bluuebunny/crossref_metadata_2025_split huggingface dataset:
Interplay between up-regulation of cytochrome-c-oxidase and hemoglobin oxygenation induced by near-infrared laser
Authors: Wang Xinlong , Tian Fenghua , Soni Sagar S. , Gonzalez-Lima F. , Liu Hanli 
Published: August 2016

AbstractPhotobiomodulation, also known as low-level laser/light therapy (LLLT), refers to the use of red-to-near-infrared light to stimulate cellular functions for physiological or clinical benefits. The mechanism of LLLT is assumed to rely on photon absorption by cytochrome c oxidase (CCO), the terminal enzyme in the mitochondrial respiratory chain that catalyzes the reduction of oxygen for energy metabolism. In this study, we used broadband near-infrared spectroscopy (NIRS) to measure the LLLT-induced changes in CCO and hemoglobin concentrations in human forearms in vivo. Eleven healthy participants were administered with 1064-nm laser and placebo treatments on their right forearms. The spectroscopic data were analyzed and fitted with wavelength-dependent, modified Beer-Lambert Law. We found that LLLT induced significant increases of CCO concentration (Δ[CCO]) and oxygenated hemoglobin concentration (Δ[HbO]) on the treated site as the laser energy dose accumulated over time. A strong linear interplay between Δ[CCO] and Δ[HbO] was observed for the first time during LLLT, indicating a hemodynamic response of oxygen supply and blood volume closely coupled to the up-regulation of CCO induced by photobiomodulation. These results demonstrate the tremendous potential of broadband NIRS as a non-invasive, in vivo means to study mechanisms of photobiomodulation and perform treatment evaluations of LLLT.
A process to control light in a micro resonator through a coupling modulation by surface acoustic waves
Authors: Fan Guofang , Li Yuan , Hu Chunguang , Lei Lihua , Guo Yanchuan 
Published: August 2016

AbstractA novel process to control light through the coupling modulation by surface acoustic wave (SAW) is presented in an optical micro resonator. An optical waveguide modulator of a racetrack resonator on silicon-on-insulator (SOI) technology is took as an example to explore the mechanism. A finite-difference time-domain (FDTD) is developed to simulate the acousto-optical (AO) modulator using the mechanism. An analytical method is presented to verify our proposal. The results show that the process can work well as an optical modulator by SAW.
Dynamics and genetics of a disease-driven species decline to near extinction: lessons for conservation
Authors: Hudson M. A. , Young R. P. , D’Urban Jackson J. , Orozco-terWengel P. , Martin L. , James A. , Sulton M. , Garcia G. , Griffiths R. A. , Thomas R. , Magin C. , Bruford M. W. , Cunningham A. A. 
Published: August 2016

AbstractAmphibian chytridiomycosis has caused precipitous declines in hundreds of species worldwide. By tracking mountain chicken (Leptodactylus fallax) populations before, during and after the emergence of chytridiomycosis, we quantified the real-time species level impacts of this disease. We report a range-wide species decline amongst the fastest ever recorded, with a loss of over 85% of the population in fewer than 18 months on Dominica and near extinction on Montserrat. Genetic diversity declined in the wild, but emergency measures to establish a captive assurance population captured a representative sample of genetic diversity from Montserrat. If the Convention on Biological Diversity’s targets are to be met, it is important to evaluate the reasons why they appear consistently unattainable. The emergence of chytridiomycosis in the mountain chicken was predictable, but the decline could not be prevented. There is an urgent need to build mitigation capacity where amphibians are at risk from chytridiomycosis.
Structural modulation of lithium metal-electrolyte interface with three-dimensional metallic interlayer for high-performance lithium metal batteries
Authors: Lee Hongkyung , Song Jongchan , Kim Yun-Jung , Park Jung-Ki , Kim Hee-Tak 
Published: August 2016

