bluuebunny/crossref_metadata_2025_split huggingface dataset:
Sperm-inherited H3K27me3 impacts offspring transcription and development in C. elegans
Authors: Kaneshiro Kiyomi Raye , Rechtsteiner Andreas , Strome Susan 
Published: March 2019

AbstractPaternal epigenetic inheritance is gaining attention for its growing medical relevance. However, the form in which paternal epigenetic information is transmitted to offspring and how it influences offspring development remain poorly understood. Here we show that in C. elegans, sperm-inherited chromatin states transmitted to the primordial germ cells in offspring influence germline transcription and development. We show that sperm chromosomes inherited lacking the repressive histone modification H3K27me3 are maintained in that state by H3K36me3 antagonism. Inheritance of H3K27me3-lacking sperm chromosomes results in derepression in the germline of somatic genes, especially neuronal genes, predominantly from sperm-inherited alleles. This results in germ cells primed for losing their germ cell identity and adopting a neuronal fate. These data demonstrate that histone modifications are one mechanism through which epigenetic information from a father can shape offspring gene expression and development.
Reversible histone glycation is associated with disease-related changes in chromatin architecture
Authors: Zheng Qingfei , Omans Nathaniel D. , Leicher Rachel , Osunsade Adewola , Agustinus Albert S. , Finkin-Groner Efrat , D’Ambrosio Hannah , Liu Bo , Chandarlapaty Sarat , Liu Shixin , David Yael 
Published: March 2019

AbstractCellular proteins continuously undergo non-enzymatic covalent modifications (NECMs) that accumulate under normal physiological conditions and are stimulated by changes in the cellular microenvironment. Glycation, the hallmark of diabetes, is a prevalent NECM associated with an array of pathologies. Histone proteins are particularly susceptible to NECMs due to their long half-lives and nucleophilic disordered tails that undergo extensive regulatory modifications; however, histone NECMs remain poorly understood. Here we perform a detailed analysis of histone glycation in vitro and in vivo and find it has global ramifications on histone enzymatic PTMs, the assembly and stability of nucleosomes, and chromatin architecture. Importantly, we identify a physiologic regulation mechanism, the enzyme DJ-1, which functions as a potent histone deglycase. Finally, we detect intense histone glycation and DJ-1 overexpression in breast cancer tumors. Collectively, our results suggest an additional mechanism for cellular metabolic damage through epigenetic perturbation, with implications in pathogenesis.
Memory phototransistors based on exponential-association photoelectric conversion law
Authors: Shao Zhibin , Jiang Tianhao , Zhang Xiujuan , Zhang Xiaohong , Wu Xiaofeng , Xia Feifei , Xiong Shiyun , Lee Shuit-Tong , Jie Jiansheng 
Published: March 2019

AbstractUltraweak light detectors have wide-ranging important applications such as astronomical observation, remote sensing, laser ranging, and night vision. Current commercial ultraweak light detectors are commonly based on a photomultiplier tube or an avalanche photodiode, and they are incompatible with microelectronic devices for digital imaging applications, because of their high operating voltage and bulky size. Herein, we develop a memory phototransistor for ultraweak light detection, by exploiting the charge-storage accumulative effect in CdS nanoribbon. The memory phototransistors break the power law of traditional photodetectors and follow a time-dependent exponential-association photoelectric conversion law. Significantly, the memory phototransistors exhibit ultrahigh responsivity of 3.8 × 109 A W−1 and detectivity of 7.7 × 1022 Jones. As a result, the memory phototransistors are able to detect ultraweak light of 6 nW cm−2 with an extremely high sensitivity of 4 × 107. The proposed memory phototransistors offer a design concept for ultraweak light sensing devices.
Growth strategy of microbes on mixed carbon sources
Authors: Wang Xin , Xia Kang , Yang Xiaojing , Tang Chao 
Published: March 2019

