bluuebunny/crossref_metadata_2025_split huggingface dataset:
Responses to soil pH gradients of inorganic phosphate solubilizing bacteria community
Authors: Zheng Bang-Xiao , Zhang Ding-Peng , Wang Yu , Hao Xiu-Li , Wadaan Mohammed A. M. , Hozzein Wael N. , Peñuelas Josep , Zhu Yong-Guan , Yang Xiao-Ru 
Published: January 2019

AbstractSoil pH is commonly considered a dominant factor affecting the function of microbiota. Few studies, however, have focused on communities of bacteria able to solubilize inorganic phosphate (iPSB), which are important for the mobilization of soil phosphorus (P), because finding an effective method to assess the abundance and diversity of iPSB communities is difficult. We used a newly reported method of database alignment and quantified the gene pqqC to analyze the compositions of iPSB communities from five soils with pH gradients ranging from 4 to 8. The iPSB community structure differed significantly between these soil types. Among iPSB community, Bacillus was the dominant genus, followed by Arthrobacter and Streptomyces. A redundancy analysis indicated that soil pH was the most important of 15 soil factors and their pairwise interactions, accounting for 5.12% of the variance. The abundance of the iPSB communities increased with pH within the gradients which was confirmed by experimental adjustment of pH, suggesting that the defect P status in high pH soil was speculated as the driving force of iPSB community population. Our study demonstrated the dominant role of soil pH on the iPSB community, which may contribute to the understanding the possible mechanism of microbial P mobilization for better improvement of P use-efficiency.
Application of Autologous Platelet-Rich Plasma on Tooth Extraction Site Prevents Occurence of Medication-Related Osteonecrosis of the Jaws in Rats
Authors: Toro Luan Felipe , de Mello-Neto João Martins , Santos Fernanda Furuse Ventura dos , Ferreira Letícia Chaves , Statkievicz Cristian , Cintra Luciano Tavares Ângelo , Issa João Paulo Mardegan , Dornelles Rita Cássia Menegati , de Almeida Juliano Milanezi , Nagata Maria José Hitomi , Garcia Valdir Gouveia , Theodoro Leticia Helena , Casatti Cláudio Aparecido , Ervolino Edilson 
Published: January 2019

AbstractThis study evaluated the effects of local application of autologous platelet-rich plasma (PRP) on the tooth extraction site of rats presenting the main risk factors for medication-related osteonecrosis of the jaw (MRONJ). For seven weeks, senile rats were submitted to systemic treatment with vehicle (VEH and VEH-PRP) or 100 μg/Kg of zoledronate (ZOL and ZOL-PRP) every three days. After three weeks, the first lower molar was extracted. VEH-PRP and ZOL-PRP received PRP at the tooth extraction site. Euthanasia was performed at 28 days postoperatively. Clinical, histopathological, histometric and immunohistochemical analyses were carried out in histological sections from the tooth extraction site. ZOL showed lower percentage of newly formed bone tissue (NFBT), higher percentage of non-vital bone tissue (NVBT), as well as higher immunolabeling for TNFα and IL-1β. In addition, ZOL presented lower immunolabeling for PCNA, VEGF, BMP2/4, OCN and TRAP. VEH and ZOL-PRP showed improvement in the tooth extraction site wound healing and comparable percentage of NFBT, VEGF, BMP2/4 and OCN. Local application of autologous PRP proved a viable preventive therapy, which is safe and effective to restore tissue repair capacity of the tooth extraction site and prevent the occurrence of MRONJ following tooth extraction.
Rhinella marina oocytes: a suitable alternative expression system for functional characterization of aquaglyceroporins
Authors: Rojas Vania , Ortiz Yulexi Y. , Rodríguez Sheridan , Araque Vladimir , Rodríguez-Acosta Alexis , Figarella Katherine , Uzcátegui Néstor L. 
Published: January 2019

AbstractAmphibian oocytes have been extensively used for heterologous expression of membrane proteins for studying their biochemical and biophysical properties. So far, Xenopus laevis is the main amphibian used as oocytes source to express aquaglyceroporins in order to assess water and solutes permeability. However, this well-established amphibian model represents a threat to the biodiversity in many countries, especially in those from tropical regions. For that reason, the import of Xenopus laevis is subjected to strict control, which essentially has restricted its use in these regions. Therefore, a wider variety of expression systems for aquaglyceroporins is needed. Rhinella marina is extensively distributed in the Americas and its native range spreads from South America to Texas, US. Here we report the use of Rhinella marina oocytes as an alternative expression system for aquaglyceroporins and demonstrated its suitability to determine the permeability to water and non-ionic solutes. Rhinella marina oocytes were able to functionally express channels from human and the protozoan pathogen Trypanosoma brucei, two very distant organisms on the evolutionary scale. Permeability values obtained from Rhinella marina oocytes expressing members of aquaporin family were similar and comparable to those values reported in the literature for the same channels expressed in Xenopus laevis oocytes.
Statistical models for meal-level estimation of mass and energy intake using features derived from video observation and a chewing sensor
Authors: Yang Xin , Doulah Abul , Farooq Muhammad , Parton Jason , McCrory Megan A. , Higgins Janine A. , Sazonov Edward 
Published: January 2019

