Your browser doesn't support javascript.
loading
Mostrar: 20 | 50 | 100
Resultados 1 - 20 de 73
Filtrar
Mais filtros

País/Região como assunto
Intervalo de ano de publicação
1.
J Hepatol ; 2024 May 28.
Artigo em Inglês | MEDLINE | ID: mdl-38815932

RESUMO

BACKGROUND & AIMS: New antiviral approaches are urgently required that target multiple aspects of the hepatitis B virus (HBV) replication cycle to improve rates of functional cure. HBV RNA represents a novel therapeutic target. Here, we programmed Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR)-Cas13b endonuclease, to specifically target the HBV pregenomic RNA (pgRNA) and viral mRNAs in a novel approach to reduce HBV replication and protein expression. METHODS: Cas13b CRISPR RNAs (crRNAs) were designed to target multiple regions of HBV pgRNA. Mammalian cells with replication competent wildtype HBV DNA of different genotypes, a HBV stable cell line, a HBV infection model and a hepatitis B surface antigen (HBsAg)-expressing stable cell line were transfected with PspCas13b-blue fluorescent protein (BFP) and crRNAs plasmids and the impact on HBV replication and protein expression was measured. WT HBV DNA, PspCas13b-BFP and crRNA plasmids were simultaneously hydrodynamically injected into mice, and sera HBsAg was measured. PspCas13b mRNA and crRNA were also delivered by lipid nanoparticles (LNP) in a HBsAg-expressing stable cell line and the impact on secreted HBsAg determined. RESULTS: Our HBV targeting crRNAs strongly suppressed HBV replication and protein expression in mammalian cells by up to 96% (p<0.0001). HBV protein expression was also reduced in an HBV stable cell line and in the HBV infection model. CRISPR-Cas13b crRNAs reduced HBsAg expression by 50% (p<0.0001) in vivo. LNP-encapsulated PspCas13b mRNA reduced secreted HBsAg by 87% (p=0.0168) in a HBsAg-expressing stable cell line. CONCLUSIONS: Together, these results show that CRISPR-Cas13b can be programmed to specifically target and degrade HBV RNAs to reduce HBV replication and protein expression, demonstrating its potential as a novel therapeutic option for chronic HBV infection. IMPACT AND IMPLICATIONS: There is an urgent need for new treatments that target multiple aspects of the HBV replication cycle. Here, we present CRISPR-Cas13b as a novel strategy to target HBV replication and protein expression paving the way for its development as a potential new treatment option for patients living with chronic hepatitis B.

2.
Genes Dev ; 30(18): 2106-2118, 2016 Sep 15.
Artigo em Inglês | MEDLINE | ID: mdl-27798851

RESUMO

Transcription of protein-encoding genes in eukaryotic cells requires the coordinated action of multiple general transcription factors (GTFs) and RNA polymerase II (Pol II). A "step-wise" preinitiation complex (PIC) assembly model has been suggested based on conventional ensemble biochemical measurements, in which protein factors bind stably to the promoter DNA sequentially to build a functional PIC. However, recent dynamic measurements in live cells suggest that transcription factors mostly interact with chromatin DNA rather transiently. To gain a clearer dynamic picture of PIC assembly, we established an integrated in vitro single-molecule transcription platform reconstituted from highly purified human transcription factors and complemented it by live-cell imaging. Here we performed real-time measurements of the hierarchal promoter-specific binding of TFIID, TFIIA, and TFIIB. Surprisingly, we found that while promoter binding of TFIID and TFIIA is stable, promoter binding by TFIIB is highly transient and dynamic (with an average residence time of 1.5 sec). Stable TFIIB-promoter association and progression beyond this apparent PIC assembly checkpoint control occurs only in the presence of Pol II-TFIIF. This transient-to-stable transition of TFIIB-binding dynamics has gone undetected previously and underscores the advantages of single-molecule assays for revealing the dynamic nature of complex biological reactions.


