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https://www.readbyqxmd.com/read/28092835/effects-of-the-central-potassium-ions-on-the-g-quadruplex-and-stabilizer-binding
#1
Zhiguo Wang, Jun-Ping Liu
Human telomeres undertake the structure of intra-molecular parallel G-quadruplex in the presence of K(+) in eukaryotic cell. Stabilization of the telomere G-quadruplex represents a potential strategy to prevent telomere lengthening by telomerase in cancer therapy. Current work demonstrates that the binding of central K(+) with the parallel G-quadruplex is a coordinated water directed step-wise process. The K(+) above the top G-tetrad is prone to leak into environment and the 5'-adenine quickly flips over the top G-tetrad, leading to the bottom gate of G-tetrads as the only viable pathway of K(+) binding...
January 6, 2017: Journal of Molecular Graphics & Modelling
https://www.readbyqxmd.com/read/28092740/temporal-variations-in-early-developmental-decisions-an-engine-of-forebrain-evolution
#2
REVIEW
H Bielen, S Pal, S Tole, C Houart
Tight control of developmental timing is pivotal to many major processes in developmental biology, such as patterning, fate specification, cell cycle dynamics, cell migration and connectivity. Temporal change in these ontogenetic sequences is known as heterochrony, a major force in the evolution of body plans and organogenesis. In the last 5 years, studies in fish and rodents indicate that heterochrony in signaling during early development generates diversity in forebrain size and complexity. Here, we summarize these findings and propose that, additionally to spatio-temporal tuning of neurogenesis, temporal and quantitative modulation of signaling events drive pivotal changes in shape, size and complexity of the forebrain across evolution, participating to the generation of diversity in animal behavior and emergence of cognition...
January 13, 2017: Current Opinion in Neurobiology
https://www.readbyqxmd.com/read/28092596/a-general-framework-of-dynamic-constrained-multiobjective-evolutionary-algorithms-for-constrained-optimization
#3
Sanyou Zeng, Ruwang Jiao, Changhe Li, Xi Li, Jawdat S Alkasassbeh
A novel multiobjective technique is proposed for solving constrained optimization problems (COPs) in this paper. The method highlights three different perspectives: 1) a COP is converted into an equivalent dynamic constrained multiobjective optimization problem (DCMOP) with three objectives: a) the original objective; b) a constraint-violation objective; and c) a niche-count objective; 2) a method of gradually reducing the constraint boundary aims to handle the constraint difficulty; and 3) a method of gradually reducing the niche size aims to handle the multimodal difficulty...
January 16, 2017: IEEE Transactions on Cybernetics
https://www.readbyqxmd.com/read/28092440/molecular-interactions-between-graphene-and-biological-molecules
#4
Xingquan Zou, Shuai Wei, Joshua Jasensky, Minyu Xiao, Qiuming Wang, Charles L Brooks, Zhan Chen
Applications of graphene have extended into areas of nanobio-technology such as nanobio-medicine, nanobio-sensing, as well as nanoelectronics with biomolecules. These applications involve interactions between proteins, peptides, DNA, RNA etc. and graphene, therefore understanding such molecular interactions is essential. For example, many applications based on using graphene and peptides require peptides to interact with (e.g., noncovalently bind to) graphene at one end, while simultaneously exposing the other end to the surrounding medium (e...
January 16, 2017: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/28092412/population-dynamics-of-hcv-subtypes-in-injecting-drug-users-on-methadone-maintenance-treatment-in-china-associated-with-economic-and-health-reform
#5
Sheng Zhou, Eleonora Cella, Wang Zhou, Wen-Hua Kong, Man-Qing Liu, Pu-Lin Liu, Massimo Ciccozzi, Marco Salemi, Xin-Guang Chen
The extensive genetic heterogeneity of hepatitis C virus (HCV) requires in-depth understanding of the population dynamics of different viral subtypes for more effective control of epidemic outbreaks. We analyzed HCV sequences data from 125 participants in Wuhan, China. These participants were newly infected by subtype 1b (n=13), 3a (n=15), 3b (n=50), and 6a (n=39) while on methadone maintenance treatment (MMT). Bayesian phylogenies and demographic histories were inferred for these subtypes. Participants infected with HCV-1b and 3a were clustered in well-supported monophyletic clades, indicating local sub-epidemics...
