Chromosome-Level Assembly Reveals a Fifteen-Chromosome Aneuploid Genome and Environmental Adaptation Strategy of Chinese Traditional Medical Fungus Wolfiporia hoelen.

The sclerotia of Wolfiporia hoelen are one of the most important traditional Chinese medicines and foods commonly used in China, Japan, Korea, and other Asian countries. To provide a high-quality reference genome and deepen our understanding of the genome of W. hoelen to elucidate various biological phenomena. In this study, we assembled three genomes of W. hoelen using a combination of Nanopore and Illumina sequencing strategies. The fifteen-chromosome genome L7 of W. hoelen was assembled with two-sided telomere and rDNA sequences for the first time. The chromosome count was subsequently confirmed through collinearity analysis, correcting the previous belief that W. hoelen had only fourteen chromosomes. Moreover, the aneuploid genome was discovered in W. hoelen for the first time through sequencing depth analysis of different chromosomes, and only some strains of W. hoelen exhibit aneuploid genomes. According to the genome analysis of homokaryotic offspring and protoplast-isolated strains, a potential variation in chromosome allocation patterns was revealed. Moreover, the gene function enrichment analysis of genes on reduplicated chromosomes demonstrated that aneuploidy in the genome may be the result of environmental adaptation for W. hoelen. The discovery of an aneuploid genome also provides new ideas for genetic improvement of W. hoelen.

Insight into the nuclear distribution patterns of conidia and the asexual life cycle of Polyporus umbellatus.

P. umbellatus sclerotium is a traditional Chinese medicine that is widely utilized in China, Korea, Japan, and other countries due to its diverse medicinal activities, such as diuretic, antitumor, anticancer, and immune system enhancement effects. Conidia, which are common asexual spores in various fungi, are not universally present in Polyporus species. In this study, the asexual life cycle of P. umbellatus was elucidated. Conidia, i.e. arthorconidia, were produced by both dikaryotic and monokaryotic strains. In the dikaryotic strain, binucleate, uninucleate, and nuclei-free conidia were identified with proportions of 67.9 %, 12.4 %, and 19.7 %, respectively. Conversely, the monokaryotic strain did not produce binucleate conidia. This discrepancy suggests that binucleate spores are heterokaryons, while uninucleate spores are homokaryons. Clamp connections were observed in dikaryotic hyphae, but were absent in monokaryotic hyphae. Monokaryotic strains were obtained from conidia of the dikaryotic strain. Additionally, mating types were determined through pairing tests, and successful crossbreeding occurred between monokaryotic strains derived from conidia and basidiospores from different strains. This study introduced the first crossbreeding strategy for P. umbellatus.

Homokaryotic High-Quality Genome Assembly of Medicinal Fungi Wolfiporia hoelen Reveals Auto-Regulation and High-Temperature Adaption of Probable Two-Speed Genome.

Sclerotia of Wolfiporia hoelen are one of the most important traditional Chinese medicines and are commonly used in China, Japan, Korea, and other Asian countries. In the present study, we presented the first high-quality homokaryotic genome of W. hoelen with 14 chromosomes which was evaluated with assembly index, telomere position detection, and whole-genome collinearity. A 64.44 Mb genome was assembled with a Contig N50 length of 3.76 Mb. The imbalanced distribution of transposons and chromosome characters revealed the probable two-speed genome of W. hoelen. High consistency between methylation and transposon conserved the genome stability. The expansion of the gene family about signal transduction and nutritional transport has intimate relationships with sclerotial formation. Up-regulation of expression for distinctive decomposition enzymes, ROS clearance genes, biosynthesis of unsaturated fatty acids, and change of the cell wall components maintained high-speed growth of mycelia that may be the high-temperature adaption strategy of W. hoelen. Further, the analysis of mating-control genes demonstrated that HD3 probably had no function on mating recognition, with the HD protein in a distant genetic with known species. Overall, the high-quality genome of W. hoelen provided crucial information for genome structure and stability, high-temperature adaption, and sexual and asexual process.

Bipolar system of sexual incompatibility and heterothallic life cycle in the basidiomycetes Pachyma hoelen Fr. (Fuling).

