Horizontal gene transfer and symbiotic microorganisms regulate the adaptive evolution of intertidal algae, Porphyra sense lato.

Intertidal algae may adapt to environmental challenges by acquiring genes from other organisms and relying on symbiotic microorganisms. Here, we obtained a symbiont-free and chromosome-level genome of Pyropia haitanensis (47.2 Mb), a type of intertidal algae, by using multiple symbiont screening methods.

Insight into oil-water interfacial adsorption of protein particles towards regulating Pickering emulsions: A review.

Over the past decade, Pickering emulsions (PEs) stabilized by protein particles have been the focus of researches. The characteristics of protein particles at the oil-water interface are crucial for stabilizing PEs. The unique adsorption behaviors of protein particles and various modification methods enable oil-water interface to exhibit controllable regulation strategies.

Designing efficient randstrobes for sequence similarity analyses.

Motivation: Substrings of length k, commonly referred to as k-mers, play a vital role in sequence analysis. However, k-mers are limited to exact matches between sequences leading to alternative constructs. We recently introduced a class of new constructs, strobemers, that can match across substitutions and smaller insertions and deletions.

Supramolecular Assembly of One-Dimensional Coordination Polymers for Efficient Separation of Xenon and Krypton.

Efficient separation and purification of xenon (Xe) from krypton (Kr) represent an industrially crucial but challenging process. While the adsorption-based separation of these atomic gases represents an energy-efficient process, achieving highly selective adsorbents remains a difficult task. Here, we demonstrate a supramolecular assembly of coordination polymers, termed as M(II)-dhbq (M = Mg, Mn, Co, and Zn; dhbq = 2,5-dihydroxy-1,4-benzoquinone), with high-density open metal sites (5.

The complete and fully-phased diploid genome of a male Han Chinese.

Since the release of the complete human genome, the priority of human genomic study has now been shifting towards closing gaps in ethnic diversity. Here, we present a fully phased and well-annotated diploid human genome from a Han Chinese male individual (CN1), in which the assemblies of both haploids achieve the telomere-to-telomere (T2T) level. Comparison of this diploid genome with the CHM13 haploid T2T genome revealed significant variations in the centromere.

VT3D: a visualization toolbox for 3D transcriptomic data.

Data visualization empowers researchers to communicate their results that support scientific reasoning in an intuitive way. Three-dimension (3D) spatially resolved transcriptomic atlases constructed from multi-view and high-dimensional data have rapidly emerged as a powerful tool to unravel spatial gene expression patterns and cell type distribution in biological samples, revolutionizing the understanding of gene regulatory interactions and cell niches. However, limited accessible tools for data visualization impede the potential impact and application of this technology.

Customizing Metal-Organic Frameworks by Lego-Brick Strategy for One-Step Purification of Ethylene from a Quaternary Gas Mixture.

One-step purification of ethylene (C H ) from a quaternary gas mixture of C H /C H /C H /CO by adsorption is a promising separation process, yet developing adsorbents that synergistically capture various gas impurities remains challenging. Herein, a Lego-brick strategy is proposed to customize pore chemistry in a unified framework material. The ethane-selective MOF platform is further modified with customized binding sites to specifically adsorb acetylene and carbon dioxide, thus one-step purification of C H with high productivity of polymer-grade product (134 mol kg ) is achieved on the assembly of porous coordination polymer-2,5-furandicarboxylic acid (PCP-FDCA) and PCP-5-aminoisophthalic acid (IPA-NH ).

Sequential Separation of Linear, Mono-, and Di-Branched Hexane Isomers on a Robust Coordination Polymer with Nonbonding Flexibility.

Efficient separation of hexane isomers is a crucial process for upgrading gasoline. Herein, the sequential separation of linear, mono-, and di-branched hexane isomers by a robust stacked 1D coordination polymer termed as Mn-dhbq ([Mn(dhbq)(H O) ], H dhbq = 2,5-dihydroxy-1,4-benzoquinone) is reported. The interchain space of the activated polymer is of optimal aperture size (5.

