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https://www.readbyqxmd.com/read/29145712/cartilage-microrna-dysregulation-during-the-onset-and-progression-of-mouse-osteoarthritis-is-independent-of-aggrecanolysis-and-overlaps-with-candidates-from-end-stage-human-disease
#1
Louise H W Kung, Varshini Ravi, Lynn Rowley, Constanza Angelucci, Amanda J Fosang, Katrina M Bell, Christopher B Little, John F Bateman
OBJECTIVE: To identify candidate microRNAs that potentially regulate the initiation and progression of osteoarthritis. METHODS: Osteoarthritis was induced in 10-12 week old male wild-type C57BL6 mice and in mice resistant to aggrecanase cleavage (Acan p.374ALGS→374NVYS) by destabilization of the medial meniscus (DMM). Osteoarthritis pathology was scored histologically. RNA from cartilage and subchondral bone were harvested in parallel by laser micro-dissection at 1 and 6 weeks post-surgery...
November 16, 2017: Arthritis & Rheumatology
https://www.readbyqxmd.com/read/29145633/the-initiation-propagation-and-dynamics-of-crispr-spycas9-r-loop-complex
#2
Yan Zeng, Yang Cui, Yong Zhang, Yanruo Zhang, Meng Liang, Hui Chen, Jie Lan, Guangtao Song, Jizhong Lou
CRISPR-Cas9 system has been widely used for efficient genome editing. Although the structures of Cas9 protein in complex with single-guided RNA (sgRNA) and target DNA have been resolved, the molecular details about the formation of Cas9 endonuclease R-loop structure remain elusive. Here we examine the DNA cleavage activities of Streptococcus pyogenes Cas9 (SpyCas9) and its mutants using various target sequences and study the conformational dynamics of R-loop structure during target binding using single-molecule fluorescence energy transfer (smFRET) technique...
November 14, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/29145595/synchrony-weather-and-cycles-in-southern-pine-beetle-coleoptera-curculionidae
#3
John D Reeve
Spatial synchrony and cycles are common features of forest insect pests, but are often studied as separate phenomenon. Using time series of timber damage caused by Dendroctonus frontalis Zimmermann (Coleoptera: Curculionidae) (southern pine beetle) in 10 states within the southern United States, this study examines synchrony in D. frontalis abundance, the synchronizing effects of temperature extremes, and the evidence for shared cycles among state populations. Cross-correlation and cluster analyses are used to quantify synchrony across a range of geographic distances and to identify groups of states with synchronous dynamics...
November 14, 2017: Environmental Entomology
https://www.readbyqxmd.com/read/29145573/human-papillomavirus-hpv-and-somatic-egfr-mutations-are-essential-mutually-exclusive-oncogenic-mechanisms-for-inverted-sinonasal-papillomas-and-associated-sinonasal-squamous-cell-carcinomas
#4
A M Udager, J B McHugh, C M Goudsmit, H C Weigelin, M S Lim, K S J Elenitoba-Johnson, B L Betz, T E Carey, N A Brown
Background: Inverted sinonasal papilloma (ISP) is a locally aggressive neoplasm often associated with sinonasal squamous cell carcinoma (SNSCC). While the etiology of ISP is not well understood, human papillomavirus (HPV) has been detected in a subset of cases. Our group recently identified activating somatic EGFR mutations in the majority of ISP and ISP-associated SNSCC. However, the relationship between EGFR mutations and HPV infection has not been explored. Patients and Methods: We evaluated 58 ISP and 22 ISP-associated SNSCC (including 13 patients with matched ISP/SNSCC samples), as well as 14 SNSCC without clinical or pathologic evidence of an associated ISP...
November 14, 2017: Annals of Oncology: Official Journal of the European Society for Medical Oncology
https://www.readbyqxmd.com/read/29145475/mapping-three-dimensional-surface-deformation-caused-by-the-2010-haiti-earthquake-using-advanced-satellite-radar-interferometry
#5
Hyung-Sup Jung, Soo-Min Hong
Mapping three-dimensional (3D) surface deformation caused by an earthquake is very important for the environmental, cultural, economic and social sustainability of human beings. Synthetic aperture radar (SAR) systems made it possible to measure precise 3D deformations by combining SAR interferometry (InSAR) and multiple aperture interferometry (MAI). In this paper, we retrieve the 3D surface deformation field of the 2010 Haiti earthquake which occurred on January 12, 2010 by a magnitude 7.0 Mw by using the advanced interferometric technique that integrates InSAR and MAI data...
