bluuebunny/crossref_metadata_2025_split huggingface dataset:
A Review of the Role of the Atlantic Meridional Overturning Circulation in Atlantic Multidecadal Variability and Associated Climate Impacts
Authors: Zhang Rong , Sutton Rowan , Danabasoglu Gokhan , Kwon Young‐Oh , Marsh Robert , Yeager Stephen G. , Amrhein Daniel E. , Little Christopher M. 
Published: April 2019

AbstractBy synthesizing recent studies employing a wide range of approaches (modern observations, paleo reconstructions, and climate model simulations), this paper provides a comprehensive review of the linkage between multidecadal Atlantic Meridional Overturning Circulation (AMOC) variability and Atlantic Multidecadal Variability (AMV) and associated climate impacts. There is strong observational and modeling evidence that multidecadal AMOC variability is a crucial driver of the observed AMV and associated climate impacts and an important source of enhanced decadal predictability and prediction skill. The AMOC‐AMV linkage is consistent with observed key elements of AMV. Furthermore, this synthesis also points to a leading role of the AMOC in a range of AMV‐related climate phenomena having enormous societal and economic implications, for example, Intertropical Convergence Zone shifts; Sahel and Indian monsoons; Atlantic hurricanes; El Niño–Southern Oscillation; Pacific Decadal Variability; North Atlantic Oscillation; climate over Europe, North America, and Asia; Arctic sea ice and surface air temperature; and hemispheric‐scale surface temperature. Paleoclimate evidence indicates that a similar linkage between multidecadal AMOC variability and AMV and many associated climate impacts may also have existed in the preindustrial era, that AMV has enhanced multidecadal power significantly above a red noise background, and that AMV is not primarily driven by external forcing. The role of the AMOC in AMV and associated climate impacts has been underestimated in most state‐of‐the‐art climate models, posing significant challenges but also great opportunities for substantial future improvements in understanding and predicting AMV and associated climate impacts.
Molecular dissection of box jellyfish venom cytotoxicity highlights an effective venom antidote
Authors: Lau Man-Tat , Manion John , Littleboy Jamie B. , Oyston Lisa , Khuong Thang M. , Wang Qiao-Ping , Nguyen David T. , Hesselson Daniel , Seymour Jamie E. , Neely G. Gregory 
Published: April 2019

AbstractThe box jellyfish Chironex fleckeri is extremely venomous, and envenoming causes tissue necrosis, extreme pain and death within minutes after severe exposure. Despite rapid and potent venom action, basic mechanistic insight is lacking. Here we perform molecular dissection of a jellyfish venom-induced cell death pathway by screening for host components required for venom exposure-induced cell death using genome-scale lenti-CRISPR mutagenesis. We identify the peripheral membrane protein ATP2B1, a calcium transporting ATPase, as one host factor required for venom cytotoxicity. Targeting ATP2B1 prevents venom action and confers long lasting protection. Informatics analysis of host genes required for venom cytotoxicity reveal pathways not previously implicated in cell death. We also discover a venom antidote that functions up to 15 minutes after exposure and suppresses tissue necrosis and pain in mice. These results highlight the power of whole genome CRISPR screening to investigate venom mechanisms of action and to rapidly identify new medicines.
Lipopolysaccharide inhalation recruits monocytes and dendritic cell subsets to the alveolar airspace
Authors: Jardine Laura , Wiscombe Sarah , Reynolds Gary , McDonald David , Fuller Andrew , Green Kile , Filby Andrew , Forrest Ian , Ruchaud-Sparagano Marie-Helene , Scott Jonathan , Collin Matthew , Haniffa Muzlifah , Simpson A. John 
Published: April 2019