The sclerotia of Pachyma hoelen are one of the traditional Chinese medicines and foods that are widely used in East Asian countries. The strains used for cultivation showed bad performance in recent years, and breeding of superior strains has become increasingly important for this fungus. Nevertheless, the mating system and life cycle of P. hoelen were still ambiguous. In this study, the methods for distinguishing between homokaryotic offspring with different mating types were established, as well as confirmation of strain hybridization based on allelic polymorphism at a locus of the rpb2 gene. The bipolar mating system was confirmed according to the mating results of homokaryotic SSIs. The fact that heterokaryotic parents produce homokaryotic meiospores proves that the life cycle is heterothallic. Combining scanning electron microscope observation and DAPI (4',6-diamidino-2-phenylindole) fluorescent staining of hymenium and basidiospores in situ and ex situ, nuclear migration pattern from basidia to spores was revealed. The heterothallic life cycle was verified, revised, and supplemented step by step. This is the first report of systematic research on the mating system, life cycle, and outcrossing of homokaryotic offspring in P. hoelen. It will be helpful for the biological research, strain improvement, and development of the P. hoelen industry.

Construction of Flexible Amine-linked Covalent Organic Frameworks by Catalysis and Reduction of Formic Acid via the Eschweiler-Clarke Reaction.

Compared to the current mainstream rigid covalent organic frameworks (COFs) linked by imine bonds, flexible COFs have certain advantages of elasticity and self-adaptability, but their construction and application are greatly limited by the complexity in synthesis and difficulty in obtaining regular structure. Herein, we reported for the first time a series of flexible amine-linked COFs with high crystallinity synthesized by formic acid with unique catalytic and reductive bifunctional properties, rather than acetic acid, the most common catalyst for COF synthesis. The reaction mechanism was demonstrated to be a synchronous in situ reduction during the formation of imine bond. The flexibilities of the products endow them with accommodative adaptability to guest molecules, thus increasing the adsorption capacities for nitrogen and iodine by 27 % and 22 %, respectively. Impressively, a novel concept of flexibilization degree was proposed firstly, which provides an effective approach to rationally measure the flexibility of COFs.

Colyliform Crystalline 2D Covalent Organic Frameworks (COFs) with Quasi-3D Topologies for Rapid I2 Adsorption.

Constructing three-dimensional (3D) structural characteristics on two-dimensional (2D) covalent organic frameworks (COFs) is a good approach to effectively improve the permeability and mass transfer rate of the materials and realize the rapid adsorption for guest molecules, while avoiding the high cost and monomer scarcity in preparing 3D COFs. Herein, we report for the first time a series of colyliform crystalline 2D COFs with quasi-three-dimensional (Q-3D) topologies, consisting of unique "stereoscopic" triangular pores, large interlayer spacings and flexible constitutional units which makes the pores elastic and self-adaptable for the guest transmission. The as-prepared QTD-COFs have a faster adsorption rate (2.51 g h-1 ) for iodine than traditional 2D COFs, with an unprecedented maximum adsorption capacity of 6.29 g g-1 . The excellent adsorption performance, as well as the prominent irradiation stability allow the QTD-COFs to be applied for the rapid removal of radioactive iodine.

Laminated self-standing covalent organic framework membrane with uniformly distributed subnanopores for ionic and molecular sieving.

The preparation of subnanoporous covalent-organic-framework (COF) membranes with high performance for ion/molecule sieving still remains a great challenge. In addition to the difficulties in fabricating large-area COF membranes, the main reason is that the pore size of 2D COFs is much larger than that of most gas molecules and/or ions. It is urgently required to further narrow their pore sizes to meet different separation demands. Herein, we report a simple and scalable way to grow large-area, pliable, free-standing COF membranes via a one-step route at organic-organic interface. The pore sizes of the membranes can be adjusted from >1 nm to sub-nm scale by changing the stacking mode of COF layers from AA to AB stacking. The obtained AB stacking COF membrane composed of highly-ordered nanoflakes is demonstrated to have narrow aperture (∼0.6 nm), uniform pore distribution and shows good potential in organic solvent nanofiltration, water treatment and gas separation.

Redox-Active Two-Dimensional Covalent Organic Frameworks (COFs) for Selective Reductive Separation of Valence-Variable, Redox-Sensitive and Long-Lived Radionuclides.