January 16, 2017: Journal of Viral Hepatitis
https://www.readbyqxmd.com/read/28092269/analysis-of-microtubule-growth-dynamics-arising-from-altered-actin-network-structure-and-contractility-in-breast-tumor-cells
#6
Eleanor Ory, Lekhana Bhandary, Amanda Boggs, Kristi Chakrabarti, Joshua Parker, Wolfgang Losert, Stuart S Martin
The periphery of epithelial cells is shaped by opposing cytoskeletal physical forces generated predominately by two dynamic force generating systems - growing microtubule ends push against the boundary from the cell center, and the actin cortex contracts the attached plasma membrane. Here we investigate how changes to the structure and dynamics of the actin cortex alter the dynamics of microtubules. Current drugs target actin polymerization and contraction to reduce cell division and invasiveness; however, the impacts on microtubule dynamics remain incompletely understood...
January 16, 2017: Physical Biology
https://www.readbyqxmd.com/read/28091992/analysing-the-correlations-of-long-term-seasonal-water-quality-parameters-suspended-solids-and-total-dissolved-solids-in-a-shallow-reservoir-with-meteorological-factors
#7
Chen Zhang, Wenna Zhang, Yixuan Huang, Xueping Gao
To explore the correlations among water quality parameters, suspended solids (SS) and total dissolved solids (TDS) with meteorological factors in a shallow reservoir in China, the long-term variations of water quality were considered. A non-parametric regression method, generalized additive models (GAM), was used to analyse the correlations among eleven physicochemical and biological parameters as well as three meteorological factors (wind speed, rainfall and solar radiation) which we collected from 2000 to 2011...
January 13, 2017: Environmental Science and Pollution Research International
https://www.readbyqxmd.com/read/28091979/blood-perfusion-in-osteomyelitis-studied-with-15-o-water-pet-in-a-juvenile-porcine-model
#8
Lars Jødal, Ole L Nielsen, Pia Afzelius, Aage K O Alstrup, Søren B Hansen
BACKGROUND: Osteomyelitis is a serious disease which can be difficult to treat despite properly instituted antibiotic therapy. This appears to be related at least partly to degraded vascularisation in the osteomyelitic (OM) lesions. Studies of perfusion in OM bones are, however, few and not quantitative. Quantitative assessment of perfusion could aid in the selection of therapy. A non-invasive, quantitative way to study perfusion is dynamic [(15)O]water positron emission tomography (PET)...
December 2017: EJNMMI Research
https://www.readbyqxmd.com/read/28091590/high-performance-magneto-fluorescent-nanoparticles-assembled-from-terbium-and-gadolinium-1-3-diketones
#9
Rustem Zairov, Asiya Mustafina, Nataliya Shamsutdinova, Irek Nizameev, Beatriz Moreira, Svetlana Sudakova, Sergey Podyachev, Alfia Fattakhova, Gulnara Safina, Ingemar Lundstrom, Aidar Gubaidullin, Alberto Vomiero
Polyelectrolyte-coated nanoparticles consisting of terbium and gadolinium complexes with calix[4]arene tetra-diketone ligand were first synthesized. The antenna effect of the ligand on Tb(III) green luminescence and the presence of water molecules in the coordination sphere of Gd(III) bring strong luminescent and magnetic performance to the core-shell nanoparticles. The size and the core-shell morphology of the colloids were studied using transmission electron microscopy and dynamic light scattering. The correlation between photophysical and magnetic properties of the nanoparticles and their core composition was highlighted...
January 16, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28091588/high-molecular-weight-hyaluronic-acid-attenuated-matrix-metalloproteinase-1-and-3-expression-via-cd44-in-tendinopathy
#10
Po-Ting Wu, Li-Chieh Kuo, Fong-Chin Su, Shih-Yao Chen, Tai-I Hsu, Chung-Yi Li, Kuen-Jer Tsai, I-Ming Jou
Evidence indicates that hyaluronic acid (HA) mitigates tendinopathy, but the effect of molecular weight is unclear. We investigated the effects of different concentrations and different molecular weights of HA (350 kDa, 1500 kDa, and 3000 kDa) on matrix metalloproteinase (MMP)-1 and -3 expression in IL-1β-stimulated rat tenocytes, and on their dynamic expression in peritendinous effusion from patients with long head of biceps (LHB) tendinopathy after high-molecular-weight (HMW)-HA treatments. Reverse transcription PCR, real-time PCR, and ELISA were used to determine MMP-1 and -3expression...
