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14 pages, 7220 KiB  
Article
Transcriptome Remodeling in Arabidopsis: A Response to Heterologous Poplar MSL-lncRNAs Overexpression
by Jinyan Mao, Qianhua Tang, Huaitong Wu and Yingnan Chen
Plants 2024, 13(20), 2906; https://doi.org/10.3390/plants13202906 - 17 Oct 2024
Abstract
Stamens are vital reproductive organs in angiosperms, essential for plant growth, reproduction, and development. The genetic regulation and molecular mechanisms underlying stamen development are, however, complex and varied among different plant species. MSL-lncRNAs, a gene specific to the Y chromosome of Populus deltoides [...] Read more.
Stamens are vital reproductive organs in angiosperms, essential for plant growth, reproduction, and development. The genetic regulation and molecular mechanisms underlying stamen development are, however, complex and varied among different plant species. MSL-lncRNAs, a gene specific to the Y chromosome of Populus deltoides, is predominantly expressed in male flower buds. Heterologous expression of MSL-lncRNAs in Arabidopsis thaliana resulted in an increase in both stamen and anther count, without affecting pistil development or seed set. To reveal the molecular regulatory network influenced by MSL-lncRNAs on stamen development, we conducted transcriptome sequencing of flowers from both wild-type and MSL-lncRNAs-overexpressing Arabidopsis. A total of 678 differentially expressed genes were identified between wild-type and transgenic Arabidopsis. Among these, 20 were classified as transcription factors, suggesting a role for these regulatory proteins in stamen development. GO enrichment analysis revealed that the differentially expressed genes were significantly associated with processes such as pollen formation, polysaccharide catabolic processes, and secondary metabolism. KEGG pathway analysis indicated that MSL-lncRNAs might promote stamen development by upregulating genes involved in the phenylpropanoid biosynthesis pathway. The top three upregulated genes, all featuring the DUF295 domain, were found to harbor an F-box motif at their N-termini, which is implicated in stamen development. Additionally, in transgenic Arabidopsis flowers, genes implicated in tapetum formation and anther development were also observed to be upregulated, implying a potential role for MSL-lncRNAs in modulating pollen development through the positive regulation of these genes. The findings from this study establish a theoretical framework for elucidating the genetic control exerted by MSL-lncRNAs over stamen and pollen development. Full article
(This article belongs to the Section Plant Molecular Biology)
Show Figures

Figure 1

Figure 1
<p>Transcriptome data analysis. (<b>a</b>) Correlation analysis among six samples. (<b>b</b>) Bar Chart of the number of differentially expressed genes. (<b>c</b>) Cluster analysis of DEGs collected in six samples. The normalized FPKM expression is indicated by the row Z-score, where red represents upregulated genes and blue represents downregulated genes in every sample.</p>
Full article ">Figure 2
<p>Bar chart displaying the top three upregulated and bottom three downregulated genes based on log-fold change (logFC) values.</p>
Full article ">Figure 3
<p>Validation of RNA-seq results using qRT-PCR analysis. The top three histograms depict the relative expression levels from qRT-PCR, with fold change values shown as the mean ± standard deviation across three independent experiments. The bottom three histograms illustrate the FPKM values derived from RNA-seq data.</p>
Full article ">Figure 4
<p>Heatmap of differentially expressed transcription factors based on FPKM values. Normalized transcription factor expression is indicated by the row Z-score where red represents upregulated genes and blue represents downregulated genes.</p>
Full article ">Figure 5
<p>GO enrichment analysis of DEGs. (<b>a</b>) Biological process enrichment analysis. (<b>b</b>) Cellular component enrichment analysis. (<b>c</b>) Molecular function enrichment analysis.</p>
Full article ">Figure 6
<p>KEGG enrichment analysis of DEGs. The <span class="html-italic">X</span>-axis represents the number of DEGs enriched in specific metabolic pathways. The color gradient from red to blue denotes adjusted <span class="html-italic">p</span>-values: red for the smallest (0.00), purple for moderate (0.10), and blue for the largest (0.20).</p>
Full article ">Figure 7
<p>Differential expression levels of genes related to phenylpropanoid biosynthesis identified by KEGG annotation. The enzymes marked with the red boxes are associated with the upregulation of proteins, while those marked with the green boxes are associated with the downregulation of proteins.</p>
Full article ">Figure 8
<p>Protein–protein interaction network in <span class="html-italic">Arabidopsis</span>. Each node represents a protein, with the protein name displayed inside. Arcs denote interactions between proteins, and color coding reflects interaction strength: red for high, orange for moderate, and yellow for low interaction degrees.</p>
Full article ">
41 pages, 38449 KiB  
Article
Metabolome and Metagenome Integration Unveiled Synthesis Pathways of Novel Antioxidant Peptides in Fermented Lignocellulosic Biomass of Palm Kernel Meal
by Hammad Qamar, Rong He, Yuanfei Li, Min Song, Dun Deng, Yiyan Cui, Miao Yu and Xianyong Ma
Antioxidants 2024, 13(10), 1253; https://doi.org/10.3390/antiox13101253 - 17 Oct 2024
Abstract
Approximately one-third of the entire world’s food resources are deemed to be wasted. Palm kernel meal (PKM), a product that is extensively generated by the palm oil industry, exhibits a unique nutrient-rich composition. However, its recycling is seldom prioritized due to numerous factors. [...] Read more.
Approximately one-third of the entire world’s food resources are deemed to be wasted. Palm kernel meal (PKM), a product that is extensively generated by the palm oil industry, exhibits a unique nutrient-rich composition. However, its recycling is seldom prioritized due to numerous factors. To evaluate the impact of enzymatic pretreatment and Lactobacillus plantarum and Lactobacillus reuteri fermentation upon the antioxidant activity of PKM, we implemented integrated metagenomics and metabolomics approaches. The substantially enhanced (p < 0.05) property of free radicals scavenging, as well as total flavonoids and polyphenols, demonstrated that the biotreated PKM exhibited superior antioxidant capacity. Non-targeted metabolomics disclosed that the Lactobacillus fermentation resulted in substantial (p < 0.05) biosynthesis of 25 unique antioxidant biopeptides, along with the increased (p < 0.05) enrichment ratio of the isoflavonoids and secondary metabolites biosynthesis pathways. The 16sRNA sequencing and correlation analysis revealed that Limosilactobacillus reuteri, Pediococcus acidilactici, Lacticaseibacillus paracasei, Pediococcus pentosaceus, Lactiplantibacillus plantarum, Limosilactobacillus fermentum, and polysaccharide lyases had significantly dominated (p < 0.05) proportions in PMEL, and these bacterial species were strongly (p < 0.05) positively interrelated with antioxidants peptides. Fermented PKM improves nutritional value by enhancing beneficial probiotics, enzymes, and antioxidants and minimizing anti-nutritional factors, rendering it an invaluable feed ingredient and gut health promoter for animals, multifunctional food elements, or as an ingredient in sustainable plant-based diets for human utilization, and functioning as a culture substrate in the food sector. Full article
(This article belongs to the Special Issue Methodologies for Improving Antioxidant Properties and Absorption)
Show Figures

Figure 1

Figure 1
<p>Samples Analyses: (<b>A</b>) Samples correlation heatmap analysis; (<b>B</b>) Metabolites Venn diagram analysis; (<b>C</b>) PCA assessment; (<b>D</b>) PLS-DA assessment; and (<b>E</b>) Permutation Testing of PLS-DA plot. Every box in the heatmap illustration represents the correlation between the two samples. The various hues correspond to the corresponding value of the correlation factor amongst samples, which ranged from 0.6 to 1. The different hues of Venn diagrams indicate distinct groupings. The Venn diagram’s sections that overlap show how many similar compounds there are in each group, while the non-overlapping sections show how many unique metabolites there are in each group, indicating variations in the groups’ metabolic profiles.</p>
Full article ">Figure 1 Cont.
<p>Samples Analyses: (<b>A</b>) Samples correlation heatmap analysis; (<b>B</b>) Metabolites Venn diagram analysis; (<b>C</b>) PCA assessment; (<b>D</b>) PLS-DA assessment; and (<b>E</b>) Permutation Testing of PLS-DA plot. Every box in the heatmap illustration represents the correlation between the two samples. The various hues correspond to the corresponding value of the correlation factor amongst samples, which ranged from 0.6 to 1. The different hues of Venn diagrams indicate distinct groupings. The Venn diagram’s sections that overlap show how many similar compounds there are in each group, while the non-overlapping sections show how many unique metabolites there are in each group, indicating variations in the groups’ metabolic profiles.</p>
Full article ">Figure 1 Cont.
<p>Samples Analyses: (<b>A</b>) Samples correlation heatmap analysis; (<b>B</b>) Metabolites Venn diagram analysis; (<b>C</b>) PCA assessment; (<b>D</b>) PLS-DA assessment; and (<b>E</b>) Permutation Testing of PLS-DA plot. Every box in the heatmap illustration represents the correlation between the two samples. The various hues correspond to the corresponding value of the correlation factor amongst samples, which ranged from 0.6 to 1. The different hues of Venn diagrams indicate distinct groupings. The Venn diagram’s sections that overlap show how many similar compounds there are in each group, while the non-overlapping sections show how many unique metabolites there are in each group, indicating variations in the groups’ metabolic profiles.</p>
Full article ">Figure 2
<p>Summary of expression of distinct metabolites: (<b>A</b>) CON and PME Volcano plot. The top three upregulated metabolites in PME were trehalose, L-methionine, and glucoside. The top three downregulated metabolites in PME were glucosinolate, aminopicolinic acid, and salicylic acid; (<b>B</b>) CON and PMEL Volcano plot. The top three upregulated metabolites in PMEL were kaempferol 3-neohesperidin, tectorigenin, and kaempferol 3-neohesperidoside. The top three downregulated metabolites in PMEL were butyric acid, glyceric acid, and loperamide; (<b>C</b>) PME and PMEL Volcano plot. The top three upregulated metabolites in PMEL were kaempferol 3-neohesperidin, sesamolinol glucoside, and tectorigenin. The top three downregulated metabolites in PMEL were loperamide, tetraethylene glycol, and oxoundecylcarnitine, and (<b>D</b>) Venn plot of differentially expressed metabolites.</p>
Full article ">Figure 2 Cont.