Assuntos
Regiões Promotoras Genéticas/fisiologia , Multimerização Proteica/fisiologia , Fatores de Transcrição TFII/metabolismo , Ativação Transcricional/fisiologia , Linhagem Celular Tumoral , Humanos , Microscopia de Interferência , Ligação Proteica , RNA Polimerase II/metabolismo , Deleção de Sequência , Fatores de Tempo
3.
Arch Biochem Biophys ; 743: 109642, 2023 07 15.
Artigo em Inglês | MEDLINE | ID: mdl-37211224

RESUMO

Renal cell carcinoma is one of the most common malignancies worldwide, and kidney renal clear cell carcinoma (KIRC) is the most common histopathological type of renal cell carcinoma. However, the mechanism of KIRC progression remains poorly understood. Apolipoprotein M (ApoM) is a plasma apolipoprotein and a member of the lipid transport protein superfamily. Lipid metabolism is essential for tumor progression, and its related proteins can be used as therapeutic targets for tumors. ApoM influences the development of several cancers, but its relationship with KIRC remains unclear. In this study, we aimed to investigate the biological function of ApoM in KIRC and to reveal its potential molecular mechanisms. We found that ApoM expression was significantly reduced in KIRC and was strongly correlated with patient prognosis. ApoM overexpression significantly inhibited KIRC cell proliferation in vitro, suppressed the epithelial mesenchymal transition (EMT) of KIRC cells, and decreased their metastatic capacity. Additionally, the growth of KIRC cells was inhibited by ApoM overexpression in vivo. In addition, we found that overexpression of ApoM in KIRC attenuated Hippo-YAP protein expression and YAP stability and thus inhibited KIRC growth and progression. Therefore, ApoM may be a potential target for the treatment of KIRC.


Assuntos
Carcinoma de Células Renais , Neoplasias Renais , Humanos , Apolipoproteínas M/metabolismo , Carcinoma de Células Renais/metabolismo , Linhagem Celular Tumoral , Rim/patologia , Neoplasias Renais/metabolismo , Transdução de Sinais , Proteínas de Sinalização YAP
4.
Liver Int ; 43(8): 1729-1740, 2023 08.
Artigo em Inglês | MEDLINE | ID: mdl-37183518

RESUMO

BACKGROUND AND AIMS: Steatosis is the early pathological change in alcohol-associated liver disease. However, its precise mechanism is still unclear. The present study is aimed to explore the role and mechanism of acetyl-CoA synthetase 2 (ACSS2) in acute alcohol-induced lipogenesis. METHODS: The increase in ACSS2 nuclear import and histone H3 acetylation were observed in mice after intraperitoneally injected with 2 g/kg ethanol or oral administration of 5 g/kg ethanol and also validated in hepatocytes stimulated with ethanol or acetate. The role of ACSS2 was further explored in liver-specific ACSS2 knockdown mice fed with ethanol-containing diet. RESULTS: Alcohol challenge induced hepatic lipid deposition and upregulated lipogenic genes in mice. It also promoted ACSS2 nuclear import and increased histone H3 acetylation. In hepatocytes, ethanol induced similar phenomena whereas ACSS2 knockdown blocked histone acetylation and lipogenic gene induction. P300/CBP associated factor (PCAF), but not general control nonderepressible 5, CREB-binding protein (CBP) and p300, facilitated H3K9 acetylation responding to ethanol challenge. CUT&RUN assay showed the enrichment of acetylated histone H3K9 surrounding Fasn and Acaca promoters. These results indicated that ethanol metabolism promoted ACSS2 nuclear import to support lipogenesis via H3K9 acetylation. In alcohol-feeding mice, liver-specific ACSS2 knockdown blocked the interaction between PCAF and H3K9 and suppressed lipogenic gene induction in the liver, demonstrating the critical role of ACSS2 in lipogenesis. CONCLUSIONS: Our study demonstrated that alcohol metabolism generated acetyl-CoA in the nucleus dependently on nuclear ACSS2, contributing to epigenetic regulation of lipogenesis in hepatic steatosis. Targeting ACSS2 may be a potential therapeutical strategy for acute alcoholic liver steatosis.


