bluuebunny/crossref_metadata_2025_split huggingface dataset:
Legislation for wetland conservation in Brazil: Are existing terms and definitions sufficient?
Authors: MALTCHIK LEONARDO , CALEFFI VANESSA , STENERT CRISTINA , BATZER DAROLD PAUL , FERNANDEZ PIEDADE MARIA TERESA , JUNK WOLFGANG JOHANNES 
Published: December 2017

SUMMARYLaws are crucial tools to protect wetlands. How these laws are written has important implications for conservation. We assessed all wetland terms and definitions in Brazilian legislation to identify whether legislation uses any generic terms to represent several or all types of wetlands and to determine if definitions with clear descriptors exist that can easily be used to identify wetland systems. A total of 116 local wetland-related terms and 21 wetland definitions were found in Brazilian legislation. A direct Portuguese translation of the term ‘wetlands’ was found only once in the New Forest Code. The insertion of the term ‘wetlands’ in the New Forest Code has important practical implications for the conservation, since all different Brazilian wetland types would be represented by the generic term ‘wetlands’. The existence of a definition of the term ‘wetlands’ associated with attributes of water and biota in Federal legislation will help environmental technicians to identify wetland systems and to recognize different wetland types. The insertion of this definition in the New Forest Code would make it clear that the drainage of any wetland type – large or small – is prohibited, and those who do so would be breaking Brazilian environmental law.
A rapid review examining purchasing changes resulting from fiscal measures targeted at high sugar foods and sugar-sweetened drinks
Authors: Roberts Katharine E. , Ells Louisa J. , McGowan Victoria J. , Machaira Theodora , Targett Victoria C. , Allen Rachel E. , Tedstone Alison E. 
Published: December 2017

AbstractTo aim of the review was to examine the most recent (2010 onwards) research evidence on the health and behavioural impacts, in adults and children, of fiscal strategies that target high sugar foods and sugar-sweetened drinks (SSDs). A pragmatic rapid review was undertaken using a systematic search strategy. The review was part of a programme of work to support policy development in relation to high sugar food and SSDs. A total of 11 primary research publications were included, describing evidence from France (n = 1), the Netherlands (n = 3), and the United States of America (n = 7), assessed through a variety of study designs, with the majority in adult populations (n = 10). The evidence reviewed focused on consumer behaviour outcomes and suggested that fiscal strategies can influence purchases of high sugar products. Although the majority of studies (n = 10), including three field studies, demonstrated that an increase in the price of high sugar foods and SSDs resulted in a decrease in purchases, eight studies were conducted in a laboratory or virtual setting which may not reflect real-life situations.Findings from this review support evidence from the broader literature that suggests that fiscal measures can be effective in influencing the purchasing of high sugar foods and SSDs.
Tumor suppressor p53 links ceramide metabolism to DNA damage response through alkaline ceramidase 2
Authors: Xu Ruijuan , Garcia-Barros Monica , Wen Sally , Li Fang , Lin Chih-Li , Hannun Yusuf A. , Obeid Lina M. , Mao Cungui 
Published: December 2017

Abstract
p53 mediates the DNA damage response (DDR) by regulating the expression of genes implicated in cell cycle arrest, senescence, programmed cell death (PCD), and metabolism. Herein we demonstrate that human alkaline ceramidase 2 (ACER2) is a novel transcriptional target of p53 and that its transactivation by p53 mediates the DDR. We found that p53 overexpression or its activation by ionizing radiation (IR) upregulated ACER2 in cells. Two putative p53 responsive elements (p53REs) were found in its first intron of the ACER2 gene, and Chromatin Immunoprecipitation (ChIP) assays in combination with promoter activity assays demonstrated that these p53REs are the bona fide p53 binding sites that mediate ACER2 transactivation by p53. As ACER2 catalyzes the hydrolysis of ceramides into sphingosine, which in turn is phosphorylated to form sphingosine-1-phosphate (S1P), ACER2 upregulation increased the levels of both sphingosine and S1P while decreasing the levels of ceramides in cells. A moderate upregulation of ACER2 inhibited cell cycle arrest and cellular senescence in response to low-level expression of p53 or low-dose IR by elevating S1P, a pro-proliferative and pro-survival bioactive lipid, and/or decreasing ceramides whereas its robust upregulation mediated PCD in response to high-level expression of p53 or high-dose IR likely by accumulating cellular sphingosine, a pro-death bioactive lipid. ACER2 is frequently inactivated in various cancers due to its deletion or mutations, and restoring its expression inhibited the growth of tumor xenografts in mice. These results suggest that p53 mediates DDR and exerts its tumor suppressive role in part by regulating the expression of ACER2, which in turn regulates the bioactive sphingolipid lipids.
SPLICS: a split green fluorescent protein-based contact site sensor for narrow and wide heterotypic organelle juxtaposition
Authors: Cieri Domenico , Vicario Mattia , Giacomello Marta , Vallese Francesca , Filadi Riccardo , Wagner Tina , Pozzan Tullio , Pizzo Paola , Scorrano Luca , Brini Marisa , Calì Tito 
Published: December 2017