<p>Summary of expression of distinct metabolites: (<b>A</b>) CON and PME Volcano plot. The top three upregulated metabolites in PME were trehalose, L-methionine, and glucoside. The top three downregulated metabolites in PME were glucosinolate, aminopicolinic acid, and salicylic acid; (<b>B</b>) CON and PMEL Volcano plot. The top three upregulated metabolites in PMEL were kaempferol 3-neohesperidin, tectorigenin, and kaempferol 3-neohesperidoside. The top three downregulated metabolites in PMEL were butyric acid, glyceric acid, and loperamide; (<b>C</b>) PME and PMEL Volcano plot. The top three upregulated metabolites in PMEL were kaempferol 3-neohesperidin, sesamolinol glucoside, and tectorigenin. The top three downregulated metabolites in PMEL were loperamide, tetraethylene glycol, and oxoundecylcarnitine, and (<b>D</b>) Venn plot of differentially expressed metabolites.</p>
Full article ">Figure 3
<p>KEGG and HMDB compounds organization: (<b>A</b>) KEGG Compounds classification with biological role; (<b>B</b>) KEGG compounds classification of phytochemicals; (<b>C</b>) KEGG compounds classification of lipids; (<b>D</b>) HMDB compounds classification, and (<b>E</b>) KEGG compounds pathway classification.</p>
Full article ">Figure 3 Cont.
<p>KEGG and HMDB compounds organization: (<b>A</b>) KEGG Compounds classification with biological role; (<b>B</b>) KEGG compounds classification of phytochemicals; (<b>C</b>) KEGG compounds classification of lipids; (<b>D</b>) HMDB compounds classification, and (<b>E</b>) KEGG compounds pathway classification.</p>
Full article ">Figure 3 Cont.
<p>KEGG and HMDB compounds organization: (<b>A</b>) KEGG Compounds classification with biological role; (<b>B</b>) KEGG compounds classification of phytochemicals; (<b>C</b>) KEGG compounds classification of lipids; (<b>D</b>) HMDB compounds classification, and (<b>E</b>) KEGG compounds pathway classification.</p>
Full article ">Figure 4
<p>Enrichment analysis of KEGG pathway and Differential Abundance Score: (<b>A</b>) KEGG enrichment analysis of CON and PMEL; (<b>B</b>) Differential Abundance Score between CON and PMEL; (<b>C</b>) KEGG enrichment analysis of CON and PME; (<b>D</b>) Differential Abundance Score between CON and PME; (<b>E</b>) KEGG enrichment analysis of PME and PMEL, and (<b>F</b>) Differential Abundance Score between PME and PMEL. *** <span class="html-italic">p</span> &lt; 0.001; ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05.</p>
Full article ">Figure 4 Cont.
<p>Enrichment analysis of KEGG pathway and Differential Abundance Score: (<b>A</b>) KEGG enrichment analysis of CON and PMEL; (<b>B</b>) Differential Abundance Score between CON and PMEL; (<b>C</b>) KEGG enrichment analysis of CON and PME; (<b>D</b>) Differential Abundance Score between CON and PME; (<b>E</b>) KEGG enrichment analysis of PME and PMEL, and (<b>F</b>) Differential Abundance Score between PME and PMEL. *** <span class="html-italic">p</span> &lt; 0.001; ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05.</p>
Full article ">Figure 4 Cont.
<p>Enrichment analysis of KEGG pathway and Differential Abundance Score: (<b>A</b>) KEGG enrichment analysis of CON and PMEL; (<b>B</b>) Differential Abundance Score between CON and PMEL; (<b>C</b>) KEGG enrichment analysis of CON and PME; (<b>D</b>) Differential Abundance Score between CON and PME; (<b>E</b>) KEGG enrichment analysis of PME and PMEL, and (<b>F</b>) Differential Abundance Score between PME and PMEL. *** <span class="html-italic">p</span> &lt; 0.001; ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05.</p>
Full article ">Figure 4 Cont.
<p>Enrichment analysis of KEGG pathway and Differential Abundance Score: (<b>A</b>) KEGG enrichment analysis of CON and PMEL; (<b>B</b>) Differential Abundance Score between CON and PMEL; (<b>C</b>) KEGG enrichment analysis of CON and PME; (<b>D</b>) Differential Abundance Score between CON and PME; (<b>E</b>) KEGG enrichment analysis of PME and PMEL, and (<b>F</b>) Differential Abundance Score between PME and PMEL. *** <span class="html-italic">p</span> &lt; 0.001; ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05.</p>
Full article ">Figure 5
<p>Heatmap Analysis and VIP of metabolites related to antioxidant activity, scavenging values, total flavonoids, and total polyphenols content. (<b>A</b>) Expression profile of CON and PME and VIP of metabolites. The significantly upregulated metabolites in PME were diosbulbinoside, aucubin, isowertin 2″-rhamnoside, and 6‴-O-sinapoylsaponarin; (<b>B</b>) Expression profile of CON and PMEL and VIP of metabolites. All the mentioned metabolites in PMEL were significantly upregulated; (<b>C</b>) Expression profile of PME and PMEL and VIP of metabolites. All the mentioned metabolites in PMEL were significantly upregulated; (<b>D</b>) Proposed biosynthesis pathway of antioxidant-related peptides. Mainly, 4 biosynthesis pathways were identified, namely phenylpropanoid, isoflavonoid, flavonoid, and flavone and flavonol biosynthesis pathways. The p-coumaroyl-CoA generation is crucial because its successors are liquiritigenin, kaempferol, and apigenin. The kaempferol is then converted to kaempferol derivatives and quercetin. The quercetin is finally converted to quercetin 3,7-dimethyl ether. The liquiritigenin conversion to its successors like daidzein, ononin, and maackiain in the isoflavonoid biosynthesis pathway is very crucial because it may regulate the antioxidant status of fermented PMEL; (<b>E</b>) ABTS analysis to check the scavenging value; (<b>F</b>) DPPH analysis to check the scavenging value; (<b>G</b>) Total polyphenols content and (<b>H</b>) total flavonoids content. *** <span class="html-italic">p</span> &lt; 0.001; ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05; ns, non-significant.</p>
Full article ">Figure 5 Cont.
<p>Heatmap Analysis and VIP of metabolites related to antioxidant activity, scavenging values, total flavonoids, and total polyphenols content. (<b>A</b>) Expression profile of CON and PME and VIP of metabolites. The significantly upregulated metabolites in PME were diosbulbinoside, aucubin, isowertin 2″-rhamnoside, and 6‴-O-sinapoylsaponarin; (<b>B</b>) Expression profile of CON and PMEL and VIP of metabolites. All the mentioned metabolites in PMEL were significantly upregulated; (<b>C</b>) Expression profile of PME and PMEL and VIP of metabolites. All the mentioned metabolites in PMEL were significantly upregulated; (<b>D</b>) Proposed biosynthesis pathway of antioxidant-related peptides. Mainly, 4 biosynthesis pathways were identified, namely phenylpropanoid, isoflavonoid, flavonoid, and flavone and flavonol biosynthesis pathways. The p-coumaroyl-CoA generation is crucial because its successors are liquiritigenin, kaempferol, and apigenin. The kaempferol is then converted to kaempferol derivatives and quercetin. The quercetin is finally converted to quercetin 3,7-dimethyl ether. The liquiritigenin conversion to its successors like daidzein, ononin, and maackiain in the isoflavonoid biosynthesis pathway is very crucial because it may regulate the antioxidant status of fermented PMEL; (<b>E</b>) ABTS analysis to check the scavenging value; (<b>F</b>) DPPH analysis to check the scavenging value; (<b>G</b>) Total polyphenols content and (<b>H</b>) total flavonoids content. *** <span class="html-italic">p</span> &lt; 0.001; ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05; ns, non-significant.</p>
Full article ">Figure 5 Cont.
<p>Heatmap Analysis and VIP of metabolites related to antioxidant activity, scavenging values, total flavonoids, and total polyphenols content. (<b>A</b>) Expression profile of CON and PME and VIP of metabolites. The significantly upregulated metabolites in PME were diosbulbinoside, aucubin, isowertin 2″-rhamnoside, and 6‴-O-sinapoylsaponarin; (<b>B</b>) Expression profile of CON and PMEL and VIP of metabolites. All the mentioned metabolites in PMEL were significantly upregulated; (<b>C</b>) Expression profile of PME and PMEL and VIP of metabolites. All the mentioned metabolites in PMEL were significantly upregulated; (<b>D</b>) Proposed biosynthesis pathway of antioxidant-related peptides. Mainly, 4 biosynthesis pathways were identified, namely phenylpropanoid, isoflavonoid, flavonoid, and flavone and flavonol biosynthesis pathways. The p-coumaroyl-CoA generation is crucial because its successors are liquiritigenin, kaempferol, and apigenin. The kaempferol is then converted to kaempferol derivatives and quercetin. The quercetin is finally converted to quercetin 3,7-dimethyl ether. The liquiritigenin conversion to its successors like daidzein, ononin, and maackiain in the isoflavonoid biosynthesis pathway is very crucial because it may regulate the antioxidant status of fermented PMEL; (<b>E</b>) ABTS analysis to check the scavenging value; (<b>F</b>) DPPH analysis to check the scavenging value; (<b>G</b>) Total polyphenols content and (<b>H</b>) total flavonoids content. *** <span class="html-italic">p</span> &lt; 0.001; ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05; ns, non-significant.</p>
Full article ">Figure 6
<p>Metagenomic analysis of bacterial microbial community. (<b>A</b>) Community barplot analysis of PME and PMEL at the species level; (<b>B</b>) Community barplot analysis of PME and PMEL at genus level; (<b>C</b>) Species heatmap analysis of PME and PMEL, and (<b>D</b>) species relative abundance analysis of PME and PMEL. The PME mainly possessed <span class="html-italic">s__unclassified_g__Enterobacter</span> (72.16%) species, which might be responsible for CAZy in PME. The PMEL consisted of <span class="html-italic">Limosilactobacillus reuteri</span> (32.49%) and <span class="html-italic">Pediococcus acidilactici</span> (22.66%), which may have contributed to its CAZy and antioxidant production. *** <span class="html-italic">p</span> &lt; 0.001; ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05.</p>
Full article ">Figure 6 Cont.
