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Tremella fuciformis is an edible medicinal mushroom, and its polysaccharide components are found to confer various health benefits. This study identified the protective effects of polysaccharides of Tremella fuciformis (TPs) against dextran sulfate sodium (DSS)-induced colitis in mice. High dose of TPs (HTPs) could prevent the colon from shortening, reduce activity of colonic myeloperoxidase and serum diamine oxidase (DAO), decrease the concentration of D-lactate, and alleviate the colonic tissue damage in colitic mice. HTPs treatment stimulated Foxp3+T cells, and promoted the production of anti-inflammatory cytokines whereas it reduced the production of pro-inflammatory and the portion of immunoglobulin A (IgA)-coated bacteria, which was related to modulation of immune responses. 16S rRNA sequencing analysis showed that TPs could significantly increase gut community diversity, and restore the relative abundances of Lactobacillus, Odoribacter, Helicobacter, Ruminococcaceae, and Marinifilaceae. According to metabolomic analysis, HTPs induced specific microbial metabolites akin to that in normal mice. Tyrosine biosynthesis, tryptophan metabolism, and bile acid metabolism were influenced in the HTPs group compared with those in the DSS group. HTPs could alleviate DSS-induced colitis by immunoregulation and restored the gut microbiota and microbial metabolites. The results indicated that HTPs have potential to be developed as a food supplement to ameliorate intestinal diseases.

Background The CYP450 family members have been extensively studied in plants, where they play essential roles in metabolism, responses to biotic and abiotic stresses, and the regulation of growth and development. However, their functions in edible fungi remain largely unexplored. Flammulina filiformis , an economically important mushroom, lacks a comprehensive analysis of its CYP450 genes. Therefore, this study aims to identify and characterize the CYP450 gene family in F. filiformis at the genome-wide level, investigate their expression patterns, and explore their potential biological functions, providing valuable insights into their roles in fungal growth and adaptation. Results In this study, 59 CYP450 genes, categorizing into 6 distinct clades, were identified within the genome of F. filiformis . Subcellular localization predictions suggested that the majority of these CYP450 genes are located in the endomembrane system. These 59 genes were distributed randomly across 12 chromosomes. Gene duplication analysis revealed the presence of 3 pairs of tandem repeats and 3 pairs of segmental repeat genes. Transcriptomic analysis revealed 861 differentially expressed genes (DEGs) in ML compared with M, and 3208 DEGs in P compared with ML. The ‘oxidoreductase activity’ category was significantly enriched in the ML vs. M and P vs. ML comparisons, with CYP450 genes being predominantly represented among the DEGs. Transcriptional expression analysis demonstrated that 4 genes exhibited the highest expression levels in the M sample, 6 genes in the ML sample, and 10 genes in the primordium. Furthermore, quantitative real-time PCR (qRT-PCR) analysis revealed that 11 genes, including HNY6_9861 , HNY6_4590 , HNY6_1561 , HNY6_281 , HNY6_12367 , HNY6_8704 , HNY6_9581 , HNY6_8517 , HNY6_11881 , HNY6_9098 and HNY6_5841 , exhibited an increasing trend in expression levels across the lower, middle and upper parts of the stipe in both white and yellow strains. This suggests that CYP450 genes may involved in the elongation of the stipe of F. filiformis . Conclusions These results provide a foundation for further exploration of the molecular evolution mechanism and potential functions of the CYP450 genes of F. filiformis in the regulation of growth and development.

Torsion deformable spatial beam and Costello theory are used to establish longitudinal-torsional-lateral coupled model of round balance rope. Based on Coulomb’s friction law and longitudinal-torsional-lateral coupled model, the nonlinear coupled dynamic model with friction constraint of round balance rope is established. Meanwhile, time-varying multi-segments non–equal-length element transformation method (TMN-ETM) is proposed to save computation time. Then, natural frequencies, lateral responses are calculated when the coupled stiffness coefficient is zero. And the calculations are compared with traditional solution method. The results show that only about few areas in the round balance rope loop have large stress norm value, while the rest parts have small stress values. Besides, dynamic responses of the balance rope with balance rope suspension rotor releasing are conducted. When the static friction is converted to dynamic friction, the friction torque and angle acceleration will be mutated at the switching instants, and slip-stick transition in angle acceleration occurs.