AbstractContact sites are discrete areas of organelle proximity that coordinate essential physiological processes across membranes, including Ca2+ signaling, lipid biosynthesis, apoptosis, and autophagy. However, tools to easily image inter-organelle proximity over a range of distances in living cells and in vivo are lacking. Here we report a split-GFP-based contact site sensor (SPLICS) engineered to fluoresce when organelles are in proximity. Two SPLICS versions efficiently measured narrow (8–10 nm) and wide (40–50 nm) juxtapositions between endoplasmic reticulum and mitochondria, documenting the existence of at least two types of contact sites in human cells. Narrow and wide ER–mitochondria contact sites responded differently to starvation, ER stress, mitochondrial shape modifications, and changes in the levels of modulators of ER–mitochondria juxtaposition. SPLICS detected contact sites in soma and axons of D. rerio Rohon Beard (RB) sensory neurons in vivo, extending its use to analyses of organelle juxtaposition in the whole animal.
Cell shape information is transduced through tension-independent mechanisms
Authors: Ron Amit , Azeloglu Evren U. , Calizo Rhodora C. , Hu Mufeng , Bhattacharya Smiti , Chen Yibang , Jayaraman Gomathi , Lee Sunwoo , Neves-Zaph Susana R. , Li Hong , Gordon Ronald E. , He John C. , Hone James C. , Iyengar Ravi 
Published: December 2017

AbstractThe shape of a cell within tissues can represent the history of chemical and physical signals that it encounters, but can information from cell shape regulate cellular phenotype independently? Using optimal control theory to constrain reaction-diffusion schemes that are dependent on different surface-to-volume relationships, we find that information from cell shape can be resolved from mechanical signals. We used microfabricated 3-D biomimetic chips to validate predictions that shape-sensing occurs in a tension-independent manner through integrin β3 signaling pathway in human kidney podocytes and smooth muscle cells. Differential proteomics and functional ablation assays indicate that integrin β3 is critical in transduction of shape signals through ezrin–radixin–moesin (ERM) family. We used experimentally determined diffusion coefficients and experimentally validated simulations to show that shape sensing is an emergent cellular property enabled by multiple molecular characteristics of integrin β3. We conclude that 3-D cell shape information, transduced through tension-independent mechanisms, can regulate phenotype.
Evidence for topological type-II Weyl semimetal WTe2
Authors: Li Peng , Wen Yan , He Xin , Zhang Qiang , Xia Chuan , Yu Zhi-Ming , Yang Shengyuan A. , Zhu Zhiyong , Alshareef Husam N. , Zhang Xi-Xiang 
Published: December 2017

AbstractRecently, a type-II Weyl fermion was theoretically predicted to appear at the contact of electron and hole Fermi surface pockets. A distinguishing feature of the surfaces of type-II Weyl semimetals is the existence of topological surface states, so-called Fermi arcs. Although WTe2 was the first material suggested as a type-II Weyl semimetal, the direct observation of its tilting Weyl cone and Fermi arc has not yet been successful. Here, we show strong evidence that WTe2 is a type-II Weyl semimetal by observing two unique transport properties simultaneously in one WTe2 nanoribbon. The negative magnetoresistance induced by a chiral anomaly is quite anisotropic in WTe2 nanoribbons, which is present in b-axis ribbon, but is absent in a-axis ribbon. An extra-quantum oscillation, arising from a Weyl orbit formed by the Fermi arc and bulk Landau levels, displays a two dimensional feature and decays as the thickness increases in WTe2 nanoribbon.
Spin-momentum locked interaction between guided photons and surface electrons in topological insulators
Authors: Luo Siyuan , He Li , Li Mo 
Published: December 2017

