bluuebunny/crossref_metadata_2025_split huggingface dataset:
The detrimental effect of AlGaN barrier quality on carrier dynamics in AlGaN/GaN interface
Authors: Podlipskas Žydrūnas , Jurkevičius Jonas , Kadys Arūnas , Miasojedovas Saulius , Malinauskas Tadas , Aleksiejūnas Ramūnas 
Published: November 2019

AbstractCarrier recombination and scattering at the semiconductor boundaries can substantially limit the device efficiency. However, surface and interface recombination is generally neglected in the nitride-based devices. Here, we study carrier recombination and diffusivity in AlGaN/GaN/sapphire heterointerfaces with AlGaN barriers of different quality. We employ the light induced transient grating and time-resolved photoluminescence spectroscopy techniques to extract carrier lifetime in different depths of the GaN buffer as well as in the AlGaN barrier, and to evaluate the carrier diffusion coefficient in the buffer. Moreover, we assess interface recombination velocity, Shockley-Read-Hall and radiative recombination rates. We reveal the adverse barrier influence on carrier dynamics in the underlying buffer: AlGaN barrier accelerates the nonradiative carrier recombination in the GaN buffer. The interface recombination velocity in the GaN buffer increases with decreasing AlGaN barrier quality, and the dominating recombination mechanism switches from Shockley-Read-Hall to interface recombination. These phenomena are governed by a cumulative effect of various interface-deteriorating barrier defects. Meanwhile, the carrier diffusivity in the GaN buffer is not affected by the AlGaN barrier. We conclude that barrier-accelerated interface recombination can become a major carrier loss mechanism in AlGaN/GaN interface, and may substantially limit the efficiency in nitride-based UV LEDs.
Simulated NIR spectra as sensitive markers of the structure and interactions in nucleobases
Authors: Beć Krzysztof B. , Grabska Justyna , Ozaki Yukihiro , Czarnecki Mirosław A. , Huck Christan W. 
Published: November 2019

AbstractNear-infrared (near-IR; NIR) spectroscopy is continuously advancing in biophysical and biochemical fields of investigation. For instance, recent progresses in NIR hyperspectral imaging of biological systems may be noted. However, interpretation of NIR bands for biological samples is difficult and creates a considerable barrier in exploring the full potential of NIR spectroscopy in bioscience. For this reason, we carried out a systematic study of NIR spectra of adenine, cytosine, guanine, and thymine in polycrystalline state. Interpretation of NIR spectra of these nucleobases was supported by anharmonic vibrational analysis using Deperturbed Vibrational Second-Order Perturbation Theory (DVPT2). A number of molecular models of nucleobases was applied to study the effect of the inter-molecular interactions on the NIR spectra. The accuracy of simulated NIR spectra appears to depend on the intra-layer interactions; in contrast, the inter-layer interactions are less influential. The best results were achieved by combining the simulated spectra of monomers and dimers. It is of particular note that in-plane deformation bands are far more populated than out-of-plane ones and the importance of ring modes is relatively small. This trend is in contrast to that observed in mid-IR region. As shown, the local, short-range chemical neighborhood of nucleobase molecules influence their NIR spectra more considerably. This suggests that NIR spectra are more sensitive probe of the nucleobase pairing than mid-IR ones. The obtained results allow, for the first time, to construct a frequency correlation table for NIR spectra of purines and pyrimidines.
Synthesis of Boron Nanosheets in Copper Medium
Authors: Zhao Shuo , Wu Yuying , Zhou Bo , Liu Xiangfa 
Published: November 2019

AbstractBoron has a tendency to form bulk structures due to its unique electron-deficient property, so it’s hard for boron to form sheets in large quantities. Here, we report a novel method for the preparation of boron nanosheets in large quantities by copper medium. The method mainly includes mechanical exfoliation, recombination and extraction. A large number of boron nanosheets with a height of below 6 nm have been prepared in this work. X-ray photoelectron spectroscopy and Raman spectroscopy results confirmed that the nanosheets possess the characteristics of α-rhombohedra boron and β-rhombohedra boron with a high content of boron. Hexagonal and rhombic sheets have been observed and two different growth processes are revealed successfully, which are also the basic structures of boron nanosheets. An interesting phenomenon also have been discovered that high density nanotwins exist in β-Rhombohedra boron sheets and it might stimulate more interest in growth of nanomaterials.
FGF Signalling in the Self-Renewal of Colon Cancer Organoids
Authors: Otte Jörg , Dizdar Levent , Behrens Bianca , Goering Wolfgang , Knoefel Wolfram T. , Wruck Wasco , Stoecklein Nikolas H. , Adjaye James 
Published: November 2019