We report the first example of 2D covalent organic framework nanosheets (Redox-COF1) for the selective reduction and in situ loading of valence-variable, redox-sensitive and long-lived radionuclides (abbreviated as VRL nuclides). Compared with sorbents based on chemical adsorption and physical adsorption, the redox adsorption mechanism of Redox-COF1 can effectively reduce the impact of functional group protonation under the usual high-acidity conditions in chemisorption, and raise the adsorption efficiency from the monotonous capture by pores in physisorption. The adsorption selectivity for UO2 2+ reaches up to unprecedented ca. 97 % at pH 3, more than for any analogous adsorbing material.

Crystalline quantum dots of covalent organic frameworks for fast and sensitive detection of uranium.

A crystalline quantum dot of a COF was prepared for the first time by the original BRB method and a novel pathway for online monitoring of the COF reaction rate was proposed. The quantum dot can respond to uranyl ion quickly and sensitively and is of great potential in uranium detection.

The Genus Pachyma (Syn. Wolfiporia) Reinstated and Species Clarification of the Cultivated Medicinal Mushroom "Fuling" in China.

The fungus "Fuling" has been used in Chinese traditional medicine for more than 2000 years, and its sclerotia have a wide range of biological activities including antitumour, immunomodulation, anti-inflammation, antioxidation, anti-aging etc. This prized medicinal mushroom also known as "Hoelen" is resurrected from a piece of pre-Linnean scientific literature. Fries treated it as Pachyma hoelen Fr. and mentioned that it was cultivated on pine trees in China. However, this name had been almost forgotten, and Poria cocos (syn. Wolfiporia cocos), originally described from North America, and known as "Tuckahoe" has been applied to "Fuling" in most publications. Although Merrill mentioned a 100 years ago that Asian Pachyma hoelen and North American P. cocos are similar but different, no comprehensive taxonomical studies have been carried out on the East Asian Pachyma hoelen and its related species. Based on phylogenetic analyses and morphological examination on both the sclerotia and the basidiocarps which are very seldomly developed, the East Asian samples of Pachyma hoelen including sclerotia, commercial strains for cultivation and fruiting bodies, nested in a strongly supported, homogeneous lineage which clearly separated from the lineages of North American Wolfiporia cocos and other species. So we confirm that the widely cultivated "Fuling" Pachyma hoelen in East Asia is not conspecific with the North American Wolfiporia cocos. Based on the changes in Art. 59 of the International Code of Nomenclature for algae, fungi, and plants, the generic name Pachyma, which was sanctioned by Fries, has nomenclatural priority (ICN, Art. F.3.1), and this name well represents the economically important stage of the generic type. So we propose to use Pachyma rather than Wolfiporia, and subsequently Pachyma hoelen and Pachyma cocos are the valid names for "Fuling" in East Asia and "Tuckahoe" in North America, respectively. In addition, a new combination, Pachyma pseudococos, is proposed. Furthermore, it seems that Pachyma cocos is a species complex, and that three species exist in North America.

Distinguishing Homokaryons and Heterokaryons in Medicinal Polypore Mushroom Wolfiporia cocos (Agaricomycetes) Based on Cultural and Genetic Characteristics.

The sclerotia of Wolfiporia cocos are a kind of traditional medicine and food with excellent benefits and are widely used in China, Japan, and other Asian countries. The mating system of fungi is not only of practical importance for breeding but also has profound effects on genetic variability and molecular evolution. However, the lack of clamp connections in W. cocos increases the difficulty of research on mating systems. In this study, homokaryons and heterokaryons were distinguished by comparing the characteristics of culture, fruiting tests, and molecular markers, which was further demonstrated by k-mer analysis based on Illumina sequencing. Uninucleate, binucleate, and nuclei-free condition basidiospores of W. cocos were observed, and binucleate basidiospores were the most predominant. Brown-type colonies, slow growth rates in both PDA medium and sawdust substrate, and neutral pH after the growth of mycelia and unfruiting were found to be the morphological and growth characteristics of homokaryotic strains. Primers SSR37 and 38 were screened to identify homokaryons. K-mer analysis based on Illumina sequencing exhibited different heterozygous ratios for homokaryons and heterokaryons. The results revealed that pseudo-homothallism was the predominant mode of reproduction in the Chinese population of W. cocos, and heterothallism also existed in all probability. This study will be helpful for the cross-breeding of this precious medicinal mushroom and for understanding its evolution and population structure.

