Hengzongshu/ArticleAgent huggingface dataset:
The occurrence and development of hydrodynamic perturbations generated by low-frequency vibrations of a local section of a streamlined surface in a separated flow behind a rectangular ledge on a flat plate are investigated in the wind tunnel. The results were obtained by the hot-wire anemometry method at a low subsonic flow velocity. It is established that vibrations of the wall generate perturbations of the separation zone, which are streaky structures, and accompanying wave packets of oscillations. The separation of the laminar boundary layer promotes the growth of wave packets with subsequent turbulence of the wall flow.
Second-stage laser cooling of thulium atoms at the 530.7 nm transition with a natural linewidth of 350 kHz offers an interesting possibility to study different regimes of a magneto-optical trap (MOT). The intermediate value of the spectral linewidth of the cooling transition allows the observation of three distinct regimes depending on the intensity and detuning of the cooling beams, namely, the ``bowl-shaped'' regime when light pressure force competes with gravity, the ``double structure'' regime with interplay between the Doppler and polarization-gradient (sub-Doppler) cooling, and the ``symmetric'' regime when Doppler cooling dominates over sub-Doppler cooling and gravity. The polarization-gradient cooling manifests itself by a two-temperature momentum distribution of atoms resulting in a double-structure of the spatial MOT profile consisting of a cold central fraction surrounded by a hot halo. We studied the double structure regime at different saturation parameters and compared observations with calculations based on semiclassical and quantum approaches. The quantum treatment adequately reproduces experimental results if the MOT magnetic field is properly taken into account.
X chromosome inactivation takes place in the early development of female mammals and depends on the Xist gene expression. The mechanisms of Xist expression regulation have not been well understood so far.

In this work, we compared Xist promoter region of vole Microtus rossiaemeridionalis and other mammalian species. We observed three conserved regions which were characterized by computational analysis, DNaseI in vitro footprinting, and reporter construct assay. Regulatory factors potentially involved in Xist activation and repression in voles were determined. The role of CpG methylation in vole Xist expression regulation was established. A CTCF binding site was found in the 5′ flanking region of the Xist promoter on the active X chromosome in both males and females.

We suggest that CTCF acts as an insulator which defines an inactive Xist domain on the active X chromosome in voles.
We report on the design, synthesis and molecular modeling study of conjugates of adenosine diphosphate (ADP) and morpholino nucleosides as potential selective inhibitors of poly(ADP-ribose)polymerases-1, 2 and 3.

Sixteen dinucleoside pyrophosphates containing natural heterocyclic bases as well as 5-haloganeted pyrimidines, and mimicking a main substrate of these enzymes, nicotinamide adenine dinucleotide (NAD+)-molecule, have been synthesized in a high yield. Morpholino nucleosides have been tethered to the β-phosphate of ADP via a phosphoester or phosphoramide bond. Screening of the inhibiting properties of these derivatives on the autopoly(ADP-ribosyl)ation of PARP-1 and PARP-2 has shown that the effect depends upon the type of nucleobase as well as on the linkage between ADP and morpholino nucleoside. The 5-iodination of uracil and the introduction of the P-N bond in NAD+-mimetics have shown to increase inhibition properties. Structural modeling suggested that the P-N bond can stabilize the pyrophosphate group in active conformation due to the formation of an intramolecular hydrogen bond.