Visible-Light-Induced Phenoxyl Radical-based Metal-Organic Framework for Selective Photooxidation of Sulfides.

Phenoxyl radicals originating from phenols through oxidation or photoinduction are relatively stable and exhibit mild oxidative activity, which endows them with the potential for photocatalysis. Herein, a stable and recyclable metal-organic framework constructed of a binaphthol derivative ligand has been synthesized and functions as an efficient heterogeneous photocatalyst. shows fairly good catalytic activity and substrate compatibility toward the selective oxidation of sulfides to sulfoxides under visible light irradiation.

New insights into immunomodulatory properties of lactic acid bacteria fermented herbal medicines.

The COVID-19 pandemic has brought more attention to the immune system, the body's defense against infectious diseases. The immunomodulatory ability of traditional herbal medicine has been confirmed through clinical trial research, and has obvious advantages over prescription drugs due to its high number of potential targets and low toxicity. The active compounds of herbal drugs primarily include polysaccharides, saponins, flavonoids, and phenolics and can be modified to produce new active compounds after lactic acid bacteria (LAB) fermentation.

MetaTrass: A high-quality metagenome assembler of the human gut microbiome by cobarcoding sequencing reads.

Metagenomic evidence of great genetic diversity within the nonconserved regions of the human gut microbial genomes appeals for new methods to elucidate the species-level variability at high resolution. However, current approaches cannot satisfy this methodologically challenge. In this study, we proposed an efficient binning-first-and-assembly-later strategy, named MetaTrass, to recover high-quality species-resolved genomes based on public reference genomes and the single-tube long fragment read (stLFR) technology, which enables cobarcoding.

Discrimination of xylene isomers in a stacked coordination polymer.

The separation and purification of xylene isomers is an industrially important but challenging process. Developing highly efficient adsorbents is crucial for the implementation of simulated moving bed technology for industrial separation of these isomers. Herein, we report a stacked one-dimensional coordination polymer {[Mn(dhbq)(HO)], Hdhbq = 2,5-dihydroxy-1,4-benzoquinone} that exhibits an ideal molecular recognition and sieving of xylene isomers.

Integrating Metabolomics and Network Pharmacology to Explore the Protective Effect of Ginsenoside Re against Radiotherapy Injury in Mice.

Ionizing radiation (IR) can cause radiation damage, mutagenesis, or carcinogenesis in the irradiated subject. It is manifested as metabolic disorders of the body and damage to the immune system, nervous system, and endocrine system, which can lead to physiological and pathological changes and endogenous metabolic disorders. Ginsenoside Re (G-Re), a single component of traditional Chinese medicine, has a certain ameliorating effect on radiation damage.

Shell-like Xenon Nano-Traps within Angular Anion-Pillared Layered Porous Materials for Boosting Xe/Kr Separation.

Adsorptive separation of xenon (Xe) and krypton (Kr) is a promising technique but remains a daunting challenge since they are atomic gases without dipole or quadruple moments. Herein we report a strategy for fabricating angular anion-pillared materials featuring shell-like Xe nano-traps, which provide a cooperative effect conferred by the pore confinement and multiple specific interactions. The perfect permanent pore channel (4-5 Å) of Ni(4-DPDS) MO (M=Cr, Mo, W) can host Xe atoms efficiently even at ultra-low concentration (400 ppm Xe), showing the second-highest selectivity of 30.

Hydrogen-Bonded Metal-Nucleobase Frameworks for Efficient Separation of Xenon and Krypton.

Xe/Kr separation is an industrially important but challenging process owing to their inert properties and low concentrations in the air. Energy-effective adsorption-based separation is a promising technology. Herein, two isostructural hydrogen-bonded metal-nucleobase frameworks (HOF-ZJU-201 and HOF-ZJU-202) are capable of separating Xe/Kr under ambient conditions and strike an excellent balance between capacity and selectivity.