AbstractThe use of lithium (Li) metal anodes has been reconsidered because of the necessity for a higher energy density in secondary batteries. However, Li metal anodes suffer from ‘dead’ Li formation and surface deactivation which consequently form a porous layer of redundant Li aggregates. In this work, a fibrous metal felt (FMF) as a three-dimensional conductive interlayer was introduced between the separator and the Li metal anode to improve the reversibility of the Li metal anode. The FMF can facilitate charge transfer in the porous layer, rendering it electrochemically more active. In addition, the FMF acted as a robust scaffold to accommodate Li deposits compactly in its interstitial sites. The FMF-integrated Li metal (FMF/Li) electrode operated with a small polarisation even at a current density of 10 mA cm−2, and it exhibited a seven times longer cycle-life than that of an FMF-free Li electrode in a symmetric cell configuration. A Li metal battery (LMB) using the FMF/Li electrode and a LiFePO4electrode exhibited a two-fold increase in cycling stability compared with that of a bare Li metal electrode, demonstrating the practical effectiveness of this approach for high performance LMBs.
Reversible lysine acetylation is involved in DNA replication initiation by regulating activities of initiator DnaA in Escherichia coli
Authors: Zhang Qiufen , Zhou Aiping , Li Shuxian , Ni Jinjing , Tao Jing , Lu Jie , Wan Baoshan , Li Shuai , Zhang Jian , Zhao Shimin , Zhao Guo-Ping , Shao Feng , Yao Yu-Feng 
Published: August 2016

AbstractThe regulation of chromosomal replication is critical and the activation of DnaA by ATP binding is a key step in replication initiation. However, it remains unclear whether and how the process of ATP-binding to DnaA is regulated. Here, we show that DnaA can be acetylated and its acetylation level varies with cell growth and correlates with DNA replication initiation frequencies in E. coli. Specifically, the conserved K178 in Walker A motif of DnaA can be acetylated and its acetylation level reaches the summit at the stationary phase, which prevents DnaA from binding to ATP or oriC and leads to inhibition of DNA replication initiation. The deacetylation process of DnaA is catalyzed by deacetylase CobB. The acetylation process of DnaA is mediated by acetyltransferase YfiQ and nonenzymatically by acetyl-phosphate. These findings suggest that the reversible acetylation of DnaA ensures cells to respond promptly to environmental changes. Since Walker A motif is universally distributed across organisms, acetylation of Walker A motif may present a novel regulatory mechanism conserved from bacteria to eukaryotes.
Structural evolution and strength change of a metallic glass at different temperatures
Authors: Tong X. , Wang G. , Stachurski Z. H. , Bednarčík J. , Mattern N. , Zhai Q. J. , Eckert J. 
Published: August 2016

AbstractThe structural evolution of a Zr64.13Cu15.75Ni10.12Al10 metallic glass is investigated in-situ by high-energy synchrotron X-ray radiation upon heating up to crystallization. The structural rearrangements on the atomic scale during the heating process are analysed as a function of temperature, focusing on shift of the peaks of the structure factor in reciprocal space and the pair distribution function and radial distribution function in real space which are correlated with atomic rearrangements and progressing nanocrystallization. Thermal expansion and contraction of the coordination shells is measured and correlated with the bulk coefficient of thermal expansion. The characteristics of the microstructure and the yield strength of the metallic glass at high temperature are discussed aiming to elucidate the correlation between the atomic arrangement and the mechanical properties.
microRNA-132/212 deficiency enhances Aβ production and senile plaque deposition in Alzheimer’s disease triple transgenic mice
Authors: Hernandez-Rapp Julia , Rainone Sara , Goupil Claudia , Dorval Véronique , Smith Pascal Y. , Saint-Pierre Martine , Vallée Maxime , Planel Emmanuel , Droit Arnaud , Calon Frédéric , Cicchetti Francesca , Hébert Sébastien S. 
Published: August 2016

AbstractThe abnormal regulation of amyloid-β (Aβ) metabolism (e.g., production, cleavage, clearance) plays a central role in Alzheimer’s disease (AD). Among endogenous factors believed to participate in AD progression are the small regulatory non-coding microRNAs (miRs). In particular, the miR-132/212 cluster is severely reduced in the AD brain. In previous studies we have shown that miR-132/212 deficiency in mice leads to impaired memory and enhanced Tau pathology as seen in AD patients. Here we demonstrate that the genetic deletion of miR-132/212 promotes Aβ production and amyloid (senile) plaque formation in triple transgenic AD (3xTg-AD) mice. Using RNA-Seq and bioinformatics, we identified genes of the miR-132/212 network with documented roles in the regulation of Aβ metabolism, including Tau, Mapk and Sirt1. Consistent with these findings, we show that the modulation of miR-132, or its target Sirt1, can directly regulate Aβ production in cells. Finally, both miR-132 and Sirt1 levels correlated with Aβ load in humans. Overall, our results support the hypothesis that the miR-132/212 network, including Sirt1 and likely other target genes, contributes to abnormal Aβ metabolism and senile plaque deposition in AD. This study strengthens the importance of miR-dependent networks in neurodegenerative disorders and opens the door to multifactorial drug targets of AD by targeting Aβ and Tau.
Genome-wide identification and gene expression profiling of ubiquitin ligases for endoplasmic reticulum protein degradation
Authors: Kaneko Masayuki , Iwase Ikuko , Yamasaki Yuki , Takai Tomoko , Wu Yan , Kanemoto Soshi , Matsuhisa Koji , Asada Rie , Okuma Yasunobu , Watanabe Takeshi , Imaizumi Kazunori , Nomura Yausyuki 
Published: August 2016

