bluuebunny/crossref_metadata_2025_split huggingface dataset:
Weaning from long-term mechanical ventilation utilizing closed-loop ventilation mode (IntelliVent®-ASV®) in a patient with spinal cord injury
Authors: Shimizu Satoru , Nakajima Masashi , Yamazaki Masayuki , Nagayama Takashi , Suzuki Ryuta 
Published: June 2018

Abstract
Introduction
Cervical spinal cord injury with the C3 neurological level may cause respiratory failure and require long-term mechanical ventilation. Conventional weaning of spontaneous breathing trials is difficult to perform outside of intensive care or spinal cord units.

Case presentation
An 80-year-old man presented with total tetraplegia and restrictive respiratory failure that required assisted ventilation after a falling accident. Cervical spine magnetic resonance imaging showed cervical cord compression that was worst at the C3–C4 intervertebral level. He experienced unexpected cardiac arrest during the conventional weaning process of trials of intermittent spontaneous breathing in the intensive care unit. The automated weaning protocol utilizing a closed-loop ventilation mode (IntelliVent®-ASV
®
) was introduced 131 days after injury in our ward for chronically ill patients. The patient was successfully weaned 39 days after the introduction of the weaning protocol.

Discussion
An automated weaning protocol utilizing a closed-loop ventilation mode could be an optional procedure in patients with cervical cord injury on long-term mechanical ventilation, even in a ward for chronically ill patients where sufficient staff is not available. The efficacy and safety, and the cost-effectiveness of the procedure should be examined in larger spinal cord units.
Early Neolithic executions indicated by clustered cranial trauma in the mass grave of Halberstadt
Authors: Meyer Christian , Knipper Corina , Nicklisch Nicole , Münster Angelina , Kürbis Olaf , Dresely Veit , Meller Harald , Alt Kurt W. 
Published: June 2018

AbstractThe later phase of the Central European Early Neolithic witnessed a rise in collective lethal violence to a level undocumented up to this date. This is evidenced by repeated massacres of settled communities of theLinearbandkeramik(ca. 5600–4900 calbc), the first full farming culture in this area. Skeletal remains of several dozen victims of this prehistoric warfare are known from different sites in Germany and Austria. Here we show that the mass grave of Halberstadt, Germany, a new mass fatality site from the same period, reveals further and so far unknown facets of Early Neolithic collective lethal violence. A highly selected, almost exclusively adult male and non-local population sample was killed by targeted blows to the back of the head, indicating a practice of systematic execution under largely controlled conditions followed by careless disposal of the bodies. This discovery significantly increases current knowledge about warfare-related violent behaviour in Early Neolithic Central Europe.
Mutually exclusive acetylation and ubiquitylation of the splicing factor SRSF5 control tumor growth
Authors: Chen Yuhan , Huang Qingyang , Liu Wen , Zhu Qiong , Cui Chun-Ping , Xu Liang , Guo Xing , Wang Ping , Liu Jingwen , Dong Guanglong , Wei Wenyi , Liu Cui Hua , Feng Zhichun , He Fuchu , Zhang Lingqiang 
Published: June 2018

AbstractMost tumor cells take up more glucose than normal cells. Splicing dysregulation is one of the molecular hallmarks of cancer. However, the role of splicing factor in glucose metabolism and tumor development remains poorly defined. Here, we show that upon glucose intake, the splicing factor SRSF5 is specifically induced through Tip60-mediated acetylation on K125, which antagonizes Smurf1-mediated ubiquitylation. SRSF5 promotes the alternative splicing of CCAR1 to produce CCAR1S proteins, which promote tumor growth by enhancing glucose consumption and acetyl-CoA production. Conversely, upon glucose starvation, SRSF5 is deacetylated by HDAC1, and ubiquitylated by Smurf1 on the same lysine, resulting in proteasomal degradation of SRSF5. The CCAR1L proteins accumulate to promote apoptosis. Importantly, SRSF5 is hyperacetylated and upregulated in human lung cancers, which correlates with increased CCAR1S expression and tumor progression. Thus, SRSF5 responds to high glucose to promote cancer development, and SRSF5–CCAR1 axis may be valuable targets for cancer therapeutics.
Structural bases of TRP channel TRPV6 allosteric modulation by 2-APB
Authors: Singh Appu K. , Saotome Kei , McGoldrick Luke L. , Sobolevsky Alexander I. 
Published: June 2018