<p>Metagenomic analysis of bacterial microbial community. (<b>A</b>) Community barplot analysis of PME and PMEL at the species level; (<b>B</b>) Community barplot analysis of PME and PMEL at genus level; (<b>C</b>) Species heatmap analysis of PME and PMEL, and (<b>D</b>) species relative abundance analysis of PME and PMEL. The PME mainly possessed <span class="html-italic">s__unclassified_g__Enterobacter</span> (72.16%) species, which might be responsible for CAZy in PME. The PMEL consisted of <span class="html-italic">Limosilactobacillus reuteri</span> (32.49%) and <span class="html-italic">Pediococcus acidilactici</span> (22.66%), which may have contributed to its CAZy and antioxidant production. *** <span class="html-italic">p</span> &lt; 0.001; ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05.</p>
Full article ">Figure 6 Cont.
<p>Metagenomic analysis of bacterial microbial community. (<b>A</b>) Community barplot analysis of PME and PMEL at the species level; (<b>B</b>) Community barplot analysis of PME and PMEL at genus level; (<b>C</b>) Species heatmap analysis of PME and PMEL, and (<b>D</b>) species relative abundance analysis of PME and PMEL. The PME mainly possessed <span class="html-italic">s__unclassified_g__Enterobacter</span> (72.16%) species, which might be responsible for CAZy in PME. The PMEL consisted of <span class="html-italic">Limosilactobacillus reuteri</span> (32.49%) and <span class="html-italic">Pediococcus acidilactici</span> (22.66%), which may have contributed to its CAZy and antioxidant production. *** <span class="html-italic">p</span> &lt; 0.001; ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05.</p>
Full article ">Figure 6 Cont.
<p>Metagenomic analysis of bacterial microbial community. (<b>A</b>) Community barplot analysis of PME and PMEL at the species level; (<b>B</b>) Community barplot analysis of PME and PMEL at genus level; (<b>C</b>) Species heatmap analysis of PME and PMEL, and (<b>D</b>) species relative abundance analysis of PME and PMEL. The PME mainly possessed <span class="html-italic">s__unclassified_g__Enterobacter</span> (72.16%) species, which might be responsible for CAZy in PME. The PMEL consisted of <span class="html-italic">Limosilactobacillus reuteri</span> (32.49%) and <span class="html-italic">Pediococcus acidilactici</span> (22.66%), which may have contributed to its CAZy and antioxidant production. *** <span class="html-italic">p</span> &lt; 0.001; ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05.</p>
Full article ">Figure 7
<p>CAZy analysis. (<b>A</b>) Circos diagram and abundance of CAZy of PME and PMEL, (<b>B</b>) Heatmap analysis of CAZy of PME and PMEL at the family level, (<b>C</b>) Heatmap analysis of polysaccharide lyases of PME and PMEL, (<b>D</b>) CAZy relative abundance analysis between PME and PMEL, (<b>E</b>) Polysaccharide lyases relative abundance analysis between PME and PMEL, (<b>F</b>) Correlation network analysis among species and CAZy of PME, and (<b>G</b>) Correlation network analysis among species and CAZy of PMEL. The PMEL had significantly higher (<span class="html-italic">p</span> &lt; 0.01) abundance levels of GT4, GT2_Glycos_transf_2, GH73, GT41, CE10, GH2, AA6, GT8, GH31, and GT2_Glyco_tranf_2_3, which possess the cellulose synthase, xylanase, chitin synthase, endoglucanase, and beta-galactosidase-like activity. The PMEL also possessed a significantly higher (<span class="html-italic">p</span> &lt; 0.05) relative abundance of PL26, PL20, PL1_4, and PL9, which may be responsible for the degradation of the cell wall, specifically pectin complex polysaccharides. *** <span class="html-italic">p</span> &lt; 0.001; ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05.</p>
Full article ">Figure 7 Cont.
<p>CAZy analysis. (<b>A</b>) Circos diagram and abundance of CAZy of PME and PMEL, (<b>B</b>) Heatmap analysis of CAZy of PME and PMEL at the family level, (<b>C</b>) Heatmap analysis of polysaccharide lyases of PME and PMEL, (<b>D</b>) CAZy relative abundance analysis between PME and PMEL, (<b>E</b>) Polysaccharide lyases relative abundance analysis between PME and PMEL, (<b>F</b>) Correlation network analysis among species and CAZy of PME, and (<b>G</b>) Correlation network analysis among species and CAZy of PMEL. The PMEL had significantly higher (<span class="html-italic">p</span> &lt; 0.01) abundance levels of GT4, GT2_Glycos_transf_2, GH73, GT41, CE10, GH2, AA6, GT8, GH31, and GT2_Glyco_tranf_2_3, which possess the cellulose synthase, xylanase, chitin synthase, endoglucanase, and beta-galactosidase-like activity. The PMEL also possessed a significantly higher (<span class="html-italic">p</span> &lt; 0.05) relative abundance of PL26, PL20, PL1_4, and PL9, which may be responsible for the degradation of the cell wall, specifically pectin complex polysaccharides. *** <span class="html-italic">p</span> &lt; 0.001; ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05.</p>
Full article ">Figure 7 Cont.
<p>CAZy analysis. (<b>A</b>) Circos diagram and abundance of CAZy of PME and PMEL, (<b>B</b>) Heatmap analysis of CAZy of PME and PMEL at the family level, (<b>C</b>) Heatmap analysis of polysaccharide lyases of PME and PMEL, (<b>D</b>) CAZy relative abundance analysis between PME and PMEL, (<b>E</b>) Polysaccharide lyases relative abundance analysis between PME and PMEL, (<b>F</b>) Correlation network analysis among species and CAZy of PME, and (<b>G</b>) Correlation network analysis among species and CAZy of PMEL. The PMEL had significantly higher (<span class="html-italic">p</span> &lt; 0.01) abundance levels of GT4, GT2_Glycos_transf_2, GH73, GT41, CE10, GH2, AA6, GT8, GH31, and GT2_Glyco_tranf_2_3, which possess the cellulose synthase, xylanase, chitin synthase, endoglucanase, and beta-galactosidase-like activity. The PMEL also possessed a significantly higher (<span class="html-italic">p</span> &lt; 0.05) relative abundance of PL26, PL20, PL1_4, and PL9, which may be responsible for the degradation of the cell wall, specifically pectin complex polysaccharides. *** <span class="html-italic">p</span> &lt; 0.001; ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05.</p>
Full article ">Figure 7 Cont.
<p>CAZy analysis. (<b>A</b>) Circos diagram and abundance of CAZy of PME and PMEL, (<b>B</b>) Heatmap analysis of CAZy of PME and PMEL at the family level, (<b>C</b>) Heatmap analysis of polysaccharide lyases of PME and PMEL, (<b>D</b>) CAZy relative abundance analysis between PME and PMEL, (<b>E</b>) Polysaccharide lyases relative abundance analysis between PME and PMEL, (<b>F</b>) Correlation network analysis among species and CAZy of PME, and (<b>G</b>) Correlation network analysis among species and CAZy of PMEL. The PMEL had significantly higher (<span class="html-italic">p</span> &lt; 0.01) abundance levels of GT4, GT2_Glycos_transf_2, GH73, GT41, CE10, GH2, AA6, GT8, GH31, and GT2_Glyco_tranf_2_3, which possess the cellulose synthase, xylanase, chitin synthase, endoglucanase, and beta-galactosidase-like activity. The PMEL also possessed a significantly higher (<span class="html-italic">p</span> &lt; 0.05) relative abundance of PL26, PL20, PL1_4, and PL9, which may be responsible for the degradation of the cell wall, specifically pectin complex polysaccharides. *** <span class="html-italic">p</span> &lt; 0.001; ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05.</p>
Full article ">Figure 7 Cont.
<p>CAZy analysis. (<b>A</b>) Circos diagram and abundance of CAZy of PME and PMEL, (<b>B</b>) Heatmap analysis of CAZy of PME and PMEL at the family level, (<b>C</b>) Heatmap analysis of polysaccharide lyases of PME and PMEL, (<b>D</b>) CAZy relative abundance analysis between PME and PMEL, (<b>E</b>) Polysaccharide lyases relative abundance analysis between PME and PMEL, (<b>F</b>) Correlation network analysis among species and CAZy of PME, and (<b>G</b>) Correlation network analysis among species and CAZy of PMEL. The PMEL had significantly higher (<span class="html-italic">p</span> &lt; 0.01) abundance levels of GT4, GT2_Glycos_transf_2, GH73, GT41, CE10, GH2, AA6, GT8, GH31, and GT2_Glyco_tranf_2_3, which possess the cellulose synthase, xylanase, chitin synthase, endoglucanase, and beta-galactosidase-like activity. The PMEL also possessed a significantly higher (<span class="html-italic">p</span> &lt; 0.05) relative abundance of PL26, PL20, PL1_4, and PL9, which may be responsible for the degradation of the cell wall, specifically pectin complex polysaccharides. *** <span class="html-italic">p</span> &lt; 0.001; ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05.</p>
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<p>Species and Metabolites Correlation Analysis and WGCNA: (<b>A</b>) HCLUST correlation analysis between microbes and metabolites; (<b>B</b>) Correlation heatmap between bacterial species and antioxidant biopeptides; (<b>C</b>) Correlation between module and trait; (<b>D</b>) Module significance of PMEL; (<b>E</b>) Module membership vs. metabolite significance of PMEL; and (<b>F</b>) Network analysis of MEblue. ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05.</p>
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<p>Species and Metabolites Correlation Analysis and WGCNA: (<b>A</b>) HCLUST correlation analysis between microbes and metabolites; (<b>B</b>) Correlation heatmap between bacterial species and antioxidant biopeptides; (<b>C</b>) Correlation between module and trait; (<b>D</b>) Module significance of PMEL; (<b>E</b>) Module membership vs. metabolite significance of PMEL; and (<b>F</b>) Network analysis of MEblue. ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05.</p>
Full article ">Figure 8 Cont.
<p>Species and Metabolites Correlation Analysis and WGCNA: (<b>A</b>) HCLUST correlation analysis between microbes and metabolites; (<b>B</b>) Correlation heatmap between bacterial species and antioxidant biopeptides; (<b>C</b>) Correlation between module and trait; (<b>D</b>) Module significance of PMEL; (<b>E</b>) Module membership vs. metabolite significance of PMEL; and (<b>F</b>) Network analysis of MEblue. ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05.</p>
Full article ">Figure 8 Cont.
