837 results on '"Biological significance"'
Search Results
2. Bacterial membrane vesicles: formation, functions, and roles in bacterial-phage interactions.
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Xuan, Shichao and Xuan, Guanhua
- Abstract
Outer membrane vesicles (OMVs) are nano-sized vesicles actively released by Gram-negative bacteria, playing a crucial role in bacterial survival and interactions with phages. This review focuses on OMVs and succinctly delineates the stimuli instigating OMV formation, their functional repertoire, and their involvement in bacterial-phage interplays. Initially, the discussion centers on the drivers prompting OMV genesis, encompassing both extrinsic environmental pressures and intrinsic regulatory mechanisms within bacterial systems. Subsequently, a comprehensive examination of OMVs’ multifaceted functions in bacterial physiology ensues, spanning signaling cascades, nutrient transport, antibiotic resilience, and evasion of immune surveillance. Particular emphasis is placed on elucidating the paramount significance of OMVs in mediating bacterial-phage dynamics. OMVs function as decoys, providing protection to bacterial hosts against phages, and concurrently promoting the spread of phage receptors, thereby rendering phage-resistant strains susceptible to phage invasion. This comprehensive review deepens our comprehension of membrane vesicles biogenesis in bacteria and their pivotal role in microbial community dynamics. [ABSTRACT FROM AUTHOR]
- Published
- 2024
- Full Text
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3. Decoding HiPSC-CM’s Response to SARS-CoV-2: mapping the molecular landscape of cardiac injury
- Author
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Sicheng Chen, Zhenquan Fu, Kaitong Chen, Xinyao Zheng, and Zhenyang Fu
- Subjects
SARS-CoV-2 ,hiPSC-CMs ,Transcriptome analysis ,Molecular mechanisms ,Biological significance ,Mitochondrial dysfunction ,Biotechnology ,TP248.13-248.65 ,Genetics ,QH426-470 - Abstract
Abstract Background Acute cardiac injury caused by coronavirus disease 2019 (COVID-19) increases mortality. Acute cardiac injury caused by COVID-19 requires understanding how severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) directly infects cardiomyocytes. This study provides a solid foundation for related studies by using a model of SARS-CoV-2 infection in human induced pluripotent stem cell-derived cardiomyocytes (hiPSC-CMs) at the transcriptome level, highlighting the relevance of this study to related studies. SARS-CoV-2 infection in hiPSC-CMs has previously been studied by bioinformatics without presenting the full molecular biological process. We present a unique bioinformatics view of the complete molecular biological process of SARS-CoV-2 infection in hiPSC-CMs. Methods To validate the RNA-seq datasets, we used GSE184715 and GSE150392 for the analytical studies, GSE193722 for validation at the cellular level, and GSE169241 for validation in heart tissue samples. GeneCards and MsigDB databases were used to find genes associated with the phenotype. In addition to differential expression analysis and principal component analysis (PCA), we also performed protein-protein interaction (PPI) analysis, functional enrichment analysis, hub gene analysis, upstream transcription factor prediction, and drug prediction. Results Differentially expressed genes (DEGs) were classified into four categories: cardiomyocyte cytoskeletal protein inhibition, proto-oncogene activation and inflammation, mitochondrial dysfunction, and intracellular cytoplasmic physiological function. Each of the hub genes showed good diagnostic prediction, which was well validated in other datasets. Inhibited biological functions included cardiomyocyte cytoskeletal proteins, adenosine triphosphate (ATP) synthesis and electron transport chain (ETC), glucose metabolism, amino acid metabolism, fatty acid metabolism, pyruvate metabolism, citric acid cycle, nucleic acid metabolism, replication, transcription, translation, ubiquitination, autophagy, and cellular transport. Proto-oncogenes, inflammation, nuclear factor-kappaB (NF-κB) pathways, and interferon signaling were activated, as well as inflammatory factors. Viral infection activates multiple pathways, including the interferon pathway, proto-oncogenes and mitochondrial oxidative stress, while inhibiting cardiomyocyte backbone proteins and energy metabolism. Infection limits intracellular synthesis and metabolism, as well as the raw materials for mitochondrial energy synthesis. Mitochondrial dysfunction and energy abnormalities are ultimately caused by proto-oncogene activation and SARS-CoV-2 infection. Activation of the interferon pathway, proto-oncogene up-regulation, and mitochondrial oxidative stress cause the inflammatory response and lead to diminished cardiomyocyte contraction. Replication, transcription, translation, ubiquitination, autophagy, and cellular transport are among the functions that decline physiologically. Conclusion SARS-CoV-2 infection in hiPSC-CMs is fundamentally mediated via mitochondrial dysfunction. Therapeutic interventions targeting mitochondrial dysfunction may alleviate the cardiovascular complications associated with SARS-CoV-2 infection.
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- 2024
- Full Text
- View/download PDF
4. PYRAZOLE SCAFFOLDS: A PROMISING FRONTIER IN DRUG DISCOVERY.
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Sunitha, Tarigoppula, Dixit, Prince Vishal, Naaz, Aaliya, Chitrapu, Prashanti, Panda, Krishna Chandra, Kumar, Pramod Bhaskar, Sahu, Dipansu, Madhavilatha, B., and Nirmal, Puneet
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DRUG discovery ,PYRAZOLES ,DRUG design ,TECHNOLOGICAL innovations ,PHARMACEUTICAL chemistry - Abstract
Pyrazole scaffolds have emerged as a promising frontier in drug discovery, offering a rich source of chemical diversity and pharmacological activity. This review explores the synthesis, biological significance, medicinal chemistry strategies, computational approaches, recent advances, and future perspectives of pyrazole-based compounds in pharmacotherapy. The chemical structure and properties of pyrazole scaffolds are examined, highlighting their structural characteristics, physicochemical properties and synthetic routes. The biological significance of pyrazole derivatives is elucidated through an exploration of their targeted receptors, pharmacological activities, and therapeutic potential in anticancer, anti-inflammatory, antimicrobial, and other disease contexts. Medicinal chemistry strategies utilizing pyrazole scaffolds, including structureactivity relationship studies, pharmacophore mapping, and molecular docking simulations, are discussed for rational drug design and optimization. Case studies of pyrazole-derived drugs, emerging trends and applications are presented to underscore the diverse pharmacological activities and clinical applications of pyrazole-based compounds. Computational approaches in pyrazole-based drug design, such as molecular modeling techniques, virtual screening methods and quantitative structureactivity relationship studies, are examined for their role in accelerating the discovery and optimization of novel therapeutics. Future perspectives on the potential for future drug development, integration with emerging technologies and concluding remarks highlight the significance of pyrazole scaffolds in addressing unmet medical needs and advancing precision medicine. In conclusion, pyrazole scaffolds represent a promising avenue for the development of novel therapeutics with enhanced efficacy, selectivity and safety profiles, shaping the future of pharmacotherapy in the evolving landscape of modern medicine. [ABSTRACT FROM AUTHOR]
- Published
- 2024
- Full Text
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5. Decoding HiPSC-CM's Response to SARS-CoV-2: mapping the molecular landscape of cardiac injury.
- Author
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Chen, Sicheng, Fu, Zhenquan, Chen, Kaitong, Zheng, Xinyao, and Fu, Zhenyang
- Subjects
SARS-CoV-2 ,UBIQUITINATION ,GENE mapping ,HEART injuries ,COVID-19 ,BIOLOGICAL transport - Abstract
Background: Acute cardiac injury caused by coronavirus disease 2019 (COVID-19) increases mortality. Acute cardiac injury caused by COVID-19 requires understanding how severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) directly infects cardiomyocytes. This study provides a solid foundation for related studies by using a model of SARS-CoV-2 infection in human induced pluripotent stem cell-derived cardiomyocytes (hiPSC-CMs) at the transcriptome level, highlighting the relevance of this study to related studies. SARS-CoV-2 infection in hiPSC-CMs has previously been studied by bioinformatics without presenting the full molecular biological process. We present a unique bioinformatics view of the complete molecular biological process of SARS-CoV-2 infection in hiPSC-CMs. Methods: To validate the RNA-seq datasets, we used GSE184715 and GSE150392 for the analytical studies, GSE193722 for validation at the cellular level, and GSE169241 for validation in heart tissue samples. GeneCards and MsigDB databases were used to find genes associated with the phenotype. In addition to differential expression analysis and principal component analysis (PCA), we also performed protein-protein interaction (PPI) analysis, functional enrichment analysis, hub gene analysis, upstream transcription factor prediction, and drug prediction. Results: Differentially expressed genes (DEGs) were classified into four categories: cardiomyocyte cytoskeletal protein inhibition, proto-oncogene activation and inflammation, mitochondrial dysfunction, and intracellular cytoplasmic physiological function. Each of the hub genes showed good diagnostic prediction, which was well validated in other datasets. Inhibited biological functions included cardiomyocyte cytoskeletal proteins, adenosine triphosphate (ATP) synthesis and electron transport chain (ETC), glucose metabolism, amino acid metabolism, fatty acid metabolism, pyruvate metabolism, citric acid cycle, nucleic acid metabolism, replication, transcription, translation, ubiquitination, autophagy, and cellular transport. Proto-oncogenes, inflammation, nuclear factor-kappaB (NF-κB) pathways, and interferon signaling were activated, as well as inflammatory factors. Viral infection activates multiple pathways, including the interferon pathway, proto-oncogenes and mitochondrial oxidative stress, while inhibiting cardiomyocyte backbone proteins and energy metabolism. Infection limits intracellular synthesis and metabolism, as well as the raw materials for mitochondrial energy synthesis. Mitochondrial dysfunction and energy abnormalities are ultimately caused by proto-oncogene activation and SARS-CoV-2 infection. Activation of the interferon pathway, proto-oncogene up-regulation, and mitochondrial oxidative stress cause the inflammatory response and lead to diminished cardiomyocyte contraction. Replication, transcription, translation, ubiquitination, autophagy, and cellular transport are among the functions that decline physiologically. Conclusion: SARS-CoV-2 infection in hiPSC-CMs is fundamentally mediated via mitochondrial dysfunction. Therapeutic interventions targeting mitochondrial dysfunction may alleviate the cardiovascular complications associated with SARS-CoV-2 infection. [ABSTRACT FROM AUTHOR]
- Published
- 2024
- Full Text
- View/download PDF
6. The role and clinical relevance of long non-coding RNAs in glioma
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Ilgiz Gareev, Manuel de Jesus Encarnacion Ramirez, Renat Nurmukhametov, Denis Ivliev, Alina Shumadalova, Tatiana Ilyasova, Aferin Beilerli, and Chunlei Wang
- Subjects
Non-coding RNAs ,Long non-coding RNAs ,Glioma ,Biological significance ,Therapeutic targets ,Genetics ,QH426-470 - Abstract
Glioma represents a complex and heterogeneous disease, posing significant challenges to both clinicians and researchers. Despite notable advancements in glioma treatment, the overall survival rate for most glioma patients remains dishearteningly low. Hence, there is an urgent necessity to discover novel biomarkers and therapeutic targets specifically tailored for glioma. In recent years, long non-coding RNAs (lncRNAs) have emerged as pivotal regulators of gene expression and have garnered attention for their involvement in the development and progression of various cancers, including glioma. The dysregulation of lncRNAs plays a critical role in glioma pathogenesis and influences clinical outcomes. Consequently, there is growing interest in exploring the potential of lncRNAs as diagnostic and prognostic biomarkers, as well as therapeutic targets. By understanding the functions and dysregulation of lncRNAs in glioma, researchers aim to unlock new avenues for the development of innovative treatment strategies catered to glioma patients. The identification and thorough characterization of lncRNAs hold the promise of novel therapeutic approaches that could potentially improve patient outcomes and enhance the management of glioma, ultimately striving for better prospects and enhanced quality of life for those affected by this challenging disease. The primary objective of this paper is to comprehensively review the current state of knowledge regarding lncRNA biology and their intricate roles in glioma. It also delves into the potential of lncRNAs as valuable diagnostic and prognostic indicators and explores their feasibility as promising targets for therapeutic interventions.