AbstractThe progression of colorectal cancer (CRC) is supposedly driven by cancer stem cells (CSC) which are able to self-renew and simultaneously fuel bulk tumour mass with highly proliferative and differentiated tumour cells. However, the CSC-phenotype in CRC is unstable and dependent on environmental cues. Fibroblast growth factor 2 (FGF2) is essential and necessary for the maintenance of self-renewal in adult and embryonic stem cells. Investigating its role in self-renewal in advanced CRC patient-derived organoids, we unveiled that FGF-receptor (FGFR) inhibition prevents organoid formation in very early expanding cells but induces cyst formation when applied to pre-established organoids. Comprehensive transcriptome analyses revealed that the induction of the transcription factor activator-protein-1 (AP-1) together with MAPK activation was most prominent after FGFR-inhibition. These effects resemble mechanisms of an acquired resistance against other described tyrosine kinase inhibitors such as EGF-receptor targeted therapies. Furthermore, we detected elevated expression levels of several self-renewal and stemness-associated genes in organoid cultures with active FGF2 signalling. The combined data assume that CSCs are a heterogeneous population while self-renewal is a common feature regulated by distinct but converging pathways. Finally, we highlight FGF2 signalling as one of numerous components of the complex regulation of stemness in cancer.
Physiology and proteomic analysis reveals root, stem and leaf responses to potassium deficiency stress in alligator weed
Authors: Li Liqin , Lyu Chengcheng , Huang Luping , Chen Qian , Zhuo Wei , Wang Xiyao , Lu Yifei , Zeng Fuchun , Lu Liming 
Published: November 2019

AbstractAlligator weed is reported to have a strong ability to adapt to potassium deficiency stress. Proteomic changes in response to this stress are largely unknown in alligator weed seedlings. In this study, we performed physiological and comparative proteomics of alligator weed seedlings between normal growth (CK) and potassium deficiency (LK) stress using 2-DE techniques, including root, stem and leaf tissues. Seedling height, soluble sugar content, PGK activity and H2O2 contents were significantly altered after 15 d of LK treatment. A total of 206 differentially expressed proteins (DEPs) were identified. There were 72 DEPs in the root, 79 in the stem, and 55 in the leaves. The proteomic results were verified using western blot and qRT-PCR assays. The most represented KEGG pathway was “Carbohydrate and energy metabolism” in the three samples. The “Protein degradation” pathway only existed in the stem and root, and the “Cell cycle” pathway only existed in the root. Protein-protein interaction analysis demonstrated that the interacting proteins detected were the most common in the stem, with 18 proteins. Our study highlights protein changes in alligator weed seedling under LK stress and provides new information on the comprehensive analysis of the protein network in plant potassium nutrition.
Single-Sensor Source Localization Using Electromagnetic Time Reversal and Deep Transfer Learning: Application to Lightning
Authors: Mostajabi Amirhossein , Karami Hamidreza , Azadifar Mohammad , Ghasemi Alireza , Rubinstein Marcos , Rachidi Farhad 
Published: November 2019

AbstractElectromagnetic Time Reversal (EMTR) has been used to locate different types of electromagnetic sources. We propose a novel technique based on the combination of EMTR and Machine Learning (ML) for source localization. We show for the first time that ML techniques can be used in conjunction with EMTR to reduce the required number of sensors to only one for the localization of electromagnetic sources in the presence of scatterers. In the EMTR part, we use 2D-FDTD method to generate 2D profiles of the vertical electric field as RGB images. Next, in the ML part, we take advantage of transfer learning techniques by using the pretrained VGG-19 Convolutional Neural Network (CNN) as the feature extractor tool. To the best of our knowledge, this is the first time that the knowledge of pretrained CNNs is applied to simulation-generated images. We demonstrate the skill of the developed methodology in localizing two kinds of electromagnetic sources, namely RF sources with a bandwidth of 0.1–10 MHz and lightning impulses. For the localization of lightning, based on the experimental recordings in the Säntis region, the new approach enables accurate 2D lightning localization using only one sensor, as opposed to current lightning location systems that need at least two sensors to operate.
Novel ACE inhibitory tripeptides from ovotransferrin using bioinformatics and peptidomics approaches
Authors: Yu Zhipeng , Chen Yang , Zhao Wenzhu , Zheng Fuping , Ding Long , Liu Jingbo 
Published: November 2019