<p>Species and Metabolites Correlation Analysis and WGCNA: (<b>A</b>) HCLUST correlation analysis between microbes and metabolites; (<b>B</b>) Correlation heatmap between bacterial species and antioxidant biopeptides; (<b>C</b>) Correlation between module and trait; (<b>D</b>) Module significance of PMEL; (<b>E</b>) Module membership vs. metabolite significance of PMEL; and (<b>F</b>) Network analysis of MEblue. ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05.</p>
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<p>Species and Metabolites Correlation Analysis and WGCNA: (<b>A</b>) HCLUST correlation analysis between microbes and metabolites; (<b>B</b>) Correlation heatmap between bacterial species and antioxidant biopeptides; (<b>C</b>) Correlation between module and trait; (<b>D</b>) Module significance of PMEL; (<b>E</b>) Module membership vs. metabolite significance of PMEL; and (<b>F</b>) Network analysis of MEblue. ** <span class="html-italic">p</span> &lt; 0.01; * <span class="html-italic">p</span> &lt; 0.05.</p>
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18 pages, 2269 KiB  
Article
Recovery of Selenium-Enriched Polysaccharides from Cardamine violifolia Residues: Comparison on Structure and Antioxidant Activity by Different Extraction Methods
by Yong Liang, Jiali Yu, Lulu Wu, Xin Cong, Haiyuan Liu, Xu Chen, Shuyi Li and Zhenzhou Zhu
Antioxidants 2024, 13(10), 1251; https://doi.org/10.3390/antiox13101251 - 17 Oct 2024
Viewed by 71
Abstract
The residues from selenium-enriched Cardamine violifolia after the extraction of protein were still rich in polysaccharides. Thus, the recovery of selenium polysaccharides (SePSs) was compared using hot water extraction and ultrasonic-assisted extraction techniques. The yield, extraction rate, purity, specific energy consumption, and content [...] Read more.
The residues from selenium-enriched Cardamine violifolia after the extraction of protein were still rich in polysaccharides. Thus, the recovery of selenium polysaccharides (SePSs) was compared using hot water extraction and ultrasonic-assisted extraction techniques. The yield, extraction rate, purity, specific energy consumption, and content of total and organic selenium from different SePS extracts were determined. The results indicated that at conditions of 250 W (ultrasonic power), 30 °C, and a liquid-to-material ratio of 30:1 extracted for 60 min, the yield of SePSs was 3.97 ± 0.07%, the extraction rate was 22.76 ± 0.40%, and the purity was 65.56 ± 0.35%, while the total and organic selenium content was 749.16 ± 6.91 mg/kg and 628.37 ± 5.93 mg/kg, respectively. Compared to traditional hot water extraction, ultrasonic-assisted extraction significantly improves efficiency, reduces energy use, and boosts both total and organic selenium content in the extract. Measurements of particle size, molecular weight, and monosaccharide composition, along with infrared and ultraviolet spectroscopy, revealed that ultrasonic-assisted extraction breaks down long-chain structures, decreases particle size, and changes monosaccharide composition in SePSs, leading to lower molecular weight and reduced dispersity. The unique structure of SePSs, which integrates selenium with polysaccharide groups, results in markedly improved antioxidant activity and reducing power, even at low concentrations, due to the synergistic effects of selenium and polysaccharides. This study establishes a basis for using SePSs in functional foods. Full article
(This article belongs to the Special Issue Antioxidant and Protective Effects of Plant Extracts—2nd Edition)
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<p>The effect of different extraction conditions during the hot water extraction process on the yield, extraction rate, and purity of SePSs: extraction temperature (<b>A</b>), extraction time (<b>B</b>), and extraction solid–liquid ratio (<b>C</b>) (<span class="html-italic">p</span> &lt; 0.05). Processing conditions: (<b>A</b>) 20:1 liquid-to-material ratio, extraction for 30 min; (<b>B</b>) 70 °C, 20:1 liquid-to-material ratio; and (<b>C</b>) 70 °C, extraction for 30 min.</p>
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<p>The effect of different extraction conditions in the ultrasound-assisted extraction process on the yield, extraction rate, and purity of SePSs: extraction power (<b>A</b>), extraction time (<b>B</b>), and extraction solid-liquid ratio (<b>C</b>) (<span class="html-italic">p</span> &lt; 0.05). Processing conditions: (<b>A</b>) 20:1 liquid-to-material ratio, extraction for 30 min; (<b>B</b>) 250 W, 20:1 liquid-to-material ratio; and (<b>C</b>) 250 W, extraction for 30 min.</p>
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<p>The effect of different extraction processes on the total selenium (<b>A</b>), organic selenium (<b>B</b>), and specific energy consumption of SePSs (<b>C</b>). The meaning of a–h: significance.</p>
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<p>Particle size distribution of SePSs obtained by different extraction methods.</p>
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<p>HPGPC chromatogram of SePSs obtained by different extraction methods. GPC chromatograms of different. selenopolysaccharides extracted fromselenium-enriched C. corylifolia leavesat 30 °C (<b>A</b>), 50 °C (<b>B</b>) and 30 °C + 250 W (<b>C</b>).</p>
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<p>Chromatogram of SePSs obtained by different extraction methods. Monosaccharide composition of different selenopolysaccharides extracted from Cardamine violifolia leaves at various conditions (monosaccharide standard curve (<b>A</b>), 30 °C (<b>B</b>), 50 °C (<b>C</b>), and 30 °C + 250 W (<b>D</b>)).</p>
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<p>UV (<b>A</b>) and FT−IR (<b>B</b>) spectra of SePSs obtained by different extraction methods.</p>
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<p>Hydroxyl radical scavenging rate (<b>A</b>), DPPH radical scavenging rate (<b>B</b>), ABTS radical scavenging rate (<b>C</b>), and total reducing power (<b>D</b>) of SePSs obtained by different extraction methods.</p>
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25 pages, 2311 KiB  
Review
Klebsiella pneumoniae Lipopolysaccharide as a Vaccine Target and the Role of Antibodies in Protection from Disease
by Jernelle C. Miller, Alan S. Cross, Sharon M. Tennant and Scott M. Baliban
Vaccines 2024, 12(10), 1177; https://doi.org/10.3390/vaccines12101177 - 17 Oct 2024
Viewed by 193
Abstract
Klebsiella pneumoniae is well recognized as a serious cause of infection in healthcare-associated settings and immunocompromised individuals; however, accumulating evidence from resource-limited nations documents an alarming rise in community-acquired K. pneumoniae infections, manifesting as bacteremia and pneumonia as well as neonatal sepsis. [...] Read more.
Klebsiella pneumoniae is well recognized as a serious cause of infection in healthcare-associated settings and immunocompromised individuals; however, accumulating evidence from resource-limited nations documents an alarming rise in community-acquired K. pneumoniae infections, manifesting as bacteremia and pneumonia as well as neonatal sepsis. The emergence of hypervirulent and antibiotic-resistant K. pneumoniae strains threatens treatment options for clinicians. Effective vaccination strategies could represent a viable alternative that would both preempt the need for antibiotics to treat K. pneumoniae infections and reduce the burden of K. pneumoniae disease globally. There are currently no approved K. pneumoniae vaccines. We review the evidence for K. pneumoniae lipopolysaccharide (LPS) as a vaccine and immunotherapeutic target and discuss the role of antibodies specific for the core or O-antigen determinants within LPS in protection against Klebsiella spp. disease. We expand on the known role of the Klebsiella spp. capsule and O-antigen modifications in antibody surface accessibility to LPS as well as the in vitro and in vivo effector functions reported for LPS-specific antibodies. We summarize key hypotheses stemming from these studies, review the role of humoral immunity against K. pneumoniae O-antigen for protection, and identify areas requiring further research. Full article
(This article belongs to the Special Issue Vaccines to Reduce Antimicrobial Resistance to Bacterial Pathogens)
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<p>Potential interactions of LPS-specific antibodies with encapsulated <span class="html-italic">K</span>. <span class="html-italic">pneumoniae</span> and prospective effector functions for protective anti-LPS antibodies. Created in BioRender. Permala Booth, J. (2023) BioRender.com/l04l974. (<b>Top</b> panels) The configuration of capsular polysaccharide (CPS) and lipopolysaccharide (LPS) in the outer membrane of <span class="html-italic">Klebsiella</span> varies in confluency and length, allowing for the binding of anti-LPS antibodies. Very long CPS chains may conceal LPS from antibody recognition or even hamper the effector function of bound antibodies (<b>top left</b>). However, LPS could theoretically become accessible to antibodies when CPS and O-antigen chains are comparable in length (<b>top middle</b>) or if channels in the extracellular polysaccharide layer are sufficiently sized to accommodate antibody binding to subcapsular targets (<b>top right</b>). (<b>Bottom</b> panels) Once LPS-specific antibodies are bound, they may elicit various effector functions to control <span class="html-italic">K. pneumoniae</span> infection. (1) Complement-mediated killing—assembly of complement proteins and formation of the membrane attack complex leads to pore formation on the outer membrane, resulting in bacterial lysis. (2) Agglutination—antibodies can bind multiple bacteria at once to produce large immune complexes which can lead to bacterial growth inhibition, immune cell recognition, and death; (3) Opsonophagocytosis—antibody–antigen complexes and complement factors can mediate uptake by phagocytic cells via complement or Fc receptors resulting in bacterial lysis. (4) Inhibition of TLR4 activation—LPS is recognized by the Toll-like receptor 4 (TLR4)–MD2 complex, which leads to the recruitment of adaptor molecules such as MyD88, activation of the transcription factor NF-kB, and the production of inflammatory cytokines. An overexuberant immune response can lead to septic shock in the host. By blocking LPS recognition by the TLR4–MD2 complex, anti-LPS antibodies can inhibit the TLR4 signaling cascade and reduce the toxicity of LPS.</p>
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16 pages, 9725 KiB  
Article
Atractylodes lancea Rhizome Polysaccharide Alleviates MCD Diet-Induced NASH by Inhibiting the p53/mTOR Pathway
by Dajin Pi, Zheng Liang, Maoxing Pan, Jianwei Zhen, Chuiyang Zheng, Jinyue Pan, Wen Fan, Qingliang Song, Qinhe Yang and Yupei Zhang
Int. J. Mol. Sci. 2024, 25(20), 11112; https://doi.org/10.3390/ijms252011112 - 16 Oct 2024
Viewed by 151
Abstract
Nonalcoholic steatohepatitis (NASH) is a form of chronic liver disease that is characterized by liver inflammation and steatosis, with possible progression to fibrosis. Currently, no drugs have been approved for the treatment of NASH. In this study, we isolated a polysaccharide from Atractylodes [...] Read more.
