International Multiconference “Bioinformatics of Genome Regulation and Structure\Systems Biology”

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Systems Biology and Biomedicine symposium

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Systems Biology and Biomedicine symposiumGeneration of the panel of transgenic human cell lines with stable expression of mutant variants of the GJB2 gene associated with hearing loss for comparative in vitro studies

Generation of the panel of transgenic human cell lines with stable expression of mutant variants of the GJB2 gene associated with hearing loss for comparative in vitro studies

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Poster (download)

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Ekaterina Alexandrovna Maslova1, Marina Vyacheslavovna Zytsar2, Valeriia Yuryevna Danilchenko3, Olga Leonidovna Posukh4, Konstantin Evgenyevich Orishchenko5
1Federal Research Center Institute of Cytology and Genetics, Novosibirsk State University, Novosibirsk, Russian Federation, maslova@bionet.nsc.ru
2Federal Research Center Institute of Cytology and Genetics, Novosibirsk, Russian Federation, zytzar@bionet.nsc.ru
3Federal Research Center Institute of Cytology and Genetics, Novosibirsk, Russian Federation, danilchenko_valeri@mail.ru
4Federal Research Center Institute of Cytology and Genetics, Novosibirsk State University, Novosibirsk, Russian Federation, posukh@bionet.nsc.ru
5Federal Research Center Institute of Cytology and Genetics, Novosibirsk State University, Novosibirsk, Russian Federation, OrishchenkoKE@icg.sbras.ru

Assessment of pathogenicity of novel variants is a primary task for molecular diagnostics of hereditary diseases, and comprehensive evidences, including functional in vitro studies, are necessary to support their involving in pathology. Mutations in the GJB2 gene encoding transmembrane protein Cx26 are the common cause for hearing loss worldwide. About 400 pathogenic and also not yet classified variants with ambiguous functional significance are described in the GJB2 gene sequence. In this study, for the first time, the panel of transgenic HeLa cell lines stably expressing of different GJB2 variants was generated for subsequent comparative analysis of structure and functioning of the Cx26 protein. This panel was successfully applied for confirmation of the pathogenicity of novel GJB2 missense variant c.516G>C (p.Trp172Cys) found with high frequency in deaf patients from Southern Siberia.

Systems Biology and Biomedicine symposiumCluster organization of miRNA binding sites in mRNA of atherosclerosis candidate genes

Cluster organization of miRNA binding sites in mRNA of atherosclerosis candidate genes

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Mukushkina Dina1, Aisina Dana2, Ivashchenko Anatoliy3
1SRI of biology and biotechnology problems Al-Farabi Kazakh National University Almaty, Kazakhstan, dina.mukushkina@gmail.com
2SRI of biology and biotechnology problems Al-Farabi Kazakh National University Almaty, Kazakhstan, dana.aisina03@gmail.com
3SRI of biology and biotechnology problems Al-Farabi Kazakh National University Almaty, Kazakhstan, a.iavashchenko@gmail.com

Many candidate genes are involved in the development of atherosclerosis, which are manifested in a variety of metabolic processes, disturbances of which are observed in this disease. Many publications describe the involvement of miRNAs in the development of atherosclerosis. Therefore, it is necessary to establish which miRNAs can affect the expression of candidate genes. Quantitative characteristics of the interaction of miRNAs with mRNAs candidate genes were determined using the MirTarget program, which detects localization of miRNA binding sites in 3\’UTR, 5\’UTR and CDS; free energy interaction miRNA with mRNA; schemes of nucleotide interaction between miRNA and mRNA. In the mRNA of atherosclerosis genes, the binding sites of two or more miRNAs located in 3\’UTR, 5\’UTR and CDS are established. The organization of miRNAs binding sites with overlapping nucleotide sequences forming clusters was revealed. Such an organization of miRNAs binding sites leads to their compaction several times and causes competition among miRNAs for binding to mRNA. The features of the interaction of miRNAs with mRNA of candidate genes depending on their expression are established. Associations of miRNAs and candidate atherosclerosis genes are proposed for the early diagnosis of this disease.