January 16, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28091579/impact-of-age-and-vaccination-history-on-long-term-serological-responses-after-symptomatic-b-pertussis-infection-a-high-dimensional-data-analysis
#11
Inonge van Twillert, Axel A Bonačić Marinović, Betsy Kuipers, Jacqueline A M van Gaans-van den Brink, Elisabeth A M Sanders, Cécile A C M van Els
Capturing the complexity and waning patterns of co-occurring immunoglobulin (Ig) responses after clinical B. pertussis infection may help understand how the human host gradually loses protection against whooping cough. We applied bi-exponential modelling to characterise and compare B. pertussis specific serological dynamics in a comprehensive database of IgG, IgG subclass and IgA responses to Ptx, FHA, Prn, Fim2/3 and OMV antigens of (ex-) symptomatic pertussis cases across all age groups. The decay model revealed that antigen type and age group were major factors determining differences in levels and kinetics of Ig (sub) classes...
January 16, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28091578/temporal-dynamics-of-cerebellar-and-motor-cortex-physiological-processes-during-motor-skill-learning
#12
D Spampinato, P Celnik
Learning motor tasks involves distinct physiological processes in the cerebellum (CB) and primary motor cortex (M1). Previous studies have shown that motor learning results in at least two important neurophysiological changes: modulation of cerebellar output mediated in-part by long-term depression of parallel fiber-Purkinje cell synapse and induction of long-term plasticity (LTP) in M1, leading to transient occlusion of additional LTP-like plasticity. However, little is known about the temporal dynamics of these two physiological mechanisms during motor skill learning...
January 16, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28090665/can-patel-s-%C3%AF-accurately-estimate-directionality-of-connections-in-brain-networks-from-fmri
#13
Yunzhi Wang, Olivier David, Xiaoping Hu, Gopikrishna Deshpande
PURPOSE: Investigating directional interactions between brain regions plays a critical role in fully understanding brain function. Consequently, multiple methods have been developed for noninvasively inferring directional connectivity in human brain networks using functional MRI (fMRI). Recent simulations by Smith et al showed that Patel's τ, a method based on higher-order statistics, was the best approach for inferring directional interactions from fMRI. Because simulations make restrictive assumptions about reality, we set out to verify this finding using experimental fMRI data obtained from a three-region network in a rat model with electrophysiological validation...
January 16, 2017: Magnetic Resonance in Medicine: Official Journal of the Society of Magnetic Resonance in Medicine
https://www.readbyqxmd.com/read/28090092/the-clonal-origins-of-leukemic-progression-of-myelodysplasia
#14
T H Kim, M S Tyndel, H J Kim, J-S Ahn, S H Choi, H J Park, Y-K Kim, D-H Yang, J-J Lee, S-H Jung, S Y Kim, Y H Min, J-W Cheong, S K Sohn, J H Moon, M Choi, M Lee, Z Zhang, D Dong Hwan Kim
The genetics behind the progression of myelodysplasia to secondary acute myeloid leukemia (sAML) is poorly understood. In this study, we profiled somatic mutations and their dynamics using next generation sequencing on serial samples from a total of 124 patients, consisting of a 31 patient discovery cohort and 93 patients from two validation cohorts. Whole-exome analysis on the discovery cohort revealed that 29 of 31 patients carry mutations related to at least one of 8 commonly mutated pathways in AML. Mutations in genes related to DNA methylation and splicing machinery were found in T-cell samples, which expand at the initial diagnosis of the myelodysplasia, suggesting their importance as early disease events...
January 16, 2017: Leukemia: Official Journal of the Leukemia Society of America, Leukemia Research Fund, U.K
https://www.readbyqxmd.com/read/28089840/biogeography-and-diversification-dynamics-of-the-african-woodpeckers
#15
Jérôme Fuchs, Jean-Marc Pons, Rauri C K Bowie
The dynamics of species accumulation of African terrestrial vertebrates over time remains underexplored in comparison with those in the New World, despite Africa hosting about 25% of the world's avian diversity. This lack of knowledge hampers our understanding of the fundamental processes that drive biodiversity and the dynamics of speciation. To begin to address this gap, we reconstructed species-level phylogenies of two unrelated clades of African woodpeckers (12 species of Geocolaptes/Campethera and 13 species of Chloropicus/ Mesopicos/ Dendropicos/Ipophilus) that diverged from their closest Indo-Malayan relatives at similar times...
