bluuebunny/crossref_metadata_2025_split huggingface dataset:
RNA-Seq Analyses Identify Frequent Allele Specific Expression and No Evidence of Genomic Imprinting in Specific Embryonic Tissues of Chicken
Authors: Zhuo Zhu , Lamont Susan J. , Abasht Behnam 
Published: September 2017

AbstractEpigenetic and genetic cis-regulatory elements in diploid organisms may cause allele specific expression (ASE) – unequal expression of the two chromosomal gene copies. Genomic imprinting is an intriguing type of ASE in which some genes are expressed monoallelically from either the paternal allele or maternal allele as a result of epigenetic modifications. Imprinted genes have been identified in several animal species and are frequently associated with embryonic development and growth. Whether genomic imprinting exists in chickens remains debatable, as previous studies have reported conflicting evidence. Albeit no genomic imprinting has been reported in the chicken embryo as a whole, we interrogated the existence or absence of genomic imprinting in the 12-day-old chicken embryonic brain and liver by examining ASE in F1 reciprocal crosses of two highly inbred chicken lines (Fayoumi and Leghorn). We identified 5197 and 4638 ASE SNPs, corresponding to 18.3% and 17.3% of the genes with a detectable expression in the embryonic brain and liver, respectively. There was no evidence detected of genomic imprinting in 12-day-old embryonic brain and liver. While ruling out the possibility of imprinted Z-chromosome inactivation, our results indicated that Z-linked gene expression is partially compensated between sexes in chickens.
Evidence that CA3 is Underling the Comorbidity Between Pain and Depression and the Co-curation by Wu-Tou decoction in Neuropathic Pain
Authors: Zhu Chunyan , Xu Qionghong , Wang Chao , Mao Zhiyun , Lin Na 
Published: September 2017

AbstractIn neuropathic pain (NP), the atrophy of hippocampus contributes to the comorbidity between pain, depression and the cognitive deficits. However, the exact mechanism underling the comorbidity, the effective control of the degenerations in hippocampus and the remission of the accompanied depressive symptoms are still lacking. Wu-Tou decoction (WTD) has been prescribed for inflammatory pain for thousands of years. In this study, we manifested the effects of WTD on the pain, depression and anxiety co-curative symptoms of NP. Moreover, we reported that WTD rescued the mal-regulated BDNF and TNF-α in hippocampal CA3 alone, which is proven contributing to the pain and induced psychiatric symptoms. Finally, analysis of biochemistry, morphology and electrophysiology exhibited the potential mechanism of WTD in CA3. We found that, in the late stage of SNL condition, WTD mediated the rescue of the down-regulated glutamate as well as its pre-synaptic vesicular glutamate transporters (VGLuT1) and the post-synaptic α-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors in CA3. In sum, the targeted mediation of glutamatergic system in CA3 suggest that WTD may be responsible for the remission of the hypo-functioned CA3 glutamatergic neurons and further contribute to the co-curative effects of WTD.
Ion-channel aligned gas-blocking membrane for lithium-air batteries
Authors: Choi Wonsung , Kim Mokwon , Park Jung Ock , Kim Joon-Hee , Choi Kyunghwan , Kim Yong Su , Kim Tae Young , Ogata Ken , Im Dongmin , Doo Seok-Gwang , Hwang Yunil 
Published: September 2017

AbstractLithium-metal-based batteries, owing to the extremely high specific energy, have been attracting intense interests as post-Li-ion batteries. However, their main drawback is that consumption/de-activation of lithium metal can be accelerated when O2 or S used in the cathode crosses over to the metal, reducing the lifetime of the batteries. In use of ceramic solid state electrolyte (SSE) separator, despite the capability of gas blocking, thick and heavy plates (~0.3 mm) are necessitated to compensate its mechanical fragility, which ruin the high specific energy of the batteries. Here, we demonstrate fabrication of a new membrane made of micron-sized SSE particles as Li-ion channels embedded in polymer matrix, which enable both high Li-ion conduction and gas-impermeability. Bimodal surface-modification was used to control the energy of the particle/polymer interface, which consequently allowed channel formation via a simple one-step solution process. The practical cell with the new membrane provides a cell-specific energy of over 500 Wh kg−1, which is the highest values ever reported.
Flexible bio-memristive devices based on chicken egg albumen:Au@SiO2 core-shell nanoparticle nanocomposites
Authors: Bok Chang Han , Woo Sung Jun , Wu Chaoxing , Park Jae Hyeon , Kim Tae Whan 
Published: September 2017

