bluuebunny/crossref_metadata_2025_split huggingface dataset:
Bifunctional Fluorescent/Raman Nanoprobe for the Early Detection of Amyloid
Authors: Xia Yang , Padmanabhan Parasuraman , Sarangapani Sreelatha , Gulyás Balázs , Vadakke Matham Murukeshan 
Published: June 2019

AbstractOne of the pathological hallmarks of Alzheimer’s disease (AD) is the abnormal aggregation of amyloid beta (Aβ) peptides. Therefore the detection of Aβ peptides and imaging of amyloid plaques are considered as promising diagnostic methods for AD. Here we report a bifunctional nanoprobe prepared by conjugating gold nanoparticles (AuNPs) with Rose Bengal (RB) dye. RB is chosen due to its unique Raman fingerprints and affinity with Aβ peptides. After the conjugation, Raman signals of RB were significantly enhanced due to the surface-enhanced Raman scattering (SERS) effect. Upon binding with Aβ42 peptides, a spectrum change was detected, and the magnitude of the spectrum changes can be correlated with the concentration of target peptides. The peptide/probe interaction also induced a remarkable enhancement in the probes’ fluorescence emission. This fluorescence enhancement was further utilized to image amyloid plaques in the brain slices from transgenic mice. In this study, the RB-AuNPs were used for both SERS-based detection of Aβ42 peptides and fluorescence-based imaging of amyloid plaques. Compared to monofunctional probes, the multifunctional probe is capable to provide more comprehensive pathophysiological information, and therefore, the implementation of such multifunctional amyloid probes is expected to help the investigation of amyloid aggregation and the early diagnosis of AD.
Analysis of the artificial vaginal microecology in patients after laparoscopic peritoneal vaginoplasty
Authors: Qin Chenglu , Luo Guangnan , Luo Xin , Lifschutz Brian N. , Zhu Ziwen , Fang Yujiang 
Published: June 2019

AbstractTo investigate the artificial vaginal microecological features in patients who underwent laparoscopic peritoneal vaginoplasty. 54 cases of patients with artificial vagina after laparoscopic peritoneal vaginoplasty were included in this study. Microecosystem evaluation was performed. Artificial vaginal functional tests and biopsy from vaginal walls were performed. After laparoscopic peritoneal vaginoplasty, the artificial vaginal flora intensity was level II∼III (88.9%); the vaginal flora diversity was level II∼III (72.2%); the predominant vaginal bacteria were gram-positive macrobacillus (27.8%); approximately 57.4% of the patients had vaginal pH ≤ 4.5; there was no pathogenic bateria or other pathogens; dysbiosis accounted for 53.7% of the patients (64.5% of the patients who had the vaginoplasty operation less than 2 years ago exhibited dysbiosis; 39.1% of the patients who had the operation at least 2 years ago exhibited dysbiosis). Vaginal dysbiosis is common after laparoscopic peritoneal vaginoplasty. However, as time goes by, the artificial vaginal microecological condition gradually becomes normal. Evaluation of vaginal microenvironment after laparoscopic peritoneal vaginoplasty might play an important role in reproductive tract infection prevention and neovagina health care.
Bone mineral: new insights into its chemical composition
Authors: Von Euw Stanislas , Wang Yan , Laurent Guillaume , Drouet Christophe , Babonneau Florence , Nassif Nadine , Azaïs Thierry 
Published: June 2019

AbstractSome compositional and structural features of mature bone mineral particles remain unclear. They have been described as calcium-deficient and hydroxyl-deficient carbonated hydroxyapatite particles in which a fraction of the PO43− lattice sites are occupied by HPO42− ions. The time has come to revise this description since it has now been proven that the surface of mature bone mineral particles is not in the form of hydroxyapatite but rather in the form of hydrated amorphous calcium phosphate. Using a combination of dedicated solid-state nuclear magnetic resonance techniques, the hydrogen-bearing species present in bone mineral and especially the HPO42− ions were closely scrutinized. We show that these HPO42− ions are concentrated at the surface of bone mineral particles in the so-called amorphous surface layer whose thickness was estimated here to be about 0.8 nm for a 4-nm thick particle. We also show that their molar proportion is much higher than previously estimated since they stand for about half of the overall amount of inorganic phosphate ions that compose bone mineral. As such, the mineral-mineral and mineral-biomolecule interfaces in bone tissue must be driven by metastable hydrated amorphous environments rich in HPO42− ions rather than by stable crystalline environments of hydroxyapatite structure.
Homeologous regulation of Frigida-like genes provides insights on reproductive development and somatic embryogenesis in the allotetraploid Coffea arabica
Authors: Vieira Natalia Gomes , Ferrari Ilse Fernanda , Rezende Juliana Costa de , Mayer Juliana Lischka Sampaio , Mondego Jorge Maurício Costa 
Published: June 2019

