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10SARS-CoV-2 virus has been the search for its conserved RNA motifs and their functional annotation. These mo-tifs are potential targets for the treatment and diagnosis of a disease caused by the virus.
This report examines the structural RNA fragments of SARS-CoV-2, similar to the corresponding fragments in other beta coronaviruses [2]. For these RNA motifs the nucleotide variability during the spread of the virus, depending on their secondary structure, was investigated. All the motifs display the similar background varia-bility although contain hypervariable positions.
References
1. Roser M., Ritchie H., Ortiz-Ospina E., Hasell J. (2020) - "Coronavirus Pandemic (COVID-19)". Published online at OurWorldInData.org. Retrieved from: 'https://ourworldindata.org/coronavirus' [Online Resource].
2. Rangan R., Zheludev I. N., Hagey R. J., et al. RNA genome conservation and secondary structure in SARS-CoV-2 and SARS-related viruses: a first look. // RNA. 2020 Aug;26(8): P. 937-959. doi: 10.1261/rna.076141.120.
Meta-analysis of auxin-induced transcriptomes unveiled signal transduction pathway from auxin to its PIN transporters
V. V. Kovrizhnykh
Institute of Cytology and Genetics SB RAS
Email: vasilinakovr@gmail.com
DOI 10.24412/cl-35065-2021-1-02-51
Auxin is a plant hormone that plays a key role in ontogenesis. Protein families of ARF and Aux/IAA provide the auxin signal transduction. However, the specific participants of auxin signaling pathway to its PIN trans-porters are certainly unknown. We have developed bioinformatics algorithm for the meta-analysis of auxin-induced transcriptomes of Arabidopsis thaliana. We selected genes differentially expressed in response to aux-in in coordination with PIN1, PIN3, PIN4, PIN7, and identified possible participants in the ARF-Aux/IAA signaling pathway that regulate the expression of each PIN gene. We suggested that the regulation of PIN expression by auxin occurs through several ARF-Aux/IAA regulatory circuits, in which ARF4, ARF10 and IAA4, IAA12, IAA17, IAA18, IAA32 are combined. Some combinations are specific for the auxin-mediated regulation of transcription of certain PIN genes, while others, on the contrary, are common to several PIN genes.
This work was supported by the President's grant MK-3470.2021.1.4.
Algorithm for analyzing computed tomography images to assess initial ischemic changes
A. V. Lobanov1, G. G. Lazareva1, A. G. Kashegev2
1Peoples' Friendship University of Russia, Moscow
2S. P. Botkin City Clinical Hospital, Moscow
Email: lazareva-gg@rudn.ru
DOI 10.24412/cl-35065-2021-1-03-03
The report presents an algorithm that solves the problem of evaluation the state of the patient's brain in the first hours of the growth of an ischemic stroke. Using the data of computed axial tomography (CAT) of the brain, it is necessary to evaluate the initial ischemic changes using the Alberta Stroke Program Early CT Score (ASPECTS) scale. The purpose of the work is to build a tool that will analyze CAT images within the ASPECTS scale and indicate the areas in which early signs of ischemic changes are determined.
The brain regions supplied with blood by the middle cerebral artery were divided into ten separate sec-tions in accordance with the ASPECTS scale, which leads to the problem of image segmentation. Finding areas
of interest according to some common patterns and determining the degree of damage to a part of the brain is traditionally carried out using convolution neural networks.
The work is supported by the Ministry of Science and Education of Russian Federation, project number FSSF-2020-0018.
Comparison of genomes of different species of coronaviruses using spectra of periodicities
L. A. Miroshnichenko1, V. D. Gusev1, Yu. P. Dzhioev 2
1Sobolev institute of mathematics SB RAS
2Irkutsk State Medical University
Email: luba@math.nsc.ru
DOI 10.24412/cl-35065-2021-1-02-52
The periodicities presented in the genomes of related organisms play an important role in classification. The complete spectra of periodicities identified by the authors in genomes are quite compact and visible even for relatively long genomes, which makes them a convenient tool for differentiating closely related objects. Genomes of SARS, MERS and SARS-COV-2 coronaviruses are being considered
The first confirmed case of Middle East respiratory syndrome-related coronavirus (MERS-CoV) was report-ed in Jeddah, Saudi Arabia in April 2012. By July 2015, MERS-CoV cases had been reported in over 21 countries, in Europe, North America and Asia as well as the Middle East. Severe acute respiratory syndrome coronavirus (SARS-CoV or SARS-CoV-1) caused the 2002–2004 SARS outbreak. Coronavirus disease 2019 (COVID-19) is a contagious disease caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). The first known case was identified in Wuhan, China, in December 2019. The disease has since spread worldwide, leading to an ongoing pandemic.
This work was carried out within the framework of the state contract of the Sobolev Institute of Mathematics (pro-ject no. 0314-2019-0015)
A computational model of the cereal leaves hydraulics
S. V. Nikolaev1,2, U. S. Zubairova1,3
1Institute of Cytology and Genetics SB RAS, Russia
2K. I. Skryabin Moscow State Academy of Veterinary Medicine and Biotechnology, Moscow
3Novosibirsk State University
Email: zubairovaus@gmail.com
DOI 10.24412/cl-35065-2021-1-02-53
Environmental factors and plant architectonics significantly determine its water regime, namely, the water content and its movement through the tissues forced by the difference in water potentials, turgor pressure in cells, etc. In turn, the cumulative water regime affects the functioning and growth of cells, photosynthesis, and, as a result, the plant's growth. The leaf contributes to the formation of the water regime and characteriz-es the contour of the plant's adaptive system. Nevertheless, the data on the contribution of leaves to the total resistance to water transport in the plant and the structure of the hydraulic resistance of the leaf itself is still contradictory.
This paper presents the formulation and justification of the monocots leaf hydraulics model based on Dar-cy's law. The model was tested in computational experiments in the Comsol 4.3b package on idealized geo-metric models of leaf blades. Simulations showed the dependence of water potential distribution in xylem ves-