Nonalcoholic steatohepatitis (NASH) is a form of chronic liver disease that is characterized by liver inflammation and steatosis, with possible progression to fibrosis. Currently, no drugs have been approved for the treatment of NASH. In this study, we isolated a polysaccharide from Atractylodes lancea rhizome (AP) and established a methionine- and choline-deficient (MCD) diet -induced NASH mouse model to investigate the preventive effect and potential mechanism of AP on NASH. The results showed that AP effectively reduced liver lipid accumulation and inflammation and reduced autophagy and ferroptosis in hepatocytes, thereby preventing the development of NASH. These findings suggest that AP may be a promising natural candidate for the treatment of NASH. Full article
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<p>Structural analysis of AP. (<b>A</b>) Molecular weight of AP. (<b>B</b>) Monosaccharide composition of AP. (<b>C</b>) FT-IR spectra.</p>
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<p>AP had therapeutic effects in the NASH model. (<b>A</b>) Macroscopic observation of the livers. (<b>B</b>,<b>C</b>) Representative images of HE staining of liver paraffin sections, Oil Red O staining of frozen liver slides observed under a microscope (scale bar: 100 µm; original magnification, ×200). (<b>D</b>–<b>F</b>) Body weight, liver wet weight, and liver wet weight/body weight of mice in each group. (<b>G</b>–<b>I</b>) TC, TG, and NEFA contents in the livers of mice in each group. (<b>J</b>,<b>K</b>) Serum concentrations of HDL-C and LDL-C. * <span class="html-italic">p</span> &lt; 0.05; ** <span class="html-italic">p</span> &lt; 0.01; *** <span class="html-italic">p</span> &lt; 0.001; **** <span class="html-italic">p</span> &lt; 0.0001.</p>
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<p>AP broadly modulates hepatic lipid metabolism. Lipidomic analysis was conducted on mouse liver tissue samples (<span class="html-italic">n</span> = 4). (<b>A</b>) A Venn diagram was created for the DALs. (<b>B</b>) DALs were clustered to create a heatmap. The <span class="html-italic">x</span>-axis denotes sample names and hierarchical clustering results, while the <span class="html-italic">y</span>-axis represents DALs and their hierarchical clustering results. (<b>C</b>) Matchstick plot of DALs for the MCD group and MCS group. (<b>D</b>) Matchstick plot of DALs for MCD+AP in comparison to the MCD group. The <span class="html-italic">x</span>-axis denotes log2 fold change, while the <span class="html-italic">y</span>-axis represents differential TAG. VIP: Variable Importance in Projection.</p>
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<p>The development of steatohepatitis in mice fed an MCD diet can be reduced by treatment with AP. (<b>A</b>) Micrographs of F4/80 staining in hepatic sections (scale bar, 100 µm; 200× original magnification). (<b>B</b>) Positive rate of F4/80 (<span class="html-italic">n</span> = 3). (<b>C</b>,<b>D</b>) Serum AST and ALT levels. The findings are presented as the average ± standard deviation (<span class="html-italic">n</span> = 6). (<b>E</b>–<b>G</b>) Levels of liver IL-1<span class="html-italic">β</span>, IL-6, and TNF-<span class="html-italic">α</span>. The findings are presented as the mean ± standard deviation (<span class="html-italic">n</span> = 6). * <span class="html-italic">p</span> &lt; 0.05; ** <span class="html-italic">p</span> &lt; 0.01; *** <span class="html-italic">p</span> &lt; 0.001; **** <span class="html-italic">p</span> &lt; 0.0001.</p>
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<p>AP extensively regulates the liver transcriptome. RNA-seq analysis was conducted on mouse liver tissue samples (<span class="html-italic">n</span> = 4). (<b>A</b>) A Venn diagram was created for the DEGs. (<b>B</b>) DEGs were clustered to create a heatmap. The <span class="html-italic">x</span>-axis denotes sample names and hierarchical clustering results, while the <span class="html-italic">y</span>-axis represents DEGs and their hierarchical clustering results. Red indicates high expression, and blue indicates low expression. (<b>C</b>) KEGG analyses of the DEGs. The <span class="html-italic">y</span>-axis shows KEGG pathways, and the <span class="html-italic">x</span>-axis represents the Rich factor. A larger Rich factor indicates a higher degree of enrichment. Larger dots signify a greater number of DEGs enriched in the pathway, and redder dots indicate more significant enrichment. (<b>D</b>) Enriched GO terms. The <span class="html-italic">y</span>-axis shows GO pathways, and the <span class="html-italic">x</span>-axis represents the Rich factor. The red square frames represent key biological processes and pathways in this study.</p>
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<p>The progression of autophagy and ferroptosis in MCD-fed mice can be mitigated with AP treatment. (<b>A</b>) Ultrathin liver sections observed under TEM (7200× and 23,000×). (<b>B</b>,<b>C</b>) ROS staining and relative expression levels (scale bar: 100 µm; 200×). (<b>D</b>–<b>G</b>) Liver Fe<sup>2+</sup>, MDA, SOD, and GSH levels (<span class="html-italic">n</span> = 6). (<b>H</b>,<b>I</b>) The relative protein expression levels of p53, <span class="html-italic">p</span>-mTOR, Beclin-1, LC3B, p62, KEAP1, NRF2, NCOA4, FTH1, and GPX4 were assessed by Western blot analysis. The data are presented as the mean ± standard deviation. Red arrows represent typical organelle structures of ferroptosis or autophagy. * <span class="html-italic">p</span> &lt; 0.05; ** <span class="html-italic">p</span> &lt; 0.01; *** <span class="html-italic">p</span> &lt; 0.001; **** <span class="html-italic">p</span> &lt; 0.0001.</p>
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<p>3-MA had therapeutic effects in a NASH mouse model. (<b>A</b>) Liver ultrathin sections observed under TEM (7200× and 23,000×). (<b>B</b>,<b>C</b>) ROS staining and relative expression levels (scale bar: 100 µm; 200×). (<b>D</b>–<b>G</b>) Liver Fe<sup>2+</sup>, MDA, SOD, and GSH levels (<span class="html-italic">n</span> = 6). (<b>H</b>) The relative protein expression levels of KEAP1, NRF2, NCOA4, FTH1, and GPX4 were verified by Western blot analysis. (<b>I</b>,<b>J</b>) Serum AST and ALT levels. (<b>K</b>–<b>M</b>) Liver IL-1<span class="html-italic">β</span>, IL-6, and TNF-<span class="html-italic">α</span> levels (<span class="html-italic">n</span> = 6). * <span class="html-italic">p</span> &lt; 0.05; ** <span class="html-italic">p</span> &lt; 0.01; *** <span class="html-italic">p</span> &lt; 0.001; **** <span class="html-italic">p</span> &lt; 0.0001.</p>
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<p>Potential mechanisms of AP in NASH mice. AP alleviates MCD diet-induced NASH by inhibiting p53/mTOR mediated autophagic ferroptosis.</p>
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30 pages, 1165 KiB  
Review
Impact of Bifidobacterium longum Subspecies infantis on Pediatric Gut Health and Nutrition: Current Evidence and Future Directions
by Vanessa Nadia Dargenio, Fernanda Cristofori, Viviana Fara Brindicci, Federico Schettini, Costantino Dargenio, Stefania Paola Castellaneta, Andrea Iannone and Ruggiero Francavilla
Nutrients 2024, 16(20), 3510; https://doi.org/10.3390/nu16203510 - 16 Oct 2024
Viewed by 384
Abstract
Background: the intestinal microbiota, a complex community vital to human health, is shaped by microbial competition and host-driven selective pressures. Among these microbes, Bifidobacterium plays a crucial role in early gut colonization during neonatal stages, where Bifidobacterium longum subspecies infantis (B. infantis [...] Read more.
Background: the intestinal microbiota, a complex community vital to human health, is shaped by microbial competition and host-driven selective pressures. Among these microbes, Bifidobacterium plays a crucial role in early gut colonization during neonatal stages, where Bifidobacterium longum subspecies infantis (B. infantis) predominates and is particularly prevalent in healthy breastfed infants. Objectives: as we embark on a new era in nutrition of the pediatric population, this study seeks to examine the existing understanding regarding B. infantis, encompassing both preclinical insights and clinical evidence. Methods: through a narrative disceptation of the current literature, we focus on its genetic capacity to break down various substances that support its survival and dominance in the intestine. Results: using “omics” technologies, researchers have identified beneficial mechanisms of B. infantis, including the production of short-chain fatty acids, serine protease inhibitors, and polysaccharides. While B. infantis declines with age and in various diseases, it remains a widely used probiotic with documented benefits for infant and child health in numerous studies. Conclusions: the current scientific evidence underscores the importance for ongoing research and clinical trials for a deeper understanding of B. infantis’s role in promoting long-term health. Full article
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<p>Role of <span class="html-italic">B. infantis</span> in utilizing HMOs for infant gut health.</p>
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<p>Strategies for HMOs utilization by <span class="html-italic">B. infantis.</span> The image illustrates how HMOs are imported in <span class="html-italic">B. infantis</span> through specific ABC transporters and then degraded by glycosyl hydrolases such as fucosidases, sialidases, and galactosidases. This breakdown releases sugars that fuel <span class="html-italic">B. infantis</span> growth, providing it a competitive advantage in the gut of breastfed infants.</p>
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10 pages, 459 KiB  
Article
Impact of PCV13 and PPSV23 Vaccination on Invasive Pneumococcal Disease in Adults with Treated Rheumatoid Arthritis: A Population-Based Study
by Carlos A. Alvarez, Ronald G. Hall, Suzy Lin, Aaron R. Perkins and Eric M. Mortensen
Microorganisms 2024, 12(10), 2073; https://doi.org/10.3390/microorganisms12102073 - 16 Oct 2024
Viewed by 249
Abstract
On-time receipt of pneumococcal vaccines is essential in patients with rheumatoid arthritis (RA) as immunosuppressive medications increase their risk of invasive pneumococcal disease (IPD). However, data regarding the impact of timely administration of these vaccines on the risk of developing IPD are lacking [...] Read more.