The most active NAD+ analog against PARP-1 contained 5-iodouracil 2'-aminomethylmorpholino nucleoside with IC50 126 ± 6 μM, while in the case of PARP-2 it was adenine 2'-aminomethylmorpholino nucleoside (IC50 63 ± 10 μM). In silico analysis revealed that thymine and uracil-based NAD+ analogs were recognized as the NAD+-analog that targets the nicotinamide binding site. On the contrary, the adenine 2'-aminomethylmorpholino nucleoside-based NAD+ analogs were predicted to identify as PAR-analogs that target the acceptor binding site of PARP-2, representing a novel molecular mechanism for selective PARP inhibition. This discovery opens a new avenue for the rational design of PARP-1/2 specific inhibitors.
Large cavities occupied by cations and water molecules are part of the polymeric inorganic cluster structure made up of [Re6Se8(CN)6]4− and M2+ ions (M=Mn, Co; see structure on the right). Remarkably, the water molecules play an essential role in the stabilization of the structure: When the cluster is heated to 80–160°C, water is lost irreversibly, and a sharp change in structure is observed.
The Far East population of Miscanthus sinensis (Andersson) was introduced into the West Siberia conditions. There was distinguished a form with a modified structure of the rootage which forms long shoots with leader buds and rapidly colonizes soil, thus forming a continuous and flat (without tussocks) plantation of miscanthus. It is shown that using usual agrotechnologies, it is possible to obtain 10-15 tons of dry biomass of high quality cellulose (about 40%) per ha/year.
The immune system is generally known to be the primary defense mechanism against pathogens. Any pathological conditions are reflected in anomalies in the immune system parameters. Increasing evidence suggests the involvement of immune dysregulation and neuroinflammation in the pathogenesis of schizophrenia. In this systematic review, we summarized the available evidence of abnormalities in the immune system in schizophrenia. We analyzed impairments in all immune system components and assessed the level of bias in the available evidence. It has been shown that schizophrenia is associated with abnormalities in all immune system components: from innate to adaptive immunity and from humoral to cellular immunity. Abnormalities in the immune organs have also been observed in schizophrenia. Evidence of increased C-reactive protein, dysregulation of cytokines and chemokines, elevated levels of neutrophils and autoantibodies, and microbiota dysregulation in schizophrenia have the lowest risk of bias. Peripheral immune abnormalities contribute to neuroinflammation, which is associated with cognitive and neuroanatomical alterations and contributes to the pathogenesis of schizophrenia. However, signs of severe inflammation are observed in only about 1/3 of patients with schizophrenia. Immunological parameters may help identify subgroups of individuals with signs of inflammation who well respond to anti-inflammatory therapy. Our integrative approach also identified gaps in knowledge about immune abnormalities in schizophrenia, and new horizons for the research are proposed.
Primary hyperaldosteronism is an existence of a functional autonomous source with increased aldosterone production (full or partial) in relation to the renin-angiotensin system. Increased production of aldosterone by the adrenal cortex is the most common form of a secondary hypertension despite the low attention of internists to the problem. The success of a treatment and a prognosis of these patients depend on correct choice of screening (aldosterone/renin ratio) and clarifying diagnostic methods. There are clear algorithms for conducting these tests in accordance with Russian and International recommendations in the respective groups of patients. The purpose of this case report is to demonstrate the long way to diagnosis of primary hyperaldosteronism in a young patient with refractory hypertension, right adrenal adenoma, and clinical (convulsions, weakness) and laboratory signs of hypokalemia. It should not only have made the diagnosis easy, but it could have also absolutely justified the surgical tactics. Unfortunately, the final verification of the disease by carrying out a saline test was accomplished 13 years after the debut of hypertension and 10 years after the primary visualization of the adrenal adenoma.
We consider a class of Markov processes with resettings, where at random times, the Markov processes are restarted from a predetermined point or a region. These processes are frequently applied in physics, chemistry, biology, economics, and in population dynamics. In this paper we establish the local large deviation principle (LLDP) for the Wiener processes with random resettings, where the resettings occur at the arrival time of a Poisson process. Here, at each resetting time, a new resetting point is selected at random, according to a conditional distribution.
According to the Energy Program of Russia until 2030, the formation of coal power is associated with large thermal power plants on low-grade coals and supercritical steam parameters. An increase in the proportion of low-quality coal leads to a sharp increase in toxic emissions in flue gases, liquid effluents and ash and slag waste. The article considers the scientific and technical bases and circuit solutions for the creation of environmentally friendly thermal power plants (EFTPP) on the Berezovsky coal of the Kansko-Achinsk Basin (KAB) with vortex combustion technology based on the principle of a multi-complex with the production of not only the main products (electric and thermal energy), but additional waste with consumer properties. Multi-product complex (MPC) is a series of road construction plants and agricultural enterprises, associated with the TPP and efficiently using wastes for construction, metallurgy and various agricultural products. The performed calculations and analysis of technical and economic indicators have shown that with the existing equipment, prices and tariffs for the products, the EFTPP will pay off more than two times during the life cycle. After 8 years from the beginning of construction the MPC starts generating profit.
ABSTRACT The Bacillus altitudinis strain KL4 was isolated from bottom sediments in Lake Krotovaya Lyaga (Novosibirsk Region, Russia, 53.7°N, 77.9°E). The sequenced and annotated genome is 3,738,419 bp long and carries 3,909 genes.
The aim of the present study was to test the possible ameliorative efficacy of phytochemicals such as tannins on intestinal inflammation and dysbiosis. The effect of a chestnut shell (Castanea sativa) extract (CSE) rich in polyphenols, mainly represented by tannins, on k-carrageenan-induced intestinal inflammation in adult zebrafish (Danio rerio) was tested in a feeding trial. Intestinal inflammation was induced by 0.1% k-carrageenan added to the diet for 10 days. CSE was administered for 10 days after k-carrageenan induced inflammation. The intestinal morphology and histopathology, cytokine expression, and microbiota were analyzed. The k-carrageenan treatment led to gut lumen expansion, reduction of intestinal folds, and increase of the goblet cells number, accompanied by the upregulation of pro-inflammatory factors (TNFα, COX2) and alteration in the number and ratio of taxonomic groups of bacteria. CSE counteracted the inflammatory status enhancing the growth of health helpful bacteria (Enterobacteriaceae and Pseudomonas), decreasing the pro-inflammatory factors, and activating the anti-inflammatory cytokine IL-10. In conclusion, CSE acted as a prebiotic on zebrafish gut microbiota, sustaining the use of tannins as food additives to ameliorate the intestinal inflammation. Our results may be relevant for both aquaculture and medical clinic fields.
Structure-property investigation of crystalline amino acids is an important challenge since interactions between individual molecular fragments or even structural domains in the structure can simulate interactions in more complicated biological systems such as proteins and peptides.Besides, crystalline amino acids are applied as drugs, as piezoelectric and nonlinear optical materials.Therefore understanding a crystal structure response to variation in temperature and pressure is significant in such applications.Cysteine is a remarkable amino acid because its side-chain residue contains a sulfhydryl group involved in formation of additional labile hydrogen bonds (S-H…S or S-H…O).The presence of these very weak bonds in the structure allows cysteine to take a peculiar place between hydrophobic (no contribution of side-chains to H-bonds) and hydrophilic amino acids (with that contribution).

