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  • SAGE Publications  (9)
  • Biodiversity Research  (9)
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  • 1
    Online Resource
    Online Resource
    bHLH13 Regulates Jasmonate-Mediated Defense Responses and Growth
    SAGE Publications ; 2018
    In:  Evolutionary Bioinformatics Vol. 14 ( 2018-01), p. 117693431879026-
    Details
    In: Evolutionary Bioinformatics, SAGE Publications, Vol. 14 ( 2018-01), p. 117693431879026-
    Type of Medium: Online Resource
    ISSN: 1176-9343 , 1176-9343
    URL: Article
    DOI: 10.1177/1176934318790265
    Language: English
    Publisher: SAGE Publications
    Publication Date: 2018
    detail.hit.zdb_id: 2227610-5
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  • 2
    Online Resource
    Online Resource
    Inhibition of Tumor Glycolysis by Umbelliferone and its Binding to Glycolytic Proteins
    SAGE Publications ; 2023
    In:  Pharmacognosy Magazine Vol. 19, No. 3 ( 2023-09), p. 626-637
    Details
    In: Pharmacognosy Magazine, SAGE Publications, Vol. 19, No. 3 ( 2023-09), p. 626-637
    Abstract: Both primary and secondary cancers require the involvement of glycolytic pathways. Cancer cell proliferation leads to the upregulation of glycolysis, which results in increased glucose consumption. For demonstrating that umbelliferone can effectively bind to several proteins involved in the glycolytic pathway, thereby inhibiting glycolysis and reducing cancer cell proliferation. Materials and Methods This study uses transcriptomics, network pharmacology, and molecular docking to predict the potential targets and possible pathways of umbelliferone against cancer and microscale thermophoresis (MST) to detect the affinity between umbelliferone and potential targets. Results Transcriptomic analysis revealed that differentially expressed genes were primarily associated with glycolytic and other metabolic pathways and proteins. According to network pharmacology and molecular docking results, glycolysis-related proteins such as glucose-6-phosphate isomerase (GPI), glycerol-3-phosphate dehydrogenase, mitochondrial (GPD2), phosphoglycerate kinase 2 (PGK2), and heat shock protein HSP-90 alpha (Hsp90AA1) are potential targets of umbelliferone against tumors. MST confirmed that umbelliferous lactone binds strongly to GPI, GPD2, and PGK2 but not to Hsp90AA1. Conclusion By binding to the glycolysis-related proteins such as GPI, GPD2, and PGK2, umbelliferone acts as an anti-tumor agent by inhibiting glycolysis, cutting off the energy supply to tumor tissue, and reducing tumor growth. It was suggested that umbelliferone might be a brand-new tumor glycolysis inhibitor and that these glycolysis-related proteins might be potential new targets for cancer therapy. This finding helped to establish a solid foundation for the anti-cancer action of umbelliferone.
    Type of Medium: Online Resource
    ISSN: 0973-1296 , 0976-4062
    URL: Article
    DOI: 10.1177/09731296231170256
    Language: English
    Publisher: SAGE Publications
    Publication Date: 2023
    detail.hit.zdb_id: 2274976-7
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  • 3
    Online Resource
    Online Resource
    Optimization of the Integrated Processing Technology of Primary Processing for Asparagi Radix by HPLC-CAD Combined with the Box-Behnken Design
    SAGE Publications ; 2023
    In:  Pharmacognosy Magazine
    Details
    In: Pharmacognosy Magazine, SAGE Publications
    Abstract: Asparagi Radix (AR) is one of the widely used traditional Chinese medicines (TCMs) for clinical applications, owning the effects of clearing the lungs and promoting body fluid, nourishing yin, and moistening the lung. To reduce the loss of active ingredients and improve production efficiency, the integrated processing technology of primary processing was used to obtain the decoction pieces of AR. However, there are no specific processing methods and index ingredients of AR in Chinese Pharmacopoeia (2020 edition). Materials and Methods This study aimed to establish a method of content determination of protodioscin and asparagine by high-performance liquid chromatography with charged aerosol detector (HPLC-CAD) as the index of process optimization. Furthermore, Box-Behnken design was used to optimize the integrated processing technology of primary processing. Results The result showed the contents of protodioscin and asparagine could reach 0.2678% and 0.4114%, respectively, both above the traditional process. After verification, the actual value (99.56) and predicted value (101.15) were similar, indicating that the integrated technology was feasible. In particular, the optimized process parameters of boiling time, drying time, and temperature were 25 min, 12 h, and 60°C, respectively. Conclusion In summary, these research findings may provide a reference for the primary processing and quality control of AR.