Systems Biology and Biomedicine symposiumReLEx SMILE Method to Expansion and Create Scaffolds from Corneal Fibroblasts

ReLEx SMILE Method to Expansion and Create Scaffolds from Corneal Fibroblasts

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Poster (download)

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Kristina Krasner1, Alexander Lykov2, Olga Poveshchenko3, Valeriy Chernykh4, Maria Surovtseva5, Irina Kim6
1S. Fedorov Eye Microsurgery Federal State Institution Novosibirsk, Russia, kityli@mail.ru
2Research Institute of Clinical and Experimental Lymphology-Branch of the Institute of Cytology and Genetics SB RAS Novosibirsk, Russia, aplykov2@mail.ru
3Research Institute of Clinical and Experimental Lymphology-Branch of the Institute of Cytology and Genetics SB RAS Novosibirsk, Russia, poveschenkoov@yandex.ru
4S. Fedorov Eye Microsurgery Federal State Institution Novosibirsk, Russia, rimma@mntk.nsk.ru
5Research Institute of Clinical and Experimental Lymphology-Branch of the Institute of Cytology and Genetics SB RAS Novosibirsk, Russia, mfelde@ngs.ru
6Research Institute of Clinical and Experimental Lymphology-Branch of the Institute of Cytology and Genetics SB RAS Novosibirsk, Russia, kii5@yandex.ru

To identify three-dimensional corneal stromal constructs that could promote a human corneal fibroblasts survival. Small-incision lenticule extraction was used for obtained corneal stroma for in vitro expansion of primary human corneal fibroblasts; monoclonal antibodies to keratocyte, mesenchymal stem cell/fibroblast and epithelial cell was used to phenotyping expanded human corneal fibroblast on the flow cytometry; polyethylene glycol, platelet lysate and methylene cellulose was used to prepare three-dimensional corneal stroma constructs, morphology was monitored by phase contrast microscopy. During 3-4 weeks human corneal fibroblasts was expanded in vitro from lenticule. Obtained cells expressed mesenchymal stem cell/fibroblast surface marker and was negative for keratocyte and epithelial cells surface markers. A combination of polyethylene glycol with platelet lysate significantly increased growth and survival of human corneal fibroblasts in three-dimensional corneal stroma construct.

Systems Biology and Biomedicine symposiumThe lithium effects on morphology and apoptosis in hepatocellular carcinoma cells

The lithium effects on morphology and apoptosis in hepatocellular carcinoma cells

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Poster (download)

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Iuliia Taskaeva1, Izabella Gogaeva2, Natalia Obanina3, Viktoriia Makarova4, Nataliya Bgatova5
1Laboratory of ultrastructural research, Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences; Laboratory of boron-neutron capture therapy, Department of Physics, Novosibirsk State University, inabrite@yandex.ru
2Laboratory of ultrastructural research, Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences; Department of Natural Sciences, Novosibirsk State University, i.gogaeva@g.nsu.ru
3Laboratory of ultrastructural research, Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences; Section of cytology and genetics, Department of Natural Sciences, Novosibirsk State University, n.obanina@g.nsu.ru
4Laboratory of ultrastructural research, Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, shedina_vika@mail.ru
5Laboratory of ultrastructural research, Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, n_bgatova@ngs.ru

Hepatocellular carcinoma (HCC) is characterized dysregulation of cell death mechanisms, and the imbalance of pro- and anti-apoptotic signals. The development of HCC is accompanied by genetic mutations in the signaling pathways involved in the cell proliferation, growth and death. The molecular changes in apoptosis signaling in HCC determine the requirement for targeted chemotherapy to increasing apoptosis in HCC cells. The aim of this study was to assess the ability of lithium to influence on the hepatocellular carcinoma-29 (HCC-29) cells apoptosis in vivo. Light and transmission electron microscopy, and immunofluorescence staining were used to evaluate of apoptosis development in HCC-29 cells after administration of 20 mM lithium carbonate. It was revealed that lithium extremely increased the pro-apoptotic proteins Bad and caspase-3 expression, and decreased the anti-apoptotic protein Bcl-2 expression. These results indicate that lithium carbonate induces apoptosis pathways in HCC-29 cells. Lithium administration can enhance pro-apoptotic chemotherapeutic drugs potential and overcome the resistance of tumor cells to apoptosis in HCC.