AbstractA classic problem in microbiology is that bacteria display two types of growth behavior when cultured on a mixture of two carbon sources: the two sources are sequentially consumed one after another (diauxie) or they are simultaneously consumed (co-utilization). The search for the molecular mechanism of diauxie led to the discovery of the lac operon. However, questions remain as why microbes would bother to have different strategies of taking up nutrients. Here we show that diauxie versus co-utilization can be understood from the topological features of the metabolic network. A model of optimal allocation of protein resources quantitatively explains why and how the cell makes the choice. In case of co-utilization, the model predicts the percentage of each carbon source in supplying the amino acid pools, which is quantitatively verified by experiments. Our work solves a long-standing puzzle and provides a quantitative framework for the carbon source utilization of microbes.
Converse flexoelectricity yields large piezoresponse force microscopy signals in non-piezoelectric materials
Authors: Abdollahi Amir , Domingo Neus , Arias Irene , Catalan Gustau 
Published: March 2019

AbstractConverse flexoelectricity is a mechanical stress induced by an electric polarization gradient. It can appear in any material, irrespective of symmetry, whenever there is an inhomogeneous electric field distribution. This situation invariably happens in piezoresponse force microscopy (PFM), which is a technique whereby a voltage is delivered to the tip of an atomic force microscope in order to stimulate and probe piezoelectricity at the nanoscale. While PFM is the premier technique for studying ferroelectricity and piezoelectricity at the nanoscale, here we show, theoretically and experimentally, that large effective piezoelectric coefficients can be measured in non-piezoelectric dielectrics due to converse flexoelectricity.
Twenty-eight-day mortality in lung cancer patients with metastasis who initiated mechanical ventilation in the emergency department
Authors: Shin Sun Hye , Lee Hyun , Kang Hyung Koo , Park Joo Hyun 
Published: March 2019

AbstractFew data are available regarding treatment outcomes in lung cancer patients with metastasis who initiated mechanical ventilation in the emergency department (ED). We aimed to evaluate 28-day mortality in lung cancer patients with metastasis who initiated mechanical ventilation in the ED. Patients with solid malignancy who initiated mechanical ventilation in the ED of a tertiary hospital were retrospectively identified and stratified into four groups according to the presence of lung cancer and metastasis. Among 212 included patients, the mortality rates by the 28th hospital day were as follows: 44.2% (19/43) in non-lung cancer patients without metastasis, 63.2% (43/68) in non-lung cancer patients with metastasis, 52.4% (11/21) in lung cancer patients without metastasis, and 66.2% (53/80) in lung cancer patients with metastasis. In multivariable analysis, lung cancer patients with metastasis had significantly higher odds ratio for 28-day mortality than non-lung cancer patients without metastasis (adjusted odds ratio [OR] = 7.17, 95% confidence interval [CI] = 2.14–24.01). Sepsis-related respiratory failure (adjusted OR = 2.60, 95% CI = 1.16–5.84) and cardiopulmonary resuscitation (adjusted OR = 13.34, 95% CI = 4.45–39.95) over respiratory failure without sepsis and acute organ dysfunction process measured by sequential organ failure assessment (SOFA) score (adjusted OR = 1.15, 95% CI = 1.05–12.6) were independently associated with an increase in mortality rate. In conclusion, the treatment outcomes in lung cancer patients with metastasis who initiated mechanical ventilation in the ED were poor. Aggressive resuscitation versus end-of-life care in advance of an unexpected medical crisis should be considered in lung cancer patients with metastasis via a multidisciplinary approach with a consideration of underlying comorbid illnesses in the acute organ dysfunction processes.
X-Ray Fluorescence Ionomics of Herbarium Collections
Authors: van der Ent Antony , Echevarria Guillaume , Pollard A. Joseph , Erskine Peter D. 
Published: March 2019

AbstractGlobal herbaria are the greatest repositories of information on the plant kingdom. Discoveries of trace element hyperaccumulator plants have historically required time-consuming destructive chemical analysis of fragments from herbarium specimens, which severely constrains the collection of large datasets. Recent advances in handheld X-Ray Fluorescence spectroscopy (XRF) systems have enabled non-destructive analysis of plant samples and here we propose a new method, which we term “Herbarium XRF Ionomics”, to extract elemental data from herbarium specimens. We present two case studies from major tropical herbaria where Herbarium XRF Ionomics has led to the discovery of new hyperaccumulator plants and provided valuable insights into phylogenetic patterns of trace element hyperaccumulation. Herbarium XRF Ionomics is a new value proposition for continued funding and retention of herbarium specimens globally.
Forceful mastication activates osteocytes and builds a stout jawbone
Authors: Inoue Masamu , Ono Takehito , Kameo Yoshitaka , Sasaki Fumiyuki , Ono Takashi , Adachi Taiji , Nakashima Tomoki 
Published: March 2019