AbstractFlexible bio-memristive (FBM) devices utilizing chicken egg albumen (CEA):Au@SiO2 core-shell nanoparticle nanocomposites were fabricated on indium-tin-oxide (ITO) coated polyethylene naphthalate (PEN) substrates. Current-voltage (I-V) curves for the Al/CEA:Au@SiO2 core-shell nanoparticle/ITO/PEN devices showed clockwise current hysteresis behaviors due to the existence of the CEA:Au@SiO2 core-shell nanoparticle nanocomposites. The endurance number of the ON/OFF switching for the FBM devices was above 102 cycles. An ON/OFF current ratio of 1 × 105 was maintained for retention times longer than 1 × 104 s. The memory characteristics of the FBM devices after bending were similar to those before bending. The memory margin and the stability of FBM devices were enhanced due to the embedded Au@SiO2 core-shell nanoparticles. The switching mechanisms occurring in the Al/CEA:Au@SiO2 core-shell nanoparticle/ITO-coated PEN devices are described on the basis of the I-V results and the filament mechanisms.
The impact of extreme El Niño events on modern sediment transport along the western Peruvian Andes (1968–2012)
Authors: Morera Sergio B. , Condom Thomas , Crave Alain , Steer Philippe , Guyot Jean L. 
Published: September 2017

AbstractClimate change is considered as one of the main factors controlling sediment fluxes in mountain belts. However, the effect of El Niño, which represents the primary cause of inter-annual climate variability in the South Pacific, on river erosion and sediment transport in the Western Andes remains unclear. Using an unpublished dataset of Suspended Sediment Yield (SSY) in Peru (1968–2012), we show that the annual SSY increases by 3–60 times during Extreme El Niño Events (EENE) compared to normal years. During EENE, 82% to 97% of the annual SSY occurs from January to April. We explain this effect by a sharp increase in river water discharge due to high precipitation rates and transport capacity during EENE. Indeed, sediments accumulate in the mountain and piedmont areas during dry normal years, and are then rapidly mobilized during EENE years. The effect of EENE on SSY depends on the topography, as it is maximum for catchments located in the North of Peru (3–7°S), exhibiting a concave up hypsometric curve, and minimum for catchments in the South (7–18°S), with a concave down hypsometric curve. These findings highlight how the sediment transport of different topographies can respond in very different ways to large climate variability.
Hybridization oscillation in the one-dimensional Kondo-Heisenberg model with Kondo holes
Authors: Xie Neng , Hu Danqing , Yang Yi-feng 
Published: September 2017

AbstractWe use the density matrix renormalization group method to study the properties of the one-dimensional Kondo-Heisenberg model doped with Kondo holes. We find that the perturbation of the Kondo holes to the local hybridization exhibits spatial oscillation pattern and its amplitude decays exponentially with distance away from the Kondo hole sites. The hybridization oscillation is correlated with both the charge density oscillation of the conduction electrons and the oscillation in the correlation function of the Heisenberg spins. In particular, we find that the oscillation wavelength for intermediate Kondo couplings is given by the Fermi wavevector of the large Fermi surface even before it is formed. This suggests that heavy electrons responsible for the oscillation are already present in this regime and start to accumulate around the to-be-formed large Fermi surface in the Brillouin zone.
Red-light phenotype in a marine diatom involves a specialized oligomeric red-shifted antenna and altered cell morphology
Authors: Herbstová Miroslava , Bína David , Kaňa Radek , Vácha František , Litvín Radek 
Published: September 2017