On-time receipt of pneumococcal vaccines is essential in patients with rheumatoid arthritis (RA) as immunosuppressive medications increase their risk of invasive pneumococcal disease (IPD). However, data regarding the impact of timely administration of these vaccines on the risk of developing IPD are lacking for RA patients. We conducted a retrospective cohort study to assess the impact of on-time vaccination for pneumococcal conjugate vaccine (PCV) 13 and pneumococcal polysaccharide vaccine (PPSV) 23 in patients treated for RA on the development of IPD using national Veterans Affairs data from 2010 to 2018. Patients > 18 years of age, diagnosed with RA, and newly initiated on RA treatment were included. Pneumococcal vaccine compliance was assessed by measuring on-time receipt of PCV13 and PPSV23 vaccinations. A total of 33,545 patients were included in the cohort. Non-compliance with PCV recommendations was associated with an increased risk of IPD in a multivariable logistic regression model. This finding was consistent whether IPD status was ascertained by International Classification of Diseases coding (OR 2.42, 95%CI 2.14–2.73) or microbiologic data (OR 1.64, 95%CI 1.26–2.14). Providers should actively seek opportunities to provide pneumococcal vaccinations to patients with RA, as their on-time administration is associated with a decreased risk of IPD. Full article
(This article belongs to the Section Medical Microbiology)
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<p>Kaplan–Meier survival curve illustrating the proportion of patients experiencing outcome 1 based on their vaccine compliance status.</p>
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<p>Kaplan–Meier survival curve illustrating the proportion of patients experiencing outcome 2 based on their vaccine compliance status.</p>
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18 pages, 914 KiB  
Review
Exploring the Therapeutic Potential of Jujube (Ziziphus jujuba Mill.) Extracts in Cosmetics: A Review of Bioactive Properties for Skin and Hair Wellness
by Daniela Batovska, Anelia Gerasimova and Krastena Nikolova
Cosmetics 2024, 11(5), 181; https://doi.org/10.3390/cosmetics11050181 (registering DOI) - 15 Oct 2024
Viewed by 487
Abstract
Jujube (Ziziphus jujuba Mill.), native to Southern Asia, stands out for its significant nutritional and therapeutic properties. Its adaptability and resilience have enabled its global cultivation, highlighting the necessity for comprehensive scientific research to fully harness its potential. Rich in bioactive compounds [...] Read more.
Jujube (Ziziphus jujuba Mill.), native to Southern Asia, stands out for its significant nutritional and therapeutic properties. Its adaptability and resilience have enabled its global cultivation, highlighting the necessity for comprehensive scientific research to fully harness its potential. Rich in bioactive compounds like flavonoids, polyphenols, vitamin C, polysaccharides, tannins, and saponins, jujube extracts exhibit notable antioxidant, anti-inflammatory, antimicrobial, and wound healing properties. These qualities have made jujube a popular ingredient in various skin and hair care formulations. The versatility of jujube extracts, along with their synergy with other herbal active ingredients, enables the development of targeted personal care solutions. These solutions address a range of concerns, including anti-aging, UV protection, brightening, moisturizing, and calming effects, as well as promoting hair health. Despite its potential, research on the cosmetic applications of Z. jujuba is still in its early stages, with only one clinical trial to date focusing on its skin-brightening effects. This review aims to consolidate the current and emerging research on the applications of jujube in conventional and medical cosmetics, highlighting its potential in enhancing skin and hair wellness. By providing a comprehensive overview, it seeks to pave the way for further studies and innovations in utilizing jujube for personal care. Full article
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<p>Future directions in the utilization of the therapeutic potential of jujube in cosmetics.</p>
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16 pages, 2897 KiB  
Article
Optimization of Polysaccharide Extraction from Polygonatum cyrtonema Hua by Freeze–Thaw Method Using Response Surface Methodology
by Ziming Wang, Shushen Wu, Jiayi Wang, Ci Yang, Yang Wang, Zhan Hu, Wei Cai and Lianghong Liu
Molecules 2024, 29(20), 4879; https://doi.org/10.3390/molecules29204879 - 14 Oct 2024
Viewed by 276
Abstract
Polygonatum cyrtonema polysaccharides have a variety of pharmacological effects. The commonly used extraction methods include traditional hot water extraction, alkaline extraction, enzymatic hydrolysis method, ultrasonic-assisted extraction, etc., but there are problems such as low yield, high temperature, high cost, strict extraction conditions, and [...] Read more.
Polygonatum cyrtonema polysaccharides have a variety of pharmacological effects. The commonly used extraction methods include traditional hot water extraction, alkaline extraction, enzymatic hydrolysis method, ultrasonic-assisted extraction, etc., but there are problems such as low yield, high temperature, high cost, strict extraction conditions, and insufficient environmental protection. In this study, crude polysaccharide extraction from the Polygonatum cyrtonema Hua was performed using the freeze–thaw method. Response surface methodology (RSM), based on a three-level, three-variable Box–Behnken design (BBD), was employed to obtain the best possible combination of water-to-raw material ratio (A: 30–50), freezing time (B: 2–10 h), and thawing temperature (C: 40–60 °C) for maximum polysaccharide extraction. Using the multiple regression analysis and analysis of variance (ANOVA), the experimental data were fitted to a second-order polynomial equation and were used to generate the mathematical model of optimization experiments. The optimum extraction conditions were as follows: a water-to-raw material ratio of 36.95:1, a freezing time of 4.8 h, and a thawing temperature of 55.99 °C. Under the optimal extraction conditions, the extraction rate of Polygonatum cyrtonema Hua polysaccharide (PCP) was 65.76 ± 0.32%, which is well in close agreement with the value predicted by the model, 65.92%. In addition, PCP has significant antioxidant activity. This result shows that the freeze–thaw method can improve the extraction efficiency, maintain the structural integrity of polysaccharides, simplify the extraction process, promote the dispersion of polysaccharides, and is suitable for large-scale industrial production. Full article
(This article belongs to the Section Natural Products Chemistry)
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<p>Single−factor experimental results of the freeze−thaw method: (<b>A</b>) the effect of liquid−to−solid ratio on the extraction rate of PCP; (<b>B</b>) the effect of freezing temperature on the extraction rate of PCP; (<b>C</b>) the specific effect of freezing time on the extraction efficiency of PCP; (<b>D</b>) the effect of thawing temperature on the extraction rate of PCP; (<b>E</b>) the effect of thawing time on the extraction rate of PCP; (<b>F</b>) the effect of extraction times on the extraction rate of PCP.</p>
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<p>Response surface (3D) and contour plots showing the effect of the liquid−to−solid ratio, thawing temperature, and freezing time on the PCP extraction rate.</p>
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<p>Normal probability of internally studentized residuals (<b>A</b>); plot of internally studentized residuals vs. predicted response (<b>B</b>).</p>
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<p>The FT−IR spectra of PCP.</p>
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<p>DPPH radical scavenging activity.</p>
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<p>Hydroxyl radical scavenging activity.</p>
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<p>Standard curve of glucose.</p>
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16 pages, 5848 KiB  
Article
Composition and Biogeochemical Effects of Carbohydrates in Aerosols in Coastal Environment
by Hung-Yu Chen and Ting-Wen Liu
J. Mar. Sci. Eng. 2024, 12(10), 1834; https://doi.org/10.3390/jmse12101834 - 14 Oct 2024
Viewed by 478
Abstract
We adopted a simple and rapid measurement method to analyze the concentrations of monosaccharides (MCHO) and polysaccharides (PCHO) in carbohydrates, a subset of organic carbon found in size-fractionated atmospheric particles. Seasonal and source-related factors influenced carbohydrate concentrations, with total water-soluble carbohydrates (TCHO) accounting [...] Read more.
We adopted a simple and rapid measurement method to analyze the concentrations of monosaccharides (MCHO) and polysaccharides (PCHO) in carbohydrates, a subset of organic carbon found in size-fractionated atmospheric particles. Seasonal and source-related factors influenced carbohydrate concentrations, with total water-soluble carbohydrates (TCHO) accounting for approximately 23% of the water-soluble organic carbon (WSOC) in spring when biological activity was high. We observed that the mode of aerosol transport significantly influenced the particle size distribution of carbohydrates, with MCHO exhibiting relatively high concentrations in fine particles (<1 μm) and PCHO showing higher concentrations in coarse particles (>1 μm). Moreover, our results revealed that MCHO and PCHO contributed 51% and 49%, respectively, to the TCHO concentration. This contribution varied by approximately ±19% depending on the season, suggesting the importance of both MCHO and PCHO. Additionally, through the combined use of principal component analysis (PCA) and positive matrix factorization (PMF), we determined that biomass burning accounts for 30% of the aerosol. Notably, biomass burning accounts for approximately 52% of the WSOC flux, with MCHO accounting for approximately 78% of the carbon from this source, indicating the substantial influence of biomass burning on aerosol composition. The average concentration of TCHO/WSOC in the atmosphere was approximately 18%, similar to the marine environment, reflecting the relationship between the biogeochemical cycles of the two environments. Finally, the fluxes of MCHO and PCHO were 1.10 and 5.28 mg C m−2 yr−1, respectively. We also found that the contribution of atmospheric deposition to marine primary productivity in winter was 15 times greater than that in summer, indicating that atmospheric deposition had a significant impact on marine ecosystems during nutrient-poor seasons. Additionally, we discovered that WSOC accounts for approximately 62% of the dissolved organic carbon (DOC) in the Min River, suggesting that atmospheric deposition could be a major source of organic carbon in the region. Full article
(This article belongs to the Section Chemical Oceanography)
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<p>Sampling location.</p>
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<p>Reaction formula for the phenol–sulfuric acid method [<a href="#B21-jmse-12-01834" class="html-bibr">21</a>].</p>
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<p>Air mass backward trajectories for the four seasons in Matsu.</p>
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<p>Relationship between carbohydrate concentration, temperature, and precipitation.</p>
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<p>The percentage of each substance in aerosol particles.</p>
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<p>Seasonal carbohydrate concentrations.</p>
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<p>Particle size distribution of carbohydrates.</p>
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<p>Proportion of TCHO in WSOC.</p>
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<p>Global distribution of carbohydrates. Note: <sup>a</sup> [<a href="#B8-jmse-12-01834" class="html-bibr">8</a>]; <sup>b</sup> [<a href="#B43-jmse-12-01834" class="html-bibr">43</a>]; <sup>c</sup> [<a href="#B1-jmse-12-01834" class="html-bibr">1</a>]; <sup>d</sup> [<a href="#B13-jmse-12-01834" class="html-bibr">13</a>]; <sup>e</sup> [<a href="#B45-jmse-12-01834" class="html-bibr">45</a>]; <sup>f</sup> [<a href="#B46-jmse-12-01834" class="html-bibr">46</a>]; <sup>g</sup> [<a href="#B44-jmse-12-01834" class="html-bibr">44</a>]; <sup>h</sup> [<a href="#B9-jmse-12-01834" class="html-bibr">9</a>]; <sup>i</sup> this study; <sup>j</sup> [<a href="#B11-jmse-12-01834" class="html-bibr">11</a>]; <sup>k</sup> [<a href="#B36-jmse-12-01834" class="html-bibr">36</a>].</p>
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<p>PMF for each species.</p>
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<p>Sources contributing to WSOC.</p>
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18 pages, 2924 KiB  
Article
Comparison and Optimization of Three Extraction Methods for Epimedium polysaccharides
by Cheng Liu, Fangyuan Gong, Yijia Chen, Zhengwei Xiong, Cun Wang, Jiepei Li and Jin Guo
Separations 2024, 11(10), 296; https://doi.org/10.3390/separations11100296 - 14 Oct 2024
Viewed by 342
Abstract
Epimedium is used in traditional Chinese medicine. Epimedium polysaccharides have a variety of physiological properties. This study compared three different processes for the extraction of polysaccharides from Epimedium spp., including ultrasonic, aqueous enzymatic, and microwave extraction, to optimize the extraction conditions and determine [...] Read more.
