A novel energy level detector for molecular semiconductors.

The multifunction of molecule-based devices is always achieved by improving their charge transport characteristics. These characteristics depend strongly on the energy levels of molecular semiconductors, which fundamentally govern the working principle and device performance. Therefore, an accurate measurement of these energy levels is crucial for evaluating the availability of the prepared materials and thus optimizing the device performance. Here, an easy-to-operate three-terminal hot electron transistor has been developed, which comprises a molecular optoelectronic device that records the charge transport. It achieves exceptional properties including the lowest unoccupied molecular orbit level, highest occupied molecular orbit level, higher energy states, and higher electronic bandgap. When compared with existing techniques such as cyclic voltammetry, inverse photoemission spectroscopy, and ultraviolet photoemission spectroscopy, the hot electron transistor provides in-situ characterization and categorizes the measured energy information as intrinsic properties of the molecular semiconductor. Furthermore, we provide an in-depth understanding of the fundamental device-physics, which provides promising guidance for performance optimization.

16SPIP: a comprehensive analysis pipeline for rapid pathogen detection in clinical samples based on 16S metagenomic sequencing.

BACKGROUND: Pathogen detection in clinical samples based on 16S metagenomic sequencing technology in microbiology laboratories is an important strategy for clinical diagnosis, public health surveillance, and investigations of outbreaks. However, the implementation of the technology is limited by its accuracy and the time required for bioinformatics analysis. Therefore, a simple, standardized, and rapid analysis pipeline from the receipt of clinical samples to the generation of a test report is needed to increase the use of metagenomic analyses in clinical settings. RESULTS: We developed a comprehensive bioinformatics analysis pipeline for the identification of pathogens in clinical samples based on 16S metagenomic sequencing data, named 16SPIP. This pipeline offers two analysis modes (fast and sensitive mode) for the rapid conversion of clinical 16S metagenomic data to test reports for pathogen detection. The pipeline includes tools for data conversion, quality control, merging of paired-end reads, alignment, and pathogen identification. We validated the feasibility and accuracy of the pipeline using a combination of culture and whole-genome shotgun (WGS) metagenomic analyses. CONCLUSIONS: 16SPIP may be effective for the analysis of 16S metagenomic sequencing data for real-time, rapid, and unbiased pathogen detection in clinical samples.

MDACP: A Pathogen Genome and Metagenome Analysis Cloud Platform.

Pathogenic microorganism analysis based on next-generation sequencing technology is an important tool for clinical diagnosis, public health surveillance, and outbreak investigation. However, scientific researchers without the relevant background lack the time, training, or infrastructure to use large data sets or install and use command line tools. Therefore, the bioinformatic team at the Chinese Center for Disease Control and Prevention developed the Microbial Data Analysis Cloud Platform (MDACP) as a safe, professional, and efficient pathogen genetic data analysis platform for rapid microbial data mining, such as for candidate pathogen detection, genome typing, and traceability. MDACP is a web service system based on the Docker platform and can be used for data analysis on various operating systems. The platform focuses on pathogen analysis and continuously develops new analysis processes according to the analysis needs of the users. This platform has a friendly user interface and is easy to operate, allowing users to submit data through data pages or graphical clients, flexibly control parameters according to data conditions, and analyze data in parallel with multiple tasks. Researchers can quickly carry out bioinformatic analyses without coding work, promote follow-up research and information mining of projects, and improve the utilization of big data in the field of disease control. MDACP enables research personnel to conduct data analysis and management and assists clinicians and disease control personnel with mining information, such as pathogen identification, classification, and traceability.

Gut microbiota community characteristics and disease-related microorganism pattern in a population of healthy Chinese people.

China's population accounts for about 1/5th of the world's total population. Owing to differences in environment, race, living habits, and other factors, the structure of the intestinal flora of Chinese individuals is expected to have unique features; however, this has not been thoroughly examined. Here, we collected faecal samples from healthy adults living in three cities of China and investigated their gut microbiome using metagenomics and bioinformatics technology. We found that 11 core bacterial genera were present in all of the Chinese faecal samples; moreover, several patient characteristics (age, region, body mass index, physical exercise, smoking habits, and alcoholic drink, and yogurt consumption) were found to have different effects on the gut microbiome of healthy Chinese people. We also examined the distribution patterns of disease-related microorganisms (DRMs), revealing which DRMs can potentially be used as markers for assessment of health risk. We also developed a program called "Guthealthy" for evaluating the health status associated with the microbiome and DRM pattern in the faecal samples. The microbiota data obtained in this study will provide a basis for a healthy gut microbiome composition in the Chinese population.

