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https://www.readbyqxmd.com/read/29161781/in-silico-docking-studies-of-lupeol-with-mapk-pathway-proteins-raf-1-mek-erk
#1
Mital H Bhatt, Chirag K Prajapati, M N Reddy
Lupeol, A triterpenoid found in variety of plants is reported to have beneficial medicinal effects on several ailments. Lupeol is also found to show inhibitory effect on proliferation of breast cancer cells. Metastasis is considered to be a major cause for worldwide deaths related to cancer. Ras related MAPK Signaling Pathway is one of the crucial pathways leading to metastasis. Lupeols binding possibility with Ras is already reported. In present study, Interaction between with downstream proteins of Ras- MAPK pathway, Raf ,MEK ,ERK1/2 and their corresponding domains are studied using STRING Database and their structures are retrieved in PDB Format...
November 2017: Journal of Experimental Therapeutics & Oncology
https://www.readbyqxmd.com/read/29161754/the-sorghum-bicolor-reference-genome-improved-assembly-gene-annotations-a-transcriptome-atlas-and-signatures-of-genome-organization
#2
Ryan F McCormick, Sandra K Truong, Avinash Sreedasyam, Jerry Jenkins, Shengqiang Shu, David Sims, Megan Kennedy, Mojgan Amirebrahimi, Brock D Weers, Brian McKinley, Ashley Mattison, Daryl T Morishige, Jane Grimwood, Jeremy Schmutz, John E Mullet
Sorghum bicolor is a drought tolerant C4 grass used for production of grain, forage, sugar, and lignocellulosic biomass and a genetic model for C4 grasses due to its relatively small genome (~800 Mbp), diploid genetics, diverse germplasm, and colinearity with other C4 grass genomes. In this study, deep sequencing, genetic linkage analysis, and transcriptome data were used to produce and annotate a high-quality reference genome sequence. Reference genome sequence order was improved, 29.6 Mbp of additional sequence was incorporated, the number of genes annotated increased 24% to 34,211, average gene length and N50 increased, and error frequency was reduced 10-fold to 1 per 100 kbp...
November 21, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/29161688/plasma-beta-trace-protein-as-a-marker-of-residual-renal-function-the-effect-of-different-hemodialysis-modalities-and-intra-individual-variability-over-time
#3
Amaryllis H van Craenenbroeck, Ann-Christin Bragfors-Helin, Abdul Rashid Qureshi, Bengt Lindholm, Bodil Sjöberg, Björn Anderstam, Olof Heimburger, Peter Stenvinkel, Peter Bárány
BACKGROUND/AIMS: Beta-trace protein (BTP) is a low-molecular-weight molecule, which may be used to assess residual renal function (RRF) in dialysis patients. Here we evaluated the influence of hemodialysis (HD) and hemodiafiltration (HDF) on plasma BTP, and analyzed the inter- and intra-individual variability of plasma BTP over time in HD and peritoneal dialysis (PD) patients. METHODS: In 12 prevalent HD patients, the effect of a single session of low-flux HD, high-flux HD and HDF on plasma BTP was studied...
November 22, 2017: Kidney & Blood Pressure Research
https://www.readbyqxmd.com/read/29161638/to-what-extent-do-structural-changes-in-catalytic-metal-sites-affect-enzyme-function
#4
Yana Valasatava, Antonio Rosato, Nicholas Furnham, Janet M Thornton, Claudia Andreini
About half of known enzymatic reactions involve metals. Enzymes belonging to the same superfamily often evolve to catalyze different reactions on the same structural scaffold. The work presented here investigates how functional differentiation, within superfamilies that contain metalloenzymes, relates to structural changes at the catalytic metal site. In general, when the catalytic metal site is unchanged across the enzymes of a superfamily, the functional differentiation within the superfamily tends to be low and the mechanism conserved...
November 8, 2017: Journal of Inorganic Biochemistry
https://www.readbyqxmd.com/read/29161635/temperature-dependent-conformational-dynamics-of-cytochrome-c-implications-in-apoptosis
#5
Gurusamy Muneeswaran, Subramanian Kartheeswaran, Kaliappan Muthukumar, Chandran Karunakaran
Heat, electric shock, and burn injuries induce apoptosis by releasing cytochrome c (cyt-c) from mitochondria and by subsequently activating the death protease, caspases-3. During apoptosis, cyt-c undergoes changes in the secondary structure that have been suggested to increase its peroxidase activity. Information about these structural changes will provide better understanding of the apoptotic mechanism. Hence, temperature-dependent conformational dynamics of cyt-c has been investigated through molecular dynamics (MD) simulations to explain the structural changes and to correlate them with its apoptotic behavior...