AbstractTransient receptor potential (TRP) channels are involved in various physiological processes, including sensory transduction. The TRP channel TRPV6 mediates calcium uptake in epithelia and its expression is dramatically increased in numerous types of cancer. TRPV6 inhibitors suppress tumor growth, but the molecular mechanism of inhibition remains unknown. Here, we present crystal and cryo-EM structures of human and rat TRPV6 bound to 2-aminoethoxydiphenyl borate (2-APB), a TRPV6 inhibitor and modulator of numerous TRP channels. 2-APB binds to TRPV6 in a pocket formed by the cytoplasmic half of the S1–S4 transmembrane helix bundle. Comparing human wild-type and high-affinity mutant Y467A structures, we show that 2-APB induces TRPV6 channel closure by modulating protein–lipid interactions. Mutagenesis and functional analyses suggest that the identified 2-APB binding site might be present in other members of vanilloid subfamily TRP channels. Our findings reveal a mechanism of ion channel allosteric modulation that can be exploited for therapeutic design.
Spontaneous buckling of contractile poroelastic actomyosin sheets
Authors: Ideses Y. , Erukhimovitch V. , Brand R. , Jourdain D. , Hernandez J. Salmeron , Gabinet U. R. , Safran S. A. , Kruse K. , Bernheim-Groswasser A. 
Published: June 2018

AbstractShape transitions in developing organisms can be driven by active stresses, notably, active contractility generated by myosin motors. The mechanisms generating tissue folding are typically studied in epithelia. There, the interaction between cells is also coupled to an elastic substrate, presenting a major difficulty for studying contraction induced folding. Here we study the contraction and buckling of active, initially homogeneous, thin elastic actomyosin networks isolated from bounding surfaces. The network behaves as a poroelastic material, where a flow of fluid is generated during contraction. Contraction starts at the system boundaries, proceeds into the bulk, and eventually leads to spontaneous buckling of the sheet at the periphery. The buckling instability resulted from system self-organization and from the spontaneous emergence of density gradients driven by the active contractility. The buckling wavelength increases linearly with sheet thickness. Our system offers a well-controlled way to study mechanically induced, spontaneous shape transitions in active matter.
Sensory overamplification in layer 5 auditory corticofugal projection neurons following cochlear nerve synaptic damage
Authors: Asokan Meenakshi M. , Williamson Ross S. , Hancock Kenneth E. , Polley Daniel B. 
Published: June 2018

AbstractLayer 5 (L5) cortical projection neurons innervate far-ranging brain areas to coordinate integrative sensory processing and adaptive behaviors. Here, we characterize a plasticity in L5 auditory cortex (ACtx) neurons that innervate the inferior colliculus (IC), thalamus, lateral amygdala and striatum. We track daily changes in sound processing using chronic widefield calcium imaging of L5 axon terminals on the dorsal cap of the IC in awake, adult mice. Sound level growth functions at the level of the auditory nerve and corticocollicular axon terminals are both strongly depressed hours after noise-induced damage of cochlear afferent synapses. Corticocollicular response gain rebounded above baseline levels by the following day and remained elevated for several weeks despite a persistent reduction in auditory nerve input. Sustained potentiation of excitatory ACtx projection neurons that innervate multiple limbic and subcortical auditory centers may underlie hyperexcitability and aberrant functional coupling of distributed brain networks in tinnitus and hyperacusis.
Crystal structure of the catalytic domain of HIV-1 restriction factor APOBEC3G in complex with ssDNA
Authors: Maiti Atanu , Myint Wazo , Kanai Tapan , Delviks-Frankenberry Krista , Sierra Rodriguez Christina , Pathak Vinay K. , Schiffer Celia A. , Matsuo Hiroshi 
Published: June 2018

AbstractThe human APOBEC3G protein is a cytidine deaminase that generates cytidine to deoxy-uridine mutations in single-stranded DNA (ssDNA), and capable of restricting replication of HIV-1 by generating mutations in viral genome. The mechanism by which APOBEC3G specifically deaminates 5′-CC motifs has remained elusive since structural studies have been hampered due to apparently weak ssDNA binding of the catalytic domain of APOBEC3G. We overcame the problem by generating a highly active variant with higher ssDNA affinity. Here, we present the crystal structure of this variant complexed with a ssDNA substrate at 1.86 Å resolution. This structure reveals atomic-level interactions by which APOBEC3G recognizes a functionally-relevant 5′-TCCCA sequence. This complex also reveals a key role of W211 in substrate recognition, implicating a similar recognition in activation-induced cytidine deaminase (AID) with a conserved tryptophan.
Direct observation of exciton–exciton interactions
Authors: Dostál Jakub , Fennel Franziska , Koch Federico , Herbst Stefanie , Würthner Frank , Brixner Tobias 
Published: June 2018