AbstractAccurate and objective assessment of energy intake remains an ongoing problem. We used features derived from annotated video observation and a chewing sensor to predict mass and energy intake during a meal without participant self-report. 30 participants each consumed 4 different meals in a laboratory setting and wore a chewing sensor while being videotaped. Subject-independent models were derived from bite, chew, and swallow features obtained from either video observation or information extracted from the chewing sensor. With multiple regression analysis, a forward selection procedure was used to choose the best model. The best estimates of meal mass and energy intake had (mean ± standard deviation) absolute percentage errors of 25.2% ± 18.9% and 30.1% ± 33.8%, respectively, and mean ± standard deviation estimation errors of −17.7 ± 226.9 g and −6.1 ± 273.8 kcal using features derived from both video observations and sensor data. Both video annotation and sensor-derived features may be utilized to objectively quantify energy intake.
Automatic Coronary Wall and Atherosclerotic Plaque Segmentation from 3D Coronary CT Angiography
Authors: Ghanem Ahmed M. , Hamimi Ahmed H. , Matta Jatin R. , Carass Aaron , Elgarf Reham M. , Gharib Ahmed M. , Abd-Elmoniem Khaled Z. 
Published: January 2019

AbstractCoronary plaque burden measured by coronary computerized tomography angiography (CCTA), independent of stenosis, is a significant independent predictor of coronary heart disease (CHD) events and mortality. Hence, it is essential to develop comprehensive CCTA plaque quantification beyond existing subjective plaque volume or stenosis scoring methods. The purpose of this study is to develop a framework for automated 3D segmentation of CCTA vessel wall and quantification of atherosclerotic plaque, independent of the amount of stenosis, along with overcoming challenges caused by poor contrast, motion artifacts, severe stenosis, and degradation of image quality. Vesselness, region growing, and two sequential level sets are employed for segmenting the inner and outer wall to prevent artifact-defective segmentation. Lumen and vessel boundaries are joined to create the coronary wall. Curved multiplanar reformation is used to straighten the segmented lumen and wall using lumen centerline. In-vivo evaluation included CCTA stenotic and non-stenotic plaques from 41 asymptomatic subjects with 122 plaques of different characteristics against the individual and consensus of expert readers. Results demonstrate that the framework segmentation performed robustly by providing a reliable working platform for accelerated, objective, and reproducible atherosclerotic plaque characterization beyond subjective assessment of stenosis; can be potentially applicable for monitoring response to therapy.
Mycobacterium tuberculosis virulence inhibitors discovered by Mycobacterium marinum high-throughput screening
Authors: Tükenmez Hasan , Edström Isabel , Ummanni Ramesh , Fick Stina Berglund , Sundin Charlotta , Elofsson Mikael , Larsson Christer 
Published: January 2019

AbstractHigh-throughput screening facilities do not generally support biosafety level 3 organisms such as Mycobacterium tuberculosis. To discover not only antibacterials, but also virulence inhibitors with either bacterial or host cell targets, an assay monitoring lung fibroblast survival upon infection was developed and optimized for 384-plate format and robotic liquid handling. By using Mycobacterium marinum as surrogate organism, 28,000 compounds were screened at biosafety level 2 classification, resulting in 49 primary hits. Exclusion of substances with unfavourable properties and known antimicrobials resulted in 11 validated hits of which 7 had virulence inhibiting properties and one had bactericidal effect also in wild type Mycobacterium tuberculosis. This strategy to discover virulence inhibitors using a model organism in high-throughput screening can be a valuable tool for other researchers working on drug discovery against tuberculosis and other biosafety level 3 infectious agents.
Structure of the SLy1 SAM homodimer reveals a new interface for SAM domain self-association
Authors: Kukuk Laura , Dingley Andrew J. , Granzin Joachim , Nagel-Steger Luitgard , Thiagarajan-Rosenkranz Pallavi , Ciupka Daniel , Hänel Karen , Batra-Safferling Renu , Pacheco Victor , Stoldt Matthias , Pfeffer Klaus , Beer-Hammer Sandra , Willbold Dieter , Koenig Bernd W. 
Published: January 2019