AbstractFood-derived ACE inhibitory peptides have recently attracted increased attention. This work focused on a more efficient in silico method to find ACE inhibitory peptides from ovotransferrin. In this work, ovotransferrin was digested into peptides by virtual enzymolysis. Subsequently, in vitro ACE inhibitory activity of potential tripeptides was conducted following the peptide score, toxicity, and water solubility prediction. Both pharmacophore study and flexible docking were applied to analyze ACE inhibition mechanism of tripeptides. Our results demonstrated that EWL was a potent ACE inhibitory tripeptide with IC50 value of 380 ± 10 μM. Besides, pharmacophore and flexible docking showed that the pi interaction and hydrogen bond were the key interactions in ACE-EWL complex. It appears that the in vitro ACE inhibitory activity of tripeptide EWL was consistent with its molecular modeling.
Longitudinal study of the bacterial and fungal microbiota in the human sinuses reveals seasonal and annual changes in diversity
Authors: Wagner Mackenzie Brett , Chang Kevin , Zoing Melissa , Jain Ravi , Hoggard Michael , Biswas Kristi , Douglas Richard G. , Taylor Michael W. 
Published: November 2019

AbstractThere is a pressing need for longitudinal studies which examine the stability of the sinonasal microbiota. In this study, we investigated bacterial and fungal community composition of the sinuses of four healthy individuals every month for one year, then once every three months for an additional year to capture seasonal variation. Sequencing of bacterial 16S rRNA genes and fungal ITS2 revealed communities that were mainly dominated by members ofActinobacteriaandBasidiomycota, respectively. We observed overall shifts in both bacterial and fungal community diversity that were attributable to a combination of individual, seasonal and annual changes. The results suggest that each of the subjects possessed a strong bacterial sinonasal signature, but that fungal communities were less subject specific. Differences in fungal and bacterial diversity between subjects, and which OTUs may be correlated with seasonal differences, were investigated. A small core community that persisted throughout the two year sampling period was identified:Corynebacterium,PropionibacteriumandStaphylococcus, and one type of fungus,Malassezia restricta. It is likely that bacterial and fungal airway microbiomes are dynamic and experience natural shifts in diversity with time. The underlying reasons for these shifts appear to be a combination of changes in environmental climate and host factors.
Functionalized Graphene Quantum Dot Interfaced Electrochemical Detection of Cardiac Troponin I: An Antibody Free Approach
Authors: Lakshmanakumar Muthaiyan , Nesakumar Noel , Sethuraman Swaminathan , Rajan K. S. , Krishnan Uma Maheswari , Rayappan John Bosco Balaguru 
Published: November 2019

AbstractAccording to the World Health Organization (WHO), cardiovascular disease (CVD) is the leading cause of death in the world every year. The design and development of biosensors for the detection of CVD markers could be one of the major contributions of the scientific community to society. In this context, acetic acid functionalized graphene quantum dots (fGQDs) were used as an interface for the electrochemical detection of cardiac Troponin I (cTnI). The interaction of cTnI with fGQDs for the early diagnosis of acute myocardial infarction was investigated using cyclic voltammetry (CV) and amperometry. The carbodiimide conjugation between the N-H group of cTnI and the functionalized COOH group on GQDs enabled the detection of cTnI biomarker. The same sensing mechanism was confirmed using Fourier Transform Infrared Spectrometry (FTIR). The fGQDs modified Au electrode showed remarkable electrocatalytic oxidation of cTnI with good stability and sensitivity over a linear range of 0.17 to 3 ng mL−1 and a low detection limit of 0.02 ng mL−1. Bland-Altman plots substantiate a bias between the intra-/inter-cTnI assay and calibrated cTnI assay with 95% limits of agreement (mean difference ± 1.96 SD). The aim of this study is to describe an innovative method to detect cardiac biomarker cTnI and provide preliminary data on its diagnostic capacity. At the same time, its applicability in clinical setting will have to be validated with a significant number of samples collected from patients.
Immunocytochemical studies on the distribution of arabinogalactan proteins (AGPs) as a response to fungal infection in Malus x domestica fruit
Authors: Leszczuk Agata , Pieczywek Piotr M. , Gryta Agata , Frąc Magdalena , Zdunek Artur 
Published: November 2019