AbstractCoffea arabica is an allotetraploid of high economic importance. C. arabica transcriptome is a combination of the transcripts of two parental genomes (C. eugenioides and C. canephora) that gave rise to the homeologous genes of the species. Previous studies have reported the transcriptional dynamics of C. arabica. In these reports, the ancestry of homeologous genes was identified and the overall regulation of homeologous differential expression (HDE) was explored. One of these genes is part of the FRIGIDA-like family (FRL), which includes the Arabidopsis thaliana flowering-time regulation protein, FRIGIDA (FRI). As nonfunctional FRI proteins give rise to rapid-cycling summer annual ecotypes instead of vernalization-responsive winter-annuals, allelic variation in FRI can modulate flowering time in A. thaliana. Using bioinformatics, genomic analysis, and the evaluation of gene expression of homeologs, we characterized the FRL gene family in C. arabica. Our findings indicate that C. arabica expresses 10 FRL homeologs, and that, throughout flower and fruit development, these genes are differentially transcribed. Strikingly, in addition to confirming the expression of FRL genes during zygotic embryogenesis, we detected FRL expression during direct somatic embryogenesis, a novel finding regarding the FRL gene family. The HDE profile of FRL genes suggests an intertwined homeologous gene regulation. Furthermore, we observed that FLC gene of C. arabica has an expression profile similar to that of CaFRL genes.
Diffusion of methane in supercritical carbon dioxide across the Widom line
Authors: Guevara-Carrion Gabriela , Ancherbak Sergiy , Mialdun Aliaksandr , Vrabec Jadran , Shevtsova Valentina 
Published: June 2019

AbstractDiffusion of methane diluted in supercritical carbon dioxide is studied by experiment and molecular simulation in the temperature range from 292.55 to 332.85 K along the isobars 9.0, 12.5 and 14.7 MPa. Measurements of the Fick diffusion coefficient are carried out with the Taylor dispersion technique. Molecular dynamics simulation and the Green-Kubo formalism are employed to obtain Fick, Maxwell-Stefan and intradiffusion coefficients as well as shear viscosity. The obtained diffusion coefficients are on the order of 10−8 m2/s. The composition, temperature and density dependence of diffusion is analyzed. The Fick diffusion coefficient of methane in carbon dioxide shows an anomaly in the near-critical region. This behavior can be attributed to the crossing of the so-called Widom line, where the supercritical fluid goes through a transition between liquid-like and gas-like states. Further, several classical equations are tested on their ability to predict this behavior and it is found that equations that explicitly include the density are better suited to predict the sharp variation of the diffusion coefficient near the critical region predicted by molecular simulation.
Important At-Sea Areas of Colonial Breeding Marine Predators on the Southern Patagonian Shelf
Authors: Baylis Alastair M. M. , Tierney Megan , Orben Rachael A. , Warwick-Evans Victoria , Wakefield Ewan , Grecian W. James , Trathan Phil , Reisinger Ryan , Ratcliffe Norman , Croxall John , Campioni Letizia , Catry Paulo , Crofts Sarah , Boersma P. Dee , Galimberti Filippo , Granadeiro José P. , Handley Jonathan , Hayes Sean , Hedd April , Masello Juan F. , Montevecchi William A. , Pütz Klemens , Quillfeldt Petra , Rebstock Ginger A. , Sanvito Simona , Staniland Iain J. , Brickle Paul 
Published: June 2019