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- 2023
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7. Cortical type: a conceptual tool for meaningful biological interpretation of high-throughput gene expression data in the human cerebral cortex.
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Sancha-Velasco, Ariadna, Uceda-Heras, Alicia, and García-Cabezas, Miguel Ángel
- Subjects
CEREBRAL cortex ,GENE expression ,TEMPORAL lobe ,RESPONSE inhibition ,NEUROPLASTICITY - Abstract
The interpretation of massive high-throughput gene expression data requires computational and biological analyses to identify statistically and biologically significant differences, respectively. There are abundant sources that describe computational tools for statistical analysis of massive gene expression data but few address data analysis for biological significance. In the present article we exemplify the importance of selecting the proper biological context in the human brain for gene expression data analysis and interpretation. For this purpose, we use cortical type as conceptual tool to make predictions about gene expression in areas of the human temporal cortex. We predict that the expression of genes related to glutamatergic transmission would be higher in areas of simpler cortical type, the expression of genes related to GABAergic transmission would be higher in areas of more complex cortical type, and the expression of genes related to epigenetic regulation would be higher in areas of simpler cortical type. Then, we test these predictions with gene expression data from several regions of the human temporal cortex obtained from the Allen Human Brain Atlas. We find that the expression of several genes shows statistically significant differences in agreement with the predicted gradual expression along the laminar complexity gradient of the human cortex, suggesting that simpler cortical types may have greater glutamatergic excitability and epigenetic turnover compared to more complex types; on the other hand, complex cortical types seem to have greater GABAergic inhibitory control compared to simpler types. Our results show that cortical type is a good predictor of synaptic plasticity, epigenetic turnover, and selective vulnerability in human cortical areas. Thus, cortical type can provide a meaningful context for interpreting high-throughput gene expression data in the human cerebral cortex. [ABSTRACT FROM AUTHOR]
- Published
- 2023
- Full Text
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8. The Effect of Iron Oxide Nanoparticles on the Menaquinone-7 Isomer Composition and Synthesis of the Biologically Significant All- Trans Isomer.
- Author
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Lal, Neha, Seifan, Mostafa, Ebrahiminezhad, Alireza, and Berenjian, Aydin
- Subjects
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IRON oxide nanoparticles , *ISOMER synthesis , *ISOMERS , *VITAMIN K , *BACTERIAL growth - Abstract
Menaquinone-7 (MK-7) is the most therapeutically valuable K vitamin owing to its excellent bioavailability. MK-7 occurs as geometric isomers, and only all-trans MK-7 is bioactive. The fermentation-based synthesis of MK-7 entails various challenges, primarily the low fermentation yield and numerous downstream processing steps. This raises the cost of production and translates to an expensive final product that is not widely accessible. Iron oxide nanoparticles (IONPs) can potentially overcome these obstacles due to their ability to enhance fermentation productivity and enable process intensification. Nevertheless, utilisation of IONPs in this regard is only beneficial if the biologically active isomer is achieved in the greatest proportion, the investigation of which constituted the objective of this study. IONPs (Fe3O4) with an average size of 11 nm were synthesised and characterised using different analytical techniques, and their effect on isomer production and bacterial growth was assessed. The optimum IONP concentration (300 μg/mL) improved the process output and resulted in a 1.6-fold increase in the all-trans isomer yield compared to the control. This investigation was the first to evaluate the role of IONPs in the synthesis of MK-7 isomers, and its outcomes will assist the development of an efficient fermentation system that favours the production of bioactive MK-7. [ABSTRACT FROM AUTHOR]
- Published
- 2023
- Full Text
- View/download PDF
9. Cortical type: a conceptual tool for meaningful biological interpretation of high-throughput gene expression data in the human cerebral cortex
- Author
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Ariadna Sancha-Velasco, Alicia Uceda-Heras, and Miguel Ángel García-Cabezas
- Subjects
human neuroanatomy ,biological significance ,cerebral cortex ,excitation ,inhibition ,epigenetic regulation ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 ,Human anatomy ,QM1-695 - Abstract
The interpretation of massive high-throughput gene expression data requires computational and biological analyses to identify statistically and biologically significant differences, respectively. There are abundant sources that describe computational tools for statistical analysis of massive gene expression data but few address data analysis for biological significance. In the present article we exemplify the importance of selecting the proper biological context in the human brain for gene expression data analysis and interpretation. For this purpose, we use cortical type as conceptual tool to make predictions about gene expression in areas of the human temporal cortex. We predict that the expression of genes related to glutamatergic transmission would be higher in areas of simpler cortical type, the expression of genes related to GABAergic transmission would be higher in areas of more complex cortical type, and the expression of genes related to epigenetic regulation would be higher in areas of simpler cortical type. Then, we test these predictions with gene expression data from several regions of the human temporal cortex obtained from the Allen Human Brain Atlas. We find that the expression of several genes shows statistically significant differences in agreement with the predicted gradual expression along the laminar complexity gradient of the human cortex, suggesting that simpler cortical types may have greater glutamatergic excitability and epigenetic turnover compared to more complex types; on the other hand, complex cortical types seem to have greater GABAergic inhibitory control compared to simpler types. Our results show that cortical type is a good predictor of synaptic plasticity, epigenetic turnover, and selective vulnerability in human cortical areas. Thus, cortical type can provide a meaningful context for interpreting high-throughput gene expression data in the human cerebral cortex.
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- 2023
- Full Text
- View/download PDF
10. Dynamic scaling factor based differential evolution with multi-layer perceptron for gene selection from pathway information of microarray data.
- Author
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Ram, Pintu Kumar and Kuila, Pratyay
- Subjects
DIFFERENTIAL evolution ,GENES - Abstract
The microarray data contains the high volume of genes having multiple values of expressions and small number of samples. Therefore, the selection of gene from microarray data is an extremely challenging and important issue to analyze the biological behavior of features. In this context, dynamic scaling factor based differential evolution (DE) with multi-layer perceptron (MLP) is designed for selection of genes from pathway information of microarray data. At first DE is employed to select the relevant and lesser number of genes. Then MLP is used to build a classifier model over the selected genes. A suitable and efficient representation of vector is designed for DE. The fitness function is derived separately as T-score, classification accuracy and weight sum approach of both. Simulation and further analysis is performed in terms of sensitivity, specificity, accuracy and F-score. Moreover, statistical and biological analysis are also conducted. [ABSTRACT FROM AUTHOR]
- Published
- 2023
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11. Biological Significance of Dual Mutations A494D and E495K of the Genotype III Newcastle Disease Virus Hemagglutinin-Neuraminidase In Vitro and In Vivo.
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Lu, Xiaolong, Zhan, Tiansong, Liu, Kaituo, Chen, Yu, Hu, Zenglei, Hu, Jiao, Gu, Min, Hu, Shunlin, Wang, Xiaoquan, Liu, Xiaowen, and Liu, Xiufan
- Subjects
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NEWCASTLE disease virus , *MUTANT proteins , *GENOTYPES , *VIRAL shedding , *VIRAL replication , *PLANT viruses - Abstract
As a multifunctional protein, the hemagglutinin-neuraminidase (HN) protein of Newcastle disease virus (NDV) is involved in various biological functions. A velogenic genotype III NDV JS/7/05/Ch evolving from the mesogenic vaccine strain Mukteswar showed major amino acid (aa) mutations in the HN protein. However, the precise biological significance of the mutant HN protein remains unclear. This study sought to investigate the effects of the mutant HN protein on biological activities in vitro and in vivo. The mutant HN protein (JS/7/05/Ch-type HN) significantly enhanced the hemadsorption (HAd) and fusion promotion activities but impaired the neuraminidase (NA) activity compared with the original HN protein (Mukteswar-type HN). Notably, A494D and E495K in HN exhibited a synergistic role in regulating biological activities. Moreover, the mutant HN protein, especially A494D and E495K in HN, enhanced the F protein cleavage level, which can contribute to the activation of the F protein. In vitro infection assays further showed that NDVs bearing A494D and E495K in HN markedly impaired the cell viability. Simultaneously, A494D and E495K in HN enhanced virus replication levels at the early stage of infection but weakened later in infection, which might be associated with the attenuated NA activity and cell viability. Furthermore, the animal experiments showed that A494D and E495K in HN enhanced case fatality rates, virus shedding, virus circulation, and histopathological damages in NDV-infected chickens. Overall, these findings highlight the importance of crucial aa mutations in HN in regulating biological activities of NDV and expand the understanding of the enhanced pathogenicity of the genotype III NDV. [ABSTRACT FROM AUTHOR]
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- 2022
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12. The systematic out-branching (Dragon style) rivers under the perspective of connection between river morphology and ecology.