AbstractArabinogalactan proteins (AGPs) are cell components implicated in plant-microbe interactions. Despite the significance of AGPs in response to stress factors, their distribution during development of fungal disease in fruit is unknown. In our work, in situ analysis of AGP arrangement in fruit inoculated with Penicillium spinulosum during the consecutive days of infection development was carried out. For immunolocalization of AGPs, samples were incubated with JIM13, MAC207, LM2, and LM14 antibodies recognizing the AGP carbohydrate moieties. To analyse cell walls without proper action of AGP, an experiment with β-glucosyl Yariv reagent specifically binding AGPs was performed. The results showed an increase of signal fluorescence in the fruit after 16 days of fungal disease. Higher amounts of the examined epitopes were observed in the infection-altered sites of the fruit, in close vicinity to a surface filled by fungal spores. The results indicate that the Yariv reagent treatment induced progress of the fungal disease. Changes in the AGP presence during the fungal disease confirmed their involvement in defence against pathogen attack in fruit.
Effects of nitric oxide-releasing nanoparticles on neotropical tree seedlings submitted to acclimation under full sun in the nursery
Authors: Lopes-Oliveira Patrícia Juliana , Gomes Diego Genuário , Pelegrino Milena Trevisan , Bianchini Edmilson , Pimenta José Antonio , Stolf-Moreira Renata , Seabra Amedea Barozzi , Oliveira Halley Caixeta 
Published: November 2019

AbstractPolymeric nanoparticles have emerged as carrier systems for molecules that release nitric oxide (NO), a free radical involved in plant stress responses. However, to date, nanoencapsulated NO donors have not been applied to plants under realistic field conditions. Here, we verified the effects of free and nanoencapsulated NO donor, S-nitroso-mercaptosuccinic acid (S-nitroso-MSA), on growth, physiological and biochemical parameters of neotropical tree seedlings kept under full sunlight in the nursery for acclimation. S-nitroso-MSA incorporation into chitosan nanoparticles partially protected the NO donor from thermal and photochemical degradation. The application of nanoencapsulated S-nitroso-MSA in the substrate favoured the growth of seedlings of Heliocarpus popayanensis, a shade-intolerant tree. In contrast, free S-nitroso-MSA or nanoparticles containing non-nitrosated mercaptosuccinic acid reduced photosynthesis and seedling growth. Seedlings of Cariniana estrellensis, a shade-tolerant tree, did not have their photosynthesis and growth affected by any formulations, despite the increase of foliar S-nitrosothiol levels mainly induced by S-nitroso-MSA-loaded nanoparticles. These results suggest that depending on the tree species, nanoencapsulated NO donors can be used to improve seedling acclimation in the nursery.
Challenges of developing a digital scribe to reduce clinical documentation burden
Authors: Quiroz Juan C. , Laranjo Liliana , Kocaballi Ahmet Baki , Berkovsky Shlomo , Rezazadegan Dana , Coiera Enrico 
Published: November 2019

