Biopolymers and Cell最新文献

{"title":"Synthesis and in vivo evaluation of pyrazoline-thiazolidin-4-one hybrid Les-5581 as a potential non-steroidal anti-inflammatory agent","authors":"S. Holota, H. Derkach, I. Demchuk, R. Vynnytska, O. Antoniv, L. O. Furdychko, N. Slyvka, I. Nektegayev, R. Lesyk","doi":"10.7124/bc.000a17","DOIUrl":"https://doi.org/10.7124/bc.000a17","url":null,"abstract":"© 2019 S. М. Holota et al.; Published by the Institute of Molecular Biology and Genetics, NAS of Ukraine on behalf of Biopolymers and Cell. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited","PeriodicalId":39444,"journal":{"name":"Biopolymers and Cell","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2019-12-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"43669720","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Identification and characterization of potential membrane-bound molecular drug targets of methicillin-resistant Staphylococcus aureus using in silico approaches","authors":"A. Y. Pernatii, G. Volynets, M. Protopopov, A. O. Prykhod’ko, V. M. Sapelkin, L. V. Pletnova, V. I. Matiushok, V. Bdzhola, S. Yarmoluk","doi":"10.7124/bc.000a18","DOIUrl":"https://doi.org/10.7124/bc.000a18","url":null,"abstract":"Aim. To identify novel putative drug targets of methicillin-resistant S. aureus (MRSA) through subtractive proteome analysis. Methods. Identification of non-homologous proteins in the human proteome, search of MRSA essential genes and evaluation of drug target novelty were performed using a protein BLAST server. Unique metabolic pathways identification was carried out using data and tools from KEGG (Kyoto Encyclopedia of Genes and Genomes). Prediction of sub-cellular proteins localization was performed using combination of PSORT v. 3.0.2, CELLO v. 2.5, iLoc-Gpos, and Pred-Lipo tools. Homology modeling was performed using SWISS-MODEL, Phyre2, I-TASSER web-servers and the MODELLER software. Results. Proteomes of six annotated methicillin-resistant strains : MRSA ATCC BAA-1680, H-EMRSA-15, LA MRSA ST398, MRSA 252, MRSA ST772, UTSW MRSA 55 were initially analyzed. The proteome analysis of the MRSA strains in several consequent steps allowed to identify two molecular targets: diadenylate cyclase and D-alanyl-lipoteichoic acid biosynthesis (DltB) protein which meet the requirements of being essential, membrane-bound, non-homologous to human proteome, involved in unique metabolic pathways and new in terms of not having approved drugs. Using the homology modeling approach, we have built three-dimensional structures of these proteins and predicted their ligand-binding sites. Conclusions. We used classical bioinformatics approaches to identify two molecular targets of MRSA :diadenylate cyclase and DltB which can be used for further rational drug design in order to find novel therapeutic agents for treatment of multidrug resistant staphylococcal infection.","PeriodicalId":39444,"journal":{"name":"Biopolymers and Cell","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2019-12-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"46616932","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genetic diversity of Plum pox virus in Ukraine","authors":"O. Kutsenko, I. Budzanivska, O. Shevchenko","doi":"10.7124/bc.000a1a","DOIUrl":"https://doi.org/10.7124/bc.000a1a","url":null,"abstract":"Aim. Establishing the genetic diversity of Plum pox virus (PPV) in Ukraine. Methods. Double antibody sandwich enzyme-linked immunosorbent assay (DAS-ELISA), polymerase chain reaction with reverse transcription (RT-PCR), DNA sequencing and phylogenetic analysis. Results. The samples with visual symptoms of virus infection were collected from different regions of Ukraine and diagnosed using DAS-ELISA. The amplicons of the coat protein (CP) gene were obtained using RT-PCR and sequenced. The obtained viral cDNAs were analyzed using phylogenetic methods to elucidate the genetic diversity of PPV in different regions of Ukraine. The phylogenetic relationships between Ukrainian isolates were studied and compared to PPV isolates from neighboring countries. Conclusions. The PPV strains M and D circulate in Ukraine. For the first time, PPV was found in the Kharkiv region. The PPV isolates circulating in Ukraine are similar to the isolates from Germany, Turkey, Hungary, and Canada. The results can be used to predict the spread of the virus in different Ukrainian regions and in neighboring countries and to establish its origin and predict the development of possible epidemics.","PeriodicalId":39444,"journal":{"name":"Biopolymers and Cell","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2019-12-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49566448","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Molecular characteristics of