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https://www.readbyqxmd.com/read/29677639/selection-of-reference-genes-for-quantitative-real-time-pcr-in-octopus-minor-cephalopoda-octopoda-under-acute-ammonia-stress
#1
Ran Xu, Xiaodong Zheng
High concentration of ammonia is a common issue in the aquaculture industry and often causes detrimental effects to aquatic products. Exploring expression regulation of genes involved in acute ammonia stress can help to understand the molecular mechanisms of ammonia response. Quantitative real-time PCR (qRT-PCR) with proper reference genes is an effective way to normalize the expression of target genes. To identify the most suitable reference genes for Octopus minor (Mollusca: Cephalopoda: Octopoda) under acute ammonia stress and the normal culturing, nine candidate genes were selected for the validation: OD, RPS18b, RPL29, RPS5, EF-1α, RPL6, AA4, ACT, TUB...
April 14, 2018: Environmental Toxicology and Pharmacology
https://www.readbyqxmd.com/read/29677483/design-synthesis-and-biological-evaluation-of-pyrimidine-based-derivatives-as-vegfr-2-tyrosine-kinase-inhibitors
#2
Wuji Sun, Shengquan Hu, Shubiao Fang, Hong Yan
Vascular endothelial growth factor receptor-2 (VEGFR-2) plays a crucial role in tumor angiogenesis, and inhibition of the VEGFR-2 signaling pathway has already become an attractive approach for cancer therapy. In this study, a novel pyrimidine-based derivative 7j was designed as lead compound, and three series of potent VEGFR-2 inhibitors were synthesized and biologically evaluated against A549 and HepG2 cell lines. Compounds 7d, 9s and 13n exhibited superior inhibitory activities against A549 cell with IC50 ranged from 9...
April 13, 2018: Bioorganic Chemistry
https://www.readbyqxmd.com/read/29677482/allosteric-ligands-for-the-pharmacologically-important-flavivirus-target-ns5-from-zinc-database-based-on-pharmacophoric-points-free-energy-calculations-and-dynamics-correlation
#3
Abbas Khan, Shoaib Saleem, Muhammad Idrees, Syed Shujait Ali, Muhammad Junaid, Aman Chandra Kaushik, Dong-Qing Wei
Dengue virus belongs to a group of human pathogens, which causes different diseases, dengue hemorrhagic fever and dengue shock syndrome in humans. It possesses RNA as a genetic material and is replicated with the aid of NS5 protein. RNA-dependent RNA polymerase (RdRp) is an important domain of NS5 in the replication of that virus. The catalytic process activity of RdRp is making it an important target for antiviral chemical therapy. To date, No FDA drug has been approved and marketed for the treatment of diseases caused by Dengue virus...
April 11, 2018: Journal of Molecular Graphics & Modelling
https://www.readbyqxmd.com/read/29677477/systems-immunology-learning-the-rules-of-the-immune-system
#4
Alexandra-Chloé Villani, Siranush Sarkizova, Nir Hacohen
Given the many cell types and molecular components of the human immune system, along with vast variations across individuals, how should we go about developing causal and predictive explanations of immunity? A central strategy in human studies is to leverage natural variation to find relationships among variables, including DNA variants, epigenetic states, immune phenotypes, clinical descriptors, and others. Here, we focus on how natural variation is used to find patterns, infer principles, and develop predictive models for two areas: (a) immune cell activation-how single-cell profiling boosts our ability to discover immune cell types and states-and (b) antigen presentation and recognition-how models can be generated to predict presentation of antigens on MHC molecules and their detection by T cell receptors...
April 26, 2018: Annual Review of Immunology
https://www.readbyqxmd.com/read/29677397/two-ancestral-genes-shaped-the-xanthomonas-campestris-tal-effector-gene-repertoire
#5
Nicolas Denancé, Boris Szurek, Erin L Doyle, Emmanuelle Lauber, Lisa Fontaine-Bodin, Sébastien Carrère, Endrick Guy, Ahmed Hajri, Aude Cerutti, Tristan Boureau, Stéphane Poussier, Matthieu Arlat, Adam J Bogdanove, Laurent D Noël
Xanthomonas transcription activator-like effectors (TALEs) are injected inside plant cells to promote host susceptibility by enhancing transcription of host susceptibility genes. TALE-encoding (tal) genes were thought to be absent from Brassicaceae-infecting Xanthomonas campestris (Xc) genomes based on four reference genomic sequences. We discovered tal genes in 26 of 49 Xc strains isolated worldwide and used a combination of single molecule real time (SMRT) and tal amplicon sequencing to yield a near-complete description of the TALEs found in Xc (Xc TALome)...