AbstractNatural light harvesting as well as optoelectronic and photovoltaic devices depend on efficient transport of energy following photoexcitation. Using common spectroscopic methods, however, it is challenging to discriminate one-exciton dynamics from multi-exciton interactions that arise when more than one excitation is present in the system. Here we introduce a coherent two-dimensional spectroscopic method that provides a signal only in case that the presence of one exciton influences the behavior of another one. Exemplarily, we monitor exciton diffusion by annihilation in a perylene bisimide-based J-aggregate. We determine quantitatively the exciton diffusion constant from exciton–exciton-interaction 2D spectra and reconstruct the annihilation-free dynamics for large pump powers. The latter enables for ultrafast spectroscopy at much higher intensities than conventionally possible and thus improves signal-to-noise ratios for multichromophore systems; the former recovers spatio–temporal dynamics for a broad range of phenomena in which exciton interactions are present.
Transparent and flexible fingerprint sensor array with multiplexed detection of tactile pressure and skin temperature
Authors: An Byeong Wan , Heo Sanghyun , Ji Sangyoon , Bien Franklin , Park Jang-Ung 
Published: June 2018

AbstractWe developed a transparent and flexible, capacitive fingerprint sensor array with multiplexed, simultaneous detection of tactile pressure and finger skin temperature for mobile smart devices. In our approach, networks of hybrid nanostructures using ultra-long metal nanofibers and finer nanowires were formed as transparent, flexible electrodes of a multifunctional sensor array. These sensors exhibited excellent optoelectronic properties and outstanding reliability against mechanical bending. This fingerprint sensor array has a high resolution with good transparency. This sensor offers a capacitance variation ~17 times better than the variation for the same sensor pattern using conventional ITO electrodes. This sensor with the hybrid electrode also operates at high frequencies with negligible degradation in its performance against various noise signals from mobile devices. Furthermore, this fingerprint sensor array can be integrated with all transparent forms of tactile pressure sensors and skin temperature sensors, to enable the detection of a finger pressing on the display.
Site-specific characterization of endogenous SUMOylation across species and organs
Authors: Hendriks Ivo A. , Lyon David , Su Dan , Skotte Niels H. , Daniel Jeremy A. , Jensen Lars J. , Nielsen Michael L. 
Published: June 2018

AbstractSmall ubiquitin-like modifiers (SUMOs) are post-translational modifications that play crucial roles in most cellular processes. While methods exist to study exogenous SUMOylation, large-scale characterization of endogenous SUMO2/3 has remained technically daunting. Here, we describe a proteomics approach facilitating system-wide and in vivo identification of lysines modified by endogenous and native SUMO2. Using a peptide-level immunoprecipitation enrichment strategy, we identify 14,869 endogenous SUMO2/3 sites in human cells during heat stress and proteasomal inhibition, and quantitatively map 1963 SUMO sites across eight mouse tissues. Characterization of the SUMO equilibrium highlights striking differences in SUMO metabolism between cultured cancer cells and normal tissues. Targeting preferences of SUMO2/3 vary across different organ types, coinciding with markedly differential SUMOylation states of all enzymes involved in the SUMO conjugation cascade. Collectively, our systemic investigation details the SUMOylation architecture across species and organs and provides a resource of endogenous SUMOylation sites on factors important in organ-specific functions.
Contrasting nickel and zinc hyperaccumulation in subspecies of Dichapetalum gelonioides from Southeast Asia
Authors: Nkrumah Philip Nti , Echevarria Guillaume , Erskine Peter D. , van der Ent Antony 
Published: June 2018