Systems Biology and Biomedicine symposiumTowards a Comprehensive Catalog of Human Genes Associated with Main Forms of Pathozoospermia and its Functional Annotation

Towards a Comprehensive Catalog of Human Genes Associated with Main Forms of Pathozoospermia and its Functional Annotation

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Poster (download)

[pdf-embedder url=”https://bgrssb.icgbio.ru/wp-content/uploads/2020/07/58.pdf”]
Elena V. Ignatieva1, Alexander V. Osadchuk2, Maxim A Kleshev3, Ludmila V. Osadchuk4
1The Federal Research Center Institute of Cytology and Genetics, SB RAS, eignat@bionet.nsc.ru
2The Federal Research Center Institute of Cytology and Genetics, SB RAS, osadchuk@bionet.nsc.ru
3The Federal Research Center Institute of Cytology and Genetics, SB RAS, max82cll@bionet.nsc.ru
4The Federal Research Center Institute of Cytology and Genetics, SB RAS, losadch@bionet.nsc.ru

The genetic causes of the global decline in male fertility is among the hot spots of scientific research in reproductive genetics. The most common way to evaluate male fertility in clinical trials is to determine the quality of the ejaculate. A pathological condition characterized by lower quality indicators of the ejaculate compared to the norm and leading to impaired fertility is called pathozoospermia. Pathozoospermia is a syndrome that occurs in many diseases and can be caused by many factors, including genetic ones. To systematize information about genes associated with main forms of pathozoospermia, we created a catalog of such genes and analyzed their functional characteristics. On the basis of a manual analysis of scientific publications we collected data on 70 genes harboring more than one hundred allelic variants associated with pathozoospermia. Gene ontology enrichment analysis revealed that genes were significantly associated with spermatogenesis and male gamete generation. In addition it was found that genes from the catalog were associated with more than seventy human diseases that were both reproductive system pathologies and others, such as Parkinson\’s and Alzheimer\’s diseases as well as various cancer types.

Systems Biology and Biomedicine symposiumGene polymorphism IL13 in moderate-to-severe asthmatic Siberian children with different diseases control

Gene polymorphism IL13 in moderate-to-severe asthmatic Siberian children with different diseases control

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Marina Smolnikova1, Nina Gorbacheva2, Marina Malinchik3, Sergey Tereshchenko4
1Scientific Research Institute of Medical Problems of the North FRC KSC SB RAS, smarinv@yandex.ru
2Scientific Research Institute of Medical Problems of the North FRC KSC SB RAS, n-n-gorbacheva@yandex.ru
3Scientific Research Institute of Medical Problems of the North FRC KSC SB RAS, seapearl1995@gmail.com
4Scientific Research Institute of Medical Problems of the North FRC KSC SB RAS, legise@mail.ru

Multifunctional cytokines, such as IL-13, play an important role in asthma pathogenesis. Several single nucleotide polymorphisms of cytokines are associated with asthma susceptibility in specific populations; however, further replicative studies in other ethnic groups are mandatory, especially with respect to asthma severity in children. Child with moderate-to-severe asthma were divided to patients uncontrolled course of the disease (n = 107) and controlled course of the disease (n = 95). The frequency of the CT genotype IL13 (rs1800925) in patients with controlled moderate-to-severe asthma was significantly higher in comparison with control (46,2% / 36,6%, OR 1,51, p=0,03). Was obtained statistically significant differences in the frequency of the TT genotype between the population sample (6,7%) and the group with uncontrolled asthma (15,5%, OR 1,65, p=0,03). The results have contributed to the data on the role of polymorphisms of IL-13 into the development of asthma in children as exemplified by a European population of East Siberia, Russia.