AbstractBone undergoes a constant reconstruction process of resorption and formation called bone remodeling, so that it can endure mechanical loading. During food ingestion, masticatory muscles generate the required masticatory force. The magnitude of applied masticatory force has long been believed to be closely correlated with the shape of the jawbone. However, both the mechanism underlying this correlation and evidence of causation remain largely to be determined. Here, we established a novel mouse model of increased mastication in which mice were fed with a hard diet (HD) to elicit greater masticatory force. A novel in silico computer simulation indicated that the masticatory load onto the jawbone leads to the typical bone profile seen in the individuals with strong masticatory force, which was confirmed by in vivo micro-computed tomography (micro-CT) analyses. Mechanistically, increased mastication induced Insulin–like growth factor (IGF)-1 and suppressed sclerostin in osteocytes. IGF-1 enhanced osteoblastogenesis of the cells derived from tendon. Together, these findings indicate that the osteocytes balance the cytokine expression upon the mechanical loading of increased mastication, in order to enhance bone formation. This bone formation leads to morphological change in the jawbone, so that the bone adapts to the mechanical environment to which it is exposed.
Modelling viscous boundary layer dissipation effects in liquid surrounding individual solid nano and micro-particles in an ultrasonic field
Authors: Forrester Derek Michael , Huang Jinrui , Pinfield Valerie J. 
Published: March 2019

AbstractUpon application of ultrasonic waves to a suspension of solid particles in liquid, multiple scattering occurs at the particle/liquid interfaces leading to attenuation. It was recently shown through experimental verification that multiple scattering theory must include shear wave influences at the boundary between the liquid and solid particles in a nanofluid when the concentration of the scatterers is even as low as a few percent by volume. Herein, we consider silica spheres of 50–450 nm diameter in the long-wavelength regime to elucidate the form of the shear decay fields at the liquid/solid interface for individual particles. This is important because the overlap of these fields ultimately leads to the conversion of a compressional wave to shear waves and back into the compressional wave, the effect originating due to the density contrast between the particle and the liquid. Therefore, we examine in detail the velocity, vorticity and viscous dissipation in the shear wave field and around the silica spheres using finite element modelling, giving clarity to the viscous boundary effects. We also compare the numerical modelling to semi-analytical results.
Identification of new DNA-associated proteins from Waddlia chondrophila
Authors: de Barsy Marie , Herrgott Lucas , Martin Virginie , Pillonel Trestan , Viollier Patrick H. , Greub Gilbert 
Published: March 2019

AbstractTranscriptional regulation in Chlamydiae is still poorly understood. The absence until recently of genetic tools is the main cause of this gap. We discovered three new potential DNA-associated proteins of Waddlia chondrophila, a Chlamydia-related bacterium, using heparin chromatography coupled to mass spectrometry (Wcw_0377, Wcw_1456, and Wcw_1460). By ChIP-seq analysis, we determined the regulatory landscape of these three proteins and we showed that Wcw_0377 binds all along the genome whereas Wcw_1456 and _1460 possess a wide regulon with a large number of co-regulated genes. Wcw_1456 and Wcw_1460 interact with RpoD (σ66), emerging as potential RpoD regulators. On the other hand, Wcw_0377 is able to reach the host nucleus, where it might interact with eukaryotic histones through its putative chromatin-remodelling SWIB/MDM2 domain.
Revealing Dissociable Attention Biases in Chronic Smokers Through an Individual-Differences Approach
Authors: Della Libera Chiara , Zandonai Thomas , Zamboni Lorenzo , Santandrea Elisa , Sandri Marco , Lugoboni Fabio , Chiamulera Cristiano , Chelazzi Leonardo 
Published: March 2019