April 20, 2018: New Phytologist
https://www.readbyqxmd.com/read/29677383/effects-of-inhibitors-on-hsp90-s-conformational-dynamics-cochaperone-and-client-interactions
#6
Sonja Schmid, Markus Goetz, Thorsten Hugel
The molecular chaperone and heat-shock protein Hsp90 has become a central target in anti-cancer therapy. Nevertheless, the effect of Hsp90 inhibition is still not understood at the molecular level, preventing a truly rational drug design. Here we report on the effect of the most prominent drug candidates, namely radicicol, geldanamycin, derivatives of purine and novobiocin, on Hsp90's characteristic conformational dynamics and the binding of three interaction partners. Unexpectedly, the global opening and closing transitions are hardly affected by Hsp90 inhibitors...
April 20, 2018: Chemphyschem: a European Journal of Chemical Physics and Physical Chemistry
https://www.readbyqxmd.com/read/29677188/smsp2-a-serine-protease-secreted-by-the-blood-fluke-pathogen-schistosoma-mansoni-with-anti-hemostatic-properties
#7
Adrian Leontovyč, Lenka Ulrychová, Anthony J O'Donoghue, Jiří Vondrášek, Lucie Marešová, Martin Hubálek, Pavla Fajtová, Marta Chanová, Zhenze Jiang, Charles S Craik, Conor R Caffrey, Michael Mareš, Jan Dvořák, Martin Horn
BACKGROUND: Serine proteases are important virulence factors for many pathogens. Recently, we discovered a group of trypsin-like serine proteases with domain organization unique to flatworm parasites and containing a thrombospondin type 1 repeat (TSR-1). These proteases are recognized as antigens during host infection and may prove useful as anthelminthic vaccines, however their molecular characteristics are under-studied. Here, we characterize the structural and proteolytic attributes of serine protease 2 (SmSP2) from Schistosoma mansoni, one of the major species responsible for the tropical infectious disease, schistosomiasis...
April 20, 2018: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/29676924/paclitaxel-loaded-ph-sensitive-liposome-new-insights-on-structural-and-physicochemical-characterization
#8
Liziane Oliveira Fonseca Monteiro, Angelo Malachias, Gwenaelle Pound-Lana, Rogerio Magalhães-Paniago, Vanessa Carla Furtado Mosqueira, Mônica Cristina Oliveira, Andre Branco de Barros, Elaine Amaral Leite
A long-circulating and pH-sensitive liposome containing PTX (SpHL-PTX) was recently developed by our group. Once at an acidic environment, e.g. tumor, these liposomes undergo destabilization releasing the encapsulated drug. In this way, the aim of this study was evaluate the molecular and supramolecular interactions between the lipid bilayer and PTX in similar biological environment conditions. High sensitivity analyses of SpHL-PTX structures were obtained by small angle X-ray scattering (SAXS) technique combined with other techniques such as DLS, AF4, TEM and HPLC...
April 20, 2018: Langmuir: the ACS Journal of Surfaces and Colloids
https://www.readbyqxmd.com/read/29676810/recent-trends-in-sorption-based-sample-preparation-and-liquid-chromatography-techniques-for-food-analysis
#9
Edvaldo V Soares Maciel, Ana Lúcia de Toffoli, Fernando Mauro Lanças
The accelerated rising of the world's population increased the consumption of food, thus demanding more rigors in the control of residue and contaminants in food-based products marketed for human consumption. In view of the complexity of most food matrices, including fruits, vegetables, different types of meat, beverages, among others, a sample preparation step is important to provide more reliable results when combined with high performance liquid chromatography separations. An adequate sample preparation step before the chromatographic analysis is mandatory in obtaining higher precision and accuracy in order to improve the extraction of the target analytes, one of the priorities in analytical chemistry...
April 20, 2018: Electrophoresis
https://www.readbyqxmd.com/read/29676481/high-mobility-group-box-1-in-parkinson-s-disease-from-pathogenesis-to-therapeutic-approaches
#10
REVIEW
Efthalia Angelopoulou, Christina Piperi, Athanasios G Papavassiliou
Parkinson's disease (PD) presents the second most common neurodegenerative disorder with largely unknown pathogenesis and inefficient therapeutic management. Accumulating data indicate that neuroinflammation, autophagy impairment, α-synuclein aggregation and mitochondrial dysfunction may contribute to PD onset; however the molecular mechanisms underlying these pathophysiological processes are still under elucidation. Interestingly, recent evidence has indicated that High-mobility group box 1 (HMGB1), a DNA-binding protein that can be actively secreted by inflammatory cells and passively released by necrotic cells may play a key role in PD pathogenesis...