October 20, 2017: Journal of Molecular Graphics & Modelling
https://www.readbyqxmd.com/read/29161623/functions-of-myosin-motors-tailored-for-parasitism
#6
REVIEW
Christina Mueller, Arnault Graindorge, Dominique Soldati-Favre
Myosin motors are one of the largest protein families in eukaryotes that exhibit divergent cellular functions. Their roles in protozoans, a diverse group of anciently diverged, single celled organisms with many prominent members known to be parasitic and to cause diseases in human and livestock, are largely unknown. In the recent years many different approaches, among them whole genome sequencing, phylogenetic analyses and functional studies have increased our understanding on the distribution, protein architecture and function of unconventional myosin motors in protozoan parasites...
November 18, 2017: Current Opinion in Microbiology
https://www.readbyqxmd.com/read/29161511/a-customizable-flow-injection-system-for-automated-high-throughput-and-time-sensitive-ion-mobility-spectrometry-and-mass-spectrometry-measurements
#7
Daniel J Orton, Malak M Tfaily, Ronald J Moore, Brian L LaMarche, Xueyun Zheng, Thomas L Fillmore, Rosalie K Chu, Karl K Weitz, Matthew E Monroe, Ryan T Kelly, Richard D Smith, Erin Shammel Baker
To better understand disease conditions and environmental perturbations, multi-omic studies combining proteomic, lipidomic, and metabolomic analyses are vastly increasing in popularity. In a multi-omic study, a single sample is typically extracted in multiple ways and various analyses are performed using different instruments. Thus, one sample becomes many measurements, making high throughput and reproducible evaluations a necessity. One way to address the numerous samples and varying instrumental conditions is to utilize a flow injection analysis (FIA) system for rapid sample injection...
November 21, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/29161498/selective-isolation-of-myosin-subfragment-1-with-a-dna-polyoxovanadate-bioconjugate
#8
Qing Chen, Xue Hu, Dan-Dan Zhang, Xuwei Chen, Jian-Hua Wang
The bioconjugation of a polyoxometalate (POMs), i.e., dodecavanadate (V12O32), to DNA strands produces a functional labeled DNA primer, V12O32-DNA. The grafting of DNA primer onto streptavidin-coated magnetic nanoparticles (SVM) obtains a novel composite, V12O32-DNA@SVM. The high binding-affinity of V12O32 with the ATP binding site in myosin subfragment-1 (S1) facilitates favorable adsorption of myosin, with an efficiency of 99.4% when processing 0.1 mL myosin solution (100 μg/mL) using 0.1 mg composite. Myosin adsorption fits Langmuir model, corresponding to a theoretical adsorption capacity of 613...
November 21, 2017: Bioconjugate Chemistry
https://www.readbyqxmd.com/read/29161470/resequencing-of-a-mutant-bearing-an-iron-starvation-recovery-phenotype-defines-slr1658-as-a-new-player-in-the-regulatory-network-of-a-model-cyanobacterium
#9
Hagit Zer, Ketty Margulis, Jens Georg, Yoram Shotland, Gergana Kostova, Laure Sultan, Wolfgang R Hess, Nir Keren
Photosynthetic microorganisms encounter an erratic nutrient environment characterized by periods of iron limitation and sufficiency. Surviving in such an environment requires mechanisms for handling these transitions. Our study identified a regulatory system involved in the process of recovery from iron limitation in cyanobacteria. We set out to study the role of bacterioferritin co-migratory proteins during transitions in iron bioavailability in the cyanobacterium Synechocystis sp. PCC 6803 using knockout strains coupled with physiological and biochemical measurements...
November 21, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/29161441/contributions-of-function-altering-variants-in-genes-implicated-in-pubertal-timing-and-body-mass-for-self-limited-delayed-puberty
#10
Sasha R Howard, Leonardo Guasti, Ariel Poliandri, Alessia David, Claudia P Cabrera, Michael R Barnes, Karoliina Wehkalampi, Stephen O'Rahilly, Catherine E Aiken, Anthony P Coll, Marcella Ma, Debra Rimmington, Giles S H Yeo, Leo Dunkel
Context: Self-limited delayed puberty (DP) is often associated with delay in physical maturation, but whilst highly heritable the causal genetic factors remain elusive. Genome-wide association studies of the timing of puberty have identified multiple loci for age of menarche (AAM) in females and voice break in males, particularly in pathways controlling energy balance. Objective/Main outcome measures: We aimed to assess the contribution of rare variants in such genes to the phenotype of familial DP...
