Transonic Potential Flows in A Convergent--Divergent Approximate Nozzle

In this paper we prove existence, uniqueness and regularity of certain perturbed (subsonic--supersonic) transonic potential flows in a two-dimensional Riemannian manifold with "convergent-divergent" metric, which is an approximate model of the de Laval nozzle in aerodynamics. The result indicates that transonic flows obtained by quasi-one-dimensional flow model in fluid dynamics are stable with respect to the perturbation of the velocity potential function at the entry (i.e., tangential velocity along the entry) of the nozzle. The proof is based upon linear theory of elliptic-hyperbolic mixed type equations in physical space and a nonlinear iteration method.Comment: 22 page

HB-PLS: A statistical method for identifying biological process or pathway regulators by integrating Huber loss and Berhu penalty with partial least squares regression

Gene expression data features high dimensionality, multicollinearity, and non-Gaussian distribution noise, posing hurdles for identification of true regulatory genes controlling a biological process or pathway. In this study, we integrated the Huber loss function and the Berhu penalty (HB) into partial least squares (PLS) framework to deal with the high dimension and multicollinearity property of gene expression data, and developed a new method called HB-PLS regression to model the relationships between regulatory genes and pathway genes. To solve the Huber-Berhu optimization problem, an accelerated proximal gradient descent algorithm with at least 10 times faster than the general convex optimization solver (CVX), was developed. Application of HB-PLS to recognize pathway regulators of lignin biosynthesis and photosynthesis in Arabidopsis thaliana led to the identification of many known positive pathway regulators that had previously been experimentally validated. As compared to sparse partial least squares (SPLS) regression, an efficient method for variable selection and dimension reduction in handling multicollinearity, HB-PLS has higher efficacy in identifying more positive known regulators, a much higher but slightly less sensitivity/(1-specificity) in ranking the true positive known regulators to the top of the output regulatory gene lists for the two aforementioned pathways. In addition, each method could identify some unique regulators that cannot be identified by the other methods. Our results showed that the overall performance of HB-PLS slightly exceeds that of SPLS but both methods are instrumental for identifying real pathway regulators from high-throughput gene expression data, suggesting that integration of statistics, machine leaning and convex optimization can result in a method with high efficacy and is worth further exploration

Characterization of a pathway-specific activator of milbemycin biosynthesis and improved milbemycin production by its overexpression in Streptomyces bingchenggensis

Additional file 3: Figure S3. Diagrams of site-directed mutation of Walker A and Walker B motifs in MilR. A: Mutation in Walker A motif. The first line shows the wild-type Walker A sequence. From the second to the eighth line, red words indicate the Ala or Arg substitution was performed in the corresponding position. B: Mutation in Walker B motif. The first line shows the wild-type Walker B sequence, from the second to the third line, blue words indicate the Ala substitution was carried out to replace Asp in the corresponding position

Understanding the Habitual Pattern of Concomitant Consumption of Herbs to Alleviate the Symptoms of Ulcerative Colitis by Comparative Proteome Analysis

Anchang decoction is an empirical prescription for the treatment of ulcerative colitis in China. In order to better understand its therapeutic function, large efforts have been made to identify its chemical constituents and to unravel the efficacy of its principal constituents. However, the molecular mechanism of its combinations is still unclear. Proteomics application has yielded some positive results in drug development and the identification of potential drug targets, suggesting the potential of this analytical approach to explore the action of molecular mechanisms of herbal formula by robustly addressing dynamic proteome changes. Label-free quantification and parallel reaction monitoring were used to identify differentially expressed proteins in the colon tissue of ulcerative colitis rats, fed with Anchang decoction and mesalazine, respectively. In this study, a total of 1,182 proteins were identified. From GO and KEGG analyses, the proteins of cytoskeleton and cytochrome P450 changed significantly with the occurrence of ulcerative colitis. In the meantime, antigen binding proteins and antioxidant-related proteins turned out to have drastic fluctuations with mesalazine and Anchang decoction. It has also been confirmed that KRT8, MYH11, FLNA, and LMNA are all related to the formation of ulcerative colitis based on parallel reaction monitoring analysis. The increase in FGG in the ulcerative colitis rat model is due to mesalazine, whereas that in KRT8 is due to Anchang decoction. The results from this study provide insights for the mechanism of action of Anchang decoction, which turns out to be an efficient technical pipeline for understanding worldwide medicinal herbs

Coherence of ion cyclotron resonance for damping ion cyclotron waves in space plasmas