AbstractMononuclear phagocytes (MPs) including monocytes, macrophages and dendritic cells (DCs) are critical innate immune effectors and initiators of the adaptive immune response. MPs are present in the alveolar airspace at steady state, however little is known about DC recruitment in acute pulmonary inflammation. Here we use lipopolysaccharide inhalation to induce acute inflammation in healthy volunteers and examine the impact on bronchoalveolar lavage fluid and blood MP repertoire. Classical monocytes and two DC subsets (DC2/3 and DC5) are expanded in bronchoalveolar lavage fluid 8 h after lipopolysaccharide inhalation. Surface phenotyping, gene expression profiling and parallel analysis of blood indicate recruited DCs are blood-derived. Recruited monocytes and DCs rapidly adopt typical airspace-resident MP gene expression profiles. Following lipopolysaccharide inhalation, alveolar macrophages strongly up-regulate cytokines for MP recruitment. Our study defines the characteristics of human DCs and monocytes recruited into bronchoalveolar space immediately following localised acute inflammatory stimulus in vivo.
Dynamics of pore formation during laser powder bed fusion additive manufacturing
Authors: Martin Aiden A. , Calta Nicholas P. , Khairallah Saad A. , Wang Jenny , Depond Phillip J. , Fong Anthony Y. , Thampy Vivek , Guss Gabe M. , Kiss Andrew M. , Stone Kevin H. , Tassone Christopher J. , Nelson Weker Johanna , Toney Michael F. , van Buuren Tony , Matthews Manyalibo J. 
Published: April 2019

AbstractLaser powder bed fusion additive manufacturing is an emerging 3D printing technique for the fabrication of advanced metal components. Widespread adoption of it and similar additive technologies is hampered by poor understanding of laser-metal interactions under such extreme thermal regimes. Here, we elucidate the mechanism of pore formation and liquid-solid interface dynamics during typical laser powder bed fusion conditions using in situ X-ray imaging and multi-physics simulations. Pores are revealed to form during changes in laser scan velocity due to the rapid formation then collapse of deep keyhole depressions in the surface which traps inert shielding gas in the solidifying metal. We develop a universal mitigation strategy which eliminates this pore formation process and improves the geometric quality of melt tracks. Our results provide insight into the physics of laser-metal interaction and demonstrate the potential for science-based approaches to improve confidence in components produced by laser powder bed fusion.
Information-rich localization microscopy through machine learning
Authors: Kim Taehwan , Moon Seonah , Xu Ke 
Published: April 2019

AbstractRecent years have witnessed the development of single-molecule localization microscopy as a generic tool for sampling diverse biologically relevant information at the super-resolution level. While current approaches often rely on the target-specific alteration of the point spread function to encode the multidimensional contents of single fluorophores, the details of the point spread function in an unmodified microscope already contain rich information. Here we introduce a data-driven approach in which artificial neural networks are trained to make a direct link between an experimental point spread function image and its underlying, multidimensional parameters, and compare results with alternative approaches based on maximum likelihood estimation. To demonstrate this concept in real systems, we decipher in fixed cells both the colors and the axial positions of single molecules in regular localization microscopy data.
On Chip Optical Modulator using Epsilon-Near-Zero Hybrid Plasmonic Platform
Authors: Swillam Mohamed A. , Zaki Aya O. , Kirah Khaled , Shahada Lamees A. 
Published: April 2019

AbstractIn this work, we propose a micro-scale modulator architecture with compact size, low insertion loss, high extinction ratio, and low energy/bit while being compatible with the silicon-on-insulator (SOI) platform. This is achieved through the utilization of epsilon-near-zero (ENZ) effect of indium-tin-oxide (ITO) to maximize the attainable change in the effective index of the optical mode. It also exploits the ITO layer in a hybrid plasmonic ring resonator which further intensifies the effect of the changes in both the real and imaginary parts of the effective index. By electrically inducing carriers in the indium tin oxide (ITO), to reach the ENZ state, the resonance condition shifts, and the losses of the hybrid plasmonic ring resonator increases significantly. This mechanism is optimized to maximize the extinction ratio and minimize the insertion loss. The proposed structure is designed to maximize the coupling to and from standard SOI waveguide, used as access ports. In addition, the operational region is reconfigurable by changing the bias voltage.
Boronic Acid Appended Naphthyl-Pyridinium Receptors as Chemosensors for Sugars
Authors: Resendez Angel , Malhotra Sanjay V. 
Published: April 2019