Crystal structure of a host-guest complex of the tris-urea receptor, 3-(4-nitro-phen-yl)-1,1-bis-{2-[3-(4-nitro-phen-yl)ureido]eth-yl}urea, that encapsulates hydrogen-bonded chains of di-hydrogen phosphate anions with separate tetra-n-butyl-ammonium counter-ions.

The title compound, C25H25N9O9·C16H36N+·H2PO4 - (I) or (C25H25N9O9)·(n-Bu4N+)·(H2PO4 -) (systematic name: 3-(4-nitro-phen-yl)-1,1-bis-{2-[3-(4-nitro-phen-yl)ureido]eth-yl}urea tetra-butyl-ammonium di-hydrogen phosphate), comprises a tris-urea receptor (R), a di-hydrogen phosphate anion and a tetra-n-butyl-ammonium cation. It crystallizes with two independent formula units in the asymmetric unit. The conformations of the two tris-urea receptors are stabilized by N-H⋯O and C-H⋯O intra-molecular hydrogen bonds. Each di-hydrogen phosphate anion has two O-H⋯O inter-molecular hydrogen-bonding inter-actions with the other di-hydrogen phosphate anion. Inversion-related di-anion units are linked by further O-H⋯O hydrogen bonds, forming a chain propagating along the a-axis direction. Each di-hydrogen phosphate anion makes a total of four N-H⋯O(H2PO4 -) hydrogen bonds with two ureido subunits from two different tris-urea receptors, hence each tris-urea receptor provides the two ureido subunits for the encapsulation of the H2PO4 - hydrogen-bonded chain. There are numerous inter-molecular C-H⋯O hydrogen bonds present involving both receptor mol-ecules and the tetra-n-butyl-ammonium cations, so forming a supra-molecular three-dimensional structure. One of the butyl groups and one of the nitro groups are disordered over two positions of equal occupancy.

Identification of resistance to cobweb disease caused by Cladobotryum mycophilum in wild and cultivated strains of Agaricus bisporus and screening for bioactive botanicals.

Outbreaks of cobweb disease are becoming increasingly prevalent globally, severely affecting the quality and yield of Agaricus bisporus. However, cobweb disease-resistant strains are rare, and little is known regarding the biocontrol management of the disease. Here, we isolated a pathogen from a severe outbreak of cobweb disease on A. bisporus in China and identified it as Cladobotryum mycophilum based on morphological characteristics, rDNA sequences, and pathogenicity tests. We then tested 30 A. bisporus strains for cobweb disease resistance by inoculating with C. mycophilum and evaluated the activity of different botanicals. We found that two wild strains of A. bisporus originating from the Tibetan Plateau in China were resistant to cobweb disease, and four commercial strains were susceptible. Yield comparisons of the inoculated and uninoculated strains of A. bisporus with C. mycophilum revealed yield losses of 6-38%. We found that seven botanicals could inhibit C. mycophilum growth in vitro, particularly Syzygium aromaticum, which exhibited the maximum inhibition (99.48%) and could thus be used for the further biocontrol of cobweb disease. Finally, we identified the bioactive chemical constituents present in S. aromaticum that could potentially be used as a treatment for C. mycophilum infection using Fourier transform infrared (FTIR) spectroscopy. These findings provide new germplasm resources for enhancing A. bisporus breeding and for the identification of botanicals for the biocontrol of cobweb disease.

Synthesis of Microporous Covalent Phosphazene-Based Frameworks for Selective Separation of Uranium in Highly Acidic Media Based on Size-Matching Effect.