Ion cyclotron resonance is one of the fundamental energy conversion processes through field-particle interaction in collisionless plasmas. However, the key evidence for ion cyclotron resonance (i.e., the coherence between electromagnetic fields and the ion phase space density) and the resulting damping of ion cyclotron waves (ICWs) has not yet been directly observed. Investigating the high-quality measurements of space plasmas by the Magnetospheric Multiscale (MMS) satellites, we find that both the wave electromagnetic field vectors and the bulk velocity of the disturbed ion velocity distribution rotate around the background magnetic field. Moreover, we find that the absolute gyro-phase angle difference between the center of the fluctuations in the ion velocity distribution functions and the wave electric field vectors falls in the range of (0, 90) degrees, consistent with the ongoing energy conversion from wave-fields to particles. By invoking plasma kinetic theory, we demonstrate that the field-particle correlation for the damping ion cyclotron waves in our theoretical model matches well with our observations. Furthermore, the wave electric field vectors ($\delta \mathbf{E'}_{\mathrm {wave,\perp}}$), the ion current density ($\delta \mathbf{J}_\mathrm {i,\perp}$) and the energy transfer rate ($\delta \mathbf{J}_\mathrm {i,\perp}\cdot \delta \mathbf{E'}_{\mathrm {wave,\perp}}$) exhibit quasi-periodic oscillations, and the integrated work done by the electromagnetic field on the ions are positive, indicates that ions are mainly energized by the perpendicular component of the electric field via cyclotron resonance. Therefore, our combined analysis of MMS observations and kinetic theory provides direct, thorough, and comprehensive evidence for ICW damping in space plasmas

Influence of Temperature on Hydrolysis Acidification of Food Waste

AbstractFor two-phase anaerobic digestion process of food waste, degree of hydrolysis and products by acidification during hydrolysis and acidification phase directly affect the performance of methanogenesis phase. Temperature has great impact on hydrolysis and acidification of food waste. This paper monitored the dynamic change of biogas production, biogas composition, pH, soluble chemical oxygen demand (SCOD) and volatile fatty acids (VFAs) during hydrolysis and acidification stage so as to investigate specific influence of temperature on food waste. With the same inoculum and 9 days’ fermentation, three different temperatures (35, 55 and 70°C) were taken into consideration. The results showed that cumulative gas production was 4860mL at 70°C, which was 129.79% and 37.87% higher than that at 35 and 55°C. Besides, hydrogen content at 70°C was 45.34%, which was the highest among the three temperatures. Hydrolysis rate was proportional to the increase of temperature. Meanwhile, total VFAs yield and composition widely differed at three different temperatures. The hydrolysis and acidification products at 35°C were mainly ethanol and acetic acids and the highest concentrations of ethanol at 35°C were 3.28 and 3.65 times of that at 55 and 70°C, but more acetic, isobutyric and butyric acids were generated at 55 and 70°C. Among three temperatures, 70°C had the highest acetic acids concentration while 55°C had the highest isobutyric and butyric acids concentration

Statistical Study of Anisotropic Proton Heating in Interplanetary Magnetic Switchbacks Measured by Parker Solar Probe

Magnetic switchbacks, which are large angular deflections of the interplanetary magnetic field, are frequently observed by Parker Solar Probe (PSP) in the inner heliosphere. Magnetic switchbacks are believed to play an important role in the heating of the solar corona and the solar wind as well as the acceleration of the solar wind in the inner heliosphere. Here, we analyze magnetic field data and plasma data measured by PSP during its second and fourth encounters, and select 71 switchback events with reversals of the radial component of the magnetic field at times of unchanged electron-strahl pitch angles. We investigate the anisotropic thermal kinetic properties of plasma during switchbacks in a statistical study of the measured proton temperatures in the parallel and perpendicular directions as well as proton density and specific proton fluid entropy. We apply the “genetic algorithm” method to directly fit the measured velocity distribution functions in field-aligned coordinates using a two-component bi-Maxwellian distribution function. We find that the protons in most switchback events are hotter than the ambient plasma outside the switchbacks, with characteristics of parallel and perpendicular heating. Specifically, significant parallel and perpendicular temperature increases are seen for 45 and 62 of the 71 events, respectively. We find that the density of most switchback events decreases rather than increases, which indicates that proton heating inside the switchbacks is not caused by adiabatic compression, but is probably generated by nonadiabatic heating caused by field–particle interactions. Accordingly, the proton fluid entropy is greater inside the switchbacks than in the ambient solar wind