Systems Biology and Biomedicine symposiumTHE EFFECT OF THE MELATONIN-CONTAINING PREPARATION ON THE HISTOLOGICAL STRUCTURE OF THE ORGANS OF THE IMMUNE SYSTEM OF MICE UNDER ROUND-THE-CLOCK ILLUMINATION

THE EFFECT OF THE MELATONIN-CONTAINING PREPARATION ON THE HISTOLOGICAL STRUCTURE OF THE ORGANS OF THE IMMUNE SYSTEM OF MICE UNDER ROUND-THE-CLOCK ILLUMINATION

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Poster (download)

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Shurlygina A.V1, Serykh A.E.2, Rachkovskaya L.N.3, Michurina S.V.4, Rachkovsky E.E.5, Letyagin A.Yu.6
1Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics SB RAS., anna_v_s@mail.ru
2Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics SB RAS, .Novosibirsk State University, rasiel1996@yandex.ru
3Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics SB RAS, noolit@niikel.ru
4Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics SB RAS, s.michurina@ngs.ru
5Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics SB RAS, noolit@niikel.ru
6Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics SB RAS, letyagin-andrey@yandex.ru

In modern time person’s everyday life, the light regime is often disrupted. It entails a decrease in the synthesis of melatonin. Melatonin influences the differentiation of lymphocytes, the activity of inflammation, and the strength of the immune response. Study\’s purpose is the identification of histological features of the thymus and spleen of mice by means of oral administration of a new melatonin-containing preparation (Complex M) in conditions of light regime\’s disruption under round-the-clock illumination. In the experiment, we used mice with SPF status (inbred strain C57Bl / 6J), males, aged 10-12 weeks. It was shown that the introduction of Complex M reduces the relative size of spleen\’s white pulp, increases the size of the reactive centres, the marginal zone of the spleen follicles and venous vessels of the organ. In addition, the introduction of Complex M increases the cortical-brain index of the thymus, which may indicate This may be a sign of activation of immune functions, increased venous blood flow and stimulation of the central differentiation of T-lymphocytes.

 

Systems Biology and Biomedicine symposiumRESEARCH OF THE INFLUENCE OF THE ALUMINIUM SILICON CARRIER ON BLOOD ERYTHROCYTES BY THE FLOW CYTOMETRY METHOD

RESEARCH OF THE INFLUENCE OF THE ALUMINIUM SILICON CARRIER ON BLOOD ERYTHROCYTES BY THE FLOW CYTOMETRY METHOD

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Poster (download)

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Pivkina A.V.1, Rachkovskaya L.N.2, Nimaev V.V.3, Smagin A.A.4, Shurlygina A.V.5, Rachkovsky E.E.6, Yastrebova E.S.7, Korolev M.A.8, Maltsev V.P.9, Letyagin A.Yu.10
1Novosibirsk state university, a.pivkina@g.nsu.ru
2Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics SB RAS, noolit@niikel.ru
3Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics SB RAS, nimaev@gmail.com
4Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics SB RAS, asa57@ngs.ru
5Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics SB RAS, anna_v_s@mail.ru
6Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics SB RAS, noolit@niikel.ru
7V.V. Voevodsky Institute of Chemical Kinetics and Combustion SB RAS, maltsev@kinetics.nsc.ru
8Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics SB RAS, kormax@bk.ru
9V.V. Voevodsky Institute of Chemical Kinetics and Combustion SB RAS, maltsev@kinetics.nsc.ru
10Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics SB RAS, letyagin-andrey@yandex.ru

The use of solid porous materials in the composition of drugs promotes the delivery of active substances to the zone of their therapeutic effect and allows the body to be sanitized against various harmful substances by means of efferent detoxification methods. It is important to evaluate the safety of solid porous bodies in relation to the biological tissues of the body. This can be done using scanning flow cytometry. The biological properties of the sorbent were evaluated by its effect on red blood cells by scanning flow cytometry with determination of the functional and morphological parameters of red blood cells. The study showed that the aluminum-silicon sorbent minimally changes the morphological parameters, the ratio of stiffness to the plasticity of the membrane, and does not critically reduce the number of strip 3 proteins in red blood cells responsible for anionic cell exchange.