November 16, 2017: Journal of Clinical Endocrinology and Metabolism
https://www.readbyqxmd.com/read/29161344/nuclear-localization-of-eif4g3-suggests-a-role-for-the-xy-body-in-translational-regulation-during-spermatogenesis-in-mice
#11
Jianjun Hu, Fengyun Sun, Mary Ann Handel
Eukaryotic translation initiation factor 4G (EIF4G) is an important scaffold protein in the translation initiation complex. In mice mutation of the Eif4g3 gene causes male infertility, with arrest of meiosis at the end of meiotic prophase. This study documents features of the developmental expression and sub-cellular localization of EIF4G3 that might contribute to its highly specific role in meiosis and spermatogenesis. Quite unexpectedly, EIF4G3 is located in the nucleus of spermatocytes, where it is highly enriched in the XY body, the chromatin domain formed by the transcriptionally inactive sex chromosomes...
November 17, 2017: Biology of Reproduction
https://www.readbyqxmd.com/read/29161296/epithelial-periostin-expression-is-correlated-with-poor-survival-in-patients-with-invasive-breast-carcinoma
#12
Ga-Eon Kim, Ji Shin Lee, Min Ho Park, Jung Han Yoon
Invasion and metastasis are direct causes of mortality in patients with breast cancer and require reciprocal interactions between cancer cells and the extracellular matrix (ECM). Periostin, a fasciclin-containing adhesive ECM glycoprotein, is frequently overexpressed in various types of human cancer, and its overexpression in cancer-associated stroma and/or cancer cells is usually associated with poor clinical outcomes. However, the expression of periostin in the successive steps of breast tumorigenesis and its association with outcome variables have not been well established in breast carcinoma...
2017: PloS One
https://www.readbyqxmd.com/read/29161215/recent-advances-in-nanomedicine-and-survivin-targeting-in-brain-cancers
#13
Jake Mazur, Kislay Roy, Jagat R Kanwar
Brain cancer is a highly lethal disease, especially devastating toward both the elderly and children. This cancer has no therapeutics available to combat it, predominately due to the blood-brain barrier (BBB) preventing treatments from maintaining therapeutic levels within the brain. Recently, nanoparticle technology has entered the forefront of cancer therapy due to its ability to deliver therapeutic effects while potentially passing physiological barriers. Key nanoparticles for brain cancer treatment include glutathione targeted PEGylated liposomes, gold nanoparticles, superparamagnetic iron oxide nanoparticles and nanoparticle-albumin bound drugs, with these being discussed throughout this review...
November 21, 2017: Nanomedicine
https://www.readbyqxmd.com/read/29161152/proliferative-cells-isolated-from-the-adult-human-peripheral-retina-only-transiently-upregulate-key-retinal-markers-upon-induced-differentiation
#14
Erik O Johnsen, Rebecca C Frøen, Ole Kristoffer Olstad, Bjørn Nicolaissen, Goran Petrovski, Morten C Moe, Agate Noer
Purpose/Aim: The adult human retina has limited regenerative potential, and severe injury will result in permanent damage. Lower vertebrates handle retinal injury by activating neural stem cells (NSCs) in the ciliary marginal zone (CMZ). Müller glia-like cells expressing markers of NSCs are also present in the peripheral retina (PR) of the adult human eye, leading to the hypothesis that a CMZ-like zone might exists also in humans. In order to shed further light on this hypothesis we investigated the in vitro differentiation potential of proliferative cells isolated from the adult human PR towards a retinal phenotype...
November 21, 2017: Current Eye Research
https://www.readbyqxmd.com/read/29161089/protein-folding-and-the-challenges-of-maintaining-endoplasmic-reticulum-proteostasis-in-idiopathic-pulmonary-fibrosis
#15
Freddy Romero, Ross Summer
Alveolar epithelial type II (AEII) cells are "professional" secretory cells that synthesize and secrete massive quantities of proteins to produce pulmonary surfactant and maintain airway immune defenses. To facilitate this high level of protein synthesis, AEII cells are equipped with an elaborate endoplasmic reticulum (ER) structure and possess an abundance of the machinery needed to fold, assemble, and secrete proteins. However, conditions that suddenly increase the quantity of new proteins entering the ER or that impede the capacity of the ER to fold proteins can cause misfolded or unfolded proteins to accumulate in the ER lumen, also called ER stress...