AbstractEndoplasmic reticulum (ER)-associated degradation (ERAD) is a mechanism by which unfolded proteins that accumulate in the ER are transported to the cytosol for ubiquitin–proteasome-mediated degradation. Ubiquitin ligases (E3s) are a group of enzymes responsible for substrate selectivity and ubiquitin chain formation. The purpose of this study was to identify novel E3s involved in ERAD. Thirty-seven candidate genes were selected by searches for proteins with RING-finger motifs and transmembrane regions, which are the major features of ERAD E3s. We performed gene expression profiling for the identified E3s in human and mouse tissues. Several genes were specifically or selectively expressed in both tissues; the expression of four genes (RNFT1, RNF185, CGRRF1 and RNF19B) was significantly upregulated by ER stress. To determine the involvement of the ER stress-responsive genes in ERAD, we investigated their ER localisation, in vitro autoubiquitination activity and ER stress resistance. All were partially localised to the ER, whereas CGRRF1 did not possess E3 activity. RNFT1 and RNF185, but not CGRRF1 and RNF19B, exhibited significant resistance to ER stressor in an E3 activity-dependent manner. Thus, these genes are possible candidates for ERAD E3s.
STAT5 is a key transcription factor for IL-3-mediated inhibition of RANKL-induced osteoclastogenesis
Authors: Lee Jongwon , Seong Semun , Kim Jung Ha , Kim Kabsun , Kim Inyoung , Jeong Byung-chul , Nam Kwang-Il , Kim Kyung Keun , Hennighausen Lothar , Kim Nacksung 
Published: August 2016

AbstractAmong the diverse cytokines involved in osteoclast differentiation, interleukin (IL)-3 inhibits RANKL-induced osteoclastogenesis. However, the mechanism underlying IL-3-mediated inhibition of osteoclast differentiation is not fully understood. Here we demonstrate that the activation of signal transducers and activators of transcription 5 (STAT5) by IL-3 inhibits RANKL-induced osteoclastogenesis through the induction of the expression of Id genes. We found that STAT5 overexpression inhibited RANKL-induced osteoclastogenesis. However, RANKL did not regulate the expression or activation of STAT5 during osteoclast differentiation. STAT5 deficiency prevented IL-3-mediated inhibition of osteoclastogenesis, suggesting a key role of STAT5 in IL-3-mediated inhibition of osteoclast differentiation. In addition, IL-3-induced STAT5 activation upregulated the expression of Id1 and Id2, which are negative regulators of osteoclastogenesis. Overexpression of ID1 or ID2 in STAT5-deficient cells reversed osteoclast development recovered from IL-3-mediated inhibition. Importantly, microcomputed tomography and histomorphometric analysis revealed that STAT5 conditional knockout mice showed reduced bone mass, with an increased number of osteoclasts. Furthermore, IL-3 inhibited RANKL-induced osteoclast differentiation less effectively in the STAT5 conditional knockout mice than in the wild-type mice after RANKL injection. Taken together, our findings indicate that STAT5 contributes to the remarkable IL-3-mediated inhibition of RANKL-induced osteoclastogenesis by activating Id genes and their associated pathways.
Dynamic mRNA and miRNA expression analysis in response to intermuscular bone development of blunt snout bream (Megalobrama amblycephala)
Authors: Wan Shi-Ming , Yi Shao-Kui , Zhong Jia , Nie Chun-Hong , Guan Ning-Nan , Zhang Wei-Zhuo , Gao Ze-Xia 
Published: August 2016