the Porcine Epidemic Diarrhea Virus strains isolated in different regions of Ukraine","authors":"D. Masiuk, V. Hlebeniuk, A. Kokariev, T. Vasylenko","doi":"10.7124/bc.000a1b","DOIUrl":"https://doi.org/10.7124/bc.000a1b","url":null,"abstract":"Aim. Research on the molecular characteristics of the PEDV strains isolated in different regions of Ukraine. Methods. PEDV was detected and differentiated in biological material by PCR using the EZ-RED / TGE / PDCoV MPX 1.0 Realtime RT-PCR test system. The complete S gene was sequenced for comparative genotyping of the PEDV strains using PCR. Results. The diagnosis of PED was confirmed in the pig farms under investigation. The PED strains isolated in different regions of Ukraine have a high similarity (99 %) to the strains from North America in 2013-2014 and China in 2011-2012 and a lower similarity (90 %) with the strains circulating in Europe before 1995. The PEDV_Cherkasy_UA_17 strain was clustered into group 2 (cognate to the Chinese strain BJ-2011-1) in the North American clade II of the PEDV. The Ukrainian PEDV strain was phylogenetically clustered together with the highly virulent North American PEDV strains, but differed from the strains circulating in European countries. Conclusions. The PEDV strains isolated in various regions of Ukraine have a high (>99.5 %) degree of homology and are phylogenetically clustered with the highly virulent North American PEDV strains.","PeriodicalId":39444,"journal":{"name":"Biopolymers and Cell","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2019-12-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"47686773","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Features of antimicrobial activity of some 5-aminomethylene-2-thioxo-4-thiazolidinones","authors":"S. Holota, G. Derkach, V. Zasidko, V. Trokhymchuk, L. O. Furdychko, I. Demchuk, G. M. Semenciv, I. I. Soronovych, R. Kutsyk, R. Lesyk","doi":"10.7124/bc.000a0e","DOIUrl":"https://doi.org/10.7124/bc.000a0e","url":null,"abstract":"S. М. Holota, G. О. Derkach, V. V. Zasidko © 2019 S. М. Holota et al.; Published by the Institute of Molecular Biology and Genetics, NAS of Ukraine on behalf of Biopolymers and Cell. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited UDC: 616-093 + 547.789","PeriodicalId":39444,"journal":{"name":"Biopolymers and Cell","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2019-10-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"46481719","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Set of STR-markers for 6p21.31 chromosomal region linkage analysis and CNV study","authors":"N. Hryshchenko, O. P. Kirichenkova, V. V. Gordiyk, S. Kravchenko, V. Kashuba","doi":"10.7124/bc.000a10","DOIUrl":"https://doi.org/10.7124/bc.000a10","url":null,"abstract":"N. V. Hryshchenko, O. P. Kirichenkova, V. V. Gordiyk © 2019 N. V. Hryshchenko et al.; Published by the Institute of Molecular Biology and Genetics, NAS of Ukraine on behalf of Biopolymers and Cell. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited UDC 575.11+575.17","PeriodicalId":39444,"journal":{"name":"Biopolymers and Cell","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2019-10-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"45452806","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"XIII IMBG All-Ukrainian Conference of Young Scientists","authors":"O. Zolotarova, L. Radchenko, L. Leibenko, I. Budzanivska, A. Mironenko","doi":"10.7124/bc.000a14","DOIUrl":"https://doi.org/10.7124/bc.000a14","url":null,"abstract":"Background. The influenza A(H1N1)pdm2009 (H1N1/2009) virus, that emerged during March and early April 2009, spread rapidly among humans to develop into the first human influenza pandemic over 40 years. Hemagglutinin is known to be a major target region of neutralizing antibodies, which inhibit binding with sialic acid receptors effectively. The virus evades these antibodies primarily by accumulating amino-acid substitutions in the HA’s antigenic sites. It is known that the H1 molecule has five antigenic sites: Sa, Sb, Ca1, Ca2, and Cb. The antigenic sites Sa and Sb, which contain the largest number of amino acid residues, are key in neutralizing epitopes that are adjacent to the receptor-binding pocket. The aim of our work was to analyze variability of [the] influenza viruses A(H1N1)pdm09 amino acid substitutions in antigenic sites of hemagglutinin. Methods. Nasal-throat swabs taken from influenza-affect-ed patients from different regions of Ukraine, collected during 2009-2017, were used in the study. The samples were analyzed using real-time polymerase chain reaction (RT-PCR). Influenza viruses were isolated in MDCK and MDCK-SIAT cell culture. Sequencing of influenza viruses genes, isolated in our laboratory, was performed in the World Influenza Center