Assuntos
Acetato-CoA Ligase , Fígado Gorduroso Alcoólico , Fígado Gorduroso , Hepatopatias Alcoólicas , Animais , Camundongos , Acetilcoenzima A/genética , Acetilcoenzima A/metabolismo , Epigênese Genética , Etanol , Fígado Gorduroso/genética , Fígado Gorduroso Alcoólico/genética , Histonas , Lipogênese/genética , Fígado/metabolismo , Hepatopatias Alcoólicas/metabolismo , Acetato-CoA Ligase/genética , Acetato-CoA Ligase/metabolismo
5.
Environ Sci Technol ; 57(48): 19374-19382, 2023 Dec 05.
Artigo em Inglês | MEDLINE | ID: mdl-37948298

RESUMO

While environmental factors have been considered contributors to atherosclerosis, it remains unclear whether drinking water promotes foam cell formation, the initial event of atherosclerosis. This study revealed that drinking water from six major cities in China, namely, Harbin, Jinan, Shanghai, Wuhan, Chongqing, and Zhuhai, significantly promoted foam cell formation in an in vitro macrophage model at a minimum concentration fold of 2. Moreover, cholesterol efflux was significantly impeded by all samples at 2-16-fold, while cholesterol influx was induced only by samples from Jinan and Chongqing at 16-fold, suggesting the dominant role of efflux in foam cell formation. Interestingly, except for the sample from Jinan, the samples exhibited complete inhibition of liver X receptor α (LXRα) activities at 160-fold, indicating the potential role of chemicals in drinking water in promoting foam cell formation by antagonizing LXRα. Through LXRα protein affinity selection-mass spectrometry, we identified ten LXRα-binding compounds, with efavirenz being revealed for the first time as a significant inducer of foam cell formation through LXRα antagonism. Overall, this study clarifies the atherosclerotic risks posed by drinking water and demonstrates the efavirenz-related atherosclerotic effects.


Assuntos
Aterosclerose , Água Potável , Receptores X do Fígado , Humanos , Aterosclerose/induzido quimicamente , Aterosclerose/metabolismo , China , Colesterol/metabolismo , Cidades , Receptores X do Fígado/antagonistas & inibidores
6.
Environ Sci Technol ; 57(36): 13429-13438, 2023 09 12.
Artigo em Inglês | MEDLINE | ID: mdl-37642336

RESUMO

The rubber antioxidant 6PPD has gained significant attention due to its highly toxic transformation product, 6PPD-quinone (6PPDQ). Despite their detection in urines of pregnant women, the placental transfer and developmental toxicity of 6PPD and 6PPDQ are unknown. Here, we treated C57Bl/6 mice with 4 mg/kg 6PPD or 6PPDQ to investigate their urine excretion and placental transfer. Female and male mice exhibited sex difference in excretion profiles of 6PPD and 6PPDQ. Urine concentrations of 6PPDQ were one order of magnitude lower than those of 6PPD, suggesting lower excretion and higher bioaccumulation of 6PPDQ. In pregnant mice treated with 6PPD or 6PPDQ from embryonic day 11.5 to 15.5, 6PPDQ showed ∼1.5-8 times higher concentrations than 6PPD in placenta, embryo body, and embryo brain, suggesting higher placental transfer of 6PPDQ. Using in vitro dual-luciferase reporter assays, we revealed that 6PPDQ activated the human retinoic acid receptor α (RARα) and retinoid X receptor α (RXRα) at concentrations as low as 0.3 µM, which was ∼10-fold higher than the concentrations detected in human urines. 6PPD activated the RXRα at concentrations as low as 1.2 µM. These results demonstrate the exposure risks of 6PPD and 6PPDQ during pregnancy and emphasize the need for further toxicological and epidemiological investigations.


Assuntos
Benzoquinonas , Desenvolvimento Embrionário , Fenilenodiaminas , Animais , Feminino , Humanos , Masculino , Camundongos , Gravidez , Benzoquinonas/metabolismo , Benzoquinonas/toxicidade , Benzoquinonas/urina , Placenta/metabolismo , Fenilenodiaminas/metabolismo , Fenilenodiaminas/toxicidade , Fenilenodiaminas/urina , Camundongos Endogâmicos C57BL , Distribuição Tecidual , Fatores Sexuais , Desenvolvimento Embrionário/efeitos dos fármacos , Células HEK293 , Receptor alfa de Ácido Retinoico/metabolismo , Receptor X Retinoide alfa/metabolismo
7.
Sensors (Basel) ; 23(12)2023 Jun 17.
Artigo em Inglês | MEDLINE | ID: mdl-37420838