AbstractHyperaccumulator plants have the unique ability to concentrate specific elements in their shoot in concentrations that can be thousands of times greater than in normal plants. Whereas all known zinc hyperaccumulator plants are facultative hyperaccumulators with only populations on metalliferous soils hyperaccumulating zinc (except for Arabidopsis halleri and Noccaea species that hyperaccumulate zinc irrespective of the substrate), the present study discovered that Dichapetalum gelonioides is the only (zinc) hyperaccumulator known to occur exclusively on ‘normal’ soils, while hyperaccumulating zinc. We recorded remarkable foliar zinc concentrations (10 730 µg g−1, dry weight) in Dichapetalum gelonioides subsp. sumatranum growing on ‘normal’ soils with total soil zinc concentrations of only 20 µg g−1. The discovery of zinc hyperaccumulation in this tropical woody plant, especially the extreme zinc concentrations in phloem and phloem-fed tissues (reaching up to 8465 µg g−1), has possible implications for advancing zinc biofortification in Southeast Asia. Furthermore, we report exceptionally high foliar nickel concentrations in D. subsp. tuberculatum (30 260 µg g−1) and >10 wt% nickel in the ash, which can be exploited for agromining. The unusual nickel and zinc accumulation behaviour suggest that Dichapetalum-species may be an attractive model to study hyperaccumulation and hypertolerance of these elements in tropical hyperaccumulator plants.
Brittle-star mass occurrence on a Late Cretaceous methane seep from South Dakota, USA
Authors: Thuy Ben , Landman Neil H. , Larson Neal L. , Numberger-Thuy Lea D. 
Published: June 2018

AbstractArticulated brittle stars are rare fossils because the skeleton rapidly disintegrates after death and only fossilises intact under special conditions. Here, we describe an extraordinary mass occurrence of the ophiacanthid ophiuroid Brezinacantha tolis gen. et sp. nov., preserved as articulated skeletons from an upper Campanian (Late Cretaceous) methane seep of South Dakota. It is uniquely the first fossil case of a seep-associated ophiuroid. The articulated skeletons overlie centimeter-thick accumulations of dissociated skeletal parts, suggesting lifetime densities of approximately 1000 individuals per m2, persisting at that particular location for several generations. The ophiuroid skeletons on top of the occurrence were preserved intact most probably because of increased methane seepage, killing the individuals and inducing rapid cementation, rather than due to storm-induced burial or slumping. The mass occurrence described herein is an unambiguous case of an autochthonous, dense ophiuroid community that persisted at a particular spot for some time. Thus, it represents a true fossil equivalent of a recent ophiuroid dense bed, unlike other cases that were used in the past to substantiate the claim of a mid-Mesozoic predation-induced decline of ophiuroid dense beds.
Evaluation of droplet digital PCR and next generation sequencing for characterizing DNA reference material for KRAS mutation detection
Authors: Dong Lianhua , Wang Shangjun , Fu Boqiang , Wang Jing 
Published: June 2018

AbstractKRAS gene mutations are predictive markers of non-response to anti-epidermal growth factor receptor. An increasing number of techniques are being developed to detect KRAS mutations. To obtain consistent and comparable results, a traceable reference material (RM) is necessary for validation the routinely used method. However, a lack of reference methods is a main impediment for deriving traceability and measurement comparability. In this study, droplet digital PCR (ddPCR) and next generation sequencing (NGS) were evaluated. No cross- reactivity was detected with any of the probe by ddPCR. The measured fraction of KRAS mutant allele by ddPCR and NGS agreed with the prepared value by gravimetrical dilution (concordance (k) >0.95 and >0.93 for ddPCR and NGS, respectively). The reliable limit of quantification (LOQ) was 0.1% and 1% for ddPCR and NGS, respectively. In conclusion, the validated ddPCR and NGS are suitable to characterize the KRAS RM due to the high specificity and accuracy. Verification of the LOD of three commercial kits by using the NIM-KRAS-8 RM showed that the LOD was inconsistent with the claimed LOD of the kits (1%) for some assays. This indicates a traceable RM was important for setting up the criteria regarding the LOD for the commercial kit.
ADAM-like Decysin-1 (ADAMDEC1) is a positive regulator of Epithelial Defense Against Cancer (EDAC) that promotes apical extrusion of RasV12-transformed cells
Authors: Yako Yuta , Hayashi Takashi , Takeuchi Yasuto , Ishibashi Kojiro , Kasai Nobuhiro , Sato Nanami , Kuromiya Keisuke , Ishikawa Susumu , Fujita Yasuyuki 
Published: June 2018

