Biopolymers and Cell最新文献_第9页

Isolation and characterization of the mutant form of N-terminal catalytically module of Bos taurus tyrosyl-tRNA synthetase with the replacement of Trp 40 and Trp 283 by alanine 用丙氨酸取代Trp40和Trp283的牛酪氨酰tRNA合成酶N-末端催化模块突变体的分离和鉴定

Biopolymers and Cell Pub Date : 2020-10-30 DOI: 10.7124/bc.000a37

V. Zayets, D. Lozhko, O. Tsuvarev, L. Kolomiiets, P. Zub, O. Kornelyuk

引用次数: 0

Simulation modeling of cAMP induced Dictyostelium aggregation by using object-oriented Pharo programming language 用面向对象Pharo编程语言模拟cAMP诱导的盘基菌聚集

Biopolymers and Cell Pub Date : 2020-10-30 DOI: 10.7124/bc.000a36

K. Nizheradze

{"title":"Simulation modeling of cAMP induced Dictyostelium aggregation by using object-oriented Pharo programming language","authors":"K. Nizheradze","doi":"10.7124/bc.000a36","DOIUrl":"https://doi.org/10.7124/bc.000a36","url":null,"abstract":"Aim. Periodically emitted spiral waves of cAMP determine the directed movement of individual amoebae of Dictyostelium discoideum towards the aggregation centers, which are the sources of these waves. Overall behavior of cell population that includes at this stage the thousands of independent organisms, could be reproduced and visualized through 2D simulation modeling. Methods. Object-oriented Pharo programming language was applied to create the model. As the source of random numbers the explicit inversive congruential generator was used. The following processes were attributed to developing population of individual amoebae: appearance of randomly distributed initial cells/spores; the search of feeding substrate; mitosis; forming (depending on the local environment) of the active aggregation centers; periodical emittances of cAMP spiral waves from the aggregation centers; directed movement of the amoebae, which were captured by the cAMP wave, towards aggregation center. Results. In course of the simulation of the feeding and subsequent mitosis, small initial population of amoebae was multiplied and distributed in the borders of specified area. When reaching a finite population density, the appearance of few active aggregation centers took place. Spiral cAMP waves periodically propagated from these centers in 2D area of the model. The cells, which were “covered” by the wave, begun their movement to the corresponding aggregation center, intermitted with the periods of the rest. During migration the cells formed the characteristic “streams”. Conclusion. This model could provide additional important information in the study of the phases and underlying mechanisms of self-organizing cell populations.","PeriodicalId":39444,"journal":{"name":"Biopolymers and Cell","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2020-10-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"43695884","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}

引用次数: 0

Identification of membrane proteins as potential drug targets in Escherichia coli ATCC 25922 using in silico approaches 利用计算机方法鉴定大肠杆菌ATCC 25922膜蛋白作为潜在药物靶点

Biopolymers and Cell Pub Date : 2020-10-30 DOI: 10.7124/bc.000a38

I. Koleiev, S. Starosyla, M. Protopopov, G. Volynets, V. M. Sapelkin, L. V. Pletnova, A. Syniugin, N. O. Kachaput, V. I. Matiushok, V. Bdzhola, S. Yarmoluk

{"title":"Identification of membrane proteins as potential drug targets in Escherichia coli ATCC 25922 using in silico approaches","authors":"I. Koleiev, S. Starosyla, M. Protopopov, G. Volynets, V. M. Sapelkin, L. V. Pletnova, A. Syniugin, N. O. Kachaput, V. I. Matiushok, V. Bdzhola, S. Yarmoluk","doi":"10.7124/bc.000a38","DOIUrl":"https://doi.org/10.7124/bc.000a38","url":null,"abstract":"Aim. The aim of this study was to identify the novel potential drug targets of E.coli ATCC 25922 through subtractive genomic analysis. Methods. The identification of non-homologous proteins to the human proteome, search for E.coli essential genes and estimation of drug target novelty were performed using BLAST. The unique metabolic pathways identification was done using the data and tools from KEGG (Kyoto Encyclopedia of Genes and Genomes). Prediction of the sub-cellular proteins localization was performed using a combination of the tools PSORTb, CELLO and ngLOC. The homology modeling was performed by web-server I-TASSER, the models being validated using MolProbity web-server. The binding sites were analyzed using Discovery Studio 2017 with web servers ProBis and PrankWeb. Results. Proteome of Escherichia coli ATCC 25922, which contains 4808 proteins, has been taken to form the initial set. Using the subtractive genome analysis we identified 9 membrane proteins which are essential, non-homologous to human proteome, involved in unique metabolic pathways and are not described as the drug targets. A study of the spatial structure of this proteins showed that 6 of them have binding sites for ligands. Conclusions. Using classical bioinformatics approaches we identified 6 molecular targets of Escherichia coli ATCC 25922, which can be exploited for further rational drug design in order to find novel therapeutic agents for the treatment of infection caused by E.coli .","PeriodicalId":39444,"journal":{"name":"Biopolymers and Cell","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2020-10-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"71341979","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}

引用次数: 1

Personalized responsiveness of human PBMCs to the action of IL-7 人PBMC对IL-7作用的个性化反应