AbstractClinicians spend a large amount of time on clinical documentation of patient encounters, often impacting quality of care and clinician satisfaction, and causing physician burnout. Advances in artificial intelligence (AI) and machine learning (ML) open the possibility of automating clinical documentation with digital scribes, using speech recognition to eliminate manual documentation by clinicians or medical scribes. However, developing a digital scribe is fraught with problems due to the complex nature of clinical environments and clinical conversations. This paper identifies and discusses major challenges associated with developing automated speech-based documentation in clinical settings: recording high-quality audio, converting audio to transcripts using speech recognition, inducing topic structure from conversation data, extracting medical concepts, generating clinically meaningful summaries of conversations, and obtaining clinical data for AI and ML algorithms.
A conserved odorant binding protein is required for essential amino acid detection in Drosophila
Authors: Rihani Karen , Fraichard Stéphane , Chauvel Isabelle , Poirier Nicolas , Delompré Thomas , Neiers Fabrice , Tanimura Teiichi , Ferveur Jean-François , Briand Loïc 
Published: November 2019

AbstractAnimals need to detect in the food essential amino acids that they cannot synthesize. We found that the odorant binding protein OBP19b, which is highly expressed in Drosophila melanogaster taste sensilla, is necessary for the detection of several amino acids including the essential l-phenylalanine. The recombinant OBP19b protein was produced and characterized for its binding properties: it stereoselectively binds to several amino acids. Using a feeding-choice assay, we found that OBP19b is necessary for detecting l-phenylalanine and l-glutamine, but not l-alanine or D-phenylalanine. We mapped the cells expressing OBP19b and compared the electrophysiological responses of a single taste sensillum to several amino acids: OBP19b mutant flies showed a reduced response compared to control flies when tested to preferred amino acids, but not to the other ones. OBP19b is well conserved in phylogenetically distant species suggesting that this protein is necessary for detection of specific amino acids in insects.
Angiotensin II inhibits DDAH1–nNOS signaling via AT1R and μOR dimerization to modulate blood pressure control in the central nervous system
Authors: Sun Gwo-Ching , Wong Tzyy-Yue , Chen Hsin-Hung , Ho Chiu-Yi , Yeh Tung-Chen , Ho Wen-Yu , Tseng Ching-Jiunn , Cheng Pei-Wen 
Published: November 2019

Abstract
G protein-coupled receptors (GPCRs) are important drug targets. Blocking angiotensin II (Ang II) type 1 receptor signaling alleviates hypertension and improves outcomes in patients with heart failure. Changes in structure and trafficking of GPCR, and desensitization of GPCR signaling induce pathophysiological processes. We investigated whether Ang II, via induction of AT1R and μ-opioid receptor (μOR) dimerization in the nucleus tractus solitarius (NTS), leads to progressive hypertension. Ang II signaling increased μOR and adrenergic receptor α2A (α2A-AR) heterodimer levels and decreased expression of extracellular signal-regulated kinases 1/2T202/Y204, ribosomal protein S6 kinaseT359/S363, and nNOSS1416 phosphorylation. Dimethylarginine dimethylaminohydrolase 1 (DDAH1) expression was abolished in the NTS of adult spontaneously hypertensive rats (SHRs). Endomorphin-2 was overexpressed in NTS of adult SHRs compared with that in 6-week-old Wistar-Kyoto rats (WKY). Administration of μOR agonist into the NTS of WKY increased blood pressure (BP), decreased nitric oxide (NO) production, and decreased DDAH1 activity. μOR agonist significantly reduced the activity of DDAH1 and decreased neuronal NO synthase (nNOS) phosphorylation. The AT1R II inhibitor, losartan, significantly decreased BP and abolished AT1R-induced formation of AT1R and μOR, and α2A-AR and μOR, heterodimers. Losartan also significantly increased the levels of nNOSS1416 phosphorylation and DDAH1 expression. These results show that Ang II may induce expression of endomorphin-2 and abolished DDAH1 activity by enhancing the formation of AT1R and μOR heterodimers in the NTS, leading to progressive hypertension.
Sensitivity of transcription factors to DNA methylation
Authors: Héberlé Éléa , Bardet Anaïs Flore 
Published: November 2019

Abstract
Dynamic binding of transcription factors (TFs) to regulatory elements controls transcriptional states throughout organism development. Epigenetics modifications, such as DNA methylation mostly within cytosine-guanine dinucleotides (CpGs), have the potential to modulate TF binding to DNA. Although DNA methylation has long been thought to repress TF binding, a more recent model proposes that TF binding can also inhibit DNA methylation. Here, we review the possible scenarios by which DNA methylation and TF binding affect each other. Further in vivo experiments will be required to generalize these models.