Deep Desulfurization with Record SO Adsorption on the Metal-Organic Frameworks.

Selective elimination of sulfur dioxide is significant in flue gas desulfurization and natural gas purification, yet developing adsorbents with high capture capacity especially at low partial pressure as well as excellent cycling stability remains a challenge. Herein, a family of isostructural gallate-based MOFs with abundant hydrogen bond donors decorating the pore channel was reported for selective recognition and dense packing of sulfur dioxide via multiple hydrogen bonding interactions. Multiple O···H-O hydrogen bonds and O···H-C hydrogen bonds guarantee SO molecules are firmly grasped within the framework, and appropriate pore apertures afford dense packing of SO with high uptake and density up to 1.

SLR-superscaffolder: a de novo scaffolding tool for synthetic long reads using a top-to-bottom scheme.

Background: Synthetic long reads (SLR) with long-range co-barcoding information are now widely applied in genomics research. Although several tools have been developed for each specific SLR technique, a robust standalone scaffolder with high efficiency is warranted for hybrid genome assembly.

Results: In this work, we developed a standalone scaffolding tool, SLR-superscaffolder, to link together contigs in draft assemblies using co-barcoding and paired-end read information.

Accurate haplotype-resolved assembly reveals the origin of structural variants for human trios.

Motivation: Achieving a near complete understanding of how the genome of an individual affects the phenotypes of that individual requires deciphering the order of variations along homologous chromosomes in species with diploid genomes. However, true diploid assembly of long-range haplotypes remains challenging.

Results: To address this, we have developed Haplotype-resolved Assembly for Synthetic long reads using a Trio-binning strategy, or HAST, which uses parental information to classify reads into maternal or paternal.

TGS-GapCloser: A fast and accurate gap closer for large genomes with low coverage of error-prone long reads.

Background: Analyses that use genome assemblies are critically affected by the contiguity, completeness, and accuracy of those assemblies. In recent years single-molecule sequencing techniques generating long-read information have become available and enabled substantial improvement in contig length and genome completeness, especially for large genomes (>100 Mb), although bioinformatic tools for these applications are still limited.

Findings: We developed a software tool to close sequence gaps in genome assemblies, TGS-GapCloser, that uses low-depth (∼10×) long single-molecule reads.

Shaping of gallate-based metal-organic frameworks for adsorption separation of ethylene from acetylene and ethane.

Shaping metal-organic frameworks (MOFs) powders into formed bodies plays a crucial role in opening up the excellent properties of MOFs to a broad range of applications. Gallate-based MOFs, termed as M-gallate (M = Co, Mg, Ni), have shown excellent performance for adsorption separation of C hydrocarbons. However, the industrial applications of MOF powders will inevitably confront problems of high pressure drop, pipe blockage, and dust pollution.

UPLC-MS-based serum metabolomics reveals protective effect of Ganoderma lucidum polysaccharide on ionizing radiation injury.

Ethnopharmacological Relevance: Ganoderma lucidum Polysaccharide (GLP),traditional Chinese medicine (TCM) active ingredient, has a long history and has good curative effects on radiation injury. However, the mechanism of GLP treating radiation injury has not been clearly elucidated.

The Aim Of The Study: This study was aimed to investigate the preventive effects of GLP on mice with radiation injury and to explore its mechanisms by serum metabolomics.

Calcium-Based Metal-Organic Framework for Simultaneous Capture of Trace Propyne and Propadiene from Propylene.

The simultaneous capture of trace propyne and propadiene from propylene is one of the important but energy demanding industrial processes because of their similar physicochemical properties as well as the ultralow concentration in the mixtures. Herein, a highly stable Ca-based MOF, constructed from an inexpensive precursor (CaCO) and rigid squaric acid, is capable of preferentially capturing trace propyne and propadiene with record-high uptake capacities of 2.44 and 2.