RESUMO

To solve the problem of sound field reconstruction with fewer measurement points, a sound field reconstruction method based on Bayesian compressive sensing is proposed. In this method, a sound field reconstruction model based on a combination of the equivalent source method and sparse Bayesian compressive sensing is established. The MacKay iteration of the relevant vector machine is used to infer the hyperparameters and estimate the maximum a posteriori probability of both the sound source strength and noise variance. The optimal solution for sparse coefficients with an equivalent sound source is determined to achieve the sparse reconstruction of the sound field. The numerical simulation results demonstrate that the proposed method has higher accuracy over the entire frequency range compared to the equivalent source method, indicating a better reconstruction performance and wider frequency applicability with undersampling. Moreover, in environments with low signal-to-noise ratios, the proposed method exhibits significantly lower reconstruction errors than the equivalent source method, indicating a superior anti-noise performance and greater robustness in sound field reconstruction. The experimental results further verify the superiority and reliability of the proposed method for sound field reconstruction with limited measurement points.


Assuntos
Acústica , Modelos Teóricos , Teorema de Bayes , Reprodutibilidade dos Testes , Som
8.
Opt Express ; 29(18): 28134-28147, 2021 Aug 30.
Artigo em Inglês | MEDLINE | ID: mdl-34614952

RESUMO

Vibration measurement, particularly mode shape measurement, is an important aspect of structural dynamic analysis since it can validate finite element or analytical vibration models. Scanning laser Doppler vibrometry (LDV) and high-speed digital image correlation have become dominant methods for experimental mode shape measurement. However, these methods have high equipment costs and several disadvantages regarding spatial or temporal performance. This paper proposes a laser Doppler vibrometer induced stroboscopic digital image correction for non-contact mode shape and operational deflection shape measurement. Our results verify that single-point LDV and normal rate cameras can be used obtain high spatial resolution mode shape and operational deflection shape. Measurement frequency range is much higher than the camera capturing rate. We also show that the proposed approach coincides well with time-averaged electronic speckle pattern interferometry.

9.
J Phys Chem A ; 125(50): 10677-10685, 2021 Dec 23.
Artigo em Inglês | MEDLINE | ID: mdl-34894680

RESUMO

Path integral molecular dynamics (PIMD) is becoming a routinely applied method for incorporating the nuclear quantum effect in computer simulations. However, direct PIMD simulations at an ab initio level of theory are formidably expensive. Using the protonated 1,8-bis(dimethylamino)naphthalene molecule as an example, we show in this work that the computational expense for the intramolecular proton transfer between the two nitrogen atoms can be remarkably reduced by implementing the idea of reference-potential methods. The simulation time can be easily extended to a scale of nanoseconds while maintaining the accuracy on an ab initio level of theory for thermodynamic properties. In addition, postprocessing can be carried out in parallel on massive computer nodes. A 545-fold reduction in the total CPU time can be achieved in this way as compared to a direct PIMD simulation at the same ab initio level of theory.

10.
Sensors (Basel) ; 21(5)2021 Feb 28.
Artigo em Inglês | MEDLINE | ID: mdl-33670957

RESUMO

In optical metrology, the output is usually in the form of a fringe pattern, from which a phase map can be generated and phase information can be converted into the desired parameters. This paper proposes an end-to-end method of fringe phase extraction based on the neural network. This method uses the U-net neural network to directly learn the correspondence between the gray level of a fringe pattern and the wrapped phase map, which is simpler than the exist deep learning methods. The results of simulation and experimental fringe patterns verify the accuracy and the robustness of this method. While it yields the same accuracy, the proposed method features easier operation and a simpler principle than the traditional phase-shifting method and has a faster speed than wavelet transform method.