    Type of Medium: Online Resource
    ISSN: 0973-1296 , 0976-4062
    URL: Article
    DOI: 10.1177/09731296231191375
    Language: English
    Publisher: SAGE Publications
    Publication Date: 2023
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  • 4
    Online Resource
    Online Resource
    Prunetin Triggers ROS-mediated Apoptosis through the Suppression of MAPKs/STAT-3/NF-κB-p65 Signaling Pathway in Human Osteosarcoma Cells
    SAGE Publications ; 2023
    In:  Pharmacognosy Magazine
    Details
    In: Pharmacognosy Magazine, SAGE Publications
    Abstract: Osteosarcoma (OS) is a highly metastatic primary bone malignancy, and the treatment options remain inadequate. Hence, exploring innovative natural medications is required. Prunetin (PRU) is an isoflavone that has been a proven anticancer agent in numerous cancer cell lines. However, the activity of PRU against OS remains uncertain. Materials and Methods Here, we studied the anticancer activity of PRU (20 and 25 µM) on human OS cells MG-63 and investigated its latent mechanism. The PRU activity of MG-63 cells cytotoxicity, intracellular ROS, metastasis, apoptosis, anti-apoptotic proteins, MAPK/STAT-3, and AKT signaling pathways was assessed by MTT assay, DCFH-DA, DAPI, PI, AO/EB, cell adhesion, and RT-PCR analysis. Findings unveiled that PRU could constrain MG-63 cell viability and adhesion through elevated intracellular ROS and elicited apoptosis. Results Likewise, PRU (20 and 25 µM) avert the MG-63 cell proliferation, which stimulates apoptosis by the enhancement of Bax and caspases, while it diminishes Bcl-2 in a dose-dependent way. Furthermore, PRU could reduce Pin-1, and anti-apoptotic elements, as well as trigger apoptotic signaling pathways. Our data established that PRU alleviates MG-63 cell proliferation and metastasis via ROS-mediated apoptosis, which triggers MAPKs/STAT3 and AKT pathways, suggesting that PRU is a promising natural remedy for OS. In order to comprehend the therapeutic target for cancer, we assessed the effect of PRU on the expression of Pin1, which is thought to be over-expressed in many human malignancies. According to our findings, PRU specifically suppressed Pin1 expression to reduce the expression of Akt, STAT3, P38, JNK, P65, and IL-6. We evaluated the impact of PRU on the expression of Pin1, which is allegedly over-expressed in many human malignancies, to better understand the therapeutic target for cancer. Researchers state that PRU inhibited the expression of Akt, STAT3, P38, JNK, P65, and IL-6 in particular, by suppressing Pin1 expression. Conclusion Together, these results suggest that PRU may be an effective treatment for bone cancer in people by preventing Pin1 expression.
    Type of Medium: Online Resource
    ISSN: 0973-1296 , 0976-4062
    URL: Article
    DOI: 10.1177/09731296231188784
    Language: English
    Publisher: SAGE Publications
    Publication Date: 2023
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  • 5
    Online Resource
    Online Resource
    The Protective Effect of Ginkgolide K on Astrocytes Exposed to Myelin Debris In Vitro and Demyelination In Vivo
    SAGE Publications ; 2023
    In:  Pharmacognosy Magazine
    Details
    In: Pharmacognosy Magazine, SAGE Publications
    Abstract: Ginkgolide K ( GK) has a protective effect on neurons and myelin sheath, and the function of astrocytes in phagocytizing myelin debris has attracted extensive attention in remyelination. Objective This study focuses on the impact of GK on the phagocytosis of myelin debris by astrocytes and explores the possibility of treating demyelination. Materials and Methods Male C57BL/6 mice were used to establish a cuprizone (CPZ)-induced demyelination model. After being fed a normal or CPZ diet for 4 weeks, mice were intraperitoneally injected with PEG400 or GK for 14 consecutive days. GL261 and primary astrocytes were exposed to myelin debris. Immunohistochemistry/immunocytochemistry staining, western blot, RT-PCR, and other methods were used to detect the relevant indicators. Results Astrocytes engulfed myelin debris, leading to astrocyte reactivity with increased p-NF-kB/p65 and ATF6 expression and decreased nuclear factor erythroid 2-related factor 2 (Nrf2) expression, which was reversed by GK. Subsequently, astrocytes stimulated by myelin debris underwent self-apoptosis with increased expression of caspase-3 and BCL2-associated X (Bax), which was inhibited by GK. Simultaneously, GK efficiently promoted astrocytes to increase the production of neurotrophic ciliary neurotrophic factor (CNTF) and basic fibroblast growth factor (bFGF), speculating that increased CNTF/bFGF, decreased p-NF-kB/p65/ATF6, and up-regulated Nrf2 should participate in the protection of astrocyte apoptosis and build a beneficial microenvironment for myelin regeneration. Conclusion The results suggest that GK may have the potential to treat demyelination by promoting debris clearance and improving the brain microenvironment. However, further studies are needed to understand the physiological and pathological consequences of astrocytic phagocytosis and to investigate the possibility of using GK as a therapeutic application.
