Molecular Phylogenetic Identification of Actinobacteria

Molecular phylogenetics plays an important role in prokaryote taxonomy and identification. The content of this chapter is to introduce the common application of genetic criteria including 16S rRNA gene sequence nucleotide similarity and phylogeny, DNA G+C content, and DNA–DNA hybridization. However, the genomics era might put forward some new criteria. This chapter emphasizes the methods and basic principles of molecular identification and taxonomy of actinobacteria

Frequency-Aware Transformer for Learned Image Compression

Learned image compression (LIC) has gained traction as an effective solution for image storage and transmission in recent years. However, existing LIC methods are redundant in latent representation due to limitations in capturing anisotropic frequency components and preserving directional details. To overcome these challenges, we propose a novel frequency-aware transformer (FAT) block that for the first time achieves multiscale directional ananlysis for LIC. The FAT block comprises frequency-decomposition window attention (FDWA) modules to capture multiscale and directional frequency components of natural images. Additionally, we introduce frequency-modulation feed-forward network (FMFFN) to adaptively modulate different frequency components, improving rate-distortion performance. Furthermore, we present a transformer-based channel-wise autoregressive (T-CA) model that effectively exploits channel dependencies. Experiments show that our method achieves state-of-the-art rate-distortion performance compared to existing LIC methods, and evidently outperforms latest standardized codec VTM-12.1 by 14.5%, 15.1%, 13.0% in BD-rate on the Kodak, Tecnick, and CLIC datasets

The Effects of Weather on Passenger Flow of Urban Rail Transit

Predicting passenger flow on urban rail transit is important for the planning, design and decision-making of rail transit. Weather is an important factor that affects the passenger flow of rail transit by changing the travel mode choice of urban residents. This study aims to explore the influence of weather on urban rail transit ridership, taking four cities in China as examples, Beijing, Shanghai, Guangzhou and Chengdu. To determine the weather effect on daily ridership rate, the three models were proposed with different combinations of the factors of temperature and weather type, using linear regression method.   The large quantities of data were applied to validate the developed models.  The results show that in Guangzhou, the daily ridership rate of rail transit increases with increasing temperature. In Chengdu, the ridership rate increases in rainy days compared to sunny days. While, in Beijing and Shanghai, the ridership rate increases in light rainfall and heavy rainfall (except moderate rainfall) compared to sunny days. The research findings are important to understand the impact of weather on passenger flow of urban rail transit. The findings can provide effective strategies to rail transit operators to deal with the fluctuation in daily passenger flow

Fabrication and Properties of Ag-nanoparticles Embedded Amorphous Carbon Nanowire/CNT Heterostructures

Carbon nanotubes were subjected to doping with an energetic Ag ion beam, and the carbon nanotubes on the top of the array were transformed into amorphous carbon nanowires with embedded Ag-nanoparticles. The field emission characteristics of these nanowires were investigated. The minimum turn-on and threshold fields were 0.68 and 1.09 V/μm, respectively, which were lower than those of the as-grown carbon nanotubes. This was probably because Ag-nanoparticles embedded in the carbon nanowires reduced the effective work function from 4.59 to 4.23 eV. Large doping amounts produced serious structural damage at the top of the nanowires and impaired the field emission characteristics

Comparison of different prediction models for estimation of walking and running energy expenditure based on a wristwear three-axis accelerometer

Objective: Objectively and efficiently measuring physical activity is a common issue facing the fields of medicine, public health, education, and sports worldwide. In response to the problem of low accuracy in predicting energy consumption during human motion using accelerometers, a prediction model for asynchronous energy consumption in the human body is established through various algorithms, and the accuracy of the model is evaluated. The optimal energy consumption prediction model is selected to provide theoretical reference for selecting reasonable algorithms to predict energy consumption during human motion.Methods: A total of 100 subjects aged 18–30 years participated in the study. Experimental data for all subjects are randomly divided into the modeling group (n = 70) and validation group (n = 30). Each participant wore a triaxial accelerometer, COSMED Quark pulmonary function tester (Quark PFT), and heart rate band at the same time, and completed the tasks of walking (speed range: 2 km/h, 3 km/h, 4 km/h, 5 km/h, and 6 km/h) and running (speed range: 7 km/h, 8 km/h, and 9 km/h) sequentially. The prediction models were built using accelerometer data as the independent variable and the metabolic equivalents (METs) as the dependent variable. To calculate the prediction accuracy of the models, root mean square error (RMSE) and bias were used, and the consistency of each prediction model was evaluated based on Bland–Altman analysis.Results: The linear equation, logarithmic equation, cubic equation, artificial neural network (ANN) model, and walking-and-running two-stage model were established. According to the validation results, our proposed walking-and-running two-stage model showed the smallest overall EE prediction error (RMSE = 0.76 METs, Bias = 0.02 METs) and the best performance in Bland–Altman analysis. Additionally, it had the lowest error in predicting EE during walking (RMSE = 0.66 METs, Bias = 0.03 METs) and running (RMSE = 0.90 METs, Bias < 0.01 METs) separately, as well as high accuracy in predicting EE at each single speed.Conclusion: The ANN-based walking-and-running two-stage model established by separating walking and running can better estimate the walking and running EE, the improvement of energy consumption prediction accuracy will be conducive to more accurate to monitor the energy consumption of PA

