BiophysicsPub Date : 2024-03-18DOI: 10.1134/S0006350923060210
E. O. Vasilenko, S. A. Kozin, V. A. Mitkevich, A. S. Buchelnikov, Yu. D. Nechipurenko
{"title":"A Thermodynamic Model of the Formation of Protein Aggregates on a Matrix","authors":"E. O. Vasilenko, S. A. Kozin, V. A. Mitkevich, A. S. Buchelnikov, Yu. D. Nechipurenko","doi":"10.1134/S0006350923060210","DOIUrl":"10.1134/S0006350923060210","url":null,"abstract":"<p>The formation of pathological protein aggregates is associated with many neurodegenerative diseases. The aggregates can form by multilayer adsorption of ligands on a matrix in some cases; for example, the set of membrane protein receptors may act as a matrix. A thermodynamic model was developed to describe the formation of linear aggregates in which ligands are stacked. Cases where complexes of the same type or two different types form the stacks are considered. The model can be used to study pathological aggregation of various proteins and, primarily, amyloid β and its isoforms. The mean, variance, and entropy were calculated for a theoretical distributions of aggregate sizes. A comparison was made with other theoretical models of the formation of amyloid aggregates.</p>","PeriodicalId":493,"journal":{"name":"Biophysics","volume":"68 6","pages":"934 - 944"},"PeriodicalIF":4.033,"publicationDate":"2024-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140172665","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}
BiophysicsPub Date : 2024-03-18DOI: 10.1134/S000635092306009X
N. N. Kashirskaya, E. V. Chernysheva, S. N. Udaltsov, L. N. Plekhanova
{"title":"Lipase and Esterase Activity in Soils from Ancient Burial Vessels","authors":"N. N. Kashirskaya, E. V. Chernysheva, S. N. Udaltsov, L. N. Plekhanova","doi":"10.1134/S000635092306009X","DOIUrl":"10.1134/S000635092306009X","url":null,"abstract":"<p>The activity of lipolytic enzymes was evaluated by the microplate method using heteromolecular exchange in soils from the bottom of the burial ware, followed by cluster analysis. Groups with a contrasting ratio of C12–C18 lipases and C4–C8 esterases were identified in a sample including 57 burial pots aged 2000 to 3000 years. The total lipolytic activity of soil samples from ware with an estimated initial presence of fat-containing funeral food products was above 6% of the maximum value within the sample. The inhibition of esterases in the presence of high concentrations of fatty acids was reflected in extremely low relative esterase activity of the soil microbial community at maximum C18 and C12 lipase activity in two groups of pots. In three groups, esterase activity was observed at high relative activity of C16 lipases, average relative activity of C18 lipases, and extremely low activity of true lipases. In the group of pots with high total lipolytic activity (with the exception of certain extreme values of this indicator), the proportion of true lipase activity was 1.7–1.8 times higher than the proportion of esterase activity. The grouping of funeral dishes according to the ratio of lipase and esterase activity reflected the characteristics of funeral food, whereas the absolute values of enzyme activity among selected vessels with the highest total lipolytic activity were grouped according to the type of burial.</p>","PeriodicalId":493,"journal":{"name":"Biophysics","volume":"68 6","pages":"996 - 1003"},"PeriodicalIF":4.033,"publicationDate":"2024-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140172669","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}
BiophysicsPub Date : 2024-03-18DOI: 10.1134/S0006350923060064
O. E. Dick
{"title":"Analysis of the Relationship between Activity of the Reticular Formation of the Medulla Oblongata and the Respiratory and Cardiovascular Systems in Rats under Painful Stimulation","authors":"O. E. Dick","doi":"10.1134/S0006350923060064","DOIUrl":"10.1134/S0006350923060064","url":null,"abstract":"<p>Using a method based on averaging the conditional probabilities of recurrence intervals, a comparative analysis was performed to estimate the direction of coupling between different physiological rhythms (fluctuations in blood pressure, respiration, and neuronal activity in the reticular formation of the medulla oblongata) in two groups of anesthetized rats with or without painful stimulation. Different variants were observed for the directions of coupling between the rhythms. A statistically significant unidirectionality of coupling was detected with most of the data obtained from rats of the control group and rats with experimentally induced colitis. Painful stimulation did not affect the direction of coupling, but slightly reduced the amount of data with unidirectional coupling. Rhythms associated with the cardiovascular system (blood pressure variability) were controlled by rhythms of the respiratory system, and the respiratory rhythm controlled the variability of neuronal activity in the reticular formation of the medulla oblongata.