AbstractThe Patagonian Shelf Large Marine Ecosystem supports high levels of biodiversity and endemism and is one of the most productive marine ecosystems in the world. Despite the important role marine predators play in structuring ecosystems, areas of high diversity where multiple predators congregate remains poorly known on the Patagonian Shelf. Here, we used biotelemetry and biologging tags to track the movements of six seabird species and three pinniped species breeding at the Falkland Islands. Using Generalized Additive Models, we then modelled these animals’ use of space as functions of dynamic and static environmental indices that described their habitat. Based on these models, we mapped the predicted distribution of animals from both sampled and unsampled colonies and thereby identified areas where multiple species were likely to overlap at sea. Maximum foraging trip distance ranged from 79 to 1,325 km. However, most of the 1,891 foraging trips by 686 animals were restricted to the Patagonian Shelf and shelf slope, which highlighted a preference for these habitats. Of the seven candidate explanatory covariates used to predict distribution, distance from the colony was retained in models for all species and negatively affected the probability of occurrence. Predicted overlap among species was highest on the Patagonian Shelf around the Falkland Islands and the Burdwood Bank. The predicted area of overlap is consistent with areas that are also important habitat for marine predators migrating from distant breeding locations. Our findings provide comprehensive multi-species predictions for some of the largest marine predator populations on the Patagonian Shelf, which will contribute to future marine spatial planning initiatives. Crucially, our findings highlight that spatially explicit conservation measures are likely to benefit multiple species, while threats are likely to impact multiple species.
Relationship between the weights of seed beetles of the genus Megacerus Fåhraeus, 1839 (Coleoptera: Chrysomelidae: Bruchinae) and their host seeds of the family Convolvulaceae
Authors: Canto A. , Rodríguez R. , Reyes-Novelo E. 
Published: June 2019

AbstractWe studied seeds from a set of plant species from the Convolvulaceae family. Seeds collected from natural populations and infested with beetles of genus Megacerus were monitored until the beetle emergence. We analyze the relationship between body weight of beetles and seed weight of host plants, and its connection with between-species differences and sexual dimorphism. The results show that differences in the scaling of body weight of beetles are associated with sexual dimorphism. For the same species of beetle, the females tend to have heavier bodies than the males. Differences between host plants species in the weight of seeds are related to differences in the body weight Megacerus species, resulting in a distinctive pattern of seed infestation across hosts. Small-sized (lighter) species of beetles tended to infest small-sized (lighter) seed species and, correspondingly, heavier beetles species tended to do it in heavier seed species. Mechanisms of female oviposition preferences may be involved to generate that pattern. In general, the beetle weight showed an asymptotic relation with the host seed weight. The greater the weight of the seed, the greater the weight of adult beetle was. However, the proportion in weights reaches an asymptotic value probably because beetles reached the maximum possible weight for their species. We conclude that the process of specialization in the seed-beetle assemblage studied is influenced by intrinsic traits of the species involved in the interaction (beetles and seeds) and by differences between sexes in their sexual-allocation paths.
Autotaxin activity predicts transplant-free survival in primary sclerosing cholangitis
Authors: Dhillon Amandeep K. , Kremer Andreas E. , Kummen Martin , Boberg Kirsten M. , Elferink Ronald P. Oude , Karlsen Tom H. , Beuers Ulrich , Vesterhus Mette , Hov Johannes R. 
Published: June 2019

AbstractAutotaxin has been associated with liver disease severity and transplant-free survival. This study aimed to validate autotaxin as a biomarker in two cohorts of Norwegian large-duct PSC patients, one discovery panel (n = 165) and one validation panel (n = 87). Serum activity of autotaxin was measured in diluted sera by a fluorometric enzymatic assay. Patients reaching an end-point, liver transplantation or death, (discovery panel: n = 118 [71.5%]; validation panel: n = 35 [40.2%]), showed higher autotaxin activity compared with the other patients, P < 0.001 and P = 0.004, respectively. Kaplan-Meier survival analyses showed a strong association between increasing autotaxin activity and shorter liver transplant-free survival (discovery panel: P < 0.001, validation panel: P = 0.001). There was no relationship between autotaxin activity and the presence of inflammatory bowel disease or occurrence of hepatobiliary malignancy. In a multivariable analysis, high autotaxin activity was associated with an increased risk of liver transplantation or death (hazard ratio 2.03 (95% confidence interval 1.21–3.40), P < 0.01), independent from Mayo risk score, an in-house enhanced liver fibrosis score and interleukin-8 in serum. In conclusion, increased serum autotaxin activity is associated with reduced liver transplant-free survival independent from Mayo risk score and markers of inflammation and fibrosis.
Optimization of conformal whispering gallery modes in limaçon-shaped transformation cavities
Authors: Ryu Jung-Wan , Cho Jinhang , Kim Inbo , Choi Muhan 
Published: June 2019