11.
Sensors (Basel) ; 21(14)2021 Jul 10.
Artigo em Inglês | MEDLINE | ID: mdl-34300468

RESUMO

The laser speckle correlation method has found widespread application for obtaining information from vibrating objects. However, the resolution and accuracy of the laser speckle correlation method as they relate to the defocusing degree have not been analyzed sufficiently. Furthermore, the possible methods for speckle pattern quality assessment and enhancement have not been studied. In this study, the resolution and accuracy of the laser speckle correlation method are analyzed, and it is found that they are affected by the defocusing degree and speckle pattern quality, respectively. A new speckle pattern quality criterion combining the mean intensity gradient and frequency spectrum was proposed, called CMZ. The quality of the speckle pattern is higher when the CMZ is closer to zero. The proposed criterion was verified by simulated speckle patterns and real speckle patterns with different speckle sizes, densities, and gray contrasts. In the experimental setup stage, a suitable defocusing degree can be selected based on the resolution requirement and optimal speckle size, and other experimental parameters can be determined according to the CMZ criterion. Rotation and vibration experiments verified the effectiveness of the laser speckle correlation method and confirmed the reliability of the experiment preparation based on proposed CMZ criterion.

12.
Proc Natl Acad Sci U S A ; 114(23): 6062-6067, 2017 06 06.
Artigo em Inglês | MEDLINE | ID: mdl-28536195

RESUMO

Metabolism is an organism's primary defense against xenobiotics, yet it also increases the production of toxic metabolites. It is generally recognized that phenolic xenobiotics, a group of ubiquitous endocrine disruptors, undergo rapid phase II metabolism to generate more water-soluble glucuronide and sulfate conjugates as a detoxification pathway. However, the toxicological effects of the compounds invariably point to the phase I metabolic cytochrome P450 enzymes. Here we show that phenolic xenobiotics undergo an unknown metabolic pathway to form more lipophilic and bioactive products. In a nontargeted screening of the metabolites of a widely used antibacterial ingredient: triclosan (TCS), we identified a metabolic pathway via in vitro incubation with weever, quail, and human microsomes and in vivo exposure in mice, which generated a group of products: TCS-O-TCS. The lipophilic metabolite of TCS was frequently detected in urine samples from the general population, and TCS-O-TCS activated the constitutive androstane receptor with the binding activity about 7.2 times higher than that of the parent compound. The metabolic pathway was mediated mainly by phase I enzymes localized on the microsomes and widely observed in chlorinated phenols, phenols, and hydroxylated aromatics. The pathway was also present in different phenolic xenobiotics and formed groups of unknown pollutants in organisms (e.g., TCS-O-bisphenol A and TCS-O-benzo(a)pyrene), thus providing a cross-talk reaction between different phenolic pollutants during metabolic processes in organisms.


Assuntos
Fenóis/metabolismo , Triclosan/toxicidade , Xenobióticos/metabolismo , Animais , Anti-Infecciosos Locais/toxicidade , Compostos Benzidrílicos , Benzo(a)pireno , Disruptores Endócrinos/metabolismo , Humanos , Hidroxibenzoatos/metabolismo , Inativação Metabólica/fisiologia , Redes e Vias Metabólicas/fisiologia , Metabolismo , Camundongos , Microssomos Hepáticos/metabolismo , Fenóis/química , Triclosan/química , Triclosan/metabolismo , Poluentes Químicos da Água/toxicidade , Xenobióticos/química
13.
Molecules ; 25(3)2020 Jan 23.
Artigo em Inglês | MEDLINE | ID: mdl-31979295

RESUMO

The behavior of ice under extreme conditions undergoes the change of intermolecular binding patterns and leads to the structural phase transitions, which are needed for modeling the convection and internal structure of the giant planets and moons of the solar system as well as H2O-rich exoplanets. Such extreme conditions limit the structural explorations in laboratory but open a door for the theoretical study. The ice phases IX and XIII are located in the high pressure and low temperature region of the phase diagram. However, to the best of our knowledge, the phase transition boundary between these two phases is still not clear. In this work, based on the second-order Møller-Plesset perturbation (MP2) theory, we theoretically investigate the ice phases IX and XIII and predict their structures, vibrational spectra and Gibbs free energies at various extreme conditions, and for the first time confirm that the phase transition from ice IX to XIII can occur around 0.30 GPa and 154 K. The proposed work, taking into account the many-body electrostatic effect and the dispersion interactions from the first principles, opens up the possibility of completing the ice phase diagram and provides an efficient method to explore new phases of molecular crystals.