AbstractIntermuscular bone (IB), which occurs only in the myosepta of lower teleosts, is attracting more attention because they are difficult to remove and make the fish unpleasant to eat. By gaining a better understanding of the genetic regulation of IB development, an integrated analysis of miRNAs and mRNAs expression profiling was performed on Megalobrama amblycephala. Four key development stages were selected for transcriptome and small RNA sequencing. A number of significantly differentially expressed miRNAs/genes associated with bone formation and differentiation were identified and the functional characteristics of these miRNAs/genes were revealed by GO function and KEGG pathway analysis. These were involved in TGF-β, ERK and osteoclast differentiation pathways known in the literature to affect bone formation and differentiation. MiRNA-mRNA interaction pairs were detected from comparison of expression between different stages. The function annotation results also showed that many miRNA-mRNA interaction pairs were likely to be involved in regulating bone development and differentiation. A negative regulation effect of two miRNAs was verified through dual luciferase reporter assay. As a unique public resource for gene expression and regulation during the IB development, this study is expected to provide forwards ideas and resources for further biological researches to understand the IBs’ development.
Decompensated liver cirrhosis and neural regulation of mesenteric vascular tone in rats: role of sympathetic, nitrergic and sensory innervations
Authors: Sastre Esther , Caracuel Laura , Prieto Isabel , Llévenes Pablo , Aller M. Ángeles , Arias Jaime , Balfagón Gloria , Blanco-Rivero Javier 
Published: August 2016

AbstractWe evaluated the possible alterations produced by liver cholestasis (LC), a model of decompensated liver cirrhosis in sympathetic, sensory and nitrergic nerve function in rat superior mesenteric arteries (SMA). The vasoconstrictor response to electrical field stimulation (EFS) was greater in LC animals. Alpha-adrenoceptor antagonist phentolamine and P2 purinoceptor antagonist suramin decreased this response in LC animals more than in control animals. Both non-specific nitric oxide synthase (NOS) L-NAME and calcitonin gene related peptide (CGRP) (8-37) increased the vasoconstrictor response to EFS more strongly in LC than in control segments. Vasomotor responses to noradrenaline (NA) or CGRP were greater in LC segments, while NO analogue DEA-NO induced a similar vasodilation in both experimental groups. The release of NA was not modified, while those of ATP, nitrite and CGRP were increased in segments from LC. Alpha 1 adrenoceptor, Rho kinase (ROCK) 1 and 2 and total myosin phosphatase (MYPT) expressions were not modified, while alpha 2B adrenoceptor, nNOS expression and nNOS and MYPT phosphorylation were increased by LC. Together, these alterations might counteract the increased splanchnic vasodilation observed in the last phases of decompensated liver cirrhosis.
p18 inhibits reprogramming through inactivation of Cdk4/6
Authors: Zhu Shaohua , Cao Jiani , Sun Hongyan , Liu Kun , Li Yaqiong , Zhao Tongbiao 
Published: August 2016

AbstractPluripotent stem cells (PSCs), including embryonic and induced pluripotent stem cells (iPSCs), show atypical cell cycle regulation characterized by a high proliferation rate and a shorter G1 phase compared with somatic cells. The mechanisms by which somatic cells remodel their cell cycle to achieve the high proliferation rate of PSCs during reprogramming are unclear. Here we identify that the Ink4 protein p18, which is expressed at high levels in somatic cells but at low levels in PSCs, is a roadblock to successful reprogramming. Mild inhibition of p18 expression enhances reprogramming efficiency, while ectopic expression of p18 completely blocks reprogramming. Mechanistic studies show that expression of wild-type p18, but not a p18D68N mutant which cannot inhibit Cdk4/6, down-regulates expression of Cdk4/6 target genes involved in DNA synthesis (TK, TS, DHFR, PCNA) and cell cycle regulation (CDK1 and CCNA2) and thus inhibits reprogramming. These results indicate that p18 blocks reprogramming by targeting Cdk4/6-mediated cell cycle regulation. Taken together, our results define a novel pathway that inhibits somatic cell reprogramming and provide a new target to enhance reprogramming efficiency.
Intermolecular disulfide bond influences unphosphorylated STAT3 dimerization and function
Authors: Butturini Elena , Gotte Giovanni , Dell'Orco Daniele , Chiavegato Giulia , Marino Valerio , Canetti Diana , Cozzolino Flora , Monti Maria , Pucci Piero , Mariotto Sofia 
Published: August 2016