On the basis of high stability of phosphorus-oxygen linkage, we constructed two microporous covalent phosphazene-based frameworks (CPFs), for the first time, by choosing hexachlorocyclotriphosphazene as a core unit and polyhydroxy aromatic compounds (hydroquinone or phloroglucinol) as monomers, named CPF-D and CPF-T, respectively. Characterization studies by using Fourier transform infrared, nuclear magnetic resonance, thermal gravimetric analysis, 60Co γ-ray irradiation, and so forth, demonstrated that both of the CPF materials have excellent acid and radiation stability and relatively higher thermal stability. The results of batch adsorption experiments show that CPF-T is significantly more capable of sorbing uranium than CPF-D. In a pure uranium system with higher acidity (pH 1), the uranium sorption amount of CPF-T can reach up to 140 mg g-1. Distinctively, in mixed-metal solution with 12 coexisting cations, CPF-T shows relatively stable and excellent uranium adsorption capability over a wide range of acidity (pH 4 to 3 M HNO3), and the difference in uranium sorption amounts is less than 30% with the maximum of 0.26 mmol g-1 at pH 4 and the minimum of 0.20 mmol g-1 at 3 M HNO3, which is far superior to that of the conventional solid-phase extractant (SPE) materials previously reported. The research results suggested that the sorption model based on the speculated mechanism of size-matching plus hydrogen bond network has played a dominant role in the process of uranium adsorption. The proposed strategy for the one-pot fabrication of an acid-resistant microporous framework materials by bridging the aromatic monomers via P-O bonds provides an alternative approach for the design and synthesis of new SPE materials with size-matching function desired for effective separation of uranium or other valuable metals from highly acidic environments.

Graphene-synergized 2D covalent organic framework for adsorption: A mutual promotion strategy to achieve stabilization and functionalization simultaneously.

Most of current absorbents are difficult to hold favorable stability and functionality simultaneously when used in condition of high acidity and strong radiation existing in nuclear industry. Herein, a new graphene-synergized 2D covalent organic framework (GS-COF) was obtained via an in-situ loading of a covalent organic framework (TDCOF) on graphene sheets based on a mutual promotion strategy proposed in this work. The corresponding oximation products, o-GS-COF, and also o-TDCOF as a reference object, were respectively prepared subsequently. The results of experiments confirmed that o-GS-COF possesses better acid and irradiation stability than that of o-TDCOF. Adsorption experiments showed that the adsorption capacity of o-GS-COF for uranium is 144.2 mg g-1, higher than that of GO (92.5 mg g-1) and o-TDCOF (105.0 mg g-1), and the maximum adsorption capacity reaches 220.1 mg g-1. In the multi-ions system, o-GS-COF also displayed good selective adsorption property for uranium with SFU/M 35-100 for 5 coexisting divalent metal ions and 14-18 for 5 coexisting trivalent lanthanide ions. The proposed strategy successfully achieved the synergistic improvement of both stability and functionality for the desired adsorbing materials and is of considerable practical utility in the field of design and preparation of reliable high-performance absorbents.

Growth of high-quality covalent organic framework nanosheets at the interface of two miscible organic solvents.

Stronger covalent bonds between monomers, relatively more complex growth processes (polymerization, crystallization, assembly, etc.) and π-π stacking interactions between adjacent layers make it extremely difficult to obtain highly ordered crystalline 2D covalent organic framework (COF) nanosheets. So more effective solutions have to be developed to push the methods reported so far beyond their inherent limitations. Herein, we report the first example of growing high-quality 2D COF nanosheets (NS-COF) at the interface of two miscible organic solvents. The novel approach, which is named as a buffering interlayer interface (BII) method, can be achieved by simply adding a low-density solvent interlayer, as a buffer layer, between the two miscible main solvents based on the self-propelled directed motion of the interface driven by the density differences among the solvents involved. The as-synthesized NS-COF exhibits a super-large size and a relatively regular shape with a smooth surface, which have not been observed before. The proposed strategy offers a facile and effective approach for growing well-structured 2D COF nanosheets and also other kinds of nanosheets.

Visible colorimetric fluoride and hydroxide sensing by asymmetric tris-urea receptors: combined experimental and theoretical studies.

A series of asymmetric tris-urea receptors with electron withdrawing group (EWG) or electron donating group (EDG), L1-L4, were synthesized and characterized by high resolution mass spectroscopy (HRMS), nuclear magnetic resonance spectroscopy (NMR) and single-crystal X-ray diffraction (XRD) techniques. Receptors with EWG substituent showed different visible colorimetric response to fluoride and hydroxide anions. Binding studies toward various monovalent anions were performed by UV-Vis and NMR titration experiments. The experimental results revealed that these tris-urea receptors underwent stepwise deprotonation of the three N-H protons in the presence of varying excess of fluoride and hydroxide anions. This phenomenon was signalled by the development of vivid colours. These findings were also supported by density functional theory (DFT) and time-dependent DFT (TDDFT) theoretical calculations. DFT studies proved that the deprotonation of receptors with EWG substituent was energetically favourable in comparison with the receptor containing EDG substituent. TDDFT calculations for molecular orbital distribution, oscillator strength, and the electron transition process between the ground state and excited state of receptors and their corresponding deprotonated receptors were performed to elucidate the different absorption properties.