in London using the technology of RNA-SEQ, which allows sequencing coding and noncod-ing mRNA. [The] Nucleotide sequences were translated into [the] amino acid sequences using MEGA 6 software. Results. Ukrainian isolates between 2009-2017 years clustered in the influenza genetic groups 2, 6, 7, and 8. Genetic changes were observed in each of the antigenic sites: Sa – S162T, K163Q, K163I; Sb – S185T, A186T, S190G, S190R; Ca1 – S203T, R205K, E235V, E235D, S236P; Ca2 – P137H, H138R, A141T, D222G, D222N; Cb – A73S, S74R, S74N. The greatest number was detected on the sites Ca1 and Ca2. The smallest number of amino acid substitutions was detected in the antigenic site Cb. In spite of detected mutations in antigenic sites, Ukrainian isolates retained the similarity to the vaccine strain A/California/07/09 during 2009-2017. Conclusions. Information about the changes in antigenic sites is very important for prediction of the next dominant strains. It is well-documented that antigenic changes of HA occasionally result in the acquisition of carbohydrate side chains on the HA molecule. Since the carbohydrate side chains in the vicinity of antigenic sites mask the neutralizing epitopes on the HA surface, the amino acid substitutions associated with the acquisition of carbohydrate chains are believed to efficiently generate antigenic variants. Background. Swiss cheese (sws) is a Drosophila melanogaster ortholog of human Neuropathy target esterase (NTE or PLPLA6), a molecular target for the organophosphorus compound-induced delayed neuropathy (OPIDN). SWS is a transmembrane protein, loss of its function causes age-dependent neurodegeneration, glial hyperwrapping, and neuronal apoptosis. As shown previously, the ","PeriodicalId":39444,"journal":{"name":"Biopolymers and Cell","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2019-10-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41917896","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Nicotiana cavicola as a host for production of recombinant proteins by Agrobacterium-mediated transient gene expression","authors":"Y. Sindarovska, Z. Olevinskaya, O. A. Demchenko, N. Y. Spivak, N. Kuchuk","doi":"10.7124/bc.000a11","DOIUrl":"https://doi.org/10.7124/bc.000a11","url":null,"abstract":"Aim. To analyze a novel plant species as a host for obtaining recombinant proteins via transient gene expression. Methods. Agrobacterium -mediated transient gene expression, protein analysis, statistical data processing. Results. N. cavicola plants demonstrate good biotechnological characteristics; they are susceptible to agrobacterial infection and plant viruses. Green fluorescent protein (GFP) and human interferon alpha were produced in N. cavicola after transient gene expression using two different vector systems. The level of recombinant proteins de-pended on the gene and the system used. GFP content reached 6.0 % and 12.6 % TSP (0.44 mg/g FW). The interferon antiviral activity of the leaf extracts was 840 IU/g FW and 1710 IU/g FW. Conclusion. Here we propose N. cavicola species as a novel host for obtaining recombinant proteins which can be used as an alternative to the N. benthamiana host.","PeriodicalId":39444,"journal":{"name":"Biopolymers and Cell","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2019-10-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"45614272","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Investigation of Antimicrobial Activity of 1,3-benzoxazine Derivatives","authors":"Serhii Zahorulko, S. Varenichenko, O. Farat, I. Markova, V. Markov","doi":"10.7124/bc.000a12","DOIUrl":"https://doi.org/10.7124/bc.000a12","url":null,"abstract":"S. P. Zahorulko, S. A. Varenichenko, O. K. Farat © 2019 S. P. Zahorulko et al.; Published by the Institute of Molecular Biology and Genetics, NAS of Ukraine on behalf of Biopolymers and Cell. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited UDC 547.867.772.1","PeriodicalId":39444,"journal":{"name":"Biopolymers and Cell","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2019-10-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"42620145","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The evaluation of 2.3-diazepine influence on tissue respiration of the liver and its exocrine function in rats with a rotenone model of Parkinson’s disease","authors":"V. Khilya, I. Yanchuk, L. Shtanova, S. Veselsky, T. Vovkun, O. Tsymbalyuk, V. Moskvina, O. Shablykina, S. L. Bogza","doi":"10.7124/bc.000a13","DOIUrl":"https://doi.org/10.7124/bc.000a13","url":null,"abstract":"","PeriodicalId":39444,"journal":{"name":"Biopolymers and Cell","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2019-10-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"47640973","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}