April 20, 2018: Journal of Neurochemistry
https://www.readbyqxmd.com/read/29676228/glaucoma-pathogenesis-and-neurotrophins-focus-on-the-molecular-and-genetic-basis-for-therapeutic-prospects
#11
Nitin Chitranshi, Yogita Dheer, Mojdeh Abbasi, Yuyi You, Stuart L Graham, Vivek Gupta
BACKGROUND: Retinal ganglion cell (RGC) degeneration is a major feature of glaucoma pathology. Neuroprotective approaches that delay or halt the progression of RGC loss are needed to prevent vision loss which can occur even after conventional medical or surgical treatments to lower intraocular pressure. OBJECTIVE: The aim of this review was to examine the progress in genetics and cellular mechanisms associated with endoplasmic reticulum (ER) stress, RGC dysfunction and cell death pathways in glaucoma...
April 19, 2018: Current Neuropharmacology
https://www.readbyqxmd.com/read/29676181/identification-of-glia-phenotype-modulators-based-on-select-glial-function-regulatory-signaling-pathways
#12
Sun-Hwa Lee, Kyoungho Suk
Despite the considerable social and economic burden on the healthcare system worldwide due to neurodegenerative diseases, there are currently few disease-altering treatment options for many of these conditions. Therefore, new approaches for both prevention and intervention for neurodegenerative diseases are urgently required. Microglia-mediated neurotoxicity is one of the pathologic hallmarks common to Alzheimer's disease, Parkinson's disease, and amyotrophic lateral sclerosis. Current therapeutic approaches to target microglia-mediated neurotoxicity are focused on the identification of glia phenotype modulators (GPMs), which can inhibit the 'classical' pro-inflammatory and neurotoxic phenotypes of microglia...
April 20, 2018: Expert Opinion on Drug Discovery
https://www.readbyqxmd.com/read/29676173/biomolecular-basis-of-matrix-metallo-proteinase-9-activity
#13
Rayala Swetha, Chandrim Gayen, Devendra Kumar, Tryambak Deo Singh, Gyan Modi, Sushil Kumar Singh
Matrix metalloproteinases (MMPs) are structurally related endopeptidases. They are also known as metzincins due to their interaction with zinc ion of the conserved methionine (Met) at the active site. MMPs play an important role in physiological and signaling processes of wound healing, bone resorption and angiogenesis. The structure of MMPs consists of signal peptide, propeptide, catalytic domain, hinge region and hemopexin-like domain. MMP-9 shares high structural and functional similarities with MMP-2, therefore designing selective MMP-9 inhibitors (MMPIs) is challenging...
April 20, 2018: Future Medicinal Chemistry
https://www.readbyqxmd.com/read/29676106/-medication-regularity-and-potential-targets-of-professor-xu-jing-fan-s-prescription-for-treating-ulcerative-colitis
#14
Li-Qin Ning, Bai Ye, Hong Shen, Wei-Min Lu, Dan-Hua Xu, Jing Yan, Chang Tan, De-Cai Tang
Ulcerative colitis (UC) is a chronic nonspecific inflammation mainly involving rectum and colon mucosa, which seriously affects the health and quality of life of patients, and is listed as one of modern refractory diseases by WHO. Professor XU Jing-fan, a great master of traditional Chinese medicine, has accumulated rich experiences in the treatment of UC. The study collected Professor XU's 77 prescriptions of treating UC, analyzed the frequency of traditional Chinese medicines and there categories, and investigated the medication regularity by the system clustering method...
March 2018: Zhongguo Zhong Yao za Zhi, Zhongguo Zhongyao Zazhi, China Journal of Chinese Materia Medica
https://www.readbyqxmd.com/read/29676073/overexpression-of-mir-155-5p-inhibits-the-proliferation-and-migration-of-il-13-induced-human-bronchial-smooth-muscle-cells-by-suppressing-tgf-%C3%AE-activated-kinase-1-map3k7-binding-protein-2
#15
Yujia Shi, Xingli Fu, Qi Cao, Zhengdao Mao, Yi Chen, Yun Sun, Zhiguang Liu, Qian Zhang
PURPOSE: Molecular mechanisms leading to asthma is still ill-defined. Though the function of microRNAs (miRNAs) in asthma was previously reported, the involvement of miR-155 in important features of this disease remains unknown. The present study was designed to uncover the probable involvement of miR-155-5p in the proliferation and migration of IL-13-induced human bronchial smooth muscle cells (BSMCs) and the intrinsic regulatory mechanism. METHODS: The effects of different concentrations of IL-13 on the proliferation and migration of BSMCs as well as the expression of miR-155-5p and its predicted target transforming growth factor (TGF)-β-activated kinase 1/MAP3K7-binding protein 2 (TAB2) were investigated...