AbstractThe propagation of electrons and photons can respectively have the spin-momentum locking effect which correlates spin with linear momentum. For surface electrons in three-dimensional topological insulators (TIs), their spin is locked to the transport direction. Analogously, photons in optical waveguides carry transverse spin angular momentum which is also locked to the propagation direction. A direct connection between electron and photon spins occurs in TIs due to spin-dependent selection rules of optical transitions. Here we demonstrate an optoelectronic device that integrates a TI with a photonic waveguide. Interaction between photons in the waveguide and surface electrons in a Bi2Se3 layer generates a directional, spin-polarized photocurrent. Because of spin-momentum locking, changing light propagation direction reverses photon spin and thus the direction of the photocurrent. Our device represents a way of implementing coupled spin–orbit interaction between electrons and photons and may lead to applications in opto-spintronics and quantum information processing.
New twinning route in face-centered cubic nanocrystalline metals
Authors: Wang Lihua , Guan Pengfei , Teng Jiao , Liu Pan , Chen Dengke , Xie Weiyu , Kong Deli , Zhang Shengbai , Zhu Ting , Zhang Ze , Ma Evan , Chen Mingwei , Han Xiaodong 
Published: December 2017

AbstractTwin nucleation in a face-centered cubic crystal is believed to be accomplished through the formation of twinning partial dislocations on consecutive atomic planes. Twinning should thus be highly unfavorable in face-centered cubic metals with high twin-fault energy barriers, such as Al, Ni, and Pt, but instead is often observed. Here, we report an in situ atomic-scale observation of twin nucleation in nanocrystalline Pt. Unlike the classical twinning route, deformation twinning initiated through the formation of two stacking faults separated by a single atomic layer, and proceeded with the emission of a partial dislocation in between these two stacking faults. Through this route, a three-layer twin was nucleated without a mandatory layer-by-layer twinning process. This route is facilitated by grain boundaries, abundant in nanocrystalline metals, that promote the nucleation of separated but closely spaced partial dislocations, thus enabling an effective bypassing of the high twin-fault energy barrier.
Germline TTN variants are enriched in PTEN-wildtype Bannayan–Riley–Ruvalcaba syndrome
Authors: Yehia Lamis , Ni Ying , Eng Charis 
Published: December 2017

AbstractBannayan–Riley–Ruvalcaba syndrome (BRRS) is a rare congenital disorder classically characterized by macrocephaly in combination with intestinal hamartomatous polyposis, vascular malformations, lipomas, and genital lentiginosis. Germline PTEN mutations have been reported in up to 60% of BRRS patients. The remaining cases are of unknown genetic etiology. We exome-sequenced 35 unrelated PTEN-wildtype patients with classic presentation of BRRS and identified TTN germline missense variants in 12/35 (34%) patients. TTN encodes TITIN, a key structural and functional muscle protein. Exome and TTN-targeted sequencing in an additional unrelated series of 231 BRRS-like patients revealed 37 (16%) additional patients with germline TTN variants. All variants were predicted to be deleterious and equally distributed between the A-band and I-band protein domains. Rare TTN variants (MAF ≤ 0.0001) are enriched in classic BRRS patients compared to BRRS-like (OR = 2.7, 95% CI 1.21-5.94, p = 1.6 × 10-2) and multiple population controls (OR = 2.2, 95% CI 1.01-4.20, p = 4.7 × 10-2). Germline TTN mutations of different genotypes, inheritance patterns, and protein domain enrichment have been identified in multiple cardiac and/or skeletal muscular disorders. Functional interrogation of I-band variant p.Cys5096Arg identified in one of our classic BRRS patients, using CRISPR-Cas9 genome-edited cell lines, reveals an increased growth and lack of contact inhibition phenotype associated with increased levels of or phosphorylation of focal adhesion kinase (FAK) in mutant cells. These findings suggest that TITIN could play a role in overgrowth-relevant pathways and phenotypes. In summary, our observations suggest TTN as a candidate predisposing gene in classic PTEN-wildtype BRRS patients, perhaps suggesting this syndrome join the growing list of Titinopathies.
Salford Lung Study in chronic obstructive pulmonary disease (SLS COPD): follow-up interviews on patient-centred outcomes
Authors: Doward Lynda , Svedsater Henrik , Whalley Diane , Crawford Rebecca , Leather David , Lay-Flurrie James , Bosanquet Nick 
Published: December 2017