AbstractAddiction is accompanied by attentional biases (AB), wherein drug-related cues grab attention independently of their perceptual salience. AB have emerged in different flavours depending on the experimental approach, and their clinical relevance is still debated. In chronic smokers we sought evidence for dissociable attention abnormalities that may play distinct roles in the clinical manifestations of the disorder. Fifty smokers performed a modified visual probe-task measuring two forms of AB and their temporal dynamics, and data on their personality traits and smoking history/status were collected. Two fully dissociable AB effects were found: A Global effect, reflecting the overall impact of smoke cues on attention, and a Location-specific effect, indexing the impact of smoke cues on visuospatial orienting. Importantly, the two effects could be neatly separated from one another as they: (i) unfolded with dissimilar temporal dynamics, (ii) were accounted for by different sets of predictors associated with personality traits and smoking history and (iii) were not correlated with one another. Importantly, the relevance of each of these two components in the single individual depends on a complex blend of personality traits and smoking habits, a result that future efforts addressing the clinical relevance of addiction-related AB should take into careful consideration.
RNAi Screening-based Identification of USP10 as a Novel Regulator of Paraptosis
Authors: Kim Jin Yeop , Lee Dong Min , Woo Hyun Goo , Kim Ki Deok , Lee Hong Jae , Kwon Yong-Jun , Choi Kyeong Sook 
Published: March 2019

AbstractAccumulating reports demonstrate that apoptosis does not explain all the effects of cancer therapy due to the innate and acquired apoptotic resistance of malignant cancer cells. Recently, paraptosis, a type of programmed cell death accompanied by dilation of mitochondria and/or the endoplasmic reticulum (ER), has garnered interest in cancer research as an alternative way to kill apoptosis-resistant cancers. We describe here the adaptation and validation of a high-content cell-based assay to screen and identify novel paraptotic regulators employing the malignant breast cancer cells undergoing curcumin-induced paraptosis. We used YFP-Mito cells, which express fluorescence selectively in mitochondria, to select paraptosis-related genes whose corresponding siRNAs appeared to modulate mitochondrial dilation, a morphological feature of paraptosis. From the selected 38 candidate genes, we chose ubiquitin specific peptidase 10 (USP10), a ubiquitin specific protease, as a strongly active candidate that warranted further evaluation of its involvement in paraptosis. We found that both siRNA-mediated knockdown of USP10 and treatment with the USP10 inhibitor, spautin-1, effectively attenuated curcumin-induced paraptosis. This systematic assay, in which a siRNA library is screened for the ability to ameliorate paraptotic changes in mitochondria, may enable researchers to identify potent regulators of paraptosis and new candidate genes/drugs to combat malignant breast cancer.
Simple Tyrosine Derivatives Act as Low Molecular Weight Organogelators
Authors: Aykent Güzide , Zeytun Cansu , Marion Antoine , Özçubukçu Salih 
Published: March 2019

AbstractThe gelation of L-Tyr(tBu)-OH in tetrahydrofuran (THF) was discovered serendipitously. It was noted that this tremendously low molecular weight (LMW) compound has the ability to gel a wide variety of organic solvents (e.g., N,N-Dimetylformamide (DMF), THF, butanol, toluene), even in very low concentrations (i.e., 0.1 wt/v% in DMF). Addition of bases such as NaOH and piperidine enhanced the gel property. By changing the side-chain protecting group to tert-butyldimethylsilyl (TBDMS), a fluoride ion-responsive organogel was also acquired. This new organogelator responded fluoride ion concentration as low as 0.2 ppm. Characterization of microstructures and gel behaviours were studied by powder X-Ray diffraction spectroscopy (XRD), transmission electron microscopy (TEM), rheological measurements and molecular dynamics (MD) simulations. Experimental observations and theoretical simulations consistently show a fibre-like structure of the gel, in which the organogelator molecules are held together via a dense network of hydrogen bonds, and via van der Waals interactions between hydrophobic groups.
Structure and Diversity of Soil Bacterial Communities in Offshore Islands
Authors: Lin Yu-Te , Lin Yu-Fei , Tsai Isheng J. , Chang Ed-Haun , Jien Shih-Hao , Lin Yen-Ju , Chiu Chih-Yu 
Published: March 2019