    Type of Medium: Online Resource
    ISSN: 0973-1296 , 0976-4062
    URL: Article
    DOI: 10.1177/09731296231171454
    Language: English
    Publisher: SAGE Publications
    Publication Date: 2023
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  • 6
    Online Resource
    Online Resource
    Adaptation of Neisseria gonorrhoeae to the Female Reproductive Tract
    SAGE Publications ; 2020
    In:  Microbiology Insights Vol. 13 ( 2020-01), p. 117863612094707-
    Details
    In: Microbiology Insights, SAGE Publications, Vol. 13 ( 2020-01), p. 117863612094707-
    Abstract: Gonorrhea, caused by Neisseria gonorrhoeae, is a common sexually transmitted infection and an urgent public health problem. Humans are the exclusive host, and the genital tract with heterogeneous epithelia is the primary niche of this bacterium, creating unique challenges for understanding its pathogenesis. The cervical tissue explant model that we have developed enabled us to show that the properties of the epithelial cells in the female reproductive tract are the main factors driving gonococcal adaptation. Gonococcal variants that colonize strongly and penetrate poorly, thereby causing asymptomatic infection, survive better in the cervix. Gonococci adapt to different epithelial cell types by varying their surfaces and modulating distinct epithelial cell-cell adhesion complexes through manipulation of host cell signaling. These findings provide critical new insights on the mechanisms by which N. gonorrhoeae adapts to the human mucosal surface and causes asymptomatic infection.
    Type of Medium: Online Resource
    ISSN: 1178-6361 , 1178-6361
    URL: Article
    DOI: 10.1177/1178636120947077
    Language: English
    Publisher: SAGE Publications
    Publication Date: 2020
    detail.hit.zdb_id: 2455264-1
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  • 7
    Online Resource
    Online Resource
    Baicalin Magnesium Salt Exerts an Antitumor Effect in HepG2 Hepatoma Cells
    SAGE Publications ; 2023
    In:  Pharmacognosy Magazine Vol. 19, No. 2 ( 2023-06), p. 473-481
    Details
    In: Pharmacognosy Magazine, SAGE Publications, Vol. 19, No. 2 ( 2023-06), p. 473-481
    Abstract: Scutellaria baicalensis is an important medicinal plant used in China. Several compounds have been extracted from S. baicalensis using modern techniques. Baicalin, an active ingredient of S. baicalensis, is widely used clinically. However, its clinical use is limited owing to poor oral bioavailability and intestinal absorption. Objectives To evaluate the anti-tumor effect of baicalin magnesium salt (BA-MG, a novel magnesium salt form of baicalin with superior water solubility) on the human hepatocellular carcinoma cell line, HepG2. Materials and Methods Seven groups were established, including three dosages of BA-MG (200, 250, and 300 µg/mL), baicalin, dimethyl sulfoxide (DMSO) (negative control), magnesium sulfate (negative control), and control groups. Cell proliferation was determined using the cell counting kit-8 (CCK-8) assay. Cell cycle and apoptosis were detected by flow cytometry. Cell migration was determined using a cell scratch assay. Protein expression was determined using western blotting. Results In vitro, BA-MG inhibited proliferation, reduced cell cloning and migration abilities, induced cell cycle arrest, and promoted apoptosis of HepG2 cells (all p 〈 0.05). The effects of baicalin and BA-MG on proliferation and migration, cell cycle, and apoptosis may be attributed to decreasing the expression of Bcl-2, ROCK-1, proliferating cell nuclear antigen (PCNA), and cyclin E, as well as increasing the expression of Bax and caspase-9. The efficacy of BA-MG is superior to that of baicalin at the same dose. Conclusion BA-MG showed superior effects on inhibiting cell proliferation and inducing apoptosis in liver cancer cells.