AbstractThis study investigated patient perceptions, experiences and management of COPD throughout the SLS COPD study. Follow-up interviews were conducted with 400 patients who completed SLS COPD; a mixed-methods approach was used to collect quantitative and qualitative information. Structured interviews using closed-ended questions were conducted with 360 patients, detailing aspects of background/lifestyle information and COPD. Extended interviews containing open-ended questions on perceptions of COPD and quality of life (QoL) in addition to the closed-ended questions were completed by 40 further patients. Participants also completed the Adherence Starts with Knowledge-12 (ASK-12) and the COPD and Asthma Sleep Impact Scale (CASIS) questionnaire. Quantitative data were analysed descriptively; qualitative data were analysed using qualitative description. The participants (n = 400) were reasonably representative of the SLS COPD population; mean age was 66.2 years. Breathlessness was the most commonly recalled symptom of/associated with COPD (88.5% of patients) and was the symptom that changed the most (improved, 26.8%/worsened, 20.9%) throughout the study. Participants’ daily functioning and activities were most affected by symptoms of/associated with COPD, followed by relationships and psychological issues. 66.5% of participants experienced exacerbations, 60.5% of whom reported self-management as their first treatment strategy (taking antibiotics, resting and/or corticosteroids). Qualitative analysis revealed COPD symptoms, breathlessness in particular, to have a significant impact on mobility and in turn QoL. In conclusion, breathlessness was cited in these interviews as the COPD symptom with the greatest impact on participants’ daily functioning, activities and self-care. The findings provided significant additional knowledge to the SLS COPD study findings.
Heatwaves diminish the survival of a subtidal gastropod through reduction in energy budget and depletion of energy reserves
Authors: Leung Jonathan Y. S. , Connell Sean D. , Russell Bayden D. 
Published: December 2017

AbstractExtreme climatic events, such as heatwaves, are predicted to be more prevalent in future due to global climate change. The devastating impacts of heatwaves on the survival of marine organisms may be further intensified by ocean acidification. Here, we tested the hypothesis that prolonged exposure to heatwave temperatures (24 °C, +3 °C summer seawater temperature) would diminish energy budget, body condition and ultimately survival of a subtidal gastropod (Thalotia conica) by pushing close to its critical thermal maximum (CTmax). We also tested whether ocean acidification (pCO2: 1000 ppm) affects energy budget, CTmax and hence survival of this gastropod. Following the 8-week experimental period, mortality was markedly higher at 24 °C irrespective of pCO2 level, probably attributed to energy deficit (negative scope for growth) and concomitant depletion of energy reserves (reduced organ weight to flesh weight ratio). CTmax of T. conica appeared at 27 °C and was unaffected by ocean acidification. Our findings imply that prolonged exposure to heatwaves can compromise the survival of marine organisms below CTmax via disruption in energy homeostasis, which possibly explains their mass mortality in the past heatwave events. Therefore, heatwaves would have more profound effects than ocean acidification on future marine ecosystems.
Host iron status and erythropoietic response to iron supplementation determines susceptibility to the RBC stage of falciparum malaria during pregnancy
Authors: Goheen Morgan M. , Bah Amat , Wegmüller Rita , Verhoef Hans , Darboe Bakary , Danso Ebrima , Prentice Andrew M. , Cerami Carla 
Published: December 2017

AbstractAnaemia and malaria are both common in pregnant women in Sub-Saharan Africa. Previous evidence has shown that iron supplementation may increase malaria risk. In this observational cohort study, we evaluated P. falciparum pathogenesis in vitro in RBCs from pregnant women during their 2nd and 3rd trimesters. RBCs were collected and assayed before (n = 327), 14 days (n = 82), 49 days (n = 112) and 84 days (n = 115) after iron supplementation (60 mg iron as ferrous fumarate daily). P. falciparum erythrocytic stage growth in vitro is reduced in anaemic pregnant women at baseline, but increased during supplementation. The elevated growth rates parallel increases in circulating CD71-positive reticulocytes and other markers of young RBCs. We conclude that Plasmodium growth in vitro is associated with elevated erythropoiesis, an obligate step towards erythroid recovery in response to supplementation. Our findings support current World Health Organization recommendations that iron supplementation be given in combination with malaria prevention and treatment services in malaria endemic areas.
Culture and Next-generation sequencing-based drug susceptibility testing unveil high levels of drug-resistant-TB in Djibouti: results from the first national survey
Authors: Tagliani Elisa , Hassan Mohamed Osman , Waberi Yacine , De Filippo Maria Rosaria , Falzon Dennis , Dean Anna , Zignol Matteo , Supply Philip , Abdoulkader Mohamed Ali , Hassangue Hawa , Cirillo Daniela Maria 
Published: December 2017