AbstractDiatoms greatly contribute to carbon fixation and thus strongly influence the global biogeochemical balance. Capable of chromatic acclimation (CA) to unfavourable light conditions, diatoms often dominate benthic ecosystems in addition to their planktonic lifestyle. Although CA has been studied at the molecular level, our understanding of this phenomenon remains incomplete. Here we provide new data to better explain the acclimation-associated changes under red-enhanced ambient light (RL) in diatom Phaeodactylum tricornutum, known to express a red-shifted antenna complex (F710). The complex was found to be an oligomer of a single polypeptide, Lhcf15. The steady-state spectroscopic properties of the oligomer were also studied. The oligomeric assembly of the Lhcf15 subunits is required for the complex to exhibit a red-shifted absorption. The presence of the red antenna in RL culture coincides with the development of a rounded phenotype of the diatom cell. A model summarizing the modulation of the photosynthetic apparatus during the acclimation response to light of different spectral quality is proposed. Our study suggests that toggling between alternative organizations of photosynthetic apparatus and distinct cell morphologies underlies the remarkable acclimation capacity of diatoms.
Netrin-1 Derived from the Ventricular Zone, but not the Floor Plate, Directs Hindbrain Commissural Axons to the Ventral Midline
Authors: Yamauchi Kenta , Yamazaki Maya , Abe Manabu , Sakimura Kenji , Lickert Heiko , Kawasaki Takahiko , Murakami Fujio , Hirata Tatsumi 
Published: September 2017

AbstractNetrin-1 (Ntn1) emanating from the ventral midline has been thought to act as a long-range diffusible chemoattractant for commissural axons (CAs). However, CAs still grow towards the midline in the absence of the floor plate (FP), a glial structure occupying the midline. Here, using genetically loss-of-function approaches in mice, we show that Ntn1 derived from the ventricular zone (VZ), but not the FP, is crucial for CA guidance in the mouse hindbrain. During the period of CA growth,Ntn1is expressed in the ventral two-thirds of the VZ, in addition to the FP. Remarkably, deletion ofNtn1from the VZ and even from the dorsal VZ highly disrupts CA guidance to the midline, whereas the deletion from the FP has little impact on it. We also show that the severities of CA guidance defects found in theNtn1conditional mutants were irrelevant to their FP long-range chemoattractive activities. Our results are incompatible with the prevailing view that Ntn1 is an FP-derived long-range diffusible chemoattractant for CAs, but suggest a novel mechanism that VZ-derived Ntn1 directs CAs to the ventral midline by its local actions.
Geochemical and Microbial Community Attributes in Relation to Hyporheic Zone Geological Facies
Authors: Hou Z. , Nelson W. C. , Stegen J. C. , Murray C. J. , Arntzen E. , Crump A. R. , Kennedy D. W. , Perkins M. C. , Scheibe T. D. , Fredrickson J. K. , Zachara J. M. 
Published: September 2017

AbstractThe hyporheic zone (HZ) is the active ecotone between the surface stream and groundwater, where exchanges of nutrients and organic carbon have been shown to stimulate microbial activity and transformations of carbon and nitrogen. To examine the relationship between sediment texture, biogeochemistry, and biological activity in the Columbia River HZ, the grain size distributions for sediment samples were characterized to define geological facies, and the relationships among physical properties of the facies, physicochemical attributes of the local environment, and the structure and activity of associated microbial communities were examined. Mud and sand content and the presence of microbial heterotrophic and nitrifying communities partially explained the variability in many biogeochemical attributes such as C:N ratio and %TOC. Microbial community analysis revealed a high relative abundance of putative ammonia-oxidizing Thaumarchaeota and nitrite-oxidizing Nitrospirae. Network analysis showed negative relationships between sets of co-varying organisms and sand and mud contents, and positive relationships with total organic carbon. Our results indicate grain size distribution is a good predictor of biogeochemical properties, and that subsets of the overall microbial community respond to different sediment texture. Relationships between facies and hydrobiogeochemical properties enable facies-based conditional simulation/mapping of these properties to inform multiscale modeling of hyporheic exchange and biogeochemical processes.
Contrasting subtropical PV intrusion frequency and their impact on tropospheric Ozone distribution over Pacific Ocean in El-Niño and La-Niña conditions
Authors: Nath Debashis , Chen Wen , Graf Hans-F. , Lan Xiaoqiang , Gong Hainan 
Published: September 2017