Auricularia cornea is a widely cultivated edible fungus with substantial nutritive value. This study aimed to enrich the multifunctional bionutrient element selenium in A. cornea to improve its quality and explore the accumulation of selenium in the fungus using high-throughput RNA-Seq technology. In general, the treatment group with a 100 µg/g supply of selenium outperformed the other treatment groups in terms of high yield, rich crude polysaccharides and a high total selenium concentration. Additional evidences demonstrated the budding and mature phases were two typical growth stages of A. cornea and were important for the accumulation of selenium. Therefore, the budding and mature phase tissues of A. cornea in the treatment group with a 100 µg/g supply of selenium were used for transcriptome analysis and compared to those of a control group that lacked additional selenium. A total of 2.56 × 105 unigenes from A. cornea transcriptome were assembled and annotated to five frequently used databases including NR, GO, KEGG, eggNOG and SwissProt. GO and KEGG pathway analysis revealed that genes involved in metabolic process and translation were up-expressed at the budding stage in response to selenium supplementation, including amino acid metabolism, lipid metabolism, ribosome. In addition, the differential gene expression patterns of A. cornea suggested that the up-expressed genes were more likely to be detected at the budding stage than at the mature stage. These results provide insights into the transcriptional response of A. cornea to selenium accumulation.

Protein phosphorylation modification plays a role in cells’ response to oxidative stress, a key factor leading to postharvest browning of Flammulina filiformis. However, the molecular mechanism by which protein phosphorylation contributes to postharvest browning of F. filiformis remains unclear. This study aimed to characterize the basal phosphoproteomic landscapes associated with variations in different browning phenotypes of F. filiformis. Using data-independent acquisition (DIA) mass spectrometry, we comprehensively profiled the phosphorylation dynamics in susceptible-to-browning (SB) and resistant-to-browning (RB) cultivars at harvest and after 24 h storage. We identified 84,244 phosphorylation sites on 4494 phosphoproteins, with the SB cultivar displaying more altered sites (21,195) than the RB (16,087). Functional enrichment analysis revealed that the differential phosphorylation was significantly implicated in kinases and energy metabolism pathways. Notably, the SB cultivar exhibited a more pronounced phosphorylation profile on key proteins involved in ATP synthesis and glycolysis. Protein–protein interaction (PPI) network analysis further indicated a kinase-mediated regulatory network targeting core energy metabolism components, including ATP synthase and 6-phosphofructokinase. This distinct phosphosignature in the SB cultivar correlated with its more severe browning phenotype and a sharper decline in ATP content during storage. Our findings suggest that divergent phosphorylation-mediated regulation of energy metabolism is strongly associated with the differential postharvest browning susceptibility between these two cultivars, providing a valuable molecular resource for future functional studies.

Flammulina filiformis is a widely cultivated edible mushroom valued for its taste and nutrition. However, its stipe often develops a fibrous and stringy texture that unpleasantly lodges between teeth during chewing. Texture analysis confirmed a distinct toughness gradient, with the upper stipe being more brittle and less tough than the lower part. UHPLC-MS/MS-based metabolomics of these regions identified 953 metabolites, predominantly spanning lipids and lipid-like molecules, organic acids and derivatives, and nucleosides, nucleotides, and analogues. Comparative analysis revealed that the tender upper stipe was characterized by a widespread downregulation of primary metabolites, including severe depletion of key signaling molecules (cAMP, cGMP) and amino acids such as L-tryptophan. In contrast, the tough lower stipe was enriched with metabolites indicative of an oxidative environment, notably a broad spectrum of oxidized lipids and phenolic compounds. KEGG pathway analysis attributed this dichotomy to distinct metabolic programs. While the upper stipe exhibited downregulation in tryptophan and purine metabolism, the lower stipe was enriched for pathways associated with redox homeostasis and lipid peroxidation, including glutathione metabolism and lipid peroxidation. The co-accumulation of oxidized lipids and phenolics suggests a potential mechanism for oxidation-driven tissue fortification. This study reveals a spatially programmed metabolic basis for the textural differentiation in F. filiformis stipes, providing a framework for understanding tissue development and highlighting potential regulatory targets for breeding varieties with improved eating quality.

This paper puts forward a new mathematical model, which is a coal damage-heat-fluid-solid multi-field coupling theory, in order to reveal the mechanical mechanism of the increase of coal-bed methane recovery through thermal stimulation, and to evaluate its effect. The strain field is introduced to define the damage of coal by considering of the effects of temperature, gas pressure, and mining stress of the coal seam. It is used to quantitatively describe the degree of coal rupture and damage. Additionally, the elastic and damage constitutive equation of coal and rock mass, the governing equation of the temperature field, and the coupling equation of gas diffusion and seepage are established. Based on these equations, the finite element source program is redeveloped by using the FORTRAN language, and a multi-field coupling analysis program is compiled. This program takes the temperature, the gas seepage, and the damage and deformation of coal and rock mass into consideration. The effect of heat injection temperature on gas production efficiency, gas pressure distribution, and effective extraction radius during coal-bed methane mining process is analyzed. The results show that the injection of heat can significantly improve the desorption and diffusion of gas, as well as the gas production rate and the production efficiency of coal-bed methane.