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Song, Xiaolong, Xu, Haijue, and Bai, Yuchuan
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RIVER ecology ,EXTRATERRESTRIAL life ,BIOLOGICAL evolution ,BIOSPHERE ,DRAGONS ,COEVOLUTION ,RIVER channels - Abstract
Coevolution of living things and their surroundings contributes to the biodiversity on Earth. Combining with the abiotic-biotic regulatory concept, the Gaia theory, and the philosophical view in ancient China, we believe the physical river evolution must somehow takes on biological evolution characteristics, and the river biosphere could be an anti-entropic system and develop towards the higher beings. Here, beyond the traditional understanding of river, we redefine a kind of systematic out-branching (Dragon style) river which is characterized by a systematic connection between the stable, unobstructed main-channel and the active, open, abducent out-branches under some high-resistant environmental conditions (especially in tropical and polar zones). It has the potential to help detect the signatures of life on other planets which are similar in river landscape to Earth. [ABSTRACT FROM AUTHOR]
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- 2022
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13. Mechanisms of gene regulation by histone degradation in adaptation of yeast: an overview of recent advances.
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Khan, Safir Ullah, Khan, Munir Ullah, Kalsoom, Fadia, Khan, Muhammad Imran, Gao, Shuang, Unar, Ahsanullah, Zubair, Muhammad, and Bilal, Muhammad
- Abstract
Histones are important component of eukaryotic cells chromatin and consist of arginine and lysine residues. Histones play an important role in the protection of DNA. Their contents significantly affect high-level chromatin structure formation, gene expression, DNA replication, and other important life activities. Protein degradation is an important regulatory mechanism of histone content. Recent studies have revealed that modification of amino acid sequence is directly related to histone breakdown. In addition, histone degradation is closely related to covalent modifications, such as ubiquitination and acetylation, which are considered to be driving factors in gene regulation. Gene regulation is an important mechanism in adaptation to the environment and survival of species. With the introduction of highly efficient technology, various mutations in histones have been identified in yeast. In the field of epigenetics and the transmission of chromatin states, two widely used model organisms are the budding yeast Saccharomyces cerevisiae and Schizosaccharomyces pombe. Higher eukaryotes can use their silent loci to maintain their epigenetic states and providing the base to investigate mechanisms underlying development. Therfore, both species have contributed a plethora of information on these mechanisms in both yeast and higher eukaryotes. This study focuses on the role of histone modifications in controlling telomeric silencing in Saccharomyces cerevisiae and centromeric silencing in S. pombe as examples of genetic loci that demonstrate epigenetic inheritance. In view of recent advances, this review focuses on the post-translational modification of histone amino acid residues and reviews the relationship between histone degradation and amino acid residue modification. [ABSTRACT FROM AUTHOR]
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- 2022
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14. Carbinol Derivatives of N‐(α‐Hydroxybenzyl)benzamide: Acid and Base‐Dependent Kinetics in Water and the Mechanistic Implications for Carbinolamide Reactivity.
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Tyminski, Kurt S., Stewart, Sarah C., and Nagorski, Richard W.
- Subjects
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HYDROXYL group , *CHEMICAL kinetics , *AMIDE derivatives , *ACIDS , *HYDROXIDES - Abstract
The kinetics of the aqueous reaction, between pH values of 0–4 & 7–14, have been determined for a series of carbinol substituted N‐(α‐hydroxybenzyl)benzamide derivatives (5), in H2O, at 25 °C, I=1.0 M (KCl). The carbinol derivatives of 5 were found to react via two mechanisms. Between pH values of 0 to 4, an acid‐catalyzed mechanism was found and under neutral/basic conditions the carbinolamides reacted by a specific‐base catalyzed mechanism (E1cB‐like mechanism). No evidence for mechanistic variation of the acid and base‐catalyzed reactions based upon the carbinol substituent was found. The rate constants are reported for the acid‐catalyzed (kH, ρ=−1.89), the apparent second‐order hydroxide rate constant (k'1, ρ=−0.16), hydroxide limiting rate (k1, ρ=−0.93) and the pKa's of the hydroxyl group (ρ=0.77) for seven carbinol substituted derivatives of 5. The ρ‐values for the carbinol derivatives of 5 will be compared to the previously reported ρ‐values for the structurally similar amide substituted derivatives. [ABSTRACT FROM AUTHOR]
- Published
- 2021
- Full Text
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15. Overexpression of GINS4 Is Associated With Tumor Progression and Poor Survival in Hepatocellular Carcinoma
- Author
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Ziying Zhang, Peng Chen, Hui Xie, and Peiguo Cao
- Subjects
hepatocellular carcinoma ,GINS4 ,expression ,prognosis ,biological significance ,Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,RC254-282 - Abstract
PurposeOur research was aimed to identify the expression, clinical value and biological significance of GINS complex subunit 4 (GINS4) in hepatocellular carcinoma (HCC).Materials and MethodsGINS4 was initially screened through weighted gene co-expression network analysis (WGCNA). The TCGA, GEO, and TIMER databases were applied for analyzing the GINS4 mRNA expression in HCC. GINS4 protein levels were detected via immunohistochemistry (IHC). Receiver operating characteristic (ROC) curve was applied for estimating the diagnostic significance of GINS4 in HCC. Kaplan-Meier plots, Cox model, and nomogram were used to assess the prognostic performance of GINS4 in HCC. Nomogram validation was conducted through time-dependent ROC and decision curve analysis (DCA). The Wanderer, UALCAN, and DiseaseMeth databases were utilized to identify GINS4 methylation levels in HCC. Genes co-expressed with GINS4 in HCC were estimated through the TCGA, cBioPortal, and GEPIA. GO, KEGG, and GSEA unraveled the possible biological mechanisms of GINS4 in HCC.ResultsWGCNA confirmed that GINS4 was one of hub genes significantly associated with histological grade of HCC. Multiple databases confirmed the significant upregulation of GINS4 in HCC tissues compared with non-tumor controls. IHC analysis of 35 HCC patients demonstrated that overexpressed GINS4 positively correlated with advanced TNM stage and poor pathological differentiation. GINS4 could effectively differentiate HCC cases from healthy individuals, with an AUC of 0.865. Increased GINS4 expression predicted unsatisfactory prognosis in HCC patients, especially in age >60 years, histological grade 1, HBV infection-negative, and occurring relapse subgroup. Nomogram incorporating GINS4 level and TNM stage displayed satisfactory predictive accuracy and clinical utility in predicting HCC prognosis. Upregulated GINS4 exhibited hypomethylated levels in HCC. Functional analysis indicated that GINS4 potentially positively modulated cell cycle and PI3K/AKT/mTOR pathway.ConclusionGINS4 is overexpressed in HCC and is correlated with undesirable survival of HCC patients.
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- 2021
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16. Overexpression of GINS4 Is Associated With Tumor Progression and Poor Survival in Hepatocellular Carcinoma.
- Author
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Zhang, Ziying, Chen, Peng, Xie, Hui, and Cao, Peiguo
- Subjects
HEPATOCELLULAR carcinoma ,CANCER invasiveness ,RECEIVER operating characteristic curves ,DECISION making ,GENE regulatory networks - Abstract
Purpose: Our research was aimed to identify the expression, clinical value and biological significance of GINS complex subunit 4 (GINS4) in hepatocellular carcinoma (HCC). Materials and Methods: GINS4 was initially screened through weighted gene co-expression network analysis (WGCNA). The TCGA, GEO, and TIMER databases were applied for analyzing the GINS4 mRNA expression in HCC. GINS4 protein levels were detected via immunohistochemistry (IHC). Receiver operating characteristic (ROC) curve was applied for estimating the diagnostic significance of GINS4 in HCC. Kaplan-Meier plots, Cox model, and nomogram were used to assess the prognostic performance of GINS4 in HCC. Nomogram validation was conducted through time-dependent ROC and decision curve analysis (DCA). The Wanderer, UALCAN, and DiseaseMeth databases were utilized to identify GINS4 methylation levels in HCC. Genes co-expressed with GINS4 in HCC were estimated through the TCGA, cBioPortal, and GEPIA. GO, KEGG, and GSEA unraveled the possible biological mechanisms of GINS4 in HCC. Results: WGCNA confirmed that GINS4 was one of hub genes significantly associated with histological grade of HCC. Multiple databases confirmed the significant upregulation of GINS4 in HCC tissues compared with non-tumor controls. IHC analysis of 35 HCC patients demonstrated that overexpressed GINS4 positively correlated with advanced TNM stage and poor pathological differentiation. GINS4 could effectively differentiate HCC cases from healthy individuals, with an AUC of 0.865. Increased GINS4 expression predicted unsatisfactory prognosis in HCC patients, especially in age >60 years, histological grade 1, HBV infection-negative, and occurring relapse subgroup. Nomogram incorporating GINS4 level and TNM stage displayed satisfactory predictive accuracy and clinical utility in predicting HCC prognosis. Upregulated GINS4 exhibited hypomethylated levels in HCC. Functional analysis indicated that GINS4 potentially positively modulated cell cycle and PI3K/AKT/mTOR pathway. Conclusion: GINS4 is overexpressed in HCC and is correlated with undesirable survival of HCC patients. [ABSTRACT FROM AUTHOR]
- Published
- 2021
- Full Text
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17. Natural product sciences: an integrative approach to the innovations of plant natural products.
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Shen, Yuemao and Hao, Xiaojiang
- Abstract
The study on plant natural products not only helps us understand that their structural diversity is the inevitable result of plant species diversity, but also helps us understand certain rules and unity of the inevitable connection between the two. The diversity and complexity of chemical structures of many natural products are beyond imagination before we elucidated their structures. The question that follows is what is the biological significance of these natural products. Intrigued by the relationship between plant resources, natural products and biological functions, the Hao laboratory has taken an integrative approach that employs tools and knowledge from multi-disciplines, including natural product chemistry, chemical ecology and chemical biology, to unveil the effects of plant natural products on plant resistance to diseases, and environmental acclimations. Collaborating with cell biologists, the research has resulted in discovery of new mechanisms of cellular signaling and lead compounds. [ABSTRACT FROM AUTHOR]
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- 2020
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18. The tox is in the detail: technical fundamentals for designing, performing, and interpreting experiments on toxicity of microplastics and associated substances.