AbstractThere remains a need in clinics and research to have simple and sensitive detection systems that allow the detection and quantification of sugar markers of biomedical relevance such as sugars lactulose and mannitol for noninvasive gut permeability assessment. We have prepared a new class of boronic acid-appended naphthyl-pyridinium receptor compounds as chemosensors. These were studied for their ability to act as modular internal charge transfer (ICT) fluorescent probes or donor/acceptor pair ensembles where the receptor compound can act as a quencher for an anionic dye. As an ICT sensor, fluorescence intensity increased upon diol recognition, which stems from the neutralization of the pyridinium nitrogen that is perturbing the chromophoric properties. We found these ICT probes provide good sensitivity for disaccharide lactulose with low micromolar detection and quantification limits. In addition, their ability to form a non-fluorescent ground state complex with anionic reporter dyes, such as HPTS or TSPP, was examined as probes for various sugars. We have identified three receptor/quencher compounds with high quenching efficiency for anionic dyes. Subsequently, a range of sugars and sugar derivatives were tested for chemosenstivity of our probes. This study illustrates an approach for designing boronic acid-based chemoreceptors for the recognition and quantification of sugars and sugar derivatives.
Differences in resource use lead to coexistence of seed-transmitted microbial populations
Authors: Torres-Cortés G. , Garcia B. J. , Compant S. , Rezki S. , Jones P. , Préveaux A. , Briand M. , Roulet A. , Bouchez O. , Jacobson D. , Barret M. 
Published: April 2019

AbstractSeeds are involved in the vertical transmission of microorganisms in plants and act as reservoirs for the plant microbiome. They could serve as carriers of pathogens, making the study of microbial interactions on seeds important in the emergence of plant diseases. We studied the influence of biological disturbances caused by seed transmission of two phytopathogenic agents, Alternaria brassicicola Abra43 (Abra43) and Xanthomonas campestris pv. campestris 8004 (Xcc8004), on the structure and function of radish seed microbial assemblages, as well as the nutritional overlap between Xcc8004 and the seed microbiome, to find seed microbial residents capable of outcompeting this pathogen. According to taxonomic and functional inference performed on metagenomics reads, no shift in structure and function of the seed microbiome was observed following Abra43 and Xcc8004 transmission. This lack of impact derives from a limited overlap in nutritional resources between Xcc8004 and the major bacterial populations of radish seeds. However, two native seed-associated bacterial strains belonging to Stenotrophomonas rhizophila displayed a high overlap with Xcc8004 regarding the use of resources; they might therefore limit its transmission. The strategy we used may serve as a foundation for the selection of seed indigenous bacterial strains that could limit seed transmission of pathogens.
Blocking RpoN reduces virulence of Pseudomonas aeruginosa isolated from cystic fibrosis patients and increases antibiotic sensitivity in a laboratory strain
Authors: Lloyd M. G. , Vossler J. L. , Nomura C. T. , Moffat J. F. 
Published: April 2019

AbstractMultidrug-resistant organisms are increasing in healthcare settings, and there are few antimicrobials available to treat infections from these bacteria. Pseudomonas aeruginosa is an opportunistic pathogen in burn patients and individuals with cystic fibrosis (CF), and a leading cause of nosocomial infections. P. aeruginosa is inherently resistant to many antibiotics and can develop resistance to others, limiting treatment options. P. aeruginosa has multiple sigma factors to regulate transcription. The alternative sigma factor, RpoN (σ54), regulates many virulence genes and is linked to antibiotic resistance. Recently, we described a cis-acting peptide, RpoN*, which is a “molecular roadblock”, binding consensus promoters at the -24 site, blocking transcription. RpoN* reduces virulence of P. aeruginosa laboratory strains, but its effects in clinical isolates was unknown. We investigated the effects of RpoN* on phenotypically varied P. aeruginosa strains isolated from CF patients. RpoN* expression reduced motility, biofilm formation, and pathogenesis in a P. aeruginosa-C. elegans infection model. Furthermore, we investigated RpoN* effects on antibiotic susceptibility in a laboratory strain. RpoN* expression increased susceptibility to several beta-lactam-based antibiotics in strain P. aeruginosa PA19660 Xen5. We show that using a cis-acting peptide to block RpoN consensus promoters has potential clinical implications in reducing virulence and improving antibiotic susceptibility.
Effects of human antimicrobial cryptides identified in apolipoprotein B depend on specific features of bacterial strains
Authors: Gaglione Rosa , Cesaro Angela , Dell’Olmo Eliana , Della Ventura Bartolomeo , Casillo Angela , Di Girolamo Rocco , Velotta Raffaele , Notomista Eugenio , Veldhuizen Edwin J. A. , Corsaro Maria Michela , De Rosa Claudio , Arciello Angela 
Published: April 2019