AbstractSterile alpha motif (SAM) domains are protein interaction modules that are involved in a diverse range of biological functions such as transcriptional and translational regulation, cellular signalling, and regulation of developmental processes. SH3 domain-containing protein expressed in lymphocytes 1 (SLy1) is involved in immune regulation and contains a SAM domain of unknown function. In this report, the structure of the SLy1 SAM domain was solved and revealed that this SAM domain forms a symmetric homodimer through a novel interface. The interface consists primarily of the two long C-terminal helices, α5 and α5′, of the domains packing against each other. The dimerization is characterized by a dissociation constant in the lower micromolar range. A SLy1 SAM domain construct with an extended N-terminus containing five additional amino acids of the SLy1 sequence further increases the stability of the homodimer, making the SLy1 SAM dimer two orders of magnitude more stable than previously studied SAM homodimers, suggesting that the SLy1 SAM dimerization is of functional significance. The SLy1 SAM homodimer contains an exposed mid-loop surface on each monomer, which may provide a scaffold for mediating interactions with other SAM domain-containing proteins via a typical mid-loop–end-helix interface.
BLNCR is a long non-coding RNA adjacent to integrin beta-1 that is rapidly lost during epidermal progenitor cell differentiation
Authors: Tanis Sabine E. J. , Köksal Elif Senem , van Buggenum Jessie A. G. L. , Mulder Klaas W. 
Published: January 2019

AbstractAs our understanding of transcriptional regulation improves so does our appreciation of its complexity. Both coding and (long) non-coding RNAs provide cells with multiple levels of control and thereby flexibility to adapt gene expression to the environment. However, few long non-coding RNAs (lncRNAs) have been studied in human epidermal stem cells. Here, we characterized the expression of 26 lncRNAs in human epidermal keratinocytes, 7 of which we found to be dynamically expressed during differentiation. We performed in depth analysis of a lncRNA located proximal to the epidermal stem cell marker integrin beta-1 (ITGB1) and transcribed in the opposite direction. We dubbed this gene Beta1-adjacent long non-coding RNA, or BLNCR, and found that its expression is regulated by p63 and AP1 transcription factors. Furthermore, BLNCR expression is regulated downstream the integrin and EGF signaling pathways that are key to epidermal stem cell maintenance. Finally, we found that BLNCR expression is rapidly reduced upon induction of differentiation, preceding the down regulation of integrin beta-1 expression. These dynamics closely mirror the loss of proliferative and adhesion capacity of epidermal stem cells in colony formation assays. Together, these results suggest that loss of BLNCR expression marks the switch from a proliferative state towards terminal differentiation in human epidermal stem cells.
Potential role of host-derived quorum quenching in modulating bacterial colonization in the moon jellyfish Aurelia aurita
Authors: Weiland-Bräuer Nancy , Fischer Martin A. , Pinnow Nicole , Schmitz Ruth A. 
Published: January 2019

AbstractMulticellular organisms can be regarded as metaorganisms, comprising of a macroscopic host interacting with associated microorganisms. Within this alliance, the host has to ensure attracting beneficial bacteria and defending against pathogens to establish and maintain a healthy homeostasis. Here, we obtained several lines of evidence arguing that Aurelia aurita uses interference with bacterial quorum sensing (QS) - quorum quenching (QQ) - as one host defense mechanism. Three A. aurita-derived proteins interfering with bacterial QS were identified by functionally screening a metagenomic library constructed from medusa-derived mucus. Native expression patterns of these host open reading frames (ORFs) differed in the diverse life stages (associated with different microbiota) pointing to a specific role in establishing the developmental stage-specific microbiota. Highly increased expression of all QQ-ORFs in germ-free animals further indicates their impact on the microbiota. Moreover, incubation of native animals with pathogenic bacteria induced expression of the identified QQ-ORFs arguing for a host defense strategy against confronting bacteria by interference with bacterial QS. In agreement, immobilized recombinant QQ proteins induced restructuring of polyp-associated microbiota through changing abundance and operational taxonomic unit composition. Thus, we hypothesize that additional to the immune system host-derived QQ-activities potentially control bacterial colonization.
Rare mutations of ADAM17 from TOFs induce hypertrophy in human embryonic stem cell-derived cardiomyocytes via HB-EGF signaling
Authors: Xie Yifang , Ma Anyun , Wang Boshi , Peng Rui , Jing Yingchun , Wang Deqian , Finnell Richard H. , Qiao Bin , Wang Yongming , Wang Hongyan , Zheng Yufang 
Published: January 2019