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Heinrich, Patrick, Hanslik, Lisa, Kämmer, Nadine, and Braunbeck, Thomas
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PLASTIC marine debris ,POLLUTANTS ,EXPERIMENTAL design ,EXPERIMENTS ,INGESTION - Abstract
Over the last 10 years, there has been a plethora of experimental studies estimating the potential of microplastic particles (MPs) to exert toxic effects in the environment, many specifically focusing on their postulated capacity to enhance the transfer of environmental pollutants into organisms after ingestion. Obviously, there is little to no consensus on appropriate experimental design, which is mainly owing to the novelty, the interdisciplinarity of the subject, and the complexity of parameters involved. This results in fundamental discrepancies regarding the materials applied, the approach for spiking MPs with pollutants, and the exact exposure scenario. Aiming for a non-chemist audience and providing illustrative, representative, and comparative examples, this review first outlines the theoretical essentials of processes involved in sorption. Also, it discusses the implications for designing experimental approaches using MPs and interpreting the results obtained under consideration of their relevance for environmental conditions. It may help to improve the interpretation of studies on MP toxicity already published, while also calling experimenters' attention to various aspects important to consider when designing and performing environmentally relevant experiments with MPs. [ABSTRACT FROM AUTHOR]
- Published
- 2020
- Full Text
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19. Revealing the biological significance of multiple metabolic pathways of chloramphenicol by Sphingobium sp. WTD-1.
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Gao, Yongsheng, Chen, Yao, Zhu, Fang, Pan, Dandan, Huang, Junwei, and Wu, Xiangwei
- Subjects
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CHLORAMPHENICOL , *SCISSION (Chemistry) , *CYTOTOXINS , *ACETYLATION , *POLLUTANTS - Abstract
Chloramphenicol (CAP) is an antibiotic that commonly pollutes the environment, and microorganisms primarily drive its degradation and transformation. Although several pathways for CAP degradation have been documented in different bacteria, multiple metabolic pathways in the same strain and their potential biological significance have not been revealed. In this study, Sphingobium WTD-1, which was isolated from activated sludge, can completely degrade 100 mg/L CAP within 60 h as the sole energy source. UPLC-HRMS and HPLC analyses showed that three different pathways, including acetylation, hydroxyl oxidation, and oxidation (C1-C2 bond cleavage), are responsible for the metabolism of CAP. Importantly, acetylation and C3 hydroxyl oxidation reduced the cytotoxicity of the substrate to strain WTD-1, and the C1-C2 bond fracture of CAP generated the metabolite p -nitrobenzoic acid (PNBA) to provide energy for its growth. This indicated that the synergistic action of three metabolic pathways caused WTD-1 to be adaptable and able to degrade high concentrations of CAP in the environment. This study deepens our understanding of the microbial degradation pathway of CAP and highlights the biological significance of the synergistic metabolism of antibiotic pollutants by multiple pathways in the same strain. [Display omitted] • An efficient CAP-degrading strain Sphingobium sp. WTD-1 was isolated. • Coexistence of CAP acetylation, hydroxyl oxidation, and oxidation in strain WTD-1. • The biological significance of multiple metabolic pathways of CAP was revealed. • Strain WTD-1 is a promising candidate for practical bioremediation of wastewater. [ABSTRACT FROM AUTHOR]
- Published
- 2024
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20. Recent progress in the chemistry of heterocycles incorporated oxazolo[4,5-b]pyridine and oxazolo[5,4-b]pyridine skeletons.
- Author
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Monier, Mohamed, Abdel-Latif, Doaa, El-Mekabaty, Ahmed, and Elattar, Khaled M.
- Subjects
- *
ORGANIC chemistry , *PHARMACEUTICAL chemistry , *SKELETON , *CHEMISTRY , *PROGRESS - Abstract
The present study describes recent advances in the chemistry of heterocycles incorporated oxazolo[4,5-b]pyridine and oxazolo[5,4-b]pyridine skeletons. The main sections included the synthesis of the investigated compounds from readily accessible aminopyridinol derivatives or aminopyridines. The reactivity of substituents attached to ring carbon or nitrogen atoms were discussed. In addition, the synthetic and biological evaluation of the inspected oxazolopyridines were highlighted. The purpose of this review is to discuss the chemistry of the title so far. The present study will support researchers in the fields of organic and medicinal chemistry to design and develop new protocols for the construction of new biological components. [ABSTRACT FROM AUTHOR]
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- 2020
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21. Long Noncoding RNAs and Human Liver Disease
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Glenn S. Gerhard and Johanna K. DiStefano
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Nonalcoholic steatohepatitis ,Human liver ,Genome, Human ,Disease ,Computational biology ,Biology ,medicine.disease ,Genome ,Article ,Pathology and Forensic Medicine ,Liver disease ,Non-alcoholic Fatty Liver Disease ,Biological significance ,medicine ,Humans ,RNA, Long Noncoding ,Human genome ,Cholestatic liver disease - Abstract
Long noncoding RNAs (lncRNAs) are pervasively transcribed in the genome, exhibit a diverse range of biological functions, and exert effects through a variety of mechanisms. The sheer number of lncRNAs in the human genome has raised important questions about their potential biological significance and roles in human health and disease. Technological and computational advances have enabled functional annotation of a large number of lncRNAs. Though the number of publications related to lncRNAs has escalated in recent years, relatively few have focused on those involved in hepatic physiology and pathology. We provide an overview of evolving lncRNA classification systems and characteristics and highlight important advances in our understanding of the contribution of lncRNAs to liver disease, with a focus on nonalcoholic steatohepatitis, hepatocellular carcinoma, and cholestatic liver disease. Expected final online publication date for the Annual Review of Pathology: Mechanisms of Disease, Volume 17 is January 2022. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.
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- 2022
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22. Asymmetric hydrogenation of 1,4-diketones: facile synthesis of enantiopure 1,4-diarylbutane-1,4-diols
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Fanping Huang, Jiang Wang, Jingyuan Song, Xumu Zhang, and Pan-Lin Shao
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Chemistry ,Ligand ,Asymmetric hydrogenation ,Metals and Alloys ,chemistry.chemical_element ,General Chemistry ,Combinatorial chemistry ,Catalysis ,Surfaces, Coatings and Films ,Electronic, Optical and Magnetic Materials ,Enantiopure drug ,Biological significance ,Materials Chemistry ,Ceramics and Composites ,Iridium - Abstract
Owing to the biological significance and great synthetic value of 1,4-diarylbutane-1,4-diols and derivatives, increasingly considerable attention has been paid to developing effective synthetic methods for chiral 1,4-diarylbutane-1,4-diols. We herein report an efficient asymmetric hydrogenation of 1,4-diaryldiketones catalyzed by chiral iridium complex bearing f-amphox as ligand, furnishing a series of 1,4-diarylbutane-1,4-diols in superb yields (up to >99%) with exceptional enantioselectivities (up to >99.9% ee) and diastereoselectivities (up to >100:1 dr).
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- 2022
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23. Microbial biotransformation of bioactive and clinically useful steroids and some salient features of steroids and biotransformation.
- Author
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Sultana, Nighat
- Subjects
- *
BIOTRANSFORMATION in microorganisms , *STEROIDS , *BIOACTIVE compounds , *CYCLIC compounds , *ENZYMES - Abstract
Steroids are perhaps one of the most widely used group of drugs in present day. Beside the established utilization as immunosuppressive, anti-inflammatory, anti-rheumatic, progestational, diuretic, sedative, anabolic and contraceptive agents, recent applications of steroid compounds include the treatment of some forms of cancer, osteoporosis, HIV infections and treatment of declared AIDS. Steroids isolated are often available in minute amounts. So biotransformation of natural products provides a powerful means in solving supply problems in clinical trials and marketing of the drug for obtaining natural products in bulk amounts. If the structure is complex, it is often an impossible task to isolate enough of the natural products for clinical trials. The microbial biotransformation of steroids yielded several novel metabolites, exhibiting different activities. The metabolites produced from pregnenolone acetate by Cunning hamella elegans and Rhizopus stolonifer were screened against tyrosinase and cholinesterase showed significant inhibitory activities than the parent compound. Diosgenin and its transformed sarsasapogenin were screened for their acetyl cholinesterase and butyryl cholinesterase inhibitory activities. Sarsasapogenin was screened for phytotoxicity, and was found to be more active than the parent compound. Diosgenin, prednisone and their derivatives were screened for their anti-leishmanial activity. All derivatives were found to be more active than the parent compound. The biotransformation of steroids have been reviewed to a little extent. This review focuses on the biotransformation and functions of selected steroids, the classification, advantages and agents of enzymatic biotransformation and examines the potential role of new enzymatically transformed steroids and their derivatives in the chemoprevention and treatment of other diseases. tyrosinase and cholinesterase inhibitory activities, severe asthma, rheumatic disorders, renal disorders and diseases of inflammatory bowel, skin, gastrointestinal tract. [ABSTRACT FROM AUTHOR]
- Published
- 2018
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24. Benzimidazole Ring System as a Privileged Template for Anticancer Agents.
- Author
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Kanwal, Afshan, Saddique, Furqan Ahmad, Aslam, Sana, Ahmad, Matloob, Zahoor, Ameer Fawad, and Mohsin, Noor-ul-Amin
- Subjects
- *
ANTINEOPLASTIC agents , *BENZIMIDAZOLES , *CHEMICAL templates , *MEDICAL laboratories , *DRUG toxicity , *THERAPEUTICS - Abstract
Cancer still remains a continued threat for human race in the 21st century. It is the major cause of human casualties globally and is thus, a hot topic of research in medicinal laboratories. Scientists are striving to find selective anticancer agents having low toxicity for normal human cells. Heterocyclic ring systems play key role as templates/pharmacophores for various drugs, and benzimidazole ring is especially important for its anticancer derivatives. In this review article, we have focused on the structural features of anticancer derivatives based on benzimidazole ring system. It highlights various benzimidazole-based anticancer compounds which have been developed in recent years. [ABSTRACT FROM AUTHOR]
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- 2018
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25. Models of pancreatic ductal adenocarcinoma
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Kay Uwe Wagner, Hridaya Shrestha, and Rayane Dennaoui
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Cancer Research ,Pancreatic ductal adenocarcinoma ,MYC ,Biology ,Adenocarcinoma ,medicine.disease_cause ,Article ,Metastasis ,Pancreatic cancer ,medicine ,KRAS ,Dormancy ,Animals ,Humans ,Genetically engineered ,Cancer ,medicine.disease ,Pancreatic Neoplasms ,Disease Models, Animal ,Oncology ,Biological significance ,Cancer research ,Carcinoma, Pancreatic Ductal ,Signal Transduction - Abstract
Although pancreatic cancer remains to be a leading cause of cancer-related deaths in many industrialized countries, there have been major advances in research over the past two decades that provided a detailed insight into the molecular and developmental processes that govern the genesis of this highly malignant tumor type. There is a continuous need for the development and analysis of preclinical and genetically engineered pancreatic cancer models to study the biological significance of new molecular targets that are identified using various genome-wide approaches and to better understand the mechanisms by which they contribute to pancreatic cancer onset and progression. Following an introduction into the etiology of pancreatic cancer, the molecular subtypes, and key signaling pathways, this review provides an overview of the broad spectrum of models for pancreatic cancer research. In addition to conventional and patient-derived xenografting, this review highlights major milestones in the development of chemical carcinogen-induced and genetically engineered animal models to study pancreatic cancer. Particular emphasis was placed on selected research findings of ligand-controlled tumor models and current efforts to develop genetically engineered strains to gain insight into the biological functions of genes at defined developmental stages during cancer initiation and metastatic progression.