Assuntos
Gelo , Transição de Fase , Água/química , Temperatura Baixa , Cristalização , Modelos Moleculares , Pressão , Teoria Quântica , Análise Espectral Raman , Eletricidade Estática , Termodinâmica , Temperatura de Transição
14.
J Biol Chem ; 293(33): 12681-12689, 2018 08 17.
Artigo em Inglês | MEDLINE | ID: mdl-29925587

RESUMO

Mitochondrial accumulation of intracellular ß-amyloid (Aß) peptides is present in the brains of individuals with Alzheimer's disease (AD) as well as in related mouse models of AD. This accumulation is extremely toxic because Aß disrupts the normal functions of many mitochondrial proteins, resulting in significant mitochondrial dysfunction. Therefore, understanding the mitochondrial accumulation of Aß is useful for future pharmaceutical design of drugs to address mitochondrial dysfunction in AD. However, the detailed molecular mechanism of this accumulation process remains elusive. Here, using yeast mitochondria, we present direct experimental evidence suggesting that Aß is specifically recognized by translocase of outer mitochondrial membrane subunit 22 (Tom22 in yeast; TOMM22 in human), a noncanonical receptor within the mitochondrial protein import machinery, and that this recognition is critical for Aß accumulation in mitochondria. Furthermore, we found that residues 25-42 in the Aß peptide mediate the specific interaction with TOMM22. On the basis of our findings, we propose that cytosolic Aß is recognized by TOMM22; transferred to another translocase subunit, TOMM40; and transported through the TOMM channel into the mitochondria. Our results not only confirm that yeast mitochondria can be used as a model to study mitochondrial dysfunction caused by Aß peptides in AD but also pave the way for future studies of the molecular mechanism of mitochondrial Aß accumulation.


Assuntos
Peptídeos beta-Amiloides/metabolismo , Mitocôndrias/metabolismo , Proteínas de Transporte da Membrana Mitocondrial/metabolismo , Receptores de Superfície Celular/metabolismo , Proteínas de Saccharomyces cerevisiae/metabolismo , Saccharomyces cerevisiae/metabolismo , Transporte Proteico , Saccharomyces cerevisiae/crescimento & desenvolvimento
15.
Mol Cell ; 42(2): 250-60, 2011 Apr 22.
Artigo em Inglês | MEDLINE | ID: mdl-21458342

RESUMO

The de novo design of protein-protein interfaces is a stringent test of our understanding of the principles underlying protein-protein interactions and would enable unique approaches to biological and medical challenges. Here we describe a motif-based method to computationally design protein-protein complexes with native-like interface composition and interaction density. Using this method we designed a pair of proteins, Prb and Pdar, that heterodimerize with a Kd of 130 nM, 1000-fold tighter than any previously designed de novo protein-protein complex. Directed evolution identified two point mutations that improve affinity to 180 pM. Crystal structures of an affinity-matured complex reveal binding is entirely through the designed interface residues. Surprisingly, in the in vitro evolved complex one of the partners is rotated 180° relative to the original design model, yet still maintains the central computationally designed hotspot interaction and preserves the character of many peripheral interactions. This work demonstrates that high-affinity protein interfaces can be created by designing complementary interaction surfaces on two noninteracting partners and underscores remaining challenges.


Assuntos
Desenho Assistido por Computador , Domínios e Motivos de Interação entre Proteínas , Mapeamento de Interação de Proteínas , Proteínas/química , Sítios de Ligação , Técnicas de Química Analítica , Modelos Moleculares , Peso Molecular , Mutação , Ligação Proteica , Conformação Proteica , Multimerização Proteica , Proteínas/genética , Proteínas/metabolismo , Propriedades de Superfície
16.
Anal Chem ; 90(16): 9805-9812, 2018 08 21.
Artigo em Inglês | MEDLINE | ID: mdl-30051706

RESUMO

Clean cabbagelike (111) faceted silver crystals were synthesized via a facile galvanic replacement reaction of [Ag(NH3)2]OH and a commercial aluminum foil, a surfactant-free formation process. The cabbagelike silver crystals consisted of interconnected nanoplates and exhibited a single-crystal structure along with preferential (111) facet oriented growth. These silver crystals showed high and reliable surface-enhanced Raman scattering (SERS) activity due to electromagnetic mechanism, and they could be easily transferred onto other rigid or flexible surfaces, making their SERS applications more versatile. Since Ag (111) with low surface energy could preferentially adsorb papaverine molecules, which was verified by molecular dynamics simulation, the cabbagelike silver crystals were further employed as a promising SERS assay for efficient sensing of papaverine, a nonnarcotic alkaloid. A linear range of 0.1-1000 µM was achieved, along with a detection limit of 10 nM and good selectivity relative to other excitability drugs. This SERS assay has successfully been used to determine the concentration of papaverine in hot pot seasonings and drugs with satisfactory recoveries and relative standard deviations.