In the present contribution we discuss an evolution of chiral and racemic cysteine crystal structures on cooling and on increasing pressure followed by X-ray crystallography and Raman spectroscopy.We also compare their behavior with that of cysteine crystalline salts and derivatives.

The study was supported by the Projects of RAS (21.44, 5.6.4),SB RAS (Projects 13 & 109), grants from RFBR (09-03-00451, 10-03-00252), a BRHE grant from the CRDF (RUX0-008-NO-06) and FASI (RF) Contracts No GK P2529 & 16.740.11.0166.
Recently, when studying folding of a SH3 domain, we discovered that the flows of transitions between protein states can be surprisingly similar to turbulent fluid flows. This similarity was not restricted by a vortex pattern of the flow fields but extended to a spatial correlation of flow fluctuations, resulting, in particular, in the structure functions such as in the Kolmogorov theory of homogeneous and isotropic turbulence. Here, we undertake a detailed analysis of spatial distribution of folding flows and their similarity to turbulent fluid flows. Using molecular dynamics simulations, we study folding of another benchmark system—Trp-cage miniprotein, which has different content of secondary structure elements and mechanism of folding. Calculating the probability fluxes of transitions in a three-dimensional space of collective variables, we have found that similar to the SH3 domain, the structure functions of the second and third orders correspond to the Kolmogorov functions. The spatial distributions of the probability fluxes are self-similar with a fractal dimension, and the fractal index decreases toward the native state, indicating that the flow becomes more turbulent as the native state is approached. We also show that the process of folding can be viewed as Brownian diffusion in the space of probability fluxes. The diffusion coefficient plays a role of the key parameter that defines the structures functions, similar to the rate of dissipation of kinetic energy in hydrodynamic turbulence. The obtained results, first, show that the very complex dynamics of protein folding allows a simple characterization in terms of scaling and diffusion of probability fluxes, and, secondly, they suggest that the turbulence phenomena similar to hydrodynamic turbulence are not specific of folding of a particular protein but are common to protein folding.
According to environmentalists, ecological situation in the Russian Federation persists as a negative trend showing no signs of improvement. Accumulation of industrial and consumption wastes, which tends to increase every year, seems to be the most problematic issue today. The Russian waste treatment technologies considerably lag behind those in the developed countries where about 90% of waste is utilized.

This article addresses sectoral and regional aspects of waste management and presents estimated amounts of generated waste calculated with the use of a dynamic model of intersectoral balance.