AbstractUpper tropospheric equatorial westerly ducts over the Pacific Ocean are the preferred location for Rossby wave breaking events during boreal winter and spring. These subtropical wave breaking events lead to the intrusion of high PV (potential vorticity) air along the extra-tropical tropopause and transport ozone rich dry stratospheric air into the tropics. The intrusion frequency has strong interannual variability due to ENSO (El-Niño/Southern Oscillation), with more events under La-Niña and less under El-Niño conditions. This may result from stronger equatorial westerly ducts and subtropical jets during La-Niña and weaker during El-Niño. It was previously suggested that the interannual variability of the tropospheric ozone distribution over the central-eastern Pacific Ocean is mainly driven by convective activity related to ENSO and that the barotropic nature of the subtropical intrusions restricts the tracers within the UT. However, our analysis shows that tropospheric ozone concentration and subtropical intrusions account ~65% of the co- variability (below 5 km) in the outer tropical (10–25°N) central Pacific Ocean, particularly during La-Niña conditions. Additionally, we find a two-fold increase and westward shift in the intrusion frequency over the Pacific Ocean, due to the climate regime shift in SST pattern during 1997/98.
Self-propulsion of Leidenfrost Drops between Non-Parallel Structures
Authors: Luo Cheng , Mrinal Manjarik , Wang Xiang 
Published: September 2017

AbstractIn this work, we explored self-propulsion of a Leidenfrost drop between non-parallel structures. A theoretical model was first developed to determine conditions for liquid drops to start moving away from the corner of two non-parallel plates. These conditions were then simplified for the case of a Leidenfrost drop. Furthermore, ejection speeds and travel distances of Leidenfrost drops were derived using a scaling law. Subsequently, the theoretical models were validated by experiments. Finally, three new devices have been developed to manipulate Leidenfrost drops in different ways.
Survival and prognostic factors in hypertrophic cardiomyopathy: a meta-analysis
Authors: Liu Qun , Li Diandian , Berger Alan E. , Johns Roger A. , Gao Li 
Published: September 2017

AbstractHypertrophic cardiomyopathy (HCM) is a clinically and genetically heterogeneous disorder but data on survival rates are still conflicting and have not so far been quantitatively reviewed. The aim of this study is to conduct a meta-analysis of cohort studies to assess pooled survival rates and prognostic factors for survival in patients with HCM. Nineteen studies were included representing 12,146 HCM patients. The pooled 1-, 3-, 5- and 10-year survival rates were 98.0%, 94.3%, 82.2% and 75.0%, respectively. Among patients with HCM, age, NYHA functional class, family history of sudden death (FHSD), syncope, atrial fibrillation, non-sustained ventricular tachycardia (nsVT), maximum left ventricular wall thickness and obstruction were significant prognostic factors for cardiovascular death. For sudden cardiac death, FHSD, nsVT, and obstruction showed significant predictive values. Moreover, estimation of population attributable risk (PAR) suggested that nsVT was the strongest predictor for cardiovascular death (13.02%, 95% CI 3.60–25.91%), while left ventricular outflow tract obstruction/mid-ventricular obstruction (LVO/MVO) was the strongest predictor for all-cause death and sudden cardiac death (10.09%, 95% CI 4.72–20.42% and 16.44%, 95% CI 7.45–31.55%, respectively). These risk factors may thus be useful for identifying HCM patients who might benefit from early diagnosis and therapeutic interventions.
Screening of miRNA profiles and construction of regulation networks in early and late lactation of dairy goat mammary glands
Authors: Ji Zhibin , Liu Zhaohua , Chao Tianle , Hou Lei , Fan Rui , He Rongyan , Wang Guizhi , Wang Jianmin 
Published: September 2017

AbstractIn recent years, studies related to the expression profiles of miRNAs in the dairy goat mammary gland were performed, but regulatory mechanisms in the physiological environment and the dynamic homeostasis of mammary gland development and lactation are not clear. In the present study, sequencing data analysis of early and late lactation uncovered a total of 1,487 unique miRNAs, including 45 novel miRNA candidates and 1,442 known and conserved miRNAs, of which 758 miRNAs were co-expressed and 378 differentially expressed with P < 0.05. Moreover, 76 non-redundant target genes were annotated in 347 GO consortiums, with 3,143 candidate target genes grouped into 33 pathways. Additionally, 18 predicted target genes of 214 miRNAs were directly annotated in mammary gland development and used to construct regulatory networks based on GO annotation and the KEGG pathway. The expression levels of seven known miRNAs and three novel miRNAs were examined using quantitative real-time PCR. The results showed that miRNAs might play important roles in early and late lactation during dairy goat mammary gland development, which will be helpful to obtain a better understanding of the genetic control of mammary gland lactation and development.
Lymphoblastoid cell lines from Diamond Blackfan anaemia patients exhibit a full ribosomal stress phenotype that is rescued by gene therapy
Authors: Aspesi Anna , Monteleone Valentina , Betti Marta , Actis Chiara , Morleo Giulia , Sculco Marika , Guarrera Simonetta , Wlodarski Marcin W. , Ramenghi Ugo , Santoro Claudio , Ellis Steven R. , Loreni Fabrizio , Follenzi Antonia , Dianzani Irma 
Published: September 2017