Ascomycetes fungi are often prone to degeneration. Agricultural production of the prized ascomycete mushroom Morchella importuna (black morel) typically suffers from reduced yield and malformed ascocarps owing to culture degeneration. This study compared M. importuna cultures subjected to five different long‐term preservation treatments, using transcriptomics and metabolomics. Avoiding repeated subculturing in combination with nutrient‐limited conditions was found to be the most beneficial method for maintaining the fruiting capability of morels. The expression of the gene sets involved in cysteine and methionine metabolism and nucleocytoplasmic transport was upregulated under nutrient‐limited and nutrient‐rich conditions, respectively. This increased expression was accompanied by differential accumulation of metabolites involved in nucleobase metabolism. Repeated subculturing triggered dissimilar changes in the functional modules under nutrient‐rich and nutrient‐limited conditions. A diverse set of cellular biochemical processes related to carbon metabolism were altered by repeated subculturing under nutrient‐rich conditions, whereas glycerophospholipid and purine metabolism were key functions affected by repeated subculturing under nutrient‐limited conditions. Altogether, metabolic alterations related to sulfur‐containing amino‐acid biosynthesis, DNA repair, and cellular structural maintenance contributed to improved preservation outcomes in terms of morel fruiting capability. Our findings contribute to a more detailed understanding of the molecular mechanisms related to subculturing and fruiting of ascomycete macrofungi after long‐term preservation. Nutrient‐limited medium in combination with avoiding of repeated subculturing during long‐term preservation of Morchella importuna culture was found to be the most beneficial method for maintaining viability and fruiting capability. Metabolic alterations related to sulfur‐containing amino‐acid biosynthesis, DNA repair, and cellular structural maintenance contributed to the improved preservation outcome.

Scorias spongiosa, a type of edible fungus, is beneficial for intestinal health. However, the mechanisms by which polysaccharides derived from S. spongiosa contribute to the integrity of the intestinal barrier have been little investigated. In the present study, 40 C57BL/6J mice were assigned into five groups: (1) Normal; (2) Dextran sulfate sodium (DSS)Administration; (3) DSS + Uncapped polysaccharides; (4) DSS + Low microcapsules; (5) DSS + High microcapsules. After one week of administration of S. spongiosa polysaccharides, all mice, excluding the Normal group, had free access to the drinking water of 3.5% DSS for seven days. Serum and feces were then taken for analysis. Scanning electron microscopy analysis indicated the structure of the micro-capped polysaccharides with curcumin was completed with a rough surface, which differs from the uncapped polysaccharides. Noticeably, S. spongiosa polysaccharides enhanced intestinal barrier integrity as evidenced by increasing the protein levels of Claudin-1, ZO-1 and ZO-2. Low-capped polysaccharides mitigated the DSS-induced oxidative stress by increasing catalase (CAT) concentration and decreasing malondialdehyde (MDA) and myeloperoxidase (MPO) concentrations. Besides, DSS treatment caused a disturbance of inflammation and the contents of IL-1β, IL-6, TNF-α and CRP were downregulated and the contents of IL-4, IL-10 and IFN-γ were upregulated by S. spongiosa polysaccharides. Research on the potential mechanisms indicated that S. spongiosa polysaccharides inhibited the DSS-triggered activation of NF-κB signaling. Moreover, the JAK/STAT1 and MAPK pathways were suppressed by S. spongiosa polysaccharides in DSS-challenged mice, with Lcap showing the strongest efficacy. 16S rDNA amplicon sequencing revealed that the richness and diversity of the microbial community were reshaped by S. spongiosa polysaccharide ingestion. Therefore, our study substantiated that S. spongiosa polysaccharides exhibited protective effects against colitis mice by reshaping the intestinal microbiome and maintaining the balance of intestinal barrier integrity, antioxidant capacity and colonic inflammation through regulation of the NF-κB–STAT1–MAPK axis.

The growth of Flammulina filiformis is strongly dependent on low-temperature cues for the initiation of primordia formation. To obtain a comprehensive understanding of the molecular mechanisms that govern the mycelial response to cold stress, de novo genome sequencing of the F. filiformis monokaryon and multi-omics data (transcriptome and metabolome) analyses of the mycelia, primordia, and fruiting bodies were conducted in the present study. Genome sequencing based on PacBio HiFi and Hi-C resulted in a 36.3 Mb genome sequence that mapped to 12 chromosomes, comprising 11,886 protein-coding genes. A total of 25 cold-responsive (COR) genes and 520 cold-adapted enzymes were identified in the genome. Multi-omics analyses showed that the pathways related to carbohydrate metabolism in the mycelia under low temperature (10 °C) were significantly enriched. Further examination of the expression profiles of carbohydrate-active enzymes (CAZymes) involved in carbohydrate metabolism revealed that out of 515 CAZyme genes in F. filiformis, 58 were specifically upregulated in mycelia under low-temperature conditions. By contrast, the expression levels of these genes in primordia and fruiting bodies reverted to those prior to low-temperature exposure. These indicate that CAZyme genes are important for the low-temperature adaptation of F. filiformis. This research contributes to the targeted breeding of F. filiformis.