Crystal structures of the 2:2 complex of 1,1'-(1,2-phenyl-ene)bis-(3-m-tolyl-urea) and tetra-butyl-ammonium chloride or bromide.

The title compounds, tetra-butyl-ammonium chloride-1,1'-(1,2-phenyl-ene)bis-(3-m-tolyl-urea) (1/1), C16H36N+·Cl-·C22H22N4O2 or [(n-Bu4N+·Cl-)(C22H22N4O2)] (I) and tetra-butyl-ammonium bromide-1,1'-(1,2-phenyl-ene)bis-(3-m-tolyl-urea) (1/1), C16H36N+·Br-·C22H22N4O2 or [(n-Bu4N+·Br-)(C22H22N4O2)] (II), both comprise a tetra-butyl-ammonium cation, a halide anion and an ortho-phenyl-ene bis-urea mol-ecule. Each halide ion shows four N-H⋯X (X = Cl or Br) inter-actions with two urea receptor sites of different bis-urea moieties. A crystallographic inversion centre leads to the formation of a 2:2 arrangement of two halide anions and two bis-urea mol-ecules. In the crystals, the dihedral angle between the two urea groups of the bis-urea mol-ecule in (I) [defined by the four N atoms, 165.4 (2)°] is slightly smaller than that in (II) [167.4 (2)°], which is probably due to the smaller ionic radius of chloride compared to bromide.

Functionalized hydrothermal carbon derived from waste pomelo peel as solid-phase extractant for the removal of uranyl from aqueous solution.

To develop a high-performance solid-phase extractant for the separation of uranyl f, pomelo peel, a kind of waste biomass, has been employed as carbon source to prepare carbonaceous matrix through low-temperature hydrothermal carbonization (200 °C, 24 h). After being oxidized by Hummers method, the prepared hydrothermal carbon matrix was functionalized with carboxyl and phenolic hydroxyl groups (1.75 mmol g-1). The relevant characterizations and batch studies had demonstrated that the obtained carbon material possessed excellent affinity toward uranyl (436.4 mg g-1) and the sorption process was a spontaneous, endothermic and rapid chemisorption. The selective sorption of U(VI) from the simulated nuclear effluent demonstrated that the sorbent displayed a desirable selectivity (56.14% at pH = 4.5) for the U(VI) ions over the other 11 competitive cations from the simulated industrial nuclear effluent. The proposed synthetic strategy in the present work had turned out to be effective and practical, which provides a novel approach to prepare functional materials for the recovery and separation of uranyl or other heavy metals from aqueous environment.

Pore-Free Matrix with Cooperative Chelating of Hyperbranched Ligands for High-Performance Separation of Uranium.

A new strategy combining a pore-free matrix and cooperative chelating was proposed in the present paper in order to effectively avoid undesired nonselective physical adsorption and intraparticle diffusion caused by pores and voids in porous sorbents, and to greatly enhance uranium-chelating capability based on hyperbranched amidoxime ligands on the surface of nanodiamond particles. Thus, a pore-free, amidoxime-terminated hyperbranched nanodiamond (ND-AO) was designed and synthesized. The experimental results demonstrate that the strategy endows the as-synthesized ND-AO with the following expected features: (1) distinctively high uranium selectivity (SU = qe-U/qe-tol × 100%) from over 80% to nearly 100% over the whole weak acidity range (pH < 4.5); especially, the SU can reach up to unprecedented >91% at pH 4.5, more than 20% of selectivity increment over any analogous sorbent materials reported so far, with a uranium sorption capacity of 121 mg/g in simulated nuclear industry effluent samples containing 12 coexistent nuclide ions; (2) superfast equilibrium sorption time of <30 s; and (3) one of the highest distribution coefficients (Kd) of ∼3 × 106 mL/g for U(VI) as well as a fairly high sorption capacity of 212 mg/g at pH 4.5 in pure uranium solution. The strategy could also provide an optional approach for the design and fabrication of other new high-performance sorbing materials with prospective applications in selective separation of other interested metal ions.