November 2017: Annals of the American Thoracic Society
https://www.readbyqxmd.com/read/29161081/diet-obesity-and-asthma
#16
Lisa G Wood
Obesity has reached epidemic proportions in many developed countries as Western dietary patterns have been widely adopted. These diets are characterized by excess energy intake as well as regular consumption of processed or "fast" foods and limited consumption of fruit, vegetables, and whole grains. The result is a high intake of saturated fat, refined carbohydrates, and sodium; and a low intake of fiber, vitamins, and other phytochemicals. This type of poor-quality diet has been associated with increased risk of chronic inflammatory diseases, including asthma...
November 2017: Annals of the American Thoracic Society
https://www.readbyqxmd.com/read/29161047/mapping-extracellular-matrix-proteins-in-formalin-fixed-paraffin-embedded-tissues-by-maldi-imaging-mass-spectrometry
#17
Peggi M Angel, Susana Comte-Walters, Lauren E Ball, Kacey Talbot, Anand Mehta, Kelvin G M Brockbank, Richard R Drake
Collagens and elastin form the fundamental framework of all tissues and organs and their expression and post-translational processing are tightly regulated in disease and health. Due to their unique structural composition and properties, it is a recognized challenge to access these protein structures within the complex tissue microenvironment to understand how localized changes modulate tissue health. We describe a new workflow using a combination of matrix-assisted laser desorption /ionization imaging mass spectrometry (MALDI IMS) with collagenase and matrix metalloproteinase (MMP) enzymes to access and report on spatial localization of collagen and elastin sequences in formalin-fixed, paraffin-embedded (FFPE) tissues...
November 21, 2017: Journal of Proteome Research
https://www.readbyqxmd.com/read/29160911/simultaneous-use-of-erythropoietin-and-lfm-a13-as-a-new-therapeutic-approach-for-colorectal-cancer
#18
Anna Tankiewicz-Kwedlo, Justyna Magdalena Hermanowicz, Tomasz Domaniewski, Krystyna Pawlak, Małgorzata Rusak, Anna Pryczynicz, Arkadiusz Surazynski, Tomasz Kaminski, Adam Kazberuk, Dariusz Pawlak
BACKGROUND AND PURPOSE: Bruton's tyrosine kinase (BTK) is a non-receptor tyrosine kinase involved in the activation of signaling pathways responsible for cell maturation and viability. BTK has previously been reported to be overexpressed in colon cancers. This kind of cancer is often accompanied by anemia, which is treated with an erythropoietin supplement. The goal of the present study was to assess the effects of combination therapy with erythropoietin beta (Epo) and LFM-A13 (BTK inhibitor) on colon cancer in in vitro and in vivo models...
November 21, 2017: British Journal of Pharmacology
https://www.readbyqxmd.com/read/29160870/engineering-high-performance-hairpin-stacking-circuits-for-logic-gate-operation-and-highly-sensitive-biosensing-assay-of-microrna
#19
Yueli Xing, Xinmin Li, Taixian Yuan, Wei Cheng, Dandan Li, Tianxiao Yu, Xiaojuan Ding, Shijia Ding
Recently, hairpin stacking circuits (HSC) based on toehold-mediated strand displacement have been engineered to detect nucleic acids and proteins. However, the three metastable hairpins in a HSC system can potentially react non-specifically in the absence of a catalyst, limiting its practical application. Here, we developed a unique hairpin design guideline to eliminate circuit leakage of HSC, and the high-performance HSC was successfully implemented on logic gate building and biosensing. We began by analyzing the sources of circuit leakage and optimizing the toehold lengths of hairpins in the HSC system based on the surface plasmon resonance (SPR) technique...
November 21, 2017: Analyst
https://www.readbyqxmd.com/read/29160852/the-complete-chloroplast-genome-sequences-of-aconitum-pseudolaeve-and-aconitum-longecassidatum-and-development-of-molecular-markers-for-distinguishing-species-in-the-aconitum-subgenus-lycoctonum
#20
Inkyu Park, Sungyu Yang, Goya Choi, Wook Jin Kim, Byeong Cheol Moon
Aconitum pseudolaeve Nakai and Aconitum longecassidatum Nakai, which belong to the Aconitum subgenus Lycoctonum, are distributed in East Asia and Korea. Aconitum species are used in herbal medicine and contain highly toxic components, including aconitine. A. pseudolaeve, an endemic species of Korea, is a commercially valuable material that has been used in the manufacture of cosmetics and perfumes. Although Aconitum species are important plant resources, they have not been extensively studied, and genomic information is limited...
November 21, 2017: Molecules: a Journal of Synthetic Chemistry and Natural Product Chemistry
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