- Published
- 2021
26. Biological Significance of Dual Mutations A494D and E495K of the Genotype III Newcastle Disease Virus Hemagglutinin-Neuraminidase In Vitro and In Vivo
- Author
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Xiaolong Lu, Tiansong Zhan, Kaituo Liu, Yu Chen, Zenglei Hu, Jiao Hu, Min Gu, Shunlin Hu, Xiaoquan Wang, Xiaowen Liu, and Xiufan Liu
- Subjects
Infectious Diseases ,HN Protein ,Hemagglutinins ,Genotype ,Virology ,Newcastle disease virus ,vaccine strain ,genotype III ,hemagglutinin-neuraminidase protein ,biological significance ,Mutation ,Animals ,Neuraminidase ,Chickens - Abstract
As a multifunctional protein, the hemagglutinin-neuraminidase (HN) protein of Newcastle disease virus (NDV) is involved in various biological functions. A velogenic genotype III NDV JS/7/05/Ch evolving from the mesogenic vaccine strain Mukteswar showed major amino acid (aa) mutations in the HN protein. However, the precise biological significance of the mutant HN protein remains unclear. This study sought to investigate the effects of the mutant HN protein on biological activities in vitro and in vivo. The mutant HN protein (JS/7/05/Ch-type HN) significantly enhanced the hemadsorption (HAd) and fusion promotion activities but impaired the neuraminidase (NA) activity compared with the original HN protein (Mukteswar-type HN). Notably, A494D and E495K in HN exhibited a synergistic role in regulating biological activities. Moreover, the mutant HN protein, especially A494D and E495K in HN, enhanced the F protein cleavage level, which can contribute to the activation of the F protein. In vitro infection assays further showed that NDVs bearing A494D and E495K in HN markedly impaired the cell viability. Simultaneously, A494D and E495K in HN enhanced virus replication levels at the early stage of infection but weakened later in infection, which might be associated with the attenuated NA activity and cell viability. Furthermore, the animal experiments showed that A494D and E495K in HN enhanced case fatality rates, virus shedding, virus circulation, and histopathological damages in NDV-infected chickens. Overall, these findings highlight the importance of crucial aa mutations in HN in regulating biological activities of NDV and expand the understanding of the enhanced pathogenicity of the genotype III NDV.
- Published
- 2022
27. Production of an active Mus musculus IL-3 using updated silkworm-based baculovirus expression vector system
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Tsuguru Fujii, Masahiro Kawahara, Tatphon Kongkrongtong, Hiroaki Mon, Takeru Ebihara, Kohei Kakino, Jae Man Lee, Akitsu Masuda, Ryo Nagai, Noriho Kamiya, Kosuke Minamihata, Jian Xu, and Takahiro Kusakabe
- Subjects
Baculovirus expression vector system ,law ,Biological significance ,Insect Science ,Recombinant DNA ,Interleukin ,Biology ,Protein expression ,Cell biology ,law.invention - Abstract
Due to the biological significance and therapeutic potential of Interleukin-3 (IL-3) secreted mainly by activated T cells, various protein expression systems have been challenged to produce recombinant IL3 to meet the increasing demands worldwide. Recently, we established an updated silkworm-based baculovirus expression vector system (silkworm-BEVS), which in most cases, produces eukaryotic proteins in biological or enzymatical active forms with considerable amounts. We attempted to reconstruct and express a recombinant mouse IL-3 (rMmIL-3) with C-terminal His8-Strep tags in silkworm-BEVS in the current study. From our results, we gained an active glycosylated rMmIL-3 protein in a substantial amount and quality. As compared with the E. coli expression system, silkworm-BEVS is a better choice regarding the glycosylations attached in rMmIL-3 and up-scalable system in case that a commercial amount is required in the future. Collectively, our method shares an excellent model to produce interleukin molecular for approaching pharmaceutical applications.
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- 2021
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28. Predicting immunotherapy outcomes under therapy in patients with advanced NSCLC using dNLR and its early dynamics
- Author
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Diana Saravia, Andrew J. Plodkowski, Annapaola Mariniello, Benjamin Besse, Lizza E.L. Hendriks, Maria Lucia Reale, Fabrizio Tabbò, Gilberto Lopes, Lydie Cassard, Anne-Marie C. Dingemans, Kathryn C. Arbour, Matthew D. Hellmann, Margarita Majem, Hira Rizvi, Edouard Auclin, Jeffrey Girshman, Silvia Novello, M. Naigeon, Simona Carnio, Nathalie Cozic, F. Blanc-Durand, Laura Mezquita, Clarisse Audigier-Valette, Peter Sawan, Paolo Bironzo, Nathalie Chaput, Jose Carlos Ruffinelli, Luis Paz-Ares, Patricia Martin-Romano, Ernest Nadal, Melinda Charrier, Wungki Park, Isabel Ruth Preeshagul, David Planchard, Santiago Ponce, Gérard Zalcman, Caroline Rossoni, Pulmonologie, MUMC+: MA Med Staf Spec Longziekten (9), RS: GROW - R3 - Innovative Cancer Diagnostics & Therapy, and Pulmonary Medicine
- Subjects
0301 basic medicine ,Oncology ,Male ,Cancer Research ,Lung Neoplasms ,Time Factors ,Neutrophils ,medicine.medical_treatment ,NSCLC ,Leukocyte Count ,0302 clinical medicine ,Immunophenotyping ,MARKERS ,Carcinoma, Non-Small-Cell Lung ,Prospective Studies ,Immune Checkpoint Inhibitors ,DOCETAXEL ,Aged, 80 and over ,Middle Aged ,Flow Cytometry ,Europe ,Phenotype ,Treatment Outcome ,Docetaxel ,030220 oncology & carcinogenesis ,Biomarker (medicine) ,Female ,Immunotherapy ,Biomarker ,dNLR ,Nivolumab ,medicine.drug ,Adult ,medicine.medical_specialty ,BIOMARKERS ,03 medical and health sciences ,Young Adult ,SDG 3 - Good Health and Well-being ,Predictive Value of Tests ,Internal medicine ,medicine ,Humans ,In patient ,CELL ,Lung cancer ,Aged ,Retrospective Studies ,business.industry ,NIVOLUMAB ,medicine.disease ,United States ,030104 developmental biology ,Biological significance ,Drug Resistance, Neoplasm ,INHIBITORS ,business - Abstract
Background: dNLR at the baseline (B), defined by neutrophils/[leucocytes-neutrophils], correlates with immune-checkpoint inhibitor (ICI) outcomes in advanced non-small-cell lung cancer (aNSCLC). However, dNLR is dynamic under therapy and its longitudinal assessment may provide data predicting efficacy. We sought to examine the impact of dNLR dynamics on ICI efficacy and understand its biological significance. Patients and methods: aNSCLC patients receiving ICI at 17 EU/US centres were included [Feb/13-Jun/18]. As chemotherapy-only group was evaluated (NCT02105168). dNLR was determined at (B) and at cycle2 (C2) [dNLR
- Published
- 2021
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29. The Size of an Explored Space Is Reflected Differently in the Activity of Different Subregions of the Hippocampus along Its Septotemporal Axis
- Author
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P. A. Kuptsov, Pleskacheva Mg, and Konstantin V. Anokhin
- Subjects
Repeat testing ,General Neuroscience ,Hippocampus ,Biology ,Hippocampal formation ,medicine.anatomical_structure ,nervous system ,Biological significance ,medicine ,Hippocampal neuron ,Spatial representation ,Neuron ,Longitudinal axis ,Neuroscience - Abstract
Functional differentiation of the hippocampus along its longitudinal septotemporal axis is beyond doubt, though the factors determining this subregional specificity remain controversial. The spatial specificity gradient of hippocampal place cells decreases along its longitudinal axis from the septal pole to the temporal area. This difference in the scale of spatial representation suggests differences in the involvement of neurons in these subregions in the exploration and mapping of territories of different sizes. Using c-Fos as a marker for hippocampal neuron activation in novel environments, we studied the influences of exploration of arenas of different sizes on neuron activation in the septal and temporal subregions of fields CA1 and CA3 and the dentate fascia (DF) in C57BL/6 mice. The results of these studies showed that expression intensity was influenced by arena size, and a relationship between subregion activation factors and area size was found. Elevated c-Fos expression was seen only in the temporal part of the hippocampus, while significant changes in activation were noted in field CA3 and the DF in mice exploring the largest arena. c-Fos expression in the septal subregions showed no differences in arenas of different sizes. However, repeat testing of animals in an arena of a different size led to additional activation of expression in the temporal part of CA3 and the septal part of the DF. High neuron activity in the temporal subregion of the hippocampus may be due not only to the size of the arena explored, but also to the greater indeterminacy of a large space in terms of the biological significance of its different areas.
- Published
- 2021
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30. Bioinspired Heterocyclic Compounds as Corrosion Inhibitors: A Comprehensive Review
- Author
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Mumtaz A. Quraishi, Lipiar K. M. O. Goni, Mohammad A. Jafar Mazumder, and Mohammad Mizanur Rahman
- Subjects
Azoles ,Industrial equipment ,Pyridines ,Triazines ,010405 organic chemistry ,Chemistry ,business.industry ,Organic Chemistry ,Fossil fuel ,General Chemistry ,010402 general chemistry ,01 natural sciences ,Biochemistry ,Desalination ,0104 chemical sciences ,Corrosion ,Pyrimidines ,Heterocyclic Compounds ,Metals ,Biological significance ,Biochemical engineering ,business ,Control methods - Abstract
Corrosion is a phenomenon that devastatingly affects innovative, industrial, and mechanical applications, especially in the oil and gas industries. The corrosion conceivably influences industrial equipment; it deteriorates the environment and lessens the equipment/infrastructure's lifetime. Considering the significant impact of corrosion in our daily lives, this review article aims to briefly discuss the significance of corrosion and different control methods with special attention on corrosion inhibitors. The classification of corrosion inhibitors based on types and their advantage/limitations, and heterocyclic compounds as potential corrosion inhibitors, mainly nitrogen-based compounds (pyridine (1N), pyrimidine (2N), and triazines (3N) fused ring benzimidazole, etc.), and their biological significance has been discussed in detail. The mechanism, challenges, and applications of heterocyclic compounds as corrosion inhibitors in various industrial relevant corrosive environments such as acid pickling, descaling operation in the desalination plant, oil gas industry, etc., have also been highlighted in the review.