AbstractDirectional light emission from high-Q resonant modes without significant Q-spoiling has been a long standing issue in deformed dielectric cavities. In limaçon-shaped gradient index dielectric cavities recently proposed by exploiting conformal transformation optics, the variation of Q-factors and emission directionality of resonant modes was traced in their system parameter space. For these cavities, their boundary shapes and refractive index profiles are determined in each case by a chosen conformal mapping which is taken as a coordinate transformation. Through the numerical exploration, we found that bidirectionality factors of generic high-Q resonant modes are not directly proportional to their Q-factors. The optimal system parameters for the coexistence of strong bidirectionality and a high Q-factor was obtained for anisotropic whispering gallery modes supported by total internal reflection.
Numerical simulation of novel concept 4D cardiac microtomography for small rodents based on all-optical Thomson scattering X-ray sources
Authors: Panetta Daniele , Labate Luca , Billeci Lucia , Di Lascio Nicole , Esposito Giuseppina , Faita Francesco , Mettivier Giovanni , Palla Daniele , Pandola Luciano , Pisciotta Pietro , Russo Giorgio , Sarno Antonio , Tomassini Paolo , Salvadori Piero A. , Gizzi Leonida A. , Russo Paolo 
Published: June 2019

AbstractAccurate dynamic three-dimensional (4D) imaging of the heart of small rodents is required for the preclinical study of cardiac biomechanics and their modification under pathological conditions, but technological challenges are met in laboratory practice due to the very small size and high pulse rate of the heart of mice and rats as compared to humans. In 4D X-ray microtomography (4D μCT), the achievable spatio-temporal resolution is hampered by limitations in conventional X-ray sources and detectors. Here, we propose a proof-of-principle 4D μCT platform, exploiting the unique spatial and temporal features of novel concept, all-optical X-ray sources based on Thomson scattering (TS). The main spatial and spectral properties of the photon source are investigated using a TS simulation code. The entire data acquisition workflow has been also simulated, using a novel 4D numerical phantom of a mouse chest with realistic intra- and inter-cycle motion. The image quality of a typical single 3D time frame has been studied using Monte Carlo simulations, taking into account the effects of the typical structure of the TS X-ray beam. Finally, we discuss the perspectives and shortcomings of the proposed platform.
Dual binding mode of “bitter sugars” to their human bitter taste receptor target
Authors: Fierro Fabrizio , Giorgetti Alejandro , Carloni Paolo , Meyerhof Wolfgang , Alfonso-Prieto Mercedes 
Published: June 2019

AbstractThe 25 human bitter taste receptors (hTAS2Rs) are responsible for detecting bitter molecules present in food, and they also play several physiological and pathological roles in extraoral compartments. Therefore, understanding their ligand specificity is important both for food research and for pharmacological applications. Here we provide a molecular insight into the exquisite molecular recognition of bitter β-glycopyranosides by one of the members of this receptor subclass, hTAS2R16. Most of its agonists have in common the presence of a β-glycopyranose unit along with an extremely structurally diverse aglycon moiety. This poses the question of how hTAS2R16 can recognize such a large number of “bitter sugars”. By means of hybrid molecular mechanics/coarse grained molecular dynamics simulations, here we show that the three hTAS2R16 agonists salicin, arbutin and phenyl-β-D-glucopyranoside interact with the receptor through a previously unrecognized dual binding mode. Such mechanism may offer a seamless way to fit different aglycons inside the binding cavity, while maintaining the sugar bound, similar to the strategy used by several carbohydrate-binding lectins. Our prediction is validated a posteriori by comparison with mutagenesis data and also rationalizes a wealth of structure-activity relationship data. Therefore, our findings not only provide a deeper molecular characterization of the binding determinants for the three ligands studied here, but also give insights applicable to other hTAS2R16 agonists. Together with our results for other hTAS2Rs, this study paves the way to improve our overall understanding of the structural determinants of ligand specificity in bitter taste receptors.
Indoleamine 2,3-dioxygenase and ischemic heart disease: a Mendelian Randomization study
Authors: Li Mengyu , Kwok Man Ki , Fong Shirley Siu Ming , Schooling Catherine Mary 
Published: June 2019