</p>","PeriodicalId":493,"journal":{"name":"Biophysics","volume":"68 6","pages":"1013 - 1020"},"PeriodicalIF":4.033,"publicationDate":"2024-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140172428","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}
BiophysicsPub Date : 2024-03-18DOI: 10.1134/S0006350923060039
L. G. Bobyleva, T. A. Uryupina, M. A. Timchenko, S. N. Udaltsov, I. M. Vikhlyantsev, A. G. Bobylev
{"title":"The Pathway of Amyloid Aggregation of Titin","authors":"L. G. Bobyleva, T. A. Uryupina, M. A. Timchenko, S. N. Udaltsov, I. M. Vikhlyantsev, A. G. Bobylev","doi":"10.1134/S0006350923060039","DOIUrl":"10.1134/S0006350923060039","url":null,"abstract":"<p>The process of amyloid aggregation is quite complex and poorly studied. In this paper, summarizing the previously obtained results on the aggregation of the multidomain smooth muscle protein titin, we tried to complement the idea of its amyloid aggregation by presenting a new, in our opinion, possible mechanism. The main conclusion is that the ability of titin to form amorphous aggregates seems to be the only possible means of aggregation of this protein. Apparently, only individual sections of the molecules, and not the entire protein, are involved in the formation of the amyloid structure in amorphous aggregates of smooth muscle titin. This feature distinguishes titin from other amyloid or amyloid-like proteins due to the large size of the molecule. The possible energy landscape underlying the formation of amyloid aggregates of titin is discussed.</p>","PeriodicalId":493,"journal":{"name":"Biophysics","volume":"68 6","pages":"1085 - 1091"},"PeriodicalIF":4.033,"publicationDate":"2024-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140172437","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}
BiophysicsPub Date : 2024-03-18DOI: 10.1134/S0006350923060222
S. I. Zienko, V. L. Zhbanova
{"title":"Simulation of Fluorescence Spectrum Related to Photosynthesis","authors":"S. I. Zienko, V. L. Zhbanova","doi":"10.1134/S0006350923060222","DOIUrl":"10.1134/S0006350923060222","url":null,"abstract":"<p>A mathematical study of fluorescence spectrum related to photosynthesis action spectrum was carried out, the calculation of typical photosynthesis spectra on the frequency scale for red and blue light was performed, and the transition of the photosynthesis action spectrum from wavelengths to the frequency scale was carried out; as a result of the inverse Fourier transform, a relaxation curve of the pulse (time) characteristic of fluorescence was numerically obtained. It turned out that the radius vector of the pulse response modulus in polar coordinates made one half turn or half the period of light oscillations in time. It has been found that the optical medium of a plant has a negative volume charge of electrons during relaxation and has inverse properties and properties of coherent radiation. The condition of neutrality of the material environment is not fulfilled. It was revealed that the ratios of variable chlorophyll fluorescence for red and blue light have almost the same value. An analysis of the dependence of the quality factor of the chlorophyll spectrum on frequency showed that the loss of fluorescence energy in blue light significantly exceeds the loss of energy in red light. The proposed method can be used for rapid analysis of photosynthesis intensity. It is also concluded that plants can emit ultra-wideband signals. The relaxation time of chlorophyll fluorescence is shorter than the relaxation time of electron polarization in atoms (molecules). As a result, an inversion of populations is created in the optical medium of chlorophyll, that is, there are more atoms at the upper energy level than at the lower one. Due to this, forced emission and amplification of the light of radiative recombination occurs. In this case, the emission of fluorescence light becomes coherent. All these properties of plants were considered for the first time and were not described in either the domestic or foreign literature.</p>","PeriodicalId":493,"journal":{"name":"Biophysics","volume":"68 6","pages":"964 - 970"},"PeriodicalIF":4.033,"publicationDate":"2024-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140172480","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}