Calculations have shown that to reduce waste generation rate by a factor of two, it is necessary to increase the share of waste processing and neutralization up to 70% (in 2016 it was 59,6%). Catching up with advanced nations does not seem feasible during the projection period. The article focuses on the priority importance of processing industrial waste which storage requires alienation of large areas of agricultural land.
Аннотация.На хромосомах 2A и 2D мягкой пшеницы установлены позиции "hot spot" локусов, важных для регуляции ответов на водный дефицит.Биоинформационным анализом обнаружено в общей сложности 55 генов
Background . Nonspecific immunosuppressive therapy for graft rejection and graft-versus-host disease (GVHD) is often accompanied by severe side effects such as opportunistic infections and cancers. Several approaches have been developed to suppress transplantation reactions using tolerogenic cells, including induction of FoxP3 + Tregs with antigen-loaded dendritic cells (DCs) and induction of CD4 + IL-10 + cells with interleukin IL-10-producing DCs. Here, we assessed the effectiveness of both approaches in the suppression of graft rejection and GVHD. Methods . IL-10-producing DCs were generated by the transfection of DCs with DNA constructs encoding mouse IL-10. Antigen-loaded DCs from C57BL/6 mice were generated by transfection with DNA constructs encoding antigenic determinants from the H2 locus of CBA mice which differ from the homologous antigenic determinants of C57BL/6 mice. Results . We found that both IL-10-producing DCs and antigen-loaded immature DCs could suppress graft rejection and GVHD but through distinct nonspecific and antigen-specific mechanisms, respectively. Discussion . We provide data that the novel approach for DCs antigen loading using DNA constructs encoding distinct homologous determinants derived from major histocompatibility complex genes is effective in antigen-specific suppression of transplantation reactions. Such an approach eliminates the necessity of donor material use and may be useful in immunosuppressive therapy side effects prevention.
The high mortality rate that accompanies cancer spurs the search for new methods that can be used to treat malignant neoplasms. In addition to chemotherapy, electrophysical techniques for tumor treatment appear rather promising. The results of in vitro exposure of A549 human lung adenocarcinoma cells to cold atmospheric plasma (CAP) are hereby presented. A gas-discharge device that generates a sequence of streamers propagating along a stream of inert gas in the ambient air was used. In the zone where the plasma jet came into contact with the target object, there were high-intensity electric fields and high plasma concentrations, while the gas temperature changed by less than a degree. In this study, we compared the cytotoxic effect of CAP in helium and argon. Direct irradiation of cells by CAP with U = 4.2 kV for 30-120 s was shown to reduce cell viability by 25%. Variation of the amplitude of the AC voltage in the plasma device in argon within a range of 3.8-5.6 kV did not significantly alter the cell death rate. Further optimization of the modes of CAP generation in gas-discharge devices with various geometries for the trea.
Adult height inspired the first biometrical and quantitative genetic studies and is a test-case trait for understanding heritability. The studies of height led to formulation of the classical polygenic model, that has a profound influence on the way we view and analyse complex traits. An essential part of the classical model is an assumption of additivity of effects and normality of the distribution of the residuals. However, it may be expected that the normal approximation will become insufficient in bigger studies. Here, we demonstrate that when the height of hundreds of thousands of individuals is analysed, the model complexity needs to be increased to include non-additive interactions between sex, environment and genes. Alternatively, the use of log-normal approximation allowed us to still use the additive effects model. These findings are important for future genetic and methodologic studies that make use of adult height as an exemplar trait.
Regeneration-capable flatworms are highly informative research models to study the mechanisms of stem cell regulation, regeneration, and tissue patterning. Transgenesis is a powerful research tool for investigating gene function, but until recently, a transgenesis method was missing in flatworms, hampering their wider adoption in biomedical research. Here we describe a detailed protocol to create stable transgenic lines of the flatworm M. lignano using random integration of DNA constructs through microinjection into single-cell stage embryos.
Considering audio and image data as having quantum nature (data are represented by density matrices), we achieved better results on training architectures such as 3-layer stacked LSTM and HMM by mixing training samples using superposition augmentation and compared with plain default training and mix-up augmentation. This augmentation technique originates from the mix-up approach but provides more solid theoretical reasoning based on quantum properties. We achieved 3% improvement (from 68% to 71%) by using 38% lesser number of training samples in Russian audio-digits recognition task and 7,16% better accuracy than mix-up augmentation by training only 500 samples using HMM on the same task. Also, we achieved 1.1% better accuracy than mix-up on first 900 samples in MNIST using 3-layer stacked LSTM.
Experimental autoimmune encephalomyelitis (EAE)‐prone C57BL/6 mice are used as a model of human multiple sclerosis. Anti‐DNA antibodies are usually directed against DNA–histone complexes resulting from cell apoptosis.

We immunize mice with myelin oligodendrocyte glycoprotein (MOG), DNA–histone and DNA‐methylated bovine serum albumin (met‐BSA) complexes to reveal different characteristics of EAE development including bone marrow lymphocyte proliferation and differentiation profiles of hematopoietic stem cells. During the acute EAE phase (7‐20 days after immunization), catalytic antibodies efficiently hydrolysing myelin basic protein (MBP), MOG and DNA are produced with parallel suppression of antibodies hydrolysing histones.

Our data indicate that for C57BL/6 mice immunization with DNA‐met‐BSA and DNA–histone complexes may have opposing effects compared to MOG. DNA–histone stimulates the appearance of histone‐hydrolysing abzymes in the acute EAE phase, while abzymes with DNase activity appear at significantly later time‐points. We conclude that MOG, DNA–histone and DNA‐met‐BSA have different effects on numerous bone marrow, cellular, immunological and biochemical parameters of immunized mice, but all antigens finally significantly stimulate the development of the EAE.
In a number of papers an attractive method of laser polarization of electrons (positrons) at storage rings or linear colliders has been proposed.

We show that these suggestions are incorrect and based on errors in simulation of multiple Compton scattering and in calculation of the Compton spin-flip cross sections.

We argue that the equilibrium polarization in this method is zero.