- Published
- 2021
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31. Oxycytosis and the role of triboelectricity and oxidation in bacteria clearing from the bloodstream
- Author
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Hayk Minasyan
- Subjects
0301 basic medicine ,Review Paper ,Innate immune system ,biology ,Chemistry ,Phagocytosis ,030106 microbiology ,phagocytosis ,oxycytosis ,medicine.disease ,biology.organism_classification ,Microbiology ,sepsis ,03 medical and health sciences ,030104 developmental biology ,Biological significance ,Bacteremia ,medicine ,bacteremia ,Pathogen ,innate immunity ,Triboelectric effect ,Bacteria - Abstract
Until recently, little was known about the mechanism for killing and clearing bacteria from the bloodstream. Leukocyte phagocytosis could not be a mechanism for catching, killing and removing bacteria from the bloodstream because of many reasons. Recently accumulated data have led to the conclusion that in bacteremia, bacteria are quickly removed from the blood and erythrocytes are the main cells that capture, kill and remove bacteria. Data were also obtained that erythrocytes catch bacteria by triboelectric charge attraction and kill them by oxygen released from oxyhemoglobin. This phenomenon has been named oxycytosis by analogy with the term phagocytosis. Oxycytosis has been discussed in a number of published articles, but the specific mechanism of triboelectric charging and the mechanism of killing bacteria by oxidation, have not yet been detailed. The purpose of this review is to provide a more detailed explanation of the process of triboelectric charging and capture of bacteria by erythrocytes and destruction of bacteria by oxidation. For the first time, the review presents various variants of oxycytosis (two-stage, three-stage, multi-stage), depending on the resistance of the pathogen to oxidation. The review also discusses the biological significance of oxycytosis and its impact on the understanding of bacteremia and sepsis.
- Published
- 2021
32. Spectral phenotyping of embryonic development reveals integrative thermodynamic responses
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John I. Spicer, Simon D. Rundle, Oliver Tills, and Ziad Ibbini
- Subjects
0106 biological sciences ,QH301-705.5 ,Computer applications to medicine. Medical informatics ,R858-859.7 ,Embryonic Development ,Aquatic embryo ,High dimensional ,Computational biology ,Biology ,010603 evolutionary biology ,01 natural sciences ,Biochemistry ,03 medical and health sciences ,Structural Biology ,High dimensional organismal phenotyping ,Biology (General) ,Molecular Biology ,030304 developmental biology ,0303 health sciences ,Invertebrate development ,Research ,Applied Mathematics ,Temperature ,Computer Science Applications ,Energy proxy traits ,Phenotype ,Biological significance ,Life History Stages - Abstract
Background Energy proxy traits (EPTs) are a novel approach to high dimensional organismal phenotyping that quantify the spectrum of energy levels within different temporal frequencies associated with mean pixel value fluctuations from video. They offer significant potential in addressing the phenotyping bottleneck in biology and are effective at identifying lethal endpoints and measuring specific functional traits, but the extent to which they might contribute additional understanding of the phenotype remains unknown. Consequently, here we test the biological significance of EPTs and their responses relative to fundamental thermodynamic principles. We achieve this using the entire embryonic development of Radix balthica, a freshwater pond snail, at different temperatures (20, 25 & 30 °C) and comparing responses against predictions from Arrhenius’ equation (Q10 = 2). Results We find that EPTs are thermally sensitive and their spectra of frequency response enable effective high-dimensional treatment clustering throughout organismal development. Temperature-specific deviation in EPTs from thermodynamic predictions were evident and indicative of physiological mitigation, although they differed markedly in their responses from manual measures. The EPT spectrum was effective in capturing aspects of the phenotype predictive of biological outcomes, and suggest that EPTs themselves may reflect levels of energy turnover. Conclusions Whole-organismal biology is incredibly complex, and this contributes to the challenge of developing universal phenotyping approaches. Here, we demonstrate the biological relevance of a new holistic approach to phenotyping that is not constrained by preconceived notions of biological importance. Furthermore, we find that EPTs are an effective approach to measuring even the most dynamic life history stages.
- Published
- 2021
33. Use of Mathematical Methods for the Biosafety Assessment of Agricultural Crops
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I. V. Yakovleva, Eugene V. Korotkov, and A. M. Kamionskaya
- Subjects
dynamic programming ,gene-edited plants ,fungi ,food and beverages ,biosafety ,alignment ,full genomes ,Genetically modified crops ,mutations ,Applied Microbiology and Biotechnology ,Biochemistry ,Genome ,Article ,Biosafety ,Biological safety ,Risk analysis (engineering) ,Biological significance ,insertions ,Business ,transgenic crops ,safe design ,Risk assessment ,Agricultural crops - Abstract
In Russia and around the world, there are important questions regarding the potential threats to national and biological safety created by genetic technologies and the need to improve or introduce new, justified, and adequate measures for their control, regulation, and prevention. The article shows that a significant volume of the global market is occupied by five major transgenic crops, and producers are ready to switch to crops with an edited genome that has been approved in the United States, Argentina, and other countries. We propose a qualitatively new approach to the risk assessment of edited plants, “Safe Design,” and we have also developed an extremely important, fundamentally new approach to the development of methods that combine next-generation sequencing (NGS) and Bioinformatics for the assessment of the crop import biosafety. The proposed mathematical approach provides a detailed analysis of the possible insertions of DNA fragments into the genome of edited crops and a clarification of their biological significance. The developed method can be used in the rapid screening of plants for the presence of potentially dangerous genes, viral sequences, and nonspecific promoter sequences.
- Published
- 2021
34. A review on study of microsphere
- Author
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Mujoriya, Rajesh
- Published
- 2012
35. The behavioural response of migrating humpback whales to a full seismic airgun array.
- Author
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Dunlop, Rebecca A., Noad, Michael J., Mccauley, Robert D., Kniest, Eric, Slade, Robert, Paton, David, and Cato, Douglas H.
- Subjects
- *
SEISMIC surveys , *HUMPBACK whale , *SEISMIC testing , *SEISMIC airguns , *MEGAPTERA - Abstract
Despite concerns on the effects of noise from seismic survey airguns on marine organisms, there remains uncertainty as to the biological significance of any response. This study quantifies and interprets the response of migrating humpback whales (Megaptera novaeangliae) to a 3130 in³ (51.3l) commercial airgun array. We compare the behavioural responses to active trials (array operational; n = 34 whale groups), with responses to control trials (source vessel towing the array while silent; n = 33) and baseline studies of normal behaviour in the absence of the vessel (n = 85). No abnormal behaviours were recorded during the trials. However, in response to the active seismic array and the controls, the whales displayed changes in behaviour. Changes in respiration rate were of a similar magnitude to changes in baseline groups being joined by other animals suggesting any change group energetics was within their behavioural repertoire. However, the reduced progression southwards in response to the active treatments, for some cohorts, was below typical migratory speeds. This response was more likely to occur within 4 km from the array at received levels over 135 dB re 1 μPa².s. [ABSTRACT FROM AUTHOR]
- Published
- 2017
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36. Medicinal and Biological Significance of Isoxazole A Highly Important Scaffold for Drug Discovery
- Author
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Renuka, S. and Kota, Rama Krishna
- Published
- 2011
37. Intrinsic disorder in protein domains contributes to both organism complexity and clade-specific functions
- Author
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Jiayin Zang, Rugang Zhong, Dong Yang, Chao Gao, Haolin Zhong, Fuchu He, Huqiang Wang, and Chong Ma
- Subjects
0301 basic medicine ,Evolution ,Protein Conformation ,Functional features ,Science ,Protein domain ,Biology ,Article ,Evolution, Molecular ,03 medical and health sciences ,Protein Domains ,Animals ,Amino Acid Sequence ,Clade ,Organism ,Genome ,Multidisciplinary ,030102 biochemistry & molecular biology ,Fungi ,Computational Biology ,Proteins ,Protein sequence analyses ,Intrinsically Disordered Proteins ,030104 developmental biology ,Biological significance ,Evolutionary biology ,Significant positive correlation ,Medicine ,Function (biology) - Abstract
Interestingly, some protein domains are intrinsically disordered (abbreviated as IDD), and the disorder degree of same domains may differ in different contexts. However, the evolutionary causes and biological significance of these phenomena are unclear. Here, we address these issues by genome-wide analyses of the evolutionary and functional features of IDDs in 1,870 species across the three superkingdoms. As the result, there is a significant positive correlation between the proportion of IDDs and organism complexity with some interesting exceptions. These phenomena may be due to the high disorder of clade-specific domains and the different disorder degrees of the domains shared in different clades. The functions of IDDs are clade-specific and the higher proportion of post-translational modification sites may contribute to their complex functions. Compared with metazoans, fungi have more IDDs with a consecutive disorder region but a low disorder ratio, which reflects their different functional requirements. As for disorder variation, it’s greater for domains among different proteins than those within the same proteins. Some clade-specific ‘no-variation’ or ‘high-variation’ domains are involved in clade-specific functions. In sum, intrinsic domain disorder is related to both the organism complexity and clade-specific functions. These results deepen the understanding of the evolution and function of IDDs.
- Published
- 2021
38. Lindera aggregata (Sims) Kosterm: Review on phytochemistry and biological activities
- Author
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Wan Mohd Nuzul Hakimi Wan Salleh
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Pharmacology ,Lindera ,Web of science ,biology ,Traditional medicine ,Structural diversity ,Aggregata ,Plant Science ,Health benefits ,biology.organism_classification ,Lindera aggregata ,Complementary and alternative medicine ,Biological significance ,Drug Discovery - Abstract
The genus Lindera consists of approximately 100 species that are widely distributed in tropical and subtropical areas throughout the world. Most Lindera plants, particularly Lindera aggregata is a well-known traditional Chinese medicine that has important medicinal value and health benefits. Contemporary chemical and pharmacological studies have shown that L. aggregata are a source of structurally diverse molecules having pharmacological potential. In an effort to promote research on L. aggregata and develop therapeutic and pharmacological products, this review describes the structural diversity of its components and pharmacological and biological significance of L. aggregata. This review is based on a literature analysis of scientific journals from electronic sources, such as Science Direct, PubMed, Google Scholar, Scopus and Web of Science. Thus, with the growing interest in traditional medicine and botanical drugs worldwide, L. aggregata will increasingly capture chemists’ and pharmacologists’ attention because they produce diverse and structurally novel compounds having pharmacological significance.