Epimedium is used in traditional Chinese medicine. Epimedium polysaccharides have a variety of physiological properties. This study compared three different processes for the extraction of polysaccharides from Epimedium spp., including ultrasonic, aqueous enzymatic, and microwave extraction, to optimize the extraction conditions and determine the optimal extraction method. The optimal parameters for each method were analyzed. The results showed that the optimal process for ultrasonic extraction was an ultrasonic power of 250 W, an extraction time of 60 min, a temperature of 50 °C, and a solid–liquid ratio of 1:35. The optimal conditions for the aqueous enzymatic method were a papain concentration of 70 U/mL, extraction time of 70 min, a temperature of 50 °C, and a material-to-liquid ratio of 1:30, while those for microwave extraction were a microwave power of 650 W, an extraction time of 50 min, a temperature of 40 °C, and a material-to-liquid ratio of 1:25. The polysaccharide yields were 4.85%, 4.72%, and 3.98% for the three methods, respectively, indicating that ultrasonic extraction resulted in the highest yield of polysaccharides from Epimedium brevicornum. After purification with DEAE-cellulose, the polysaccharide yields were 4.13%, 3.67%, and 3.12%, respectively. A comprehensive comparison demonstrated the superiority of the ultrasonic extraction method in terms of both extraction yield and purification efficiency. Characterization of the extracted Epimedium polysaccharides showed the presence of five monosaccharides, i.e., glucose, galactose, mannose, galacturonic acid, and rhamnose, and a number average molecular weight Mn of 1.65 × 105 Da and weight average molecular weight Mw of 6.61 × 105 Da. These results provide a scientific basis for the in-depth study and application of Epimedium polysaccharides. Full article
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<p>Effect of ultrasound power on <span class="html-italic">Epimedium polysaccharide</span> extraction.</p>
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<p>Effect of extraction time on <span class="html-italic">Epimedium polysaccharide</span> yield by ultrasonic extraction.</p>
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<p>Effect of extraction temperature on glycan yield in Epimedium by ultrasonic extraction.</p>
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<p>Effect of the liquid–material ratio on polysaccharide extraction of Epimedium by ultrasonic extraction.</p>
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<p>Effect of the papain concentration on Epimedium.</p>
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<p>Effect of extraction time on Epimedii polysaccharide extraction by aqueous enzymatic.</p>
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<p>Effect of extraction temperature on <span class="html-italic">Epimedium polysaccharide</span> extraction by aqueous enzymatic.</p>
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<p>Effect of the liquid ratio on polysaccharide extraction of Epimedium by aqueous enzymatic.</p>
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<p>Effect of microwave power on <span class="html-italic">Epimedium polysaccharide</span> extraction.</p>
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<p>Effect of extraction time on <span class="html-italic">Epimedium polysaccharide</span> extraction by microwave extraction.</p>
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<p>Effect of extraction temperature on <span class="html-italic">Epimedium polysaccharide</span> extraction by microwave extraction.</p>
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<p>Effect of the solid–liquid ratio on <span class="html-italic">Epimedium polysaccharide</span> extraction by microwave extraction.</p>
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<p>Infrared spectrum analysis results of <span class="html-italic">Epimedium polysaccharide</span>.</p>
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14 pages, 1598 KiB  
Review
Research on the Action and Mechanism of Pharmacological Components of Omphalia lapidescens
by Keyang Xu, Li Wang and Dan He
Int. J. Mol. Sci. 2024, 25(20), 11016; https://doi.org/10.3390/ijms252011016 - 13 Oct 2024
Viewed by 558
Abstract
Omphalia lapidescens is a macrofungus that is used in traditional Chinese medicine for its insecticidal and stagnation-relieving properties. The active ingredients of this fungus including proteins, polysaccharides and sterols have been demonstrated to exhibit antiparasitic, anti-inflammatory, and antitumor effects. Omphalia has been used [...] Read more.
Omphalia lapidescens is a macrofungus that is used in traditional Chinese medicine for its insecticidal and stagnation-relieving properties. The active ingredients of this fungus including proteins, polysaccharides and sterols have been demonstrated to exhibit antiparasitic, anti-inflammatory, and antitumor effects. Omphalia has been used in clinical cancer treatment. Many studies on Omphalia have concentrated on its cytotoxicity and anticancer effects. However, the investigation of its natural metabolites remains a significant area for further research. This review presents a comprehensive analysis of the research progress concerning the pharmacological components of Omphalia. The aim of this discussion is to provide a reference for further in-depth study of Omphalia, with the objective of exploring its potential value. Therefore, the focus of this review was on the classification of metabolites in Omphalia and their mechanisms of action. Full article
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<p>Structural formula of the novel tetranorlanostane triterpenoid isolated from <span class="html-italic">O. lapidescens</span>.</p>
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<p>Structural formulae of eburicoic acid(<b>1</b>) and ganoderma side D(<b>2</b>).</p>
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<p>Structural formulae of new ergosterols isolated from <span class="html-italic">O. lapidescens</span>: (22E,24R)-9α,11α-epoxyergosta-7,22-diene-3β,5α,6α-triol (Compound <b>1</b>), (22E,24R)-9α,15α-dihydroxyergosta-4,6,8(14),22-tetraene-3-one (Compound <b>2</b>), and (22E,24R)-ergosta-7,9(11),22-triene-3β,5β,6α-triol (Compound <b>3</b>).</p>
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<p>Mechanism of the antitumor activity of <span class="html-italic">O. lapidescens</span> protein pPeOp (drawn with Figdraw).</p>
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<p>Structural formulae of ergosterol: ergosta-4,6,8(14),22-tetraen-3-one (Compound <b>1</b>); (22E,24R)-ergosta-7,9(11),22-trien-3β,5β,6α-triol (Compound <b>2</b>); (3β,5α,6β,22E)-6-methoxyergosta-7,22-dien-3,5-diol (Compound <b>3</b>).</p>
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21 pages, 6056 KiB  
Article
Research on the Mechanism of Growth of Codonopsis pilosula (Franch.) Nannf. Root Responding to Phenolic Stress Induced by Benzoic Acid
by Yantong Ma, Lei Ma, Ling Xu, Ruonan Wei, Guiping Chen, Junhong Dang, Zhen Chen, Shaoying Ma and Sheng Li
Int. J. Mol. Sci. 2024, 25(20), 11007; https://doi.org/10.3390/ijms252011007 - 13 Oct 2024
Viewed by 479
Abstract
Soil autotoxic chemosensory substances have emerged as the predominant environmental factors constraining the growth, quality, and yield of Codonopsis pilosula in recent years. Among a vast array of chemosensory substances, benzoic acid constitutes the principal chemosensory substance in the successive cultivation of C. [...] Read more.