Mutations of genes in synthesis of the carotenoid precursors of ABA lead to pre-harvest sprouting and photo-oxidation in rice

Pre-harvest sprouting (PHS) or vivipary in cereals is an important agronomic trait that results in significant economic loss. A considerable number of mutations that cause PHS have been identified in several species. However, relatively few viviparous mutants in rice (Oryza sativa L.) have been reported. To explore the mechanism of PHS in rice, we carried out an extensive genetic screening and identified 12 PHS mutants (phs). Based on their phenotypes, these phs mutants were classified into three groups. Here we characterize in detail one of these groups, which contains mutations in genes encoding major enzymes of the carotenoid biosynthesis pathway, including phytoene desaturase (OsPDS), ζ-carotene desaturase (OsZDS), carotenoid isomerase (OsCRTISO) and lycopene β-cyclase (β-OsLCY), which are essential for the biosynthesis of carotenoid precursors of ABA. As expected, the amount of ABA was reduced in all four phs mutants compared with that in the wild type. Chlorophyll fluorescence analysis revealed the occurrence of photoinhibition in the photosystem and decreased capacity for eliminating excess energy by thermal dissipation. The greatly increased activities of reactive oxygen species (ROS) scavenging enzymes, and reduced photosystem (PS) II core proteins CP43, CP47 and D1 in leaves of the Oscrtiso/phs3-1 mutant and OsLCY RNAi transgenic rice indicated that photo-oxidative damage occurred in PS II, consistent with the accumulation of ROS in these plants. These results suggest that the impairment of carotenoid biosynthesis causes photo-oxidation and ABA-deficiency phenotypes, of which the latter is a major factor controlling the PHS trait in rice

PgtE Enzyme of Salmonella enterica Shares the Similar Biological Roles to Plasminogen Activator (Pla) in Interacting With DEC-205 (CD205), and Enhancing Host Dissemination and Infectivity by Yersinia pestis

Yersinia pestis, the cause of plague, is a newly evolved Gram-negative bacterium. Through the acquisition of the plasminogen activator (Pla), Y. pestis gained the means to rapidly disseminate throughout its mammalian hosts. It was suggested that Y. pestis utilizes Pla to interact with the DEC-205 (CD205) receptor on antigen-presenting cells (APCs) to initiate host dissemination and infection. However, the evolutionary origin of Pla has not been fully elucidated. The PgtE enzyme of Salmonella enterica, involved in host dissemination, shows sequence similarity with the Y. pestis Pla. In this study, we demonstrated that both Escherichia coli K-12 and Y. pestis bacteria expressing the PgtE-protein were able to interact with primary alveolar macrophages and DEC-205-transfected CHO cells. The interaction between PgtE-expressing bacteria and DEC-205-expressing transfectants could be inhibited by the application of an anti-DEC-205 antibody. Moreover, PgtE-expressing Y. pestis partially re-gained the ability to promote host dissemination and infection. In conclusion, the DEC-205-PgtE interaction plays a role in promoting the dissemination and infection of Y. pestis, suggesting that Pla and the PgtE of S. enterica might share a common evolutionary origin.Peer reviewe

Tube Formation in Nanoscale Materials

The formation of tubular nanostructures normally requires layered, anisotropic, or pseudo-layered crystal structures, while inorganic compounds typically do not possess such structures, inorganic nanotubes thus have been a hot topic in the past decade. In this article, we review recent research activities on nanotubes fabrication and focus on three novel synthetic strategies for generating nanotubes from inorganic materials that do not have a layered structure. Specifically, thermal oxidation method based on gas–solid reaction to porous CuO nanotubes has been successfully established, semiconductor ZnS and Nb2O5nanotubes have been prepared by employing sacrificial template strategy based on liquid–solid reaction, and an in situ template method has been developed for the preparation of ZnO taper tubes through a chemical etching reaction. We have described the nanotube formation processes and illustrated the detailed key factors during their growth. The proposed mechanisms are presented for nanotube fabrication and the important pioneering studies are discussed on the rational design and fabrication of functional materials with tubular structures. It is the intention of this contribution to provide a brief account of these research activities