January 12, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28089785/mechanistic-modelling-of-infrared-mediated-energy-transfer-during-the-primary-drying-step-of-a-continuous-freeze-drying-process
#16
Pieter-Jan Van Bockstal, Séverine Thérèse F C Mortier, Laurens De Meyer, Jos Corver, Chris Vervaet, Ingmar Nopens, Thomas De Beer
Conventional pharmaceutical freeze-drying is an inefficient and expensive batch-wise process, associated with several disadvantages leading to an uncontrolled end product variability. The proposed continuous alternative, based on spinning the vials during freezing and on optimal energy supply during drying, strongly increases process efficiency and improves product quality (uniformity). The heat transfer during continuous drying of the spin frozen vials is provided via non-contact infrared (IR) radiation. The energy transfer to the spin frozen vials should be optimised to maximise the drying efficiency while avoiding cake collapse...
January 12, 2017: European Journal of Pharmaceutics and Biopharmaceutics
https://www.readbyqxmd.com/read/28089576/conditional-deletion-of-pejvakin-in-adult-outer-hair-cells-causes-progressive-hearing-loss-in-mice
#17
Suzan L Harris, Marcin Kazmierczak, Tina Pangršič, Prahar Shah, Nadiya Chuchvara, Alonso Barrantes-Freer, Tobias Moser, Martin Schwander
Mutations in the Pejvakin (Pjvk) gene cause autosomal recessive hearing loss DFNB59 with audiological features of auditory neuropathy spectrum disorder (ANSD) or cochlear dysfunction. The precise mechanisms underlying the variable clinical phenotypes of DFNB59 remain unclear. Here, we demonstrate that mice with conditional ablation of the Pjvk gene in all sensory hair cells or only in outer hair cells (OHCs) show similar auditory phenotypes with early-onset profound hearing loss. By contrast, loss of Pjvk in adult OHCs causes a slowly progressive hearing loss associated with OHC degeneration and delayed loss of inner hair cells (IHCs), indicating a primary role for pejvakin in regulating OHC function and survival...
January 9, 2017: Neuroscience
https://www.readbyqxmd.com/read/28088686/immune-history-and-influenza-virus-susceptibility
#18
REVIEW
Sarah Cobey, Scott E Hensley
Antibody responses to influenza viruses are critical for protection, but the ways in which repeated viral exposures shape antibody evolution and effectiveness over time remain controversial. Early observations demonstrated that viral exposure history has a profound effect on the specificity and magnitude of antibody responses to a new viral strain, a phenomenon called 'original antigenic sin.' Although 'sin' might suppress some aspects of the immune response, so far there is little indication that hosts with pre-existing immunity are more susceptible to viral infections compared to naïve hosts...
January 12, 2017: Current Opinion in Virology
https://www.readbyqxmd.com/read/28088618/modelling-possible-causality-in-the-associations-between-unemployment-cannabis-use-and-alcohol-misuse
#19
Joseph M Boden, Jungeun Olivia Lee, L John Horwood, Carolina Villamil Grest, Geraldine F H McLeod
BACKGROUND: There has been considerable interest in the extent to which substance use and unemployment may be related, particularly the causal pathways that may be involved in these associations. It has been argued that these associations may reflect social causation, in which unemployment influences substance use, or that they may reflect social selection, in which substance use increases the risk of becoming and remaining unemployed. The present study sought to test these competing explanations...
January 3, 2017: Social Science & Medicine
https://www.readbyqxmd.com/read/28088482/combined-spatiotemporal-ica-stica-for-continuous-and-dynamic-lag-structure-analysis-of-mreg-data
#20
Ville Raatikainen, Niko Huotari, Vesa Korhonen, Aleksi Rasila, Janne Kananen, Lauri Raitamaa, Tuija Keinänen, Jussi Kantola, Osmo Tervonen, Vesa Kiviniemi
This study investigated lag structure in the resting-state fMRI by applying a novel independent component (ICA) method to magnetic resonance encephalography (MREG) data. Briefly, the spatial ICA (sICA) was used for defining the frontal and back nodes of the default mode network (DMN), and the temporal ICA (tICA), which is enabled by the high temporal resolution of MREG (TR=100ms), was used to separate both neuronal and physiological components of these two spatial map regions. Subsequently, lag structure was investigated between the frontal (DMNvmpf) and posterior (DMNpcc) DMN nodes using both conventional method with all-time points and a sliding-window approach...
January 11, 2017: NeuroImage
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