedicated to analysis of first- and second-order statistics of phase fluctuations in GB-speckles with purpose of optimization of algorithm of re-coding.
Formation of output signal of device, realizing Doppler technique, has been studied. Naïve embryo (non-infected fertilized chicken eggs) has been used as a test object. Dependence of first frequency-weighted spectral moment of output signal on the day of observation of chicken embryo has been investigated. The possibility of adaption of the Doppler diagnostics for monitoring of viability and detection of pathology of development of chicken embryo, infected with Chlamydia trachomatis cells, is discussed.
Gene-based speckles (GB-speckles) have been implied for interpretation of nucleotide sequences of the target genes of Avian Influenza Virus (AIV). The 1st and 2nd order statistics of 2D speckle structures corresponding to the nucleotide sequences of AIV have been analyzed. It has been shown that these GB-speckles are forming in the case of small number of scatterers and they obey to non-Gaussian statistics. These GB-speckles are characterizing by essential spatial inhomogeneity. Potentials of proposed laser speckle technique for the AIV target genes identification are demonstrated.
Methods of t-LASCA and s-LASCA imaging have been firstly adapted to the problem of monitoring of blood microcirculation in chicken embryo model. Set-up for LASCA imaging of chicken embryo is mounted. Disorders of blood microcirculation in embryonated chicken egg, infected by Chlamydia trachomatis, are detected. Speckle-imaging technique is compared with white-light ovoscopy and new method of laser ovoscopy, based on the scattering of coherent light, advantages of LASCA imaging for the early detection of developmental process of chlamydial agent is demonstrated.
Principles of two-cascaded laser speckle-microscopy prospect for application to express diagnostics of chlamydial infection are developed. Prototype of two-cascaded speckle-microscope is designed and tested. Specific case of illumination of bacterial cells by dynamic speckles is considered. Express method of detection of epithelial cells, containing defects, which are caused by Chlamydia trachomatis bacteria, is suggested. Results of improved recognition of C. trachomatis bacteria are discussed.
Theory of formation of speckled speckles at diffraction of focused Gaussian beam in the suspension, containing of Chlamydia trachomatis (CT) is presented. Optical model of scattering of light in suspension of Chlamydia is suggested. Formula for bandwidth of spectrum of intensity fluctuations in speckled speckles is derived. It has been demonstrated, that speckle-microscopy can be used for detection of CT bacteria for any concentration of the relevant cells in suspension.
Method of speckle-microscopy has been adapted to the problem of detection of Chlamydia trachomatis microbial cells in clinical samples. Prototype of laser scanning speckle-microscope has been designed. Spatial resolution and output characteristics of this microscope have been analyzed for the case of scanning of C. trachomatis bacteria inclusions – Elementary Bodies (EBs) inside the human cells, fixed on the glass. It has been demonstrated, that presence of C. trachomatis microbial cells in the sample can be easily detected using speckle microscopy.
Theory of diffusing wave spectroscopy has been firstly adapted to the problem of rapid detection of Chlamydia trachomatis bacteria in blood samples of Chlamydia patients. Formula for correlation function of temporal fluctuations of speckle intensity is derived for the case of small number of scattering events. Dependence of bandwidth of spectrum on average number of scatterers is analyzed. Set-up for detection of the presence of C. trachomatis cells in aqueous suspension is designed. Good agreement between theoretical results and experimental data is shown. Possibility of detection of the presence of C. trachomatis cells in probing volume using diffusing wave spectroscopy with a small number of scatterers is successfully demonstrated for the first time.
Access to the requested content is limited to institutions that have purchased or subscribe to SPIE eBooks.
You are receiving this notice because your organization may not have SPIE eBooks access.*
*Shibboleth/Open Athens users─please
sign in
to access your institution's subscriptions.
To obtain this item, you may purchase the complete book in print or electronic format on
SPIE.org.
INSTITUTIONAL Select your institution to access the SPIE Digital Library.
PERSONAL Sign in with your SPIE account to access your personal subscriptions or to use specific features such as save to my library, sign up for alerts, save searches, etc.