2017: PloS One
https://www.readbyqxmd.com/read/29145429/heritability-of-the-morphology-of-optic-nerve-head-and-surrounding-structures-the-healthy-twin-study
#6
Jong Chul Han, Hyeonyoung Ko, Seung Hoon Kim, Taekkwan Rhee, Seung Wan Nam, Sungsoon Hwang, Ga-In Lee, Joohon Sung, Yun-Mi Song, Changwon Kee
BACKGROUND: Optic nerve head (ONH) and surrounding structures such as β-zone peripapillary atrophy (PPA) are important structures in glaucomatous pathogenesis. Thus, for understanding genetic components in glaucoma pathogenesis, it is necessary to evaluate the heritability of ONH and surrounding structures. The present study investigated the genetic influences on ONH and surrounding structures such as β-zone PPA and retinal vessels. METHODS: A total of 1,205 adult twins and their family members (362 monozygotic (MZ) twin subjects (181 pairs), 64 dizygotic (DZ) twin subjects (32 pairs), and 779 singletons from 261 families), were part of the Korean Healthy Twin Study...
2017: PloS One
https://www.readbyqxmd.com/read/29145425/statistical-analysis-of-co-occurrence-patterns-in-microbial-presence-absence-datasets
#7
Kumar P Mainali, Sharon Bewick, Peter Thielen, Thomas Mehoke, Florian P Breitwieser, Shishir Paudel, Arjun Adhikari, Joshua Wolfe, Eric V Slud, David Karig, William F Fagan
Drawing on a long history in macroecology, correlation analysis of microbiome datasets is becoming a common practice for identifying relationships or shared ecological niches among bacterial taxa. However, many of the statistical issues that plague such analyses in macroscale communities remain unresolved for microbial communities. Here, we discuss problems in the analysis of microbial species correlations based on presence-absence data. We focus on presence-absence data because this information is more readily obtainable from sequencing studies, especially for whole-genome sequencing, where abundance estimation is still in its infancy...
2017: PloS One
https://www.readbyqxmd.com/read/29145066/relationship-between-follicular-dynamics-and-oocyte-maturation-during-in%C3%A2-vitro-culture-as-a-non-invasive-sign-of-caprine-oocyte-meiotic-competence
#8
J Cadenas, C Maside, A C A Ferreira, L A Vieira, J Leiva-Revilla, V M Paes, B G Alves, F Z Brandão, A P R Rodrigues, M B Wheeler, J R Figueiredo
The search for non-invasive signs of oocyte meiotic competence is very important for the development of in vitro follicle culture (IVFC) systems. The aims of the present study were: (1) to investigate the effect of in vitro maturation (IVM) of in vivo grown goat COCs, in group or individually, on oocyte chromatin configuration (Experiment 1), and (2) the influence of IVFC period (12 vs. 18 days) on the ability of the oocyte to resume meiosis immediately after IVFC (before in vitro maturation; IVM), or after IVM (Experiment 2)...
November 4, 2017: Theriogenology
https://www.readbyqxmd.com/read/29145054/associations-between-prenatal-lead-exposure-and-birth-outcomes-modification-by-sex-and-gstm1-gstt1-polymorphism
#9
Dirga Kumar Lamichhane, Jong-Han Leem, Chang-Shin Park, Mina Ha, Eun-Hee Ha, Hwan-Cheol Kim, Ji-Young Lee, Jung Keun Ko, Yangho Kim, Yun-Chul Hong
Maternal lead exposure is associated with poor birth outcomes. However, modifying effects of polymorphism in glutathione S-transferases (GST) gene and infant sex remain unexplored. Our aim was to evaluate whether associations between prenatal lead and birth outcomes differed by maternal GST genes and infant sex. Prospective data of 782 mother-child pairs from Mothers and Children's Environmental Health (MOCEH) study were used. The genotyping of GST-mu 1 (GSTM1) and theta-1 (GSTT1) polymorphisms was carried out using polymerase chain reaction...
November 13, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/29145006/a-cross-disciplinary-evaluation-of-evidence-for-multipollutant-effects-on-cardiovascular-disease
#10
REVIEW
Thomas J Luben, Barbara J Buckley, Molini M Patel, Tina Stevens, Evan Coffman, Kristen M Rappazzo, Elizabeth O Owens, Erin P Hines, Danielle Moore, Kyle Painter, Ryan Jones, Laura Datko-Williams, Adrien A Wilkie, Meagan Madden, Jennifer Richmond-Bryant
BACKGROUND: The current single-pollutant approach to regulating ambient air pollutants is effective at protecting public health, but efficiencies may be gained by addressing issues in a multipollutant context since multiple pollutants often have common sources and individuals are exposed to more than one pollutant at a time. OBJECTIVE: We performed a cross-disciplinary review of the effects of multipollutant exposures on cardiovascular effects. METHODS: A broad literature search for references including at least two criteria air pollutants (particulate matter [PM], ozone [O3], oxides of nitrogen, sulfur oxides, carbon monoxide) was conducted...