 

Systems Biology and Biomedicine symposiumPersonification of the surgical treatment of pelvic organ prolapse in older women

Personification of the surgical treatment of pelvic organ prolapse in older women

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Poster (download)

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Soluyanov M.Yu.1, Shumkov O.A.2, Smagin M.A.3, Nimaev V.V.4, Rakitin F.A.5, Eyzenakh I.A.6
1Research Institute of Clinical and Experimental LymСЂhology – Branch of the Institute of Cytology and Genetics,Siberian Branch of Russian Academy of Sciences, msoluyanov@mail.ru
2Research Institute of Clinical and Experimental LymСЂhology – Branch of the Institute of Cytology and Genetics,Siberian Branch of Russian Academy of Sciences, shumkov2011@ngs.ru
3Research Institute of Clinical and Experimental LymСЂhology – Branch of the Institute of Cytology and Genetics,Siberian Branch of Russian Academy of Sciences, msa85@inbox.ru
4Research Institute of Clinical and Experimental LymСЂhology – Branch of the Institute of Cytology and Genetics,Siberian Branch of Russian Academy of Sciences, nimaev@gmail.com
5Research Institute of Clinical and Experimental LymСЂhology – Branch of the Institute of Cytology and Genetics,Siberian Branch of Russian Academy of Sciences, rakitinfedorr@mail.ru
6SAPHI KR В«Novokuznetsk City clinical hospital в„– 1В» Novokuznetsk, Russia, eiacom@yandex.ru

The data on surgical treatment of patients of an older age group with apical prolapse of the pelvic organs is presented. The effectiveness of sacrospianial fixation using a synthetic swing band prosthesis was evaluated. The data obtained indicate the effectiveness of the operation in 87.5% of cases.

Systems Biology and Biomedicine symposiumCytotoxicity of Оі-Aluminum-silica-single-wall Carbon Nanotubes Carriers on Mesenchymal Stem Cells and Endothelial Cell Line EA.hy 926

Cytotoxicity of Оі-Aluminum-silica-single-wall Carbon Nanotubes Carriers on Mesenchymal Stem Cells and Endothelial Cell Line EA.hy 926

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Poster (download)

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Irina Kim1, Alexander Lykov2, Lubov Rachkovskaya3, Maria Surovtseva4, Edmund Rachkovsky5, Olga Poveshchenko6
1Research Institute of Clinical and Experimental Lymphology-Branch of the Institute of Cytology and Genetics SB RAS Novosibirsk, Russia, kii5@yandex.ru
2Research Institute of Clinical and Experimental Lymphology-Branch of the Institute of Cytology and Genetics SB RAS Novosibirsk, Russia, aplykov2@mail.ru
3Research Institute of Clinical and Experimental Lymphology-Branch of the Institute of Cytology and Genetics SB RAS Novosibirsk, Russia, noolit@niikel.ru
4Research Institute of Clinical and Experimental Lymphology-Branch of the Institute of Cytology and Genetics SB RAS Novosibirsk, Russia, mfelde@ngs.ru
5Research Institute of Clinical and Experimental Lymphology-Branch of the Institute of Cytology and Genetics SB RAS Novosibirsk, Russia, reed@academ.org
6Research Institute of Clinical and Experimental Lymphology-Branch of the Institute of Cytology and Genetics SB RAS Novosibirsk, Russia , Meshalkin National Medical Research Center, Ministry of Health of Russian Federation Novosibirsk, Russia, poveschenkoov@yandex.ru

In this study, Оі-aluminum-silica-single-wall carbon nanotubes carriers were synthesized and confirmed by scanning electron microscope, emission spectrometry, spectrophotometry. In the in vitro assays, the cytotoxicity on human bone marrow mesenchymal stem cells, and endothelial cell line EA.hy 926 were investigated by MTT assay, Griess reagent, and mixture of benzidine and hydrogen peroxide. The results of the proliferation, nitrogen production and intracellular myeloperoxidase activity showed that the Оі-aluminum-silica-single-wall carbon nanotubes carriers did not have a pronounced toxic effect on human cells. In conclusion, our results confirm that composition of Оі-aluminum-silica-single-wall carbon nanotubes may be used as carriers.