PPGR: a comprehensive perennial plant genomes and regulation database.

Perennial woody plants hold vital ecological significance, distinguished by their unique traits. While significant progress has been made in their genomic and functional studies, a major challenge persists: the absence of a comprehensive reference platform for collection, integration and in-depth analysis of the vast amount of data. Here, we present PPGR (Resource for Perennial Plant Genomes and Regulation; https://ngdc.cncb.ac.cn/ppgr/) to address this critical gap, by collecting, integrating, analyzing and visualizing genomic, gene regulation and functional data of perennial plants. PPGR currently includes 60 species, 847 million protein-protein/TF (transcription factor)-target interactions, 9016 transcriptome samples under various environmental conditions and genetic backgrounds. Noteworthy is the focus on genes that regulate wood production, seasonal dormancy, terpene biosynthesis and leaf senescence representing a wealth of information derived from experimental data, literature mining, public databases and genomic predictions. Furthermore, PPGR incorporates a range of multi-omics search and analysis tools to facilitate browsing and application of these extensive datasets. PPGR represents a comprehensive and high-quality resource for perennial plants, substantiated by an illustrative case study that demonstrates its capacity in unraveling gene functions and shedding light on potential regulatory processes.

Preparation of Surface-Wrinkled Silica-Polystyrene Colloidal Composite Particles.

In this work, we report a facile emulsion swelling route to prepare surface-wrinkled silica-polystyrene (SiO2-PS) composite particles. Submicrometer-sized, near-spherical SiO2-PS composite particles were first synthesized by dispersion polymerization of styrene in an ethanol/water mixture, and then, surface-wrinkled SiO2-PS particles were obtained by swelling the SiO2-PS particles with a toluene/water emulsion and subsequent drying. It is emphasized that no surface pretreatment on the SiO2-PS composite particles is required for the formation of the wrinkled surface, and the most striking feature is that the surface-wrinkled particle was not deformed from a single near-spherical SiO2-PS composite particle but from many ones. The influence of various swelling parameters including toluene/particle mass ratio, surfactant concentration, stirring rate, swelling temperature, swelling time, and silica size on the morphology of the composite particles was studied. This method represents a new paradigm for the preparation of concave polymer colloids.

Metabolic engineering of Komagataella phaffii for the efficient utilization of methanol.

BACKGROUND: Komagataella phaffii, a type of methanotrophic yeast, can use methanol, a favorable non-sugar substrate in eco-friendly bio-manufacturing. The dissimilation pathway in K. phaffii leads to the loss of carbon atoms in the form of CO2. However, the ΔFLD strain, engineered to lack formaldehyde dehydrogenase-an essential enzyme in the dissimilation pathway-displayed growth defects when exposed to a methanol-containing medium. RESULTS: Inhibiting the dissimilation pathway triggers an excessive accumulation of formaldehyde and a decline in the intracellular NAD+/NADH ratio. Here, we designed dual-enzyme complex with the alcohol oxidase1/dihydroxyacetone synthase1 (Aox1/Das1), enhancing the regeneration of the formaldehyde receptor xylulose-5-phosphate (Xu5P). This strategy mitigated the harmful effects of formaldehyde accumulation and associated toxicity to cells. Concurrently, we elevated the NAD+/NADH ratio by overexpressing isocitrate dehydrogenase in the TCA cycle, promoting intracellular redox homeostasis. The OD600 of the optimized combination of the above strategies, strain DF02-1, was 4.28 times higher than that of the control strain DF00 (ΔFLD, HIS4+) under 1% methanol. Subsequently, the heterologous expression of methanol oxidase Mox from Hansenula polymorpha in strain DF02-1 resulted in the recombinant strain DF02-4, which displayed a growth at an OD600 4.08 times higher than that the control strain DF00 in medium containing 3% methanol. CONCLUSIONS: The reduction of formaldehyde accumulation, the increase of NAD+/NADH ratio, and the enhancement of methanol oxidation effectively improved the efficient utilization of a high methanol concentration by strain ΔFLD strain lacking formaldehyde dehydrogenase. The modification strategies implemented in this study collectively serve as a foundational framework for advancing the efficient utilization of methanol in K. phaffii.

Dynamic Demand Evaluation of COVID-19 Medical Facilities in Wuhan Based on Public Sentiment.

Medical facilities are an important part of urban public facilities and a vital pillar for the survival of citizens at critical times. During the rapid spread of coronavirus disease (COVID-19), Wuhan was forced into lockdown with a severe shortage of medical resources and high public tension. Adequate allocation of medical facilities is significant to stabilize citizens' emotions and ensure their living standards. This paper combines text sentiment analysis techniques with geographic information system (GIS) technology and uses a coordination degree model to evaluate the dynamic demand for medical facilities in Wuhan based on social media data and medical facility data. This study divided the epidemic into three phases: latent, outbreak and stable, from which the following findings arise: Public sentiment changed from negative to positive. Over half of the subdistricts in three phases were in a dysfunctional state, with a circular distribution of coordination levels decreasing from the city center to the outer. Thus, when facing major public health emergencies, Wuhan revealed problems of uneven distribution of medical facilities and unreasonable distribution of grades. This study aims to provide a basis and suggestions for the city to respond to major public health emergencies and optimize the allocation of urban medical facilities.