Influence of the Lignin Content on the Properties of Poly(Lactic Acid)/lignin-Containing Cellulose Nanofibrils Composite Films.

Poly(lactic acid) (PLA)/lignin-containing cellulose nanofibrils (L-CNFs) composite films with different lignin contents were produced bythe solution casting method. The effect of the lignin content on the mechanical, thermal, and crystallinity properties, and PLA/LCNFs interfacial adhesion wereinvestigated by tensile tests, thermogravimetric analysis, differential scanning calorimetry (DSC), dynamic mechanical analysis, Fourier transform infrared spectroscopy (FTIR), and scanning electron microscopy (SEM). The tensile strength and modulus of the PLA/9-LCNFs (9 wt % lignin LCNFs) composites are 37% and 61% higher than those of pure PLA, respectively. The glass transition temperature (Tg) decreases from 61.2 for pure PLA to 52.6 °C for the PLA/14-LCNFs (14 wt % lignin LCNFs) composite, and the composites have higher thermal stability below 380 °C than pure PLA. The DSC results indicate that the LCNFs, containing different lignin contents, act as a nucleating agent to increase the degree of crystallinity of PLA. The effect of the LCNFs lignin content on the PLA/LCNFs compatibility/adhesion was confirmed by the FTIR, SEM, and Tg results. Increasing the LCNFs lignin content increases the storage modulus of the PLA/LCNFs composites to a maximum for the PLA/9-LCNFs composite. This study shows that the lignin content has a considerable effect on the strength and flexibility of PLA/LCNFs composites.

MPD: a pathogen genome and metagenome database.

Advances in high-throughput sequencing have led to unprecedented growth in the amount of available genome sequencing data, especially for bacterial genomes, which has been accompanied by a challenge for the storage and management of such huge datasets. To facilitate bacterial research and related studies, we have developed the Mypathogen database (MPD), which provides access to users for searching, downloading, storing and sharing bacterial genomics data. The MPD represents the first pathogenic database for microbial genomes and metagenomes, and currently covers pathogenic microbial genomes (6604 genera, 11 071 species, 41 906 strains) and metagenomic data from host, air, water and other sources (28 816 samples). The MPD also functions as a management system for statistical and storage data that can be used by different organizations, thereby facilitating data sharing among different organizations and research groups. A user-friendly local client tool is provided to maintain the steady transmission of big sequencing data. The MPD is a useful tool for analysis and management in genomic research, especially for clinical Centers for Disease Control and epidemiological studies, and is expected to contribute to advancing knowledge on pathogenic bacteria genomes and metagenomes.Database URL: http://data.mypathogen.org.

Partial delignification of wood and membrane preparation using a quaternary ammonium ionic liquid.

This work determined that southern yellow pine wood can almost be completely dissolved in the quaternary ammonium ionic liquid tetrabutylammonium acetate with dimethyl sulfoxide (in a 2:8 mass ratio), after minimal grinding, upon heating at 85 °C for three dissolution/reconstitution cycles, each 1.5 h. Approximately 34.6% of the native lignin and 67.4% of the native carbohydrates present in the original wood can subsequently be extracted, respectively, and were assessed. A gradual decrease in lignin with increased extraction cycles resulted in increased crystallinity index of the cellulose II in the cellulose-rich residue, as confirmed by X-ray diffraction. An increasingly homogeneous macrostructure in the cellulose-rich residue was also evident from scanning electron microscopy images. Membranes cast directly from either wood or cellulose-rich residue solutions in the same tetrabutylammonium acetate/dimethyl sulfoxide system, were prepared using a papermaking-like process. Morphological and mechanical studies indicated that lignin extraction made the membranes more uniform and flexible. Systematic increases in the fibril lengths and orientations of the recovered materials were also found with decreasing lignin contents on the basis of atomic force microscopy analysis. This work demonstrates that relatively efficient partial separation of pine wood and subsequent membrane preparation are possible using a quaternary ammonium ionic liquid.