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- 2020
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39. The Role of Aging in Human Evolutionary Development
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V. N. Shabalin and S. N. Shatokhina
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Cultural Studies ,Cognitive science ,Structure (mathematical logic) ,Computer science ,Process (engineering) ,media_common.quotation_subject ,05 social sciences ,050905 science studies ,010403 inorganic & nuclear chemistry ,01 natural sciences ,0104 chemical sciences ,Biological significance ,Perception ,Political Science and International Relations ,Evolutionary developmental biology ,Quality (philosophy) ,0509 other social sciences ,Organism ,media_common ,Living matter - Abstract
Currently, the number of works that study body aging mechanisms is rapidly growing in the world. This problem occupies not only philosophers, biologists, and physicians but also representatives of the exact sciences—physicists, chemists, and mathematicians. Experimental studies are being conducted at various levels of the structural organization of living matter, as well as theoretical studies, and all sorts of conceptual and mathematical models are being built. At the same time, there is still no unified generally accepted theory of aging in gerontology, and even the very concept of aging remains blurred. In addition, most people, including researchers, consider the aging process mainly through the prism of their personal dramatic perception of age-related changes in their own bodies. However, the biological significance of aging, under an objective assessment of this process, appears in a completely different quality—as a universal, permanent, unidirectional physiological process of the structural development of living matter, proceeding in unity with time. The creation of structures of a higher level is impossible without the elimination of less perfect forms with the subsequent use of their constituent elements in further development. Such elimination can only occur through the mechanisms of aging and death. Throughout the life of an individual, the structural elements of his body acquire higher structural and functional properties and, getting into the “melting pot” of the biosphere after death, increase the quality of its integral structure. Thus, each newly emerging organism rises on the mighty shoulders of the previous biological structures and in ontogeny creates new, more perfect structural elements, providing a step in forward motion—the evolutionary development of living matter. At the present stage of evolution, the accumulated amount of information has led to the creation of man—a carrier of thinking matter, capable of carrying out an abstracted analysis of the environment, encoding the collected information, and transforming it into technical tools and technologies.
- Published
- 2020
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40. Identification and characterization of functional long noncoding RNAs in cancer
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Christiane E. Olivero and Nadya Dimitrova
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0301 basic medicine ,Carcinogenesis ,Disease ,Computational biology ,Biology ,Biochemistry ,Epigenesis, Genetic ,03 medical and health sciences ,lncRNA ,0302 clinical medicine ,Neoplasms ,Genetics ,medicine ,Animals ,Humans ,cancer ,Molecular Biology ,function ,Cancer ,medicine.disease ,Gene Expression Regulation, Neoplastic ,030104 developmental biology ,Invited Article ,Biological significance ,identification ,RNA, Long Noncoding ,Identification (biology) ,GEMMs ,030217 neurology & neurosurgery ,Function (biology) ,Biotechnology - Abstract
Long noncoding RNAs (lncRNAs) have emerged as key regulators in a variety of cellular processes that influence disease states. In particular, many lncRNAs are genetically or epigenetically deregulated in cancer. However, whether lncRNA alterations are passengers acquired during cancer progression or can act as tumorigenic drivers is a topic of ongoing investigation. In this review, we examine the current methodologies underlying the identification of cancer‐associated lncRNAs and highlight important considerations for evaluating their biological significance as cancer drivers.
- Published
- 2020
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41. Comprehensive Analysis of Low Molecular Weight Serum Proteome Enrichment for Mass Spectrometric Studies
- Author
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Vedang Murthy, Lipi Das, and Ashok K. Varma
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Chemistry ,Biochemistry ,Serum proteome ,Biological significance ,General Chemical Engineering ,food and beverages ,General Chemistry ,Mass spectrometric ,QD1-999 ,Article - Abstract
Rationale: The low molecular weight (LMW) proteins present in circulating body fluids, such as serum and plasma, hold biological significance as possible biomarkers. A major obstacle in mass spectrometry-based proteomics of serum is the presence of abundant high molecular weight proteins which mask the identification and quantitation of lower molecular weight proteins. Traditional methods involve the use of affinity resins to remove high molecular weight proteins, such as albumin and immunoglobulin G, with concomitant loss of lower molecular weight proteins. Considering the importance of depleting high molecular proteins, this paper compares an affinity resin, a gel-filter, and an acetonitrile (ACN) precipitation method to achieve successful removal of high molecular weight proteins and recovery of lower molecular weight proteins. Methods: Serum enrichment was carried out by multiple methods such as with the commercially available serum protein mini kit, ACN precipitation, and a gel filter method. Mass spectrometric runs were carried out on an AB SCIEX ESI QTOF 5600 mass spectrometer. Mass spectrometry analysis of the enriched serum obtained by ACN precipitation and gel filter method was performed for global proteome profiling. Quantitative mass spectrometry using isobaric tags for relative and absolute quantitation (iTRAQ) for ACN-precipitated enriched serum was also carried out. Results: The gel filter method, though allowing for the resolution and identification of LMW proteins, was better suited for global proteome analysis and not preferred for quantitative proteomic experiments. In contrast, enrichment by the ACN precipitation method allowed for the reproducible identification and quantitation of LMW proteins having molecular weight ≥4 kDa. Conclusions: Using only chilled ACN and centrifugation, most of the highly abundant proteins were successfully removed from the serum, while recovering a significant portion of the LMW proteome. A more rapid protocol, which is compatible with iTRAQ labeling, to achieve improved results has been elucidated, thus allowing for better screening and identification of potential biomarkers.
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- 2020
42. Duplex formation in a G-quadruplex bulge
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Thi Quynh Ngoc Nguyen, Kah Wai Lim, Anh Tuân Phan, School of Physical and Mathematical Sciences, and NTU Institute of Structural Biology
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Models, Molecular ,Circular dichroism ,Guanine ,Magnetic Resonance Spectroscopy ,AcademicSubjects/SCI00010 ,Base pair ,Double Stranded DNA ,Biology ,010402 general chemistry ,G-quadruplex ,01 natural sciences ,03 medical and health sciences ,Structural Biology ,Bulge ,Chemistry [Science] ,Genetics ,Humans ,heterocyclic compounds ,Structural motif ,Base Pairing ,Guanine Quadruplex ,030304 developmental biology ,0303 health sciences ,Base Sequence ,Circular Dichroism ,DNA ,Solution structure ,0104 chemical sciences ,G-Quadruplexes ,Crystallography ,Duplex (building) ,Biological significance ,Nucleic Acid Conformation - Abstract
Beyond the consensus definition of G-quadruplex-forming motifs with tracts of continuous guanines, G-quadruplexes harboring bulges in the G-tetrad core are prevalent in the human genome. Here, we study the incorporation of a duplex hairpin within a bulge of a G-quadruplex. The NMR solution structure of a G-quadruplex containing a duplex bulge was resolved, revealing the structural details of the junction between the duplex bulge and the G-quadruplex. Unexpectedly, instead of an orthogonal connection the duplex stem was observed to stack below the G-quadruplex forming a unique quadruplex-duplex junction. Breaking up of the immediate base pair step at the junction, coupled with a narrowing of the duplex groove within the context of the bulge, led to a progressive transition between the quadruplex and duplex segments. This study revealed that a duplex bulge can be formed at various positions of a G-quadruplex scaffold. In contrast to a non-structured bulge, the stability of a G-quadruplex slightly increases with an increase in the duplex bulge size. A G-quadruplex structure containing a duplex bulge of up to 33 nt in size was shown to form, which was much larger than the previously reported 7-nt bulge. With G-quadruplexes containing duplex bulges representing new structural motifs with potential biological significance, our findings would broaden the definition of potential G-quadruplex-forming sequences. Nanyang Technological University National Research Foundation (NRF) Published version Singapore National Research Foundation Investigatorship [NRF-NRFI2017-09]; Nanyang Technological University grants (to A.T.P.). Funding for open access charge: Singapore National Research Foundation.
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- 2020
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43. Natural product sciences: an integrative approach to the innovations of plant natural products
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Yuemao Shen and Xiaojiang Hao
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0301 basic medicine ,China ,media_common.quotation_subject ,Structural diversity ,Review ,General Biochemistry, Genetics and Molecular Biology ,Natural (archaeology) ,03 medical and health sciences ,chemistry.chemical_compound ,0302 clinical medicine ,Lead (geology) ,Drug Discovery ,Humans ,Pesticides ,biological significance ,Disease Resistance ,General Environmental Science ,media_common ,Biological Products ,Natural product ,Molecular Structure ,Plant species diversity ,Plants ,Chemical ecology ,plant natural product ,030104 developmental biology ,chemistry ,Biological significance ,030220 oncology & carcinogenesis ,chemical structure ,Biochemical engineering ,General Agricultural and Biological Sciences ,Diversity (politics) - Abstract
The study on plant natural products not only helps us understand that their structural diversity is the inevitable result of plant species diversity, but also helps us understand certain rules and unity of the inevitable connection between the two. The diversity and complexity of chemical structures of many natural products are beyond imagination before we elucidated their structures. The question that follows is what is the biological significance of these natural products. Intrigued by the relationship between plant resources, natural products and biological functions, the Hao laboratory has taken an integrative approach that employs tools and knowledge from multi-disciplines, including natural product chemistry, chemical ecology and chemical biology, to unveil the effects of plant natural products on plant resistance to diseases, and environmental acclimations. Collaborating with cell biologists, the research has resulted in discovery of new mechanisms of cellular signaling and lead compounds.