Soil autotoxic chemosensory substances have emerged as the predominant environmental factors constraining the growth, quality, and yield of Codonopsis pilosula in recent years. Among a vast array of chemosensory substances, benzoic acid constitutes the principal chemosensory substance in the successive cultivation of C. pilosula. However, the exploration regarding the stress exerted by benzoic acid on the growth and development of C. pilosula remains indistinct, and there is a scarcity of research on the mechanism of lobetyolin synthesis in C. pilosula. In the current research, it was discovered that exposure to benzoic acid at a concentration of 200 mmol/L conspicuously attenuated the plant height, root length, total length, fresh weight, root weight, root thickness, chlorophyll content, electrolyte osmolality, leaf intercellular CO2 concentration (Ci), net photosynthesis rate (Pn), transpiration rate (Tr), and leaf stomatal conductance (Gs) of C. pilosula. Benzoic acid (200 mmol/L) significantly enhanced the activity of root enzymes, including superoxide dismutase (SOD), malondialdehyde (MDA), and peroxidase (POD), as well as the accumulation of polysaccharides and lobetyolins (polyacetylene glycosides) in the roots of C. pilosula. In this study, 58,563 genes were assembled, and 7946 differentially expressed genes were discovered, including 4068 upregulated genes and 3878 downregulated genes. The outcomes of the histological examination demonstrated that benzoic acid stress augmented the upregulation of genes encoding key enzymes implicated in the citric acid cycle, fatty acid metabolism, as well as starch and sucrose metabolic pathways. The results of this investigation indicated that a moderate amount of benzoic acid could enhance the content of lobetyolin in C. pilosula and upregulate the expression of key coding genes within the signaling cascade to improve the resilience of C. pilosula lobetyolin against benzoic acid stress; this furnished a novel perspective for the study of C. pilosula lobetyolin as a potential substance for alleviating benzoic acid-induced stress. Full article
(This article belongs to the Section Molecular Plant Sciences)
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<p>Phenotypic manifestations of <span class="html-italic">C. pilosula</span> under diverse concentrations of benzoic acid treatments. The upper portion showcases the phenotypic traits of potted plants, whereas the lower portion delineates the root morphology of <span class="html-italic">C. pilosula</span>.</p>
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<p>Morphological parametric assessments of <span class="html-italic">C. pilosula</span> upon exposure to benzoic acid at a concentration of 200 mmol/L: (<b>A</b>) Plant height; (<b>B</b>) root length; (<b>C</b>) total plant length; (<b>D</b>) fresh weight; (<b>E</b>) root weight; (<b>F</b>) root thickness. Note: “*” indicates significant differences between treatments at (<span class="html-italic">p</span> &lt; 0.05).</p>
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<p>Photosynthetic parameters under varying concentrations of benzoic acid treatments: (<b>A</b>) chlorophyll content; (<b>B</b>) leaf electrolyte osmolality; (<b>C</b>) Fv/Fm ratio; (<b>D</b>) leaf intercellular CO<sub>2</sub> concentration (Ci); (<b>E</b>) net photosynthetic rate (Pn); (<b>F</b>) leaf transpiration rate (Tr); (<b>G</b>) leaf stomatal conductance (Gs). Note: “*” indicates significant differences between treatments at (<span class="html-italic">p</span> &lt; 0.05).</p>
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<p>Physiological and photosynthetic metrics under diverse concentrations of benzoic acid administration: (<b>A</b>) leaf superoxide dismutase activity; (<b>B</b>) leaf peroxidase activity; (<b>C</b>) leaf malondialdehyde content; (<b>D</b>) root superoxide dismutase activity; (<b>E</b>) root peroxidase activity; (<b>F</b>) root malondialdehyde content. Note: “*” signifies statistically noteworthy discrepancies between treatments (<span class="html-italic">p</span> &lt; 0.05).</p>
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<p>Expression profiling of genes associated with lobetyolin biosynthesis in the roots of <span class="html-italic">C. pilosula</span>: (<b>A</b>) Statistical charting of upregulated and downregulated genes in <span class="html-italic">C. pilosula</span> under control (CK) and benzoic acid (200 mmol/L) treatments; (<b>B</b>) shows a Venn plot depicting the cross expression of differentially expressed genes between CK and 200; Specifically, the two groups have a total of 20,209 genes, with 3174 and 3180 representing the genes uniquely expressed in each respective group; (<b>C</b>) fluctuations in lobetyolin content in the roots of <span class="html-italic">C. pilosula</span> under CK and benzoic acid (200 mmol/L) treatments; (<b>D</b>) modifications in polysaccharide content in the roots of <span class="html-italic">C. pilosula</span> under CK and benzoic acid (200 mmol/L) treatments. Note: “*” signifies statistically prominent disparities between treatments (<span class="html-italic">p</span> &lt; 0.05).</p>
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<p>Heatmap illustrating sample expression correlation: (<b>A</b>) The magnitude of each color block represents the correlation between two samples along the x and y axes; the higher the magnitude, the stronger the correlation. (<b>B</b>) Bubble plot demonstrating KEGG enrichment analysis of differentially expressed genes in <span class="html-italic">C. pilosula</span> upon CK and benzoic acid (200 mmol/L) treatment: The size of the bubbles reflects the count of enriched genes, with larger bubbles indicating a greater abundance of enriched genes, and the bubble colors signify the enrichment significance—darker colors correspond to higher q-values, <span class="html-italic">p</span> ≤ 0.01 and fold change ≥ 1.2. (<b>C</b>) Distinctive expression profiles of genes encoding key enzymes in the kynurenine synthesis pathway in <span class="html-italic">C. pilosula</span> roots subjected to CK and benzoic acid (200 mmol/L) treatments.</p>
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<p>Schematic illustration of the biosynthetic route for lobetyolin in <span class="html-italic">C. pilosula.</span> Dotted arrowhead indicates an indirect effect.</p>
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<p>FPKM trend profiling of enzyme-encoding genes relevant to the biosynthetic trajectory of lobetyolin in <span class="html-italic">C. pilosula</span>.</p>
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<p>Dynamic correlation heatmap annotation. Note: “*” designates significant disparities between treatments (<span class="html-italic">p</span> &lt; 0.05); “**” and “***” signify highly significant variances between treatments, (<span class="html-italic">p</span> &lt; 0.01) and (<span class="html-italic">p</span> &lt; 0.001) respectively.</p>
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<p>qRT-PCR analysis was conducted to examine the changes in DEGs in <span class="html-italic">C. pilosula</span> roots under CK and 200 mmol/L benzoic acid treatment. Nine DEGs that regulate key metabolic pathways were selected for qRT-PCR validation. The qRT-PCR values were compared with gene FPKM values to verify the reliability of transcriptomic data. “*” represents the results of Duncan’s multiple range test, indicating statistically significant differences (<span class="html-italic">p</span> &lt; 0.05).</p>
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18 pages, 1597 KiB  
Review
Source, Extraction, Properties, and Multifunctional Applications of Pectin: A Short Review
by Le Yi, Lifeng Cheng, Qi Yang, Ke Shi, Fengbo Han, Wei Luo and Shengwen Duan
Polymers 2024, 16(20), 2883; https://doi.org/10.3390/polym16202883 - 12 Oct 2024
Viewed by 711
Abstract
Pectin, a heteropolysaccharide derived from plant cell walls, is essential in the food, pharmaceutical, and environmental industries. Currently, citrus and apple peels are the primary sources for commercial pectin production. The yield and quality of pectin extracted from various plant sources significantly differ [...] Read more.
Pectin, a heteropolysaccharide derived from plant cell walls, is essential in the food, pharmaceutical, and environmental industries. Currently, citrus and apple peels are the primary sources for commercial pectin production. The yield and quality of pectin extracted from various plant sources significantly differ based on the extraction methods employed, which include physical, chemical, and biological processes. The complex structures of pectin, composed of polygalacturonic acid and rhamnogalacturonan, influence its physicochemical properties and, consequently, its functionality. As a common polysaccharide, pectin finds applications across multiple sectors. In the food industry, it acts as a gelling agent and a packaging material; in pharmaceuticals, it is utilized for drug delivery and wound healing. Environmentally, pectin contributes to wastewater treatment by adsorbing pollutants. Current research focuses on alternative sources, sustainable extraction methods, and multifunctional applications of pectin. Ongoing studies aim to enhance extraction technologies and broaden the applications of pectin, thereby supporting sustainable development goals. Full article
(This article belongs to the Special Issue Advances in Biomimetic Smart Hydrogels)
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<p>Typical plant materials deriving pectin.</p>
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<p>Schematic structure of pectin [<a href="#B59-polymers-16-02883" class="html-bibr">59</a>]. (<b>a</b>) Linear chain; (<b>b</b>) branched chain. D-DHA: 3-deoxy-D-lyxo-heptulosaric acid.</p>
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<p>Schematic representation of the pectin application’s classification.</p>
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<p>Schematic cross-linking type and mechanism between pectin hydrogels and drug molecules [<a href="#B74-polymers-16-02883" class="html-bibr">74</a>]. (<b>a</b>) Drugs encapsulated in pure pectin hydrogels; (<b>b</b>) drugs combined with microcrystalline fibers and encapsulated within a pectin membrane; (<b>c</b>) the “egg box” model of interaction between pectin and divalent cations forms a stable specific structure; (<b>d</b>) enzyme-sensitive drug release “bag”; (<b>e</b>) pectin nanoparticles containing drugs.</p>
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30 pages, 5869 KiB  
Review
Multifaceted Heparin: Diverse Applications beyond Anticoagulant Therapy
by Razia Sultana and Masamichi Kamihira
Pharmaceuticals 2024, 17(10), 1362; https://doi.org/10.3390/ph17101362 - 12 Oct 2024
Viewed by 973
Abstract
Heparin, a naturally occurring polysaccharide, has fascinated researchers and clinicians for nearly a century due to its versatile biological properties and has been used for various therapeutic purposes. Discovered in the early 20th century, heparin has been a key therapeutic anticoagulant ever since, [...] Read more.
Heparin, a naturally occurring polysaccharide, has fascinated researchers and clinicians for nearly a century due to its versatile biological properties and has been used for various therapeutic purposes. Discovered in the early 20th century, heparin has been a key therapeutic anticoagulant ever since, and its use is now implemented as a life-saving pharmacological intervention in the management of thrombotic disorders and beyond. In addition to its known anticoagulant properties, heparin has been found to exhibit anti-inflammatory, antiviral, and anti-tumorigenic activities, which may lead to its widespread use in the future as an essential drug against infectious diseases such as COVID-19 and in various medical treatments. Furthermore, recent advancements in nanotechnology, including nano-drug delivery systems and nanomaterials, have significantly enhanced the intrinsic biofunctionalities of heparin. These breakthroughs have paved the way for innovative applications in medicine and therapy, expanding the potential of heparin research. Therefore, this review aims to provide a creation profile of heparin, space for its utilities in therapeutic complications, and future characteristics such as bioengineering and nanotechnology. It also discusses the challenges and opportunities in realizing the full potential of heparin to improve patient outcomes and elevate therapeutic interventions. Full article
(This article belongs to the Section Biopharmaceuticals)
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<p>A timeline of the historical development of therapeutic heparin. USP: United States Pharmacopeia; BSE: bovine spongiform encephalopathy; FDA: Food and Drug Administration.</p>
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<p>Structural characterization of unfractionated heparin (UFH) and ultra-low molecular weight heparin (ULMWH), Fondaparinux. (<b>A</b>) The generalized chemical structure of UFH includes major domains, typically consisting of twenty to fifty copies each of trisulfated and disulfated units. (<b>B</b>) Fondaparinux, a synthetic ULMWH, features a specialized antithrombin III (AT) binding site.</p>
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<p>Mechanism of heparin action on blood clotting factors in anti-coagulation. The figure illustrates the structure of the AT-binding pentasaccharide, which is crucial for the inactivation of FXa and factor IIa (FIIa). Longer heparin sequences can further enhance this inactivation.</p>
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<p>Overview of advanced bioengineering processes in eukaryotic and prokaryotic expression systems, followed by modifications to generate heparin/HS.</p>
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<p>Nanotechnology-driven innovations in heparin-based therapeutics.</p>
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