BiophysicsPub Date : 2024-03-18DOI: 10.1134/S0006350923060052
M. E. Diatroptov, M. A. Diatroptova, S. M. Slesarev
{"title":"A Method of Short-Term Forecasting of Ultradian and Infradian Rhythms Based on the Recording of Fluctuations in the Rates of Radioactive Decay of Potassium-40","authors":"M. E. Diatroptov, M. A. Diatroptova, S. M. Slesarev","doi":"10.1134/S0006350923060052","DOIUrl":"10.1134/S0006350923060052","url":null,"abstract":"<p>Simultaneous observations of radioactivity fluctuations from the natural isotope <sup>40</sup>K were carried out in Moscow and Ulyanovsk. It was found that the changes in the counting rate from sources in these geographical points were not simultaneous, but were synchronized according to local solar time. Based on this observation and considering that radioactivity fluctuations correlated with body temperature rhythms, a method for short-term prediction of ultradian rhythms of animal activity has been developed and confirmed. An analysis of the consistency of the dynamics of the intensity of decay fluctuations and daily growth rates of an L-929 cell culture was also carried out. It was found that the highest correlation coefficient was recorded when the indicator of proliferative activity of the culture was compared with the intensity of decay fluctuations taken over the previous day. Thus, based on data on fluctuations in the radioactive decay of <sup>40</sup>K, which are an indicator of the biotropic factor of the environment, it is possible to make short-term forecasts of ultradian and infradian biological rhythms.</p>","PeriodicalId":493,"journal":{"name":"Biophysics","volume":"68 6","pages":"1041 - 1047"},"PeriodicalIF":4.033,"publicationDate":"2024-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140884777","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}
BiophysicsPub Date : 2024-03-07DOI: 10.1134/S000635092305024X
O. M. Rozanova, E. N. Smirnova, T. A. Belyakova, N. S. Strelnikova
{"title":"A Study on the Radiosensitivity and Induction of Adaptive Response in Peripheral Blood Lymphocytes of Patients with Secondary Immunodeficiency Syndrome","authors":"O. M. Rozanova, E. N. Smirnova, T. A. Belyakova, N. S. Strelnikova","doi":"10.1134/S000635092305024X","DOIUrl":"10.1134/S000635092305024X","url":null,"abstract":"<p>This study examined radiosensitivity to low- and high-dose exposure to X-rays in human lymphocytes and the ability of low and high radiation doses to induce radioadaptive response when peripheral blood cells from patients with secondary immune deficiency syndrome and healthy donors of different ages were irradiated in vitro. The occurrence of micronuclei in cytochalasin-blocked binucleated lymphocytes in culture served as an indication of cytogenetic damage. It was found that the spontaneous level of cytogenetic damage in blood lymphocytes of patients with secondary immune deficiency syndrome was 2.5 times greater than in healthy young and older volunteers, and there was also a substantial interindividual variability in the outcome parameters as compared to the data of control groups. There were no differences in the mean values for radiosensitivity to low- and high-dose exposure to X-rays between the groups. In all groups, no correlation was shown between the spontaneous level of micronuclei in lymphocytes and the radiosensitivity of individuals. The adaptive response was induced with the same frequency and to the same extent in lymphocytes in patients with secondary immune deficiency syndrome and in healthy donors of different ages.</p>","PeriodicalId":493,"journal":{"name":"Biophysics","volume":"68 5","pages":"765 - 771"},"PeriodicalIF":4.033,"publicationDate":"2024-03-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140076608","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}
BiophysicsPub Date : 2024-03-07DOI: 10.1134/S0006350923050044
S. V. Akulinichev, S. I. Glukhov, A. V. Efremenko, D. A. Kokontsev, E. A. Kuznetsova, V. V. Martynova, A. V. Feofanov, I. A. Yakovlev