AbstractRecent studies have revealed that newly emerging transformed cells are often eliminated from epithelia via cell competition with the surrounding normal epithelial cells. However, it remains unknown whether and how soluble factors are involved in this cancer preventive phenomenon. By performing stable isotope labeling with amino acids in cell culture (SILAC)-based quantitative mass spectrometric analyses, we have identified ADAM-like Decysin-1 (ADAMDEC1) as a soluble protein whose expression is upregulated in the mix culture of normal and RasV12-transformed epithelial cells. Expression of ADAMDEC1 is elevated in normal epithelial cells co-cultured with RasV12 cells. Knockdown of ADAMDEC1 in the surrounding normal cells substantially suppresses apical extrusion of RasV12 cells, suggesting that ADAMDEC1 secreted by normal cells positively regulate the elimination of the neighboring transformed cells. In addition, we show that the metalloproteinase activity of ADAMDEC1 is dispensable for the regulation of apical extrusion. Furthermore, ADAMDEC1 facilitates the accumulation of filamin, a crucial regulator of Epithelial Defense Against Cancer (EDAC), in normal cells at the interface with RasV12 cells. This is the first report demonstrating that an epithelial intrinsic soluble factor is involved in cell competition in mammals.
Target tracking and 3D trajectory acquisition of cabbage butterfly (P. rapae) based on the KCF-BS algorithm
Authors: Guo Yang-yang , He Dong-jian , Liu Cong 
Published: June 2018

AbstractInsect behaviour is an important research topic in plant protection. To study insect behaviour accurately, it is necessary to observe and record their flight trajectory quantitatively and precisely in three dimensions (3D). The goal of this research was to analyse frames extracted from videos using Kernelized Correlation Filters (KCF) and Background Subtraction (BS) (KCF-BS) to plot the 3D trajectory of cabbage butterfly (P.rapae). Considering the experimental environment with a wind tunnel, a quadrature binocular vision insect video capture system was designed and applied in this study. The KCF-BS algorithm was used to track the butterfly in video frames and obtain coordinates of the target centroid in two videos. Finally the 3D trajectory was calculated according to the matching relationship in the corresponding frames of two angles in the video. To verify the validity of the KCF-BS algorithm, Compressive Tracking (CT) and Spatio-Temporal Context Learning (STC) algorithms were performed. The results revealed that the KCF-BS tracking algorithm performed more favourably than CT and STC in terms of accuracy and robustness.
Molecular detection of small hive beetle Aethina tumida Murray (Coleoptera: Nitidulidae): DNA barcoding and development of a real-time PCR assay
Authors: Li Dongmei , Waite David W. , Fan Qing-Hai , George Sherly , Semeraro Linda , Blacket Mark J. 
Published: June 2018

AbstractSmall hive beetle (SHB), Aethina tumida can feed on honey, pollen and brood in honey bee colonies. It was endemic to Africa, but since 1996 has been detected in a number of countries worldwide, including Australia, Brazil, Canada, Italy, Mexico, South Korea, Philippines and the USA where it has had economic effects on local apiculture. To improve SHB identification, we obtained the first reference sequences from the DNA barcoding 5′ COI gene region for SHB and some species of the family Nitidulidae associated with beehives. Phylogenetic analysis of SHB COI sequences (3′ COI) revealed two divergent lineages, with those from Australia and USA being genetically different from the recent detection in Italy. Many countries, including New Zealand, are currently free from SHB, and require a rapid detection method for biosecurity. Here we present the development and validation of a real-time PCR assay for detection of SHB. The assay showed high specificity and sensitivity for detecting SHB, with no cross-reaction observed with closely related species, such as A. concolor. The real-time PCR is sensitive, detecting the target sequences up to 100 copies/µL. This assay should prove a useful biosecurity tool for rapid detection of SHB worldwide.
A Markovian Approach towards Bacterial Size Control and Homeostasis in Anomalous Growth Processes
Authors: Chen Yanyan , Baños Rosa , Buceta Javier 
Published: June 2018

AbstractRegardless of the progress achieved during recent years, the mechanisms coupling growth and division to attain cell size homeostasis in bacterial populations are still not well understood. In particular, there is a gap of knowledge about the mechanisms controlling anomalous growth events that are ubiquitous even in wild-type phenotypes. Thus, when cells exceed the doubling size the divisome dynamics sets a characteristic length scale that suggests a sizer property. Yet, it has been recently shown that the size at birth and the size increment still satisfy an adder-like correlation. Herein we propose a Markov chain model, that we complement with computational and experimental approaches, to clarify this issue. In this context, we show that classifying cells as a function of the characteristic size set by the divisome dynamics provides a compelling framework to understand size convergence, growth, and division at the large length scale, including the adaptation to, and rescue from, filamentation processes. Our results reveal the independence of size homeostasis on the division pattern of long cells and help to reconcile sizer concepts at the single cell level with an adder-like behavior at a population level.