17.
Molecules ; 23(10)2018 Sep 28.
Artigo em Inglês | MEDLINE | ID: mdl-30274188

RESUMO

For Diels⁻Alder (DA) reactions in solution, an accurate and converged free energy (FE) surface at ab initio (ai) quantum mechanical/molecular mechanical (QM/MM) level is imperative for the understanding of reaction mechanism. However, this computation is still far too expensive. In a previous work, we proposed a new method termed MBAR+wTP, with which the computation of the ai FE profile can be accelerated by several orders of magnitude via a three-step procedure: (I) an umbrella sampling (US) using a semi-empirical (SE) QM/MM Hamiltonian is performed; (II) the FE profile is generated using the Multistate Bennett Acceptance Ratio (MBAR) analysis; and (III) a weighted Thermodynamic Perturbation (wTP) from the SE Hamiltonian to the ai Hamiltonian is performed to obtain the ai QM/MM FE profile using weight factors from the MBAR analysis. In this work, this method is extended to the calculations of two-dimensional FE surfaces of two Diels⁻Alder reactions of cyclopentadiene with either acrylonitrile or 1-4-naphthoquinone at ai QM/MM level. The accurate activation free energies at the ai QM/MM level, which are much closer to the experimental measurements than those calculated by other methods, indicate that this MBAR+wTP method can be applied in the studies of complex reactions in condensed phase with much-enhanced efficiency.


Assuntos
Reação de Cicloadição , Simulação de Dinâmica Molecular , Solventes/química , Cinética , Modelos Químicos , Estrutura Molecular , Teoria Quântica , Termodinâmica
18.
Toxicol Appl Pharmacol ; 327: 23-29, 2017 07 15.
Artigo em Inglês | MEDLINE | ID: mdl-28416457

RESUMO

Concerns over the adverse reproductive outcomes in human have been raised, more evidence including the underlying mechanism are required. Since extravillous trophoblast (EVT) invasion is an important physiological step during early development, the effects of mono-2-ethylhexyl phthalate (MEHP), the bioactive metabolite of DEHP, on EVT invasion were investigated using Matrigel-coated transwell chambers and cell line HTR-8/SVneo. In the transwell-based invasive assay, MEHP exposure inhibited EVT invasion as judged by decreased invasion index. Further analysis showed that MEHP exposure significantly inhibited the activity of matrix metalloproteinase-9 (MMP-9), which is an important positive regulator of EVT invasion. Meanwhile, the protein levels of tissue inhibitor matrix metalloproteinase-1 (TIMP-1), one key negative regulator of EVT invasion, were upregulated by MEHP treatment. Finally, inactivation of PPARγ pathway by either PPARγ inhibitors or PPARγ shRNA knockdown rescued the MEHP-induced inhibited invasion of HTR-8/SVneo cells, which is accompanied by the recovery of inhibited MMP-9 expression. The present study provides the evidence that MEHP exposure inhibits trophoblast invasion via PPARγ at concentrations comparable to those found in humans, which provides an insight in understanding the mechanisms of DEHP-associated early pregnancy loss.