Biopolymers and Cell Pub Date : 2020-08-30 DOI: 10.7124/bc.000a33

M. Kovalchuk, T. A. Ruban, M. Usenko, V. Kordium

{"title":"Personalized responsiveness of human PBMCs to the action of IL-7","authors":"M. Kovalchuk, T. A. Ruban, M. Usenko, V. Kordium","doi":"10.7124/bc.000a33","DOIUrl":"https://doi.org/10.7124/bc.000a33","url":null,"abstract":"Interleukin-7 (IL-7) is an important element in the functioning of the immune system. Therefore, it would be appropriate to assess individual responses of the immune cells to IL-7. Aim. To analyze ex vivo responses of the healthy adult individual T cells to increasing rhIL-7 concentrations. Methods. Isolation and cultivation of PBMCs and in vitro cytokine bioassay. Quantitative determination of cell viability was performed by the metabolic MTT-uptake assay in viable cells. EC 50 was calculated by means of OriginPro7,5. Results. The dose-response effect on T cell subsets of PBMCs for different concentrations of rhIL-7 in individuals in vitro was evaluated. IL-7 bioassay revealed that the individual EC 50 values ranged from 0.41 to 1.5 ng/ml. Inter-individual variability was high for EC 50 values (CV G =38 %). Maximal percentage increase in cell viability among subjects demonstrated moderate variability (CV G =15 %). Conclusions. The study revealed that responsiveness to IL-7 is various for the PBMCs originated from different individuals. Our research assumes that the personalized responsiveness of human PBMCs to IL-7 may be considered as valuable prognostic information about the immune system state and the T cells response to IL-7 - based therapies. The advantage of the optimized bioassay for the detection sensitivity of PBMC response to IL-7 was shown.","PeriodicalId":39444,"journal":{"name":"Biopolymers and Cell","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2020-08-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"42734917","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}

引用次数: 0

Study on efficiency of oriented immobilization of antibodies on the SPR sensor surface using Staphylococcal protein A or its recombinant analogue 利用葡萄球菌蛋白A或其重组类似物在SPR传感器表面定向固定抗体的效率研究

Biopolymers and Cell Pub Date : 2020-08-30 DOI: 10.7124/bc.000a32

A. Bakhmachuk, O. Gorbatiuk, A. Rachkov, A. Soldatkin

引用次数: 1

The effect of microbial proteases on the activity of matrix metalloproteinases and oxidative stress indicators in wound tissue of rats with experimental diabetes mellitus 微生物蛋白酶对实验性糖尿病大鼠创面组织基质金属蛋白酶活性及氧化应激指标的影响

Biopolymers and Cell Pub Date : 2020-08-30 DOI: 10.7124/bc.000a35

O. Myronenko, L. Natrus, T. Panova, S. Verevka

{"title":"The effect of microbial proteases on the activity of matrix metalloproteinases and oxidative stress indicators in wound tissue of rats with experimental diabetes mellitus","authors":"O. Myronenko, L. Natrus, T. Panova, S. Verevka","doi":"10.7124/bc.000a35","DOIUrl":"https://doi.org/10.7124/bc.000a35","url":null,"abstract":"Aim. To study the effect of microbial proteases on the activity of matrix metalloproteinases and oxidative stress indicators in wound tissue of rats with experimental diabetes mellitus (DM). Methods. Skin burns were induced in the animals without somatic pathology and with the background diabetes mellitus. DM was reproduced by a single injection of streptozotocin, 50 mg/kg. The multi-enzyme proteolytic composition Pronase (Sigma-Aldrich, USA), obtained from the culture fluid of Streptomiceus griseus , was applied to the wound. The content of malonic dialdehyde (MDA), as well as the activities of catalase (CAT), superoxide dismutase (SOD), and glutathione (GSH) were measured on a spectrophotometer. The collagenolytic activity of matrix metalloproteinases (MMPs) of skin tissues was determined by enzyme-phoresis (gelatin zymography). Results. At the physiological wound healing, an application of the composition increased the activity of total MMPs in homogenate on days 3–14 of the healing process, which enhanced the formation of free radicals and the activity of antioxidant system to compensate tissue damage. Thus, the CAT, GSH and SOD levels were elevated on days 7, 14 and 21, respectively. In case of DM, an application of the composition enhanced the activity of MMPs on days 14–21, which improved the proteolytic degradation of extracel lular matrix proteins in the state of excessive glycation and did not worsen oxidative homeostasis state in the wound. Conclusion. The use of exogenous proteases is appropriate to enhance proteolysis in tissues with predominance of glycated proteins in case of chronic hyperglycemia to ensure controlled proteolysis.","PeriodicalId":39444,"journal":{"name":"Biopolymers and Cell","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2020-08-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"47615490","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}

引用次数: 2

Polyfunctional properties of goat colostrum proteins and their use 山羊初乳蛋白的多功能特性及其应用

Biopolymers and Cell Pub Date : 2020-06-30 DOI: 10.7124/bc.000a2b

K. Soloshenko, I. Lych, I. Voloshyna, L. Shkotova

引用次数: 2

Circular RNA: the rings of power over cell 环状核糖核酸：细胞的能量环

Biopolymers and Cell Pub Date : 2020-06-30 DOI: 10.7124/bc.000a23

V. Gordiyuk, O. Mankovska

引用次数: 0

Variation of photostability of DNA-sensitive styrylcyanine dyes caused by N-alkyl functionalization n -烷基功能化对dna敏感苯乙烯菁染料光稳定性的影响

Biopolymers and Cell Pub Date : 2020-04-30 DOI: 10.7124/bc.000a28

Y. V. Snihirova, M. Losytskyy, D. V. Kryvorotenko, Marina V. Kuperman, O. Moshynets, S. Yarmoluk, A. Mokhir, V. Kovalska