AbstractTryptophan is an essential amino acid. Indoleamine 2,3-dioxygenase (IDO), the rate-limiting enzyme in the tryptophan-kynurenine pathway, is positively associated with cardiac events, and may be relevant to cancer. We used Mendelian Randomization to obtain unconfounded estimates of the association of IDO1 with ischemic heart disease (IHD), ischemic stroke and their risk factors, all-cancer, cancer of the prostate, lung and bronchus, and breast. We obtained genetic instruments independently and strongly (p-value < 5 × 10−8) predicting plasma IDO1 from a proteome genome-wide association study (GWAS), and applied them to consortia GWAS of the outcomes, including the UK Biobank SOFT CAD GWAS (cases < = 76 014, non-cases < = 264 785) for IHD. Estimates were obtained using inverse variance weighting; with MR-Egger, weighted median and MR-PRESSO as sensitivity analyses. IDO1 was inversely associated with IHD (odds ratio (OR) 0.96 per standard deviation, 95% confidence interval (CI) 0.93 to 1.00, p-value = 0.04), diabetes (OR 0.91, 95% CI 0.85 to 0.97) and prostate cancer (OR 0.96, 95% CI 0.93 to 0.99) with a directionally consistent estimate for stroke (OR 0.98, 95% CI 0.95 to 1.02) but not with blood pressure, or the other cancers considered. IDO1 might be a potential therapeutic target for IHD, diabetes and prostate cancer.
Spectral Photon-Counting Computed Tomography (SPCCT): in-vivo single-acquisition multi-phase liver imaging with a dual contrast agent protocol
Authors: Si-Mohamed Salim , Tatard-Leitman Valérie , Laugerette Alexis , Sigovan Monica , Pfeiffer Daniela , Rummeny Ernst J. , Coulon Philippe , Yagil Yoad , Douek Philippe , Boussel Loic , Noël Peter B. 
Published: June 2019

AbstractDiagnostic imaging of hepatocellular carcinoma (HCC) requires a liver CT or MRI multiphase acquisition protocol. Patients would benefit from a high-resolution imaging method capable of performing multi-phase imaging in a single acquisition without an increase in radiation dose. Spectral Photon-Counting Computed Tomography (SPCCT) has recently emerged as a novel and promising imaging modality in the field of diagnostic radiology. SPCCT is able to distinguish between two contrast agents referred to as multicolor imaging because, when measuring in three or more energy regimes, it can detect and quantify elements with a K-edge in the diagnostic energy range. Based on this capability, we tested the feasibility of a dual-contrast multi-phase liver imaging protocol via the use of iodinated and gadolinated contrast agents on four healthy New Zealand White (NZW) rabbits. To perform a dual-contrast protocol, we injected the agents at different times so that the first contrast agent visualized the portal phase and the second the arterial phase, both of which are mandatory for liver lesion characterization. We demonstrated a sensitive discrimination and quantification of gadolinium within the arteries and iodine within the liver parenchyma. In the hepatic artery, the concentration of gadolinium was much higher than iodine (8.5 ± 3.9 mg/mL versus 0.7 ± 0.1 mg/mL) contrary to the concentrations found in the liver parenchyma (0.5 ± 0.3 mg/mL versus 4.2 ± 0.3 mg/mL). In conclusion, our results confirm that SPCCT allows in-vivo dual contrast qualitative and quantitative multi-phase liver imaging in a single acquisition.
Benefits of using genomic insulators flanking transgenes to increase expression and avoid positional effects
Authors: Pérez-González Ana , Caro Elena 
Published: June 2019

AbstractFor more than 20 years, plant biologists have tried to achieve complete control of transgene expression. Until the techniques to target transgenes to safe harbor sites in the genome become routine, flanking transgenes with genetic insulators, DNA sequences that create independent domains of gene expression, can help avoid positional effects and stabilize their expression. We have, for the first time, compared the effect of three insulator sequences previously described in the literature and one never tested before. Our results indicate that their use increases transgene expression, but only the last one reduces variability between lines and between individuals. We have analyzed the integration of insulator-flanked T-DNAs using whole genome re-sequencing (to our knowledge, also for the first time) and found data suggesting that chiMARs can shelter transgene insertions from neighboring repressive epigenetic states. Finally, we could also observe a loss of accuracy of the RB insertion in the lines harboring insulators, evidenced by a high frequency of truncation of T-DNAs and of insertion of vector backbone that, however, did not affect transgene expression. Our data supports that the effect of each genetic insulator is different and their use in transgenic constructs should depend on the needs of each specific experiment.