Assuntos
Dietilexilftalato/análogos & derivados , PPAR gama/efeitos dos fármacos , Trofoblastos/efeitos dos fármacos , Aborto Espontâneo/induzido quimicamente , Linhagem Celular , Sobrevivência Celular/efeitos dos fármacos , Dietilexilftalato/farmacologia , Feminino , Técnicas de Silenciamento de Genes , Inativação Gênica , Humanos , Metaloproteinase 9 da Matriz/biossíntese , Metaloproteinase 9 da Matriz/genética , PPAR gama/genética , Gravidez , Primeiro Trimestre da Gravidez , RNA Interferente Pequeno/genética , Transdução de Sinais/efeitos dos fármacos , Inibidor Tecidual de Metaloproteinase-1/biossíntese , Inibidor Tecidual de Metaloproteinase-1/genética
19.
J Chem Inf Model ; 57(10): 2476-2489, 2017 10 23.
Artigo em Inglês | MEDLINE | ID: mdl-28933850

RESUMO

The partitioning of solute molecules between immiscible solvents with significantly different polarities is of great importance. The polarization between the solute and solvent molecules plays an essential role in determining the solubility of the solute, which makes computational studies utilizing molecular mechanics (MM) rather difficult. In contrast, quantum mechanics (QM) can provide more reliable predictions. In this work, the partition coefficients of the side chain analogs of some amino acids between water and chloroform were computed. The QM solvation free energies were calculated indirectly via a series of MM states using the multistate Bennett acceptance ratio (MBAR) and the MM-to-QM corrections were applied at the two endpoints using thermodynamic perturbation (TP). Previously, it has been shown (Jia et al. J. Chem. Theory Comput. 2016, 12, 499-511) that this method provides the minimal variance in the results without running QM simulations. However, if there is insufficient overlap in phase space between the MM and QM Hamiltonians, this method fails. In this work, we propose, for the first time, a quantity termed the reweighting entropy that serves as a metric for the reliability of the TP calculations. If the reweighting entropy is below a certain threshold (0.65 for the solvation free energy calculations in this work), this MM-to-QM correction should be avoided and two alternative methods can be employed by either introducing a semiempirical state or conducting nonequilibrium simulations. However, the results show that the QM methods are not guaranteed to yield better results than the MM methods. Further improvement of the QM methods are imperative, especially the treatment of the van der Waals and the electrostatic interactions between the QM region and the MM region in the first shell. We also propose a scheme for the calculation of the van der Waals parameters for the solute molecules in nonaqueous solvent, which improves the quality of the computed thermodynamic properties. Furthermore, the force field parameters for the sulfur-containing molecules are also optimized.


Assuntos
Clorofórmio/química , Modelos Químicos , Teoria Quântica , Água/química , Solubilidade , Solventes , Termodinâmica
20.
Environ Sci Technol ; 51(7): 4061-4068, 2017 04 04.
Artigo em Inglês | MEDLINE | ID: mdl-28282128

RESUMO

2-Ethylhexyl diphenyl phosphate (EHDPP), an organophosphate flame retardant (OPFR), is frequently detected in human blood. In this study, the sensitive dual-luciferase reporter gene assay and molecular docking were used to investigate the activation of EHDPP to human peroxisome proliferator-activated receptor gamma (PPARG). Results show that EHDPP exhibited stronger PPARG activation (EC20: 2.04 µM) than triphenyl phosphate (TPhP) (EC20: 2.78 µM). EHDPP upregulated the gene expression of 3ß-hydroxysteroid dehydrogenase type 1 (3ß-HSD1) in human placental choriocarcinoma cells in a dose-dependent manner, and the lowest observable effective concentration was 10 µM, lower than that of TPhP (20 µM). EHDPP significantly altered progesterone secretion at a lower concentration (10 µM) than that of TPhP (20 µM), and both EHDPP and TPhP significantly promoted human chorionic gonadotropin (hCG) production at 20 µM. Furthermore, inactivation of PPARG by either a pharmacological inhibitor (GW9662) or small interfering RNA (siRNA) abolished the change in progesterone secretion and gene expression in the cells exposed to EHDPP, suggesting that the PPARG signaling pathway plays a role in the upregulation of progesterone by the two OPFRs. This is the first report to show that OPFRs can alter the biosynthesis of progesterone in the placenta, which could affect female reproduction and fetal development.


Assuntos
Coriocarcinoma/metabolismo , Organofosfatos/metabolismo , PPAR gama/metabolismo , Progesterona/biossíntese , Neoplasias Uterinas/metabolismo , Feminino , Humanos , Simulação de Acoplamento Molecular , Gravidez
SELEÇÃO DE REFERÊNCIAS
DETALHE DA PESQUISA