AbstractThe effects of biogeographical separation and parent material differences in soil bacterial structure and diversity in offshore islands remain poorly understood. In the current study, we used next-generation sequencing to characterize the differences in soil bacterial communities in five offshore subtropical granite islands (Matsu Islets, MI) of mainland China and two offshore tropical andesite islands (Orchid [OI] and Green Islands [GI]) of Taiwan. The soils of OI and GI were more acidic and had higher organic carbon and total nitrogen content than MI soils. The bacterial communities were dominated by Acidobacteria and Proteobacteria but had different relative abundance because soils were derived from different parent material and because of geographic distance. Non-metric multi-dimensional scaling revealed that the communities formed different clusters among different parent material and geographically distributed soils. The alpha-diversity in bacterial communities was higher in tropical than subtropical soils. Mantel test and redundancy analysis indicated that bacterial diversity and compositions of OI and GI soils, respectively, were positively correlated with soil pH, organic carbon, total nitrogen, microbial biomass carbon and nitrogen. These results suggest that variations in soil properties of offshore islands could result from differences in soil parent material. Distinct soils derived from different parent material and geographic distance could in turn alter the bacterial communities.
Detecting changes in facial temperature induced by a sudden auditory stimulus based on deep learning-assisted face tracking
Authors: Sonkusare Saurabh , Ahmedt-Aristizabal David , Aburn Matthew J. , Nguyen Vinh Thai , Pang Tianji , Frydman Sascha , Denman Simon , Fookes Clinton , Breakspear Michael , Guo Christine C. 
Published: March 2019

AbstractThermal Imaging (Infrared-Imaging-IRI) is a promising new technique for psychophysiological research and application. Unlike traditional physiological measures (like skin conductance and heart rate), it is uniquely contact-free, substantially enhancing its ecological validity. Investigating facial regions and subsequent reliable signal extraction from IRI data is challenging due to head motion artefacts. Exploiting its potential thus depends on advances in analytical methods. Here, we developed a novel semi-automated thermal signal extraction method employing deep learning algorithms for facial landmark identification. We applied this method to physiological responses elicited by a sudden auditory stimulus, to determine if facial temperature changes induced by a stimulus of a loud sound can be detected. We compared thermal responses with psycho-physiological sensor-based tools of galvanic skin response (GSR) and electrocardiography (ECG). We found that the temperatures of selected facial regions, particularly the nose tip, significantly decreased after the auditory stimulus. Additionally, this response was quite rapid at around 4–5 seconds, starting less than 2 seconds following the GSR changes. These results demonstrate that our methodology offers a sensitive and robust tool to capture facial physiological changes with minimal manual intervention and manual pre-processing of signals. Newer methodological developments for reliable temperature extraction promise to boost IRI use as an ecologically-valid technique in social and affective neuroscience.
A dispersal of Homo sapiens from southern to eastern Africa immediately preceded the out-of-Africa migration
Authors: Rito Teresa , Vieira Daniel , Silva Marina , Conde-Sousa Eduardo , Pereira Luísa , Mellars Paul , Richards Martin B. , Soares Pedro 
Published: March 2019

AbstractAfrica was the birth-place ofHomo sapiensand has the earliest evidence for symbolic behaviour and complex technologies. The best-attested early flowering of these distinctive features was in a glacial refuge zone on the southern coast 100–70 ka, with fewer indications in eastern Africa until after 70 ka. Yet it was eastern Africa, not the south, that witnessed the first major demographic expansion, ~70–60 ka, which led to the peopling of the rest of the world. One possible explanation is that important cultural traits were transmitted from south to east at this time. Here we identify a mitochondrial signal of such a dispersal soon after ~70 ka – the only time in the last 200,000 years that humid climate conditions encompassed southern and tropical Africa. This dispersal immediately preceded the out-of-Africa expansions, potentially providing the trigger for these expansions by transmitting significant cultural elements from the southern African refuge.