AbstractDiamond Blackfan anaemia (DBA) is a congenital bone marrow failure syndrome characterised by selective red cell hypoplasia. DBA is most often due to heterozygous mutations in ribosomal protein (RP) genes that lead to defects in ribosome biogenesis and function and result in ribosomal stress and p53 activation. The molecular mechanisms underlying this pathology are still poorly understood and studies on patient erythroid cells are hampered by their paucity. Here we report that RP-mutated lymphoblastoid cell lines (LCLs) established from DBA patients show defective rRNA processing and ribosomal stress features such as reduced proliferation, decreased protein synthesis, and activation of p53 and its target p21. These phenotypic alterations were corrected by gene complementation. Our data indicate that DBA LCLs could be a useful model for molecular and pharmacological investigations.
Automatic Classification of Cancerous Tissue in Laserendomicroscopy Images of the Oral Cavity using Deep Learning
Authors: Aubreville Marc , Knipfer Christian , Oetter Nicolai , Jaremenko Christian , Rodner Erik , Denzler Joachim , Bohr Christopher , Neumann Helmut , Stelzle Florian , Maier Andreas 
Published: September 2017

AbstractOral Squamous Cell Carcinoma (OSCC) is a common type of cancer of the oral epithelium. Despite their high impact on mortality, sufficient screening methods for early diagnosis of OSCC often lack accuracy and thus OSCCs are mostly diagnosed at a late stage. Early detection and accurate outline estimation of OSCCs would lead to a better curative outcome and a reduction in recurrence rates after surgical treatment. Confocal Laser Endomicroscopy (CLE) records sub-surface micro-anatomical images for in vivo cell structure analysis. Recent CLE studies showed great prospects for a reliable, real-time ultrastructural imaging of OSCC in situ. We present and evaluate a novel automatic approach for OSCC diagnosis using deep learning technologies on CLE images. The method is compared against textural feature-based machine learning approaches that represent the current state of the art. For this work, CLE image sequences (7894 images) from patients diagnosed with OSCC were obtained from 4 specific locations in the oral cavity, including the OSCC lesion. The present approach is found to outperform the state of the art in CLE image recognition with an area under the curve (AUC) of 0.96 and a mean accuracy of 88.3% (sensitivity 86.6%, specificity 90%).
Multiple stressor effects on marine infauna: responses of estuarine taxa and functional traits to sedimentation, nutrient and metal loading
Authors: Ellis J. I. , Clark D. , Atalah J. , Jiang W. , Taiapa C. , Patterson M. , Sinner J. , Hewitt J. 
Published: September 2017

AbstractSedimentation, nutrients and metal loading to coastal environments are increasing, associated with urbanization and global warming, hence there is a growing need to predict ecological responses to such change. Using a regression technique we predicted how maximum abundance of 20 macrobenthic taxa and 22 functional traits separately and interactively responded to these key stressors. The abundance of most taxa declined in response to sedimentation and metal loading while a unimodal response was often associated with nutrient loading. Optimum abundances for both taxa and traits occurred at relatively low stressor levels, highlighting the vulnerability of estuaries to increasing stressor loads. Individual taxa were more susceptible to stress than traits, suggesting that functional traits may be less sensitive for detecting changes in ecosystem health. Multiplicative effects were more common than additive interactions. The observed sensitivity of most taxa to increasing sedimentation and metal loading and the documented interaction effects between multiple stressors have important implications for understanding and managing the ecological consequences of eutrophication, sedimentation and contaminants on coastal ecosystems.