AbstractCationic Host Defense Peptides (HDPs) are endowed with a broad variety of activities, including direct antimicrobial properties and modulatory roles in the innate immune response. Even if it has been widely demonstrated that bacterial membrane represents the main target of peptide antimicrobial activity, the molecular mechanisms underlying membrane perturbation by HDPs have not been fully clarified yet. Recently, two cryptic HDPs have been identified in human apolipoprotein B and found to be endowed with a broad-spectrum antimicrobial activity, and with anti-biofilm, wound healing and immunomodulatory properties. Moreover, ApoB derived HDPs are able to synergistically act in combination with conventional antibiotics, while being not toxic for eukaryotic cells. Here, by using a multidisciplinary approach, including time killing curves, Zeta potential measurements, membrane permeabilization assays, electron microscopy analyses, and isothermal titration calorimetry studies, the antimicrobial effects of ApoB cryptides have been analysed on bacterial strains either susceptible or resistant to peptide toxicity. Intriguingly, it emerged that even if electrostatic interactions between negatively charged bacterial membranes and positively charged HDPs play a key role in mediating peptide toxicity, they are strongly influenced by the composition of negatively charged bacterial surfaces and by defined extracellular microenvironments.
The transgenerational effects of oocyte mitochondrial supplementation
Authors: St. John Justin C. , Makanji Yogeshwar , Johnson Jacqueline L. , Tsai Te-Sha , Lagondar Simone , Rodda Fleur , Sun Xin , Pangestu Mulyoto , Chen Penny , Temple-Smith Peter 
Published: April 2019

AbstractMany women suffer from either failed fertilisation or their embryos arrest early during development. Autologous mitochondrial supplementation has been proposed as an assisted reproductive technology to overcome these problems. However, its safety remains to be tested in an animal model to determine if there are transgenerational effects. We have supplemented oocytes with autologous populations of mitochondria to generate founders. We mated the female founders and their offspring to produce three generations. We assessed litter size, the ovarian reserve, and weight gain and conducted a full histopathological analysis from each of the three generations. Across the generations, we observed significant increases in litter size and in the number of primordial follicles in the ovary matched by changes in global gene expression patterns for these early-stage oocytes. However, full histopathological analysis revealed that cardiac structure was compromised in first and second generation offspring, which could seriously affect the health of the offspring. Furthermore, the offspring were prone to increased weight gain during early life. Mitochondrial supplementation appears to perturb the regulation of the chromosomal genome resulting in transgenerational phenotypic gains and losses. These data highlight the need for caution when using autologous mitochondrial supplementation to treat female factor infertility.
Automated Segmentation of Fluorescence Microscopy Images for 3D Cell Detection in human-derived Cardiospheres
Authors: Salvi Massimo , Morbiducci Umberto , Amadeo Francesco , Santoro Rosaria , Angelini Francesco , Chimenti Isotta , Massai Diana , Messina Elisa , Giacomello Alessandro , Pesce Maurizio , Molinari Filippo 
Published: April 2019

AbstractThe ‘cardiosphere’ is a 3D cluster of cardiac progenitor cells recapitulating a stem cell niche-like microenvironment with a potential for disease and regeneration modelling of the failing human myocardium. In this multicellular 3D context, it is extremely important to decrypt the spatial distribution of cell markers for dissecting the evolution of cellular phenotypes by direct quantification of fluorescent signals in confocal microscopy. In this study, we present a fully automated method, named CARE (‘CARdiosphere Evaluation’), for the segmentation of membranes and cell nuclei in human-derived cardiospheres. The proposed method is tested on twenty 3D-stacks of cardiospheres, for a total of 1160 images. Automatic results are compared with manual annotations and two open-source software designed for fluorescence microscopy. CARE performance was excellent in cardiospheres membrane segmentation and, in cell nuclei detection, the algorithm achieved the same performance as two expert operators. To the best of our knowledge, CARE is the first fully automated algorithm for segmentation inside in vitro 3D cell spheroids, including cardiospheres. The proposed approach will provide, in the future, automated quantitative analysis of markers distribution within the cardiac niche-like environment, enabling predictive associations between cell mechanical stresses and dynamic phenotypic changes.
Metformin attenuates the onset of non-alcoholic fatty liver disease and affects intestinal microbiota and barrier in small intestine
Authors: Brandt Annette , Hernández-Arriaga Angélica , Kehm Richard , Sánchez Victor , Jin Cheng Jun , Nier Anika , Baumann Anja , Camarinha-Silva Amélia , Bergheim Ina 
Published: April 2019