May 2018: Allergy, Asthma & Immunology Research
https://www.readbyqxmd.com/read/29676027/phylogenetic-analyses-of-the-genus-aeromonas-based-on-housekeeping-gene-sequencing-and-its-influence-on-systematics
#16
Aaron Navarro, Antonio Martínez-Murcia
The phylogenies derived from housekeeping gene sequence alignments, although mere evolutionary hypotheses, have increased our knowledge about the Aeromonas genetic diversity, providing a robust species delineation framework invaluable for reliable, easy and fast species identification. Previous classifications of Aeromonas, have been fully surpassed by recently developed phylogenetic (natural) classification obtained from the analysis of so-called "molecular chronometers". Despite ribosomal RNAs cannot split all known Aeromonas species, the conserved nature of 16S rRNA offers reliable alignments containing mosaics of sequence signatures which may serve as targets of genus-specific oligonucleotides for subsequent identification/detection tests in samples without culturing...
April 19, 2018: Journal of Applied Microbiology
https://www.readbyqxmd.com/read/29676014/autoinflammatory-disease-in-the-lung
#17
REVIEW
Thomas Scambler, Jonathan Holbrook, Sinisa Savic, Michael F McDermott, Daniel Peckham
Ascertaining the dominant cell type driving an immunological disease is essential to understanding the causal pathology and, therefore, selecting or developing an effective treatment. Classifying immunological diseases in this way has led to successful treatment regimens for many monogenic diseases; however, when the dominant cell type is unclear and there is no obvious causal genetic mutation, then identifying the correct disease classification and appropriate therapy can be challenging. In this review we focus on pulmonary immunological diseases where an innate immune signature has been identified as a predominant aspect of the immunopathology...
April 19, 2018: Immunology
https://www.readbyqxmd.com/read/29675796/construction-of-transcriptional-regulatory-network-of-alzheimer-s-disease-based-on-panda-algorithm
#18
Jieyuan Ding, Wei Kong, Xiaoyang Mou, Shuaiqun Wang
The focus of modern biomedical research concentrates on molecular level regulatory mechanisms and how the normal and abnormal phenotypes of tissue functional are affected by regulatory mechanisms. Most of the research on regulatory mechanism starts from the reconstruction of gene regulation network. At present, a large number of reconstruction methods construct the network using a single data set. These methods of inferring and predicting the relationship between the target gene and the transcription factor (TF) can be used to identify individual interactions between genes, while there is not much research on the interaction of many functional-related genes...
April 19, 2018: Interdisciplinary Sciences, Computational Life Sciences
https://www.readbyqxmd.com/read/29675400/simultaneous-detection-of-key-bacterial-pathogens-related-to-pneumonia-and-meningitis-using-multiplex-pcr-coupled-with-mass-spectrometry
#19
Chi Zhang, Leshan Xiu, Yan Xiao, Zhengde Xie, Lili Ren, Junping Peng
Pneumonia and meningitis continue to present an enormous public health burden and pose a major threat to young children. Among the causative organisms of pneumonia and meningitis, bacteria are the most common causes of serious disease and deaths. It is challenging to accurately and rapidly identify these agents. To solve this problem, we developed and validated a 12-plex PCR coupled with matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS) method (bacterial pathogen-mass spectrometry, BP-MS) that can be used to simultaneously screen for 11 key bacterial pathogens related to pneumonia and meningitis...
2018: Frontiers in Cellular and Infection Microbiology
https://www.readbyqxmd.com/read/29675313/high-sensitivity-and-label-free-oligonucleotides-detection-using-photonic-bandgap-sensing-structures-biofunctionalized-with-molecular-beacon-probes
#20
Ángela Ruiz-Tórtola, Francisco Prats-Quílez, Daniel González-Lucas, María-José Bañuls, Ángel Maquieira, Guy Wheeler, Tamas Dalmay, Amadeu Griol, Juan Hurtado, Jaime García-Rupérez
A label-free sensor, based on the combination of silicon photonic bandgap (PBG) structures with immobilized molecular beacon (MB) probes, is experimentally developed. Complementary target oligonucleotides are specifically recognized through hybridization with the MB probes on the surface of the sensing structure. This combination of PBG sensing structures and MB probes demonstrates an extremely high sensitivity without the need for complex PCR-based amplification or labelling methods.
April 1, 2018: Biomedical Optics Express
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