{"title":"The Cellular Response to Exposure to Ionizing Radiation and Light in the Presence of a Photosensitizer","authors":"S. V. Akulinichev, S. I. Glukhov, A. V. Efremenko, D. A. Kokontsev, E. A. Kuznetsova, V. V. Martynova, A. V. Feofanov, I. A. Yakovlev","doi":"10.1134/S0006350923050044","DOIUrl":"10.1134/S0006350923050044","url":null,"abstract":"<p>The combined use of X-ray irradiation and photodynamic therapy on a model of human lung adenocarcinoma A549 cells has been investigated. It was found that synchronous exposure to two types of radiation contributed to a stronger decrease in the survival rate of tumor cells than their sequential use or each type of radiation separately. The levels of RNA and expression of a number of genes involved in cell cycle control (<i>p21</i> and <i>DINOL</i>), apoptosis (<i>BAX</i> and <i>PUMA</i>) and DNA repair (<i>PARP1</i>, <i>OGG1</i>, <i>Rad51</i>, and <i>Lig4</i>) were determined for various combinations of these two types of irradiations of cells. The highest level of expression under all treatments was observed for the long noncoding RNA of <i>DINOL</i> gene. The detected increase in the expression of the <i>BAX</i> and <i>PUMA</i> genes indicated the development of apoptosis. The results we obtained confirmed the synergism of radiation and photodynamic therapy upon their simultaneous use.</p>","PeriodicalId":493,"journal":{"name":"Biophysics","volume":"68 5","pages":"783 - 791"},"PeriodicalIF":4.033,"publicationDate":"2024-03-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140884621","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}
BiophysicsPub Date : 2024-03-07DOI: 10.1134/S0006350923050147
S. I. Lyapunov, I. I. Shoshina, I. S. Lyapunov
{"title":"Modeling the Critical Flicker Fusion Frequency in the Human Visual System","authors":"S. I. Lyapunov, I. I. Shoshina, I. S. Lyapunov","doi":"10.1134/S0006350923050147","DOIUrl":"10.1134/S0006350923050147","url":null,"abstract":"<p>The temporal resolving power of the visual system is essential for the perception of the objective world. The lowest sampling rate of a sequence of images at which perception becomes fused is called the critical flicker fusion frequency (CFFF). A variety of experimental data on critical frequency thresholds can be explained from the viewpoint of a model of the contrast sensitivity of the visual system that is based on the tremor modulation signal (TMS). The model describes how the critical frequency depends on the stimulus brightness, adaptation brightness, and the duration and angular size of the stimulus. The model demonstrates that critical frequency values lie in a range up to 1000 Hz for bright stimuli of a short duration and a large angular size, that a frame rate of 300–500 Hz should be considered optimal for the visual system, and that the critical frequency lies in a low-frequency region for small-sized angular stimuli. Differences in the rate of flicker fusion can be explained by temporal sensitivity of magnocellular and parvocellular neurons.</p>","PeriodicalId":493,"journal":{"name":"Biophysics","volume":"68 5","pages":"857 - 863"},"PeriodicalIF":4.033,"publicationDate":"2024-03-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140071730","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}
BiophysicsPub Date : 2024-03-07DOI: 10.1134/S0006350923050111
G. R. Ivanitskii
{"title":"On the Illusion of Flying in Dreams: The Mechanism of its Occurrence","authors":"G. R. Ivanitskii","doi":"10.1134/S0006350923050111","DOIUrl":"10.1134/S0006350923050111","url":null,"abstract":"<p>It is shown that there is no need to resort to exoteric hypotheses to explain flight in a dream. From the standpoint of biophysics, the phenomenon of “flying in a dream” is based on the already studied adaptive mechanisms and circadian rhythms of the human body. During sleep, the brain’s excitation thresholds change; this makes it easier in some brain areas to excite weak signals. One of the mechanisms of such excitation occurs when a person changes his posture during sleep, which is perceived by the brain in the rapid eye movement sleep phase as a decrease in body weight. This, under certain conditions, can contribute to the appearance in the brain of the illusion of flight.</p>","PeriodicalId":493,"journal":{"name":"Biophysics","volume":"68 5","pages":"901 - 914"},"PeriodicalIF":4.033,"publicationDate":"2024-03-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140884503","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}