    Type of Medium: Online Resource
    ISSN: 0973-1296 , 0976-4062
    URL: Article
    DOI: 10.1177/09731296231158698
    Language: English
    Publisher: SAGE Publications
    Publication Date: 2023
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  • 8
    Online Resource
    Online Resource
    NLPEI: A Novel Self-Interacting Protein Prediction Model Based on Natural Language Processing and Evolutionary Information
    SAGE Publications ; 2020
    In:  Evolutionary Bioinformatics Vol. 16 ( 2020-01), p. 117693432098417-
    Details
    In: Evolutionary Bioinformatics, SAGE Publications, Vol. 16 ( 2020-01), p. 117693432098417-
    Abstract: The study of protein self-interactions (SIPs) can not only reveal the function of proteins at the molecular level, but is also crucial to understand activities such as growth, development, differentiation, and apoptosis, providing an important theoretical basis for exploring the mechanism of major diseases. With the rapid advances in biotechnology, a large number of SIPs have been discovered. However, due to the long period and high cost inherent to biological experiments, the gap between the identification of SIPs and the accumulation of data is growing. Therefore, fast and accurate computational methods are needed to effectively predict SIPs. In this study, we designed a new method, NLPEI, for predicting SIPs based on natural language understanding theory and evolutionary information. Specifically, we first understand the protein sequence as natural language and use natural language processing algorithms to extract its features. Then, we use the Position-Specific Scoring Matrix (PSSM) to represent the evolutionary information of the protein and extract its features through the Stacked Auto-Encoder (SAE) algorithm of deep learning. Finally, we fuse the natural language features of proteins with evolutionary features and make accurate predictions by Extreme Learning Machine (ELM) classifier. In the SIPs gold standard data sets of human and yeast, NLPEI achieved 94.19% and 91.29% prediction accuracy. Compared with different classifier models, different feature models, and other existing methods, NLPEI obtained the best results. These experimental results indicated that NLPEI is an effective tool for predicting SIPs and can provide reliable candidates for biological experiments.
    Type of Medium: Online Resource
    ISSN: 1176-9343 , 1176-9343
    URL: Article
    DOI: 10.1177/1176934320984171
    Language: English
    Publisher: SAGE Publications
    Publication Date: 2020
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  • 9
    Online Resource
    Online Resource
    Gut Microbiome Changes in Captive Plateau Zokors ( Eospalax baileyi )
    SAGE Publications ; 2021
    In:  Evolutionary Bioinformatics Vol. 17 ( 2021-01), p. 117693432199635-
    Details
    In: Evolutionary Bioinformatics, SAGE Publications, Vol. 17 ( 2021-01), p. 117693432199635-
    Abstract: Wild-caught animals must cope with drastic lifestyle and dietary changes after being induced to captivity. How the gut microbiome structure of these animals will change in response receives increasing attention. The plateau zokor ( Eospalax baileyi), a typic subterranean rodent endemic to the Qinghai-Tibet plateau, spends almost the whole life underground and is well adapted to the environmental pressures of both plateau and underground. However, how the gut microbiome of the plateau zokor will change in response to captivity has not been reported to date. This study compared the microbial community structure and functions of 22 plateau zokors before (the WS group) and after being kept in captivity for 15 days (the LS group, fed on carrots) using the 16S rRNA gene via high-throughput sequencing technology. The results showed that the LS group retained 973 of the 977 operational taxonomic units (OTUs) in the WS group, and no new OTUs were found in the LS group. The dominant bacterial phyla were Bacteroides and Firmicutes in both groups. In alpha diversity analysis, the Shannon, Sobs, and ACE indexes of the LS group were significantly lower than those of the WS group. A remarkable difference ( P  〈  0.01) between groups was also detected in beta diversity analysis. The UPGMA clustering, NMDS, PCoA, and Anosim results all showed that the intergroup difference was significantly greater than the intragroup difference. And compared with the WS group, the intragroup difference of the gut microbiota in the LS group was much larger, which failed to support the assumption that similar diets should drive convergence of gut microbial communities. PICRUSt revealed that although some functional categories displayed significant differences between groups, the relative abundances of these categories were very close in both groups. Based on all the results, we conclude that as plateau zokors enter captivity for a short time, although the relative abundances of different gut microbiota categories shifted significantly, they can maintain almost all the OTUs and the functions of the gut microbiota in the wild. So, the use of wild-caught plateau zokors in gut microbial studies is acceptable if the time in captivity is short.
    Type of Medium: Online Resource
    ISSN: 1176-9343 , 1176-9343
    URL: Article
    DOI: 10.1177/1176934321996353
    Language: English
    Publisher: SAGE Publications
    Publication Date: 2021
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