Signal transducer and activator of transcription 3 (STAT3) is a transcription factor activated by the phosphorylation of tyrosine 705 in response to many cytokines and growth factors. Recently, the roles for unphosphorylated STAT3 (U-STAT3) have been described in response to cytokine stimulation, in cancers, and in the maintenance of heterochromatin stability. It has been reported that U-STAT3 dimerizes, shuttles between the cytoplasm and nucleus, and binds to DNA, thereby driving genes transcription. Although many reports describe the active role of U-STAT3 in oncogenesis in addition to phosphorylated STAT3, the U-STAT3 functional pathway remains elusive.In this report, we describe the molecular mechanism of U-STAT3 dimerization, and we identify the presence of two intermolecular disulfide bridges between Cys367 and Cys542 and Cys418 and Cys426, respectively. Recently, we reported that the same cysteines contribute to the redox regulation of STAT3 signaling pathway both in vitro and in vivo. The presence of these disulfides is here demonstrated to largely contribute to the structure and the stability of U-STAT3 dimer as the dimeric form rapidly dissociates upon reduction in the S–S bonds. In particular, the Cys367–Cys542 disulfide bridge is shown to be critical for U-STAT3 DNA-binding activity. Mutation of the two Cys residues completely abolishes the DNA-binding capability of U-STAT3. Spectroscopic investigations confirm that the noncovalent interactions are sufficient for proper folding and dimer formation, but that the interchain disulfide bonds are crucial to preserve the functional dimer. Finally, we propose a reaction scheme of U-STAT3 dimerization with a first common step followed by stabilization through the formation of interchain disulfide bonds.
High Spatial Inhomogeneity in the Intima-Media Thickness of the Common Carotid Artery is Associated with a Larger Degree of Stenosis in the Internal Carotid Artery: The PARISK Study
Authors: Steinbuch Jeire , van Dijk Anouk , Schreuder Floris , Truijman Martine , de Rotte Alexandra , Nederkoorn Paul , van der Lugt Aad , Hermeling Evelien , Hoeks Arnold , Mess Werner 
Published: August 2016

Abstract
Purpose Inhomogeneity of arterial wall thickness may be indicative of distal plaques. This study investigates the intra-subject association between relative spatial intima-media thickness (IMT) inhomogeneity of the common carotid artery (CCA) and the degree of stenosis of plaques in the internal carotid artery (ICA).
Materials and Methods We included 240 patients with a recent ischemic stroke or transient ischemic attack and mild-to-moderate stenosis in the ipsilateral ICA. IMT inhomogeneity was extracted from B-mode ultrasound recordings. The degree of ICA stenosis was assessed on CT angiography according to the European Carotid Surgery Trial method. Patients were divided into groups with a low (≤ 2 %) and a high (> 2 %) IMT inhomogeneity scaled with respect to the local end-diastolic diameter.
Results 182 patients had suitable CT and ultrasound measurements. Relative CCA-IMT inhomogeneity was similar for the symptomatic and asymptomatic side (difference: 0.02 %, p = 0.85). High relative IMT inhomogeneity was associated with a larger IMT (difference: 235 µm, p < 0.001) and larger degree of ICA stenosis (difference: 5 %, p = 0.023) which remained significant (p = 0.016) after adjustment for common risk factors.
Conclusion Regardless of common risk factors, high relative CCA-IMT inhomogeneity is associated with a greater degree of ICA stenosis and is therefore indicative of atherosclerotic disease. The predictive value of CCA-IMT inhomogeneity for plaque progression and recurrence of cerebrovascular symptoms will be determined in the follow-up phase of PARISK.
The stringent response regulates adaptation to darkness in the cyanobacterium
Synechococcus elongatus
Authors: Hood Rachel D. , Higgins Sean A. , Flamholz Avi , Nichols Robert J. , Savage David F. 
Published: August 2016

Significance
Cyanobacteria are an important group of photosynthetic bacteria that rely upon light energy for growth but frequently must adapt to darkness. Cells stop growing and decrease overall rates of gene expression and protein synthesis in the dark, but the molecular mechanisms behind these observations remain unknown. We find that a widespread bacterial stress response, the stringent response, helps cells conserve resources during darkness. In the dark, cells produce higher levels of the stringent response signaling molecule guanosine 3′-diphosphate 5′-diphosphate (ppGpp), thereby altering gene expression patterns and affecting the protein synthesis machinery. These results help explain previous observations in the cyanobacterial literature and extend our knowledge of how the same signaling pathway has been adapted to different bacterial lifestyles and metabolisms.