November 13, 2017: Environmental Research
https://www.readbyqxmd.com/read/29144790/evaluation-of-ki-67-index-in-core-needle-biopsies-and-matched-breast-cancer-surgical-specimens
#11
Soomin Ahn, Junghye Lee, Min-Sun Cho, Sanghui Park, Sun Hee Sung
CONTEXT: - The Ki-67 index is strongly prognostic and is used as a surrogate marker to distinguish luminal A from luminal B breast cancer types. OBJECTIVE: - To investigate differences in Ki-67 index between core needle biopsy samples and matched surgical samples in breast cancer. DESIGN: - We included patients with invasive breast cancer who did not receive neoadjuvant therapy. A total of 89 pairs of core needle biopsies and surgical specimens were collected, and the Ki-67 index was assessed in hot spot areas using an image analyzer...
November 16, 2017: Archives of Pathology & Laboratory Medicine
https://www.readbyqxmd.com/read/29144760/multi-spectroscopic-and-theoretical-exploration-on-the-comparative-binding-aspects-of-the-bio-flavonoid-fisetin-with-triple-and-double-helical-forms-of-rna
#12
Sutanwi Bhuiya, Lucy Haque, Rapti Goswami, Suman Das
The interactions of RNA triplex (U.A*U) and duplex (A.U) with the naturally occurring flavonoid fisetin (FTN) have been examined at pH 7.0 using various spectroscopic, viscometric and theoretical studies. Experimental observations showed that the ligand binds with both double and triple helical forms of RNA, although the binding affinity is greater for the triplex structure (5.94106 M-1) compared to the duplex counterpart (1.0105 M-1). Thermal melting experiments revealed that the Hoogsteen base paired third strand of triplex was stabilized to a greater extent (~14 C) compared to the Watson-Crick base paired second strand (~4 C) in presence of FTN...
November 16, 2017: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/29144758/on-the-density-dependence-of-the-integral-equation-coarse-graining-effective-potential
#13
Mohammadhasan Dinpajooh, Marina Giuseppina Guenza
Coarse-graining (CG) procedures provide computationally efficient methods for investigating the corresponding long time- and length-scale processes. In the bottom-up approaches, the effective interactions between the CG sites is obtained using the information from the atomistic simulations, but reliable CG procedures are required to preserve the structure and thermodynamics. In this regard, the integral equation coarse-graining (IECG) method is a promising approach that uses the first-principles Ornstein-Zernike equation in liquid state theory to determine the effective potential between CG sites...
November 16, 2017: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/29144626/super-selective-robot-assisted-partial-nephrectomy-using-near-infrared-flurorescence-versus-early-unclamping-of-the-renal-artery-results-of-a-prospective-matched-pair-analysis
#14
Cecilia Lanchon, Valentin Arnoux, Gaëlle Fiard, Jean-Luc Descotes, Jean-Jacques Rambeaud, Jean-Benjamin Lefrancq, Delphine Poncet, Nicolas Terrier, Camille Overs, Quentin Franquet, Jean-Alexandre Long
INTRODUCTION: Super-selective clamping of tumor-specific segmental arteries was developed to eliminate ischemia of the remnant kidney while limiting hemorrhage during partial nephrectomy. The objective is to evaluate the benefice of super-selective clamping on renal functional outcome, compared to early-unclamping of the renal artery. MATERIALS AND METHODS: From March 2015 to July 2016, data from 30 patients undergoing super-selective robot-assisted PN (RAPN) for a solitary tumor by a single surgeon were prospectively collected...
November 19, 2017: International Braz J Urol: Official Journal of the Brazilian Society of Urology
https://www.readbyqxmd.com/read/29144447/bcat1-restricts-%C3%AE-kg-levels-in-aml-stem-cells-leading-to-idhmut-like-dna-hypermethylation
#15
Simon Raffel, Mattia Falcone, Niclas Kneisel, Jenny Hansson, Wei Wang, Christoph Lutz, Lars Bullinger, Gernot Poschet, Yannic Nonnenmacher, Andrea Barnert, Carsten Bahr, Petra Zeisberger, Adriana Przybylla, Markus Sohn, Martje Tönjes, Ayelet Erez, Lital Adler, Patrizia Jensen, Claudia Scholl, Stefan Fröhling, Sibylle Cocciardi, Patrick Wuchter, Christian Thiede, Anne Flörcken, Jörg Westermann, Gerhard Ehninger, Peter Lichter, Karsten Hiller, Rüdiger Hell, Carl Herrmann, Anthony D Ho, Jeroen Krijgsveld, Bernhard Radlwimmer, Andreas Trumpp
The branched-chain amino acid (BCAA) pathway and high levels of BCAA transaminase 1 (BCAT1) have recently been associated with aggressiveness in several cancer entities. However, the mechanistic role of BCAT1 in this process remains largely uncertain. Here, by performing high-resolution proteomic analysis of human acute myeloid leukaemia (AML) stem-cell and non-stem-cell populations, we find the BCAA pathway enriched and BCAT1 protein and transcripts overexpressed in leukaemia stem cells. We show that BCAT1, which transfers α-amino groups from BCAAs to α-ketoglutarate (αKG), is a critical regulator of intracellular αKG homeostasis...