AbstractDjibouti is a small country in the Horn of Africa with a high TB incidence (378/100,000 in 2015). Multidrug-resistant TB (MDR-TB) and resistance to second-line agents have been previously identified in the country but the extent of the problem has yet to be quantified. A national survey was conducted to estimate the proportion of MDR-TB among a representative sample of TB patients. Sputum was tested using XpertMTB/RIF and samples positive for MTB and resistant to rifampicin underwent first line phenotypic susceptibility testing. The TB supranational reference laboratory in Milan, Italy, undertook external quality assurance, genotypic testing based on whole genome and targeted-deep sequencing and phylogenetic studies. 301 new and 66 previously treated TB cases were enrolled. MDR-TB was detected in 34 patients: 4.7% of new and 31% of previously treated cases. Resistance to pyrazinamide, aminoglycosides and capreomycin was detected in 68%, 18% and 29% of MDR-TB strains respectively, while resistance to fluoroquinolones was not detected. Cluster analysis identified transmission of MDR-TB as a critical factor fostering drug resistance in the country. Levels of MDR-TB in Djibouti are among the highest on the African continent. High prevalence of resistance to pyrazinamide and second-line injectable agents have important implications for treatment regimens.
Nanoimprinted High-Refractive Index Active Photonic Nanostructures Based on Quantum Dots for Visible Light
Authors: Pina-Hernandez Carlos , Koshelev Alexander , Dhuey Scott , Sassolini Simone , Sainato Michela , Cabrini Stefano , Munechika Keiko 
Published: December 2017

AbstractA novel method to realizing printed active photonic devices was developed using nanoimprint lithography (NIL), combining a printable high-refractive index material and colloidal CdSe/CdS quantum dots (QDs) for applications in the visible region. Active media QDs were applied in two different ways: embedded inside a printable high-refractive index matrix to form an active printable hybrid nanocomposite, and used as a uniform coating on top of printed photonic devices. As a proof-of-demonstration for printed active photonic devices, two-dimensional (2-D) photonic crystals as well as 1D and 2D photonic nanocavities were successfully fabricated following a simple reverse-nanoimprint process. We observed enhanced photoluminescence from the 2D photonic crystal and the 1D nanocavities. Outstandingly, the process presented in this study is fully compatible with large-scale manufacturing where the patterning areas are only limited by the size of the corresponding mold. This work shows that the integration of active media and functional materials is a promising approach to the realization of integrated photonics for visible light using high throughput technologies. We believe that this work represents a powerful and cost-effective route for the development of numerous nanophotonic structures and devices that will lead to the emergence of new applications.
Phospholipid flipping involves a central cavity in P4 ATPases
Authors: Jensen M. S. , Costa S. R. , Duelli A. S. , Andersen P. A. , Poulsen L. R. , Stanchev L. D. , Gourdon P. , Palmgren M. , Günther Pomorski T. , López-Marqués R. L. 
Published: December 2017

AbstractP4 ATPase flippases translocate phospholipids across biomembranes, thus contributing to the establishment of transmembrane lipid asymmetry, a feature important for multiple cellular processes. The mechanism by which such phospholipid flipping occurs remains elusive as P4 ATPases transport a giant substrate very different from that of other P-type ATPases such as Na+/K+- and Ca2+-ATPases. Based on available crystal structures of cation-transporting P-type ATPases, we generated a structural model of the broad-specificity flippase ALA10. In this model, a cavity delimited by transmembrane segments TM3, TM4, and TM5 is present in the transmembrane domain at a similar position as the cation-binding region in related P-type ATPases. Docking of a phosphatidylcholine headgroupin silicoshowed that the cavity can accommodate a phospholipid headgroup, likely leaving the fatty acid tails in contact with the hydrophobic portion of the lipid bilayer. Mutagenesis data support this interpretation and suggests that two residues in TM4 (Y374 and F375) are important for coordination of the phospholipid headgroup. Our results point to a general mechanism of lipid translocation by P4 ATPases, which closely resembles that of cation-transporting pumps, through coordination of the hydrophilic portion of the substrate in a central membrane cavity.