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- 2020
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44. Information Transfer and Biological Significance of Neoplastic Exosomes in the Tumor Microenvironment of Osteosarcoma
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Fengxia Chen, Feifei Pu, Zengwu Shao, Zhicai Zhang, and Jianxiang Liu
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0301 basic medicine ,Tumor microenvironment ,Mesenchymal stem cell ,Biology ,medicine.disease ,Exosome ,Microvesicles ,03 medical and health sciences ,030104 developmental biology ,0302 clinical medicine ,Immune system ,Oncology ,Biological significance ,030220 oncology & carcinogenesis ,medicine ,Cancer research ,Osteosarcoma ,Pharmacology (medical) ,Intracellular - Abstract
Osteosarcoma is a highly invasive kind of malignant bone tumor. Exosomes are a type of extracellular vesicles that play an important role in intercellular communication in the microenvironment. Tumor cell progression is promoted through the interaction between exosomes and cells in the microenvironment (including immune cells, mesenchymal cells, and endothelial cells) during tumor development. Neoplastic exosomes can carry a variety of biological information molecules, such as proteins, lipids, and nucleic acids. These molecules play an important clinical role, not only being able domesticate the recipient cells but also being recognized as tumor specific markers. At the same time, exosomes secreted by osteosarcoma can also cooperate with antigen-presenting cells to activate the body's immune response and then to exert anti-tumor effects. Studies on exosomes may be a breakthrough in the search for a new osteosarcoma treatment. In this study, we review the role of neoplastic exosomes in the osteosarcoma microenvironment, summarize their potential as tumor markers, and investigate their clinical application prospects.
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- 2020
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45. Abiotic stress hormesis: An approach to maintain quality, extend storability, and enhance phytochemicals on fresh produce during postharvest
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Arturo Duarte-Sierra, Deepak Kumar Jha, Martin Ernesto Tiznado-Hernández, Navina Janmeja, and Joseph Arul
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Abiotic component ,Abiotic stress ,business.industry ,media_common.quotation_subject ,Low dose ,Hormesis ,Biology ,Shelf life ,Biotechnology ,Food Storage ,Stress, Physiological ,Biological significance ,Fruit ,Vegetables ,Food Quality ,Postharvest ,Quality (business) ,business ,Plant Physiological Phenomena ,Food Science ,media_common - Abstract
Postharvest losses of whole and fresh-cut fruits and vegetables cause significant reductions in food availability and an increase in economic losses/damages. Additionally, regulatory agencies are increasingly restricting the postharvest use of synthetic chemicals. This has strengthened the need to develop environmentally friendly approaches to postharvest management, such as utilization of natural compounds, antagonist microorganisms, and treatments with abiotic stresses, among others. The current review focuses on the potential of low doses of abiotic stresses to extend the shelf life, increase the amount of health beneficial phytochemicals, and reduce postharvest losses of fresh produce. The positive effects of the responses to low doses of abiotic stresses are based on a biological phenomenon termed hormesis. Research to develop new technologies to improve postharvest handling of fresh fruit and vegetables as well as minimally processed products is critical. The phenomenon of abiotic stress hormesis in fresh fruit and vegetables shows the potential not only to enhance defense compounds that could reduce diseases during postharvest storage and extend shelf life but also to elevate the content of health-promoting substances. The beneficial effects of UV-C hormesis have been extensively investigated in numerous types of fresh produce. However, our knowledge on hormesis exhibited by other abiotic stresses is still limited. Hence, the objective of this review is to discuss the relevance of hormesis for postharvest research by examining whether all abiotic stresses exhibit the phenomenon, its biological significance, the potential application in various commodities, and how it may direct the future of postharvest research.
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- 2020
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46. Sialidase substrates for Sialdiase assays - activity, specificity, quantification and inhibition
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Xue-Long Sun, Yu Zhao, and Lei Yuan
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Glycan ,Neuraminidase ,Sialidase ,Biochemistry ,Substrate Specificity ,03 medical and health sciences ,chemistry.chemical_compound ,Glycolipid ,Polysaccharides ,Humans ,Enzyme Inhibitors ,Molecular Biology ,Glycoproteins ,030304 developmental biology ,chemistry.chemical_classification ,0303 health sciences ,biology ,030302 biochemistry & molecular biology ,Cell Biology ,Sialic acid ,chemistry ,Biological significance ,Sialic Acids ,biology.protein ,Glycoprotein ,Function (biology) - Abstract
Sialidases are glycosidases responsible for the removal of sialic acid (Sia) residues (desialylation) from glycan portions of either glycoproteins or glycolipids. By desialylation, sialidases are able to modulate the functionality and stability of the Sia-containing molecules and are involved in both physiological and pathological pathways. Therefore, evaluation of sialidase activity and specificity is important for understanding the biological significance of desialylation by sialidases and its function and the related molecular mechanisms of the physiological and pathological pathways. In addition, it is essential for developing novel mechanisms and approaches for disease treatment and diagnosis and pathogen detection as well. This review summarizes the most recent sialidase substrates for evaluating sialidase activity and specificity and screening sialidase inhibitors, including (i) general sialidase substrates, (ii) specific sialidase substrates, (iii) native sialidase substrates and (iv) cellular sialidase substrates. This review also provides a brief introduction of recent instrumental methods for quantifying the sialidase activity, such as UV, fluorescence, HPLC and LC-MS methods.
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- 2020
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47. Emergence and significance of carbohydrate-specific antibodies
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Thierry Hennet, Katharina Kappler, University of Zurich, and Hennet, Thierry
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0301 basic medicine ,2716 Genetics (clinical) ,Glycoconjugate ,Immunology ,Carbohydrates ,Autoimmunity ,610 Medicine & health ,Review Article ,Antibodies ,10052 Institute of Physiology ,03 medical and health sciences ,0302 clinical medicine ,Immune system ,1311 Genetics ,Antigen ,ABO blood group system ,Genetics ,Animals ,Humans ,Genetics (clinical) ,chemistry.chemical_classification ,Antigen Presentation ,2403 Immunology ,biology ,Antimicrobial responses ,Carbohydrate ,Gastrointestinal Microbiome ,3. Good health ,Specific antibody ,030104 developmental biology ,chemistry ,Biological significance ,030220 oncology & carcinogenesis ,biology.protein ,570 Life sciences ,Antibody ,Glycoconjugates - Abstract
Carbohydrate-specific antibodies are widespread among all classes of immunoglobulins. Despite their broad occurrence, little is known about their formation and biological significance. Carbohydrate-specific antibodies are often classified as natural antibodies under the assumption that they arise without prior exposure to exogenous antigens. On the other hand, various carbohydrate-specific antibodies, including antibodies to ABO blood group antigens, emerge after the contact of immune cells with the intestinal microbiota, which expresses a vast diversity of carbohydrate antigens. Here we explore the development of carbohydrate-specific antibodies in humans, addressing the definition of natural antibodies and the production of carbohydrate-specific antibodies upon antigen stimulation. We focus on the significance of the intestinal microbiota in shaping carbohydrate-specific antibodies not just in the gut, but also in the blood circulation. The structural similarity between bacterial carbohydrate antigens and surface glycoconjugates of protists, fungi and animals leads to the production of carbohydrate-specific antibodies protective against a broad range of pathogens. Mimicry between bacterial and human glycoconjugates, however, can also lead to the generation of carbohydrate-specific antibodies that cross-react with human antigens, thereby contributing to the development of autoimmune disorders.
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- 2020
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48. Investigation on Photophysical, Solvatochromism and Biological Significance of Substituted 2 H ‐Indazole Derivatives
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Anthonisamy Roniboss, M. M. Balamurali, and Kaushik Chanda
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Indazole ,chemistry.chemical_compound ,chemistry ,Biological significance ,Docking (molecular) ,Solvatochromism ,General Chemistry ,Combinatorial chemistry - Published
- 2020
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49. Highly efficient H2S scavengers via thiolysis of positively-charged NBD amines†
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Zhen Xi, Haojie Huang, Sarah G. Bolton, Xueying Kang, Ismail Ismail, Zhuoyue Chen, Michael D. Pluth, Haibin Song, Xiuru Ji, Lu Sun, Long Yi, and Haishun Ye
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Chemistry ,Reaction rate constant ,Thiolysis ,In vivo ,Biological significance ,Molecule ,Endogeny ,lipids (amino acids, peptides, and proteins) ,General Chemistry ,Toxic gas ,equipment and supplies ,Combinatorial chemistry - Abstract
H2S is a well-known toxic gas and also a gaseous signaling molecule involved in many biological processes. Advanced chemical tools that can regulate H2S levels in vivo are useful for understanding H2S biology as well as its potential therapeutic effects. To this end, we have developed a series of 7-nitro-1,2,3-benzoxadiazole (NBD) amines as potential H2S scavengers. The kinetic studies of thiolysis reactions revealed that incorporation of positively-charged groups onto the NBD amines greatly increased the rate of the H2S-specific thiolysis reaction. We demonstrate that these reactions proceed effectively, with second order rate constants (k2) of >116 M−1 s−1 at 37 °C for NBD-S8. Additionally, we demonstrate that NBD-S8 can effectively scavenge enzymatically-produced and endogenous H2S in live cells. Furthering the biological significance, we demonstrate NBD-S8 mediates scavenging of H2S in mice., We demonstrate that positively-charged NBD amines can effectively scavenge biological H2S in live cells and in mice.
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- 2020
50. O‐GlcNAc Transferase: Structural Characteristics, Catalytic Mechanism and Small‐Molecule Inhibitors
- Author
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Eun Ju Kim
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chemistry.chemical_classification ,Molecular Structure ,010405 organic chemistry ,Chemistry ,Mechanism (biology) ,Intracellular protein ,Organic Chemistry ,N-Acetylglucosaminyltransferases ,010402 general chemistry ,O-GlcNAc transferase ,01 natural sciences ,Biochemistry ,Small molecule ,0104 chemical sciences ,Small Molecule Libraries ,Enzyme ,Cytoplasm ,Biological significance ,Biocatalysis ,Humans ,Molecular Medicine ,Transferase ,Enzyme Inhibitors ,Molecular Biology - Abstract
Modifications of nuclear and cytoplasmic proteins with a single sugar, N-acetylglucosamine (GlcNAc), play roles in a wide variety of fundamental cellular processes, and aberrant O-GlcNAc profiles are associated with pathological progression of several chronic diseases. O-GlcNAc transferase (OGT) is the only enzyme to catalyze the attachment of GlcNAc to intracellular protein substrates. Considering its biological significance, selective and potent OGT inhibitors are invaluable tools for enhancing our understanding of the precise biological functions of the enzyme, for revealing its unknown functions, and for validating OGT as a therapeutic target. In this minireview, human OGT (hOGT) inhibitors and their catalytic mechanisms will be explored. In addition, a brief overview of recent findings on the 3D structural characteristics of hOGT that have contributed greatly to the development of novel inhibitors of hOGT is provided.
- Published
- 2020
- Full Text
- View/download PDF
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