November 16, 2017: Nature
https://www.readbyqxmd.com/read/29144169/bright-light-exposure-during-daytime-sleeping-affects-nocturnal-melatonin-secretion-after-simulated-night-work
#16
Shunsuke Nagashima, Madoka Osawa, Hiroto Matsuyama, Wataru Ohoka, Aemi Ahn, Tomoko Wakamura
The guidelines for night and shift workers recommend that after night work, they should sleep in a dark environment during the daytime. However, staying in a dark environment during the daytime reduces nocturnal melatonin secretion and delays its onset. Daytime bright-light exposure after night work is important for melatonin synthesis the subsequent night and for maintaining the circadian rhythms. However, it is not clear whether daytime sleeping after night work should be in a dim- or a bright-light environment for maintaining melatonin secretion...
November 16, 2017: Chronobiology International
https://www.readbyqxmd.com/read/29144130/structural-phase-transitions-in-ptin2-at-high-pressure-a-theoretical-investigation
#17
P Modak, Ashok K Verma
A study of the bonding and electronic properties of intermetallics under pressure is crucial in the design and development of novel materials for useful applications. These properties are largely controlled by the underlying crystal structures. Here we investigated the high-pressure structural behavior of PtIn2 using crystal structure search calculations, which efficiently combine evolutionary algorithms and state-of-the-art density functional theory. Three new crystal structures, namely, Fe2B-type (I4/mcm, Z = 2), cotunnite-type (Pnma, Z = 4), and monoclinic (C2/m, Z = 2), are proposed at about 9...
November 16, 2017: Inorganic Chemistry
https://www.readbyqxmd.com/read/29144126/highly-active-carbene-potassium-complexes-for-the-ring-opening-polymerization-of-%C3%AE%C2%B5-caprolactone
#18
Mrinal Bhunia, Gonela Vijaykumar, Debashis Adhikari, Swadhin K Mandal
Herein we report the synthesis of two complexes of potassium employing strongly nucleophilic carbenes, such as cyclic "(alkyl)(amino)carbene (cAAC) and abnormal N-heterocyclic carbene (aNHC). Both complexes are dimeric in the solid state and the two potassium centers are bridged by trimethylsilylamide. In these complexes, the carbene- - -K interaction is predominantly electrostatic in character, which has been probed thoroughly by NBO and AIM analyses. Indeed, the delocalization energy of the cAAC lone pair calculated from the second-order perturbation theory was only 5...
November 16, 2017: Inorganic Chemistry
https://www.readbyqxmd.com/read/29144123/the-sign-of-nmr-chemical-shift-difference-as-a-determinant-of-the-origin-of-binding-selectivity-elucidation-of-the-position-dependence-of-phosphorylation-in-ligands-binding-to-scribble-pdz1
#19
Gustav Sundell, Beat Vögeli, Ylva Ivarsson, Celestine Chi
The use of NMR chemical shift perturbation to monitor changes taking place around the binding site of a ligand-protein interaction is a routine and widely applied methodology in the field of protein biochemistry. Shifts are often acquired by titrating various concentrations of ligand to a fixed concentration of the receptor and may serve the purposes, amongst others, to determine affinity constants, locate binding surfaces, or differentiate between binding mechanisms. Shifts are quantified by the so-called combined chemical shift difference...
November 16, 2017: Biochemistry
https://www.readbyqxmd.com/read/29143966/drug-interaction-at-herg-channel-in-vitro-assessment-of-the-electrophysiological-consequences-of-drug-combinations-and-comparison-against-theoretical-models
#20
Barbara Wiśniowska, Bartosz Lisowski, Magdalena Kulig, Sebastian Polak
Drugs carry a proarrhythmic risk, which gets even greater when they are used in combination. In vitro assessment of the proarrhythmic potential of drugs is limited to one compound and thus neglects the potential of drug-drug interactions, including those involving active metabolites. Here we present the results of an in vitro study of potential drug-drug interactions at the level of the hERG channel for the combination of up to three compounds: loratadine, desloratadine and ketoconazole. Experiments were performed at room temperature on an automated patch-clamp device CytoPatch 2, with the use of heterogeneously, stably transfected HEK cells...
November 16, 2017: Journal of Applied Toxicology: JAT
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