AbstractThe antidiabetic drug metformin has been proposed to affect non-alcoholic fatty liver disease (NAFLD) through its effects on intestinal microbiota and barrier function. However, so far most studies focused on long-term effects and more progressed disease stages. The aim of this study was to assess in two experimental settings, if the onset of NAFLD is associated with changes of intestinal microbiota and barrier function and to determine effects of metformin herein. C57Bl/6J mice were fed a liquid control diet (C) or fat-, fructose- and cholesterol-rich diet (FFC) for four days or six weeks ±300 mg/kg BW/day metformin (Met). Markers of liver health, intestinal barrier function and microbiota composition were assessed. Metformin treatment markedly attenuated FFC-induced NAFLD in both experiments with markers of inflammation and lipidperoxidation in livers of FFC + Met-fed mice being almost at the level of controls. Metformin treatment attenuated the loss of tight junction proteins in small intestine and the increase of bacterial endotoxin levels in portal plasma. Changes of intestinal microbiota found in FFC-fed mice were also significantly blunted in FFC + Met-fed mice. Taken together, protective effects of metformin on the onset of NAFLD are associated with changes of intestinal microbiota composition and lower translocation of bacterial endotoxins.
The implication of plastid transcriptome analysis in petaloid monocotyledons: A case study of Lilium lancifolium (Liliaceae, Liliales)
Authors: Do Hoang Dang Khoa , Kim Joo-Hwan 
Published: April 2019

AbstractTranscriptome data provide useful information for studying the evolutionary history of angiosperms. Previously, different genomic events (i.e., duplication, deletion, and pseudogenization) were discovered in the plastid genome of Liliales; however, the effects of these events have not addressed because of the lack of transcriptome data. In this study, we completed the plastid genome (cpDNA) and generated transcriptome data of Lilium lancifolium. Consequently, the cpDNA of L. lancifolium is 152,479 bp in length, which consists of one large single copy (81,888 bp), one small single copy (17,607 bp), and two inverted repeat regions (26,544 bp). The comparative genomic analysis of newly sequenced cpDNA and transcriptome data revealed 90 RNA editing sites of which two positions are located in the rRNA coding region of L. lancifolium. A further check on the secondary structure of rRNA showed that RNA editing causes notable structural changes. Most of the RNA editing contents are C-to-U conversions, which result in nonsynonymous substitutions. Among coding regions, ndh genes have the highest number of RNA editing sites. Our study provided the first profiling of plastid transcriptome analyses in Liliales and fundamental information for further studies on post-transcription in this order as well as other petaloid monocotyledonous species.
An algorithm strategy for precise patient monitoring in a connected healthcare enterprise
Authors: Hu Xiao 
Published: April 2019

AbstractThis perspective paper describes the building elements for realizing a precise patient monitoring algorithm to fundamentally address the alarm fatigue problem. Alarm fatigue is well recognized but no solution has been widely successful. Physiologic patient monitors are responsible for the lion’s share of alarms at the bedside, most of which are either false or non-actionable. Algorithms on patient monitors lack precision because they fail to leverage multivariate relationship among variables monitored, to integrate rich patient clinical information from electronic health record system, and to utilize temporal patterns in data streams. Therefore, a solution to patient monitor alarm fatigue is to open the black-box of patient monitors to integrate physiologic data with clinical data from EHR under a four-element algorithm strategy to be described in this paper. This strategy will be presented in this paper in the context of its current status as described in our prior publications.