Abstract
Tetralogy of Fallot (TOF) is the most common cyanotic form of congenital heart defects (CHDs). The right ventricular hypertrophy is associated with the survival rate of patients with repaired TOF. However, very little is known concerning its genetic etiology. Based on mouse model studies, a disintergrin and metalloprotease 10/17 (ADAM10 and ADAM17) are the key enzymes for the NOTCH and ErbB pathways, which are critical pathways for heart development. Mutations in these two genes have not been previously reported in human TOF patients. In this study, we sequenced ADAM10 and ADAM17 in a Han Chinese CHD cohort comprised of 80 TOF patients, 286 other CHD patients, and 480 matched healthy controls. Three missense variants of ADAM17 were only identified in 80 TOF patients, two of which (Y42D and L659P) are novel and not found in the Exome Aggregation Consortium (ExAC) database. Point mutation knock-in (KI) and ADAM17 knock-out (KO) human embryonic stem cells (hESCs) were generated by CRISPR/Cas9 and programmed to differentiate into cardiomyocytes (CMs). Y42D or L659P KI cells or complete KO cells all developed hypertrophy with disorganized sarcomeres. RNA-seq results showed that phosphatidylinositide 3-kinases/protein kinase B (PI3K/Akt), which is downstream of epidermal growth factor receptor (EGFR) signaling, was affected in both ADAM17 KO and KI hESC-CMs. In vitro experiments showed that these two mutations are loss-of-function mutations in shedding heparin-binding EGF-like growth factor (HB-EGF) but not NOTCH signaling. Our results revealed that CM hypertrophy in TOF could be the result of mutations in ADAM17 which affects HB-EGF/ErbB signaling.
Hydrophone based on 3D printed polypropylene (PP) piezoelectret
Authors: Palitó T.T.C. , Assagra Y.A.O. , Altafim R.A.P. , Carmo J.P. , Altafim R.A.C. 
Published: January 2019

Every year, different areas of knowledge are becoming more interested in 3D‐printing technology. Recently, this technology was also proved to be feasible for creating sensitive materials such as piezoelectrets. This Letter extends the concept of a 3D printed piezoelectret to produce a pressure sensitive film that can be employed as an ultrasonic transducer for underwater applications, such as hydrophones. In order to achieve this, a two‐layer polypropylene film was printed using a filament‐based 3D printer. Afterwards, adhesive electrodes were attached on both sides of the film and electrical charging was applied. Later, the 3D printed film was mounted in a metal housing specially designed to keep the film in direct contact with the water and to isolate the electronic amplification. The validation was performed using a piezoelectric ceramic made of lead zirconate titanate (PZT), immersed in a water tank, to produce ultrasonic sweeps to be sensed by the 3D printed transducer. These tests revealed sensor sensitivities up to 600 mV and promote a precise detection of the acoustic resonance frequency of the PZT at 43.7 kHz.
Extending the event-weighted pulsation search to very faint gamma-ray sources
Authors: Bruel P. 
Published: January 2019

Context. Because of the relatively broad angular resolution of current gamma-ray instruments in the MeV–GeV energy range, the photons of a given source are mixed with those coming from nearby sources or diffuse background. This source confusion seriously hampers the search for pulsation from faint sources.
Aims. Statistical tests for pulsation can be made significantly more sensitive when the probability that a photon comes from the pulsar is used as a weight. However, computing this probability requires knowledge of the spectral model of all sources in the region of interest, including the pulsar itself. This is not possible for very faint pulsars that are not detected as gamma-ray sources or whose spectrum is not measured precisely enough. Extending the event-weighted pulsation search to such very faint gamma-ray sources would allow improving our knowledge of the gamma-ray pulsar population.
Methods. We present two methods that overcome this limitation by scanning the spectral parameter space, while minimizing the number of trials. The first one approximates the source to background ratio yielding a simple estimate of the weight while the second one makes use of the full spatial and spectral information of the region of interest around the pulsar.
Results. We tested these new methods on a sample of 144 gamma-ray pulsars already detected by the Fermi Large Area Telescope data. Both methods detect pulsation from all pulsars of the sample, including the ones for which no significant phase-averaged gamma-ray emission is detected.
Exaggerated post exercise hypotension following concentric but not eccentric resistance exercise: Implications for metabolism
Authors: Stavres Jon , Fischer Stephen M , McDaniel John 
Published: January 2019

AbstractPost exercise hypotension (PEH) is primarily attributed to post‐exercise vasodilation via central and peripheral mechanisms. However, the specific contribution of metabolic cost during exercise, independent of force production, is less clear. This study aimed to use isolated concentric and eccentric exercise to examine the role of metabolic activity in eliciting PEH, independent of total work. Twelve participants (6 male) completed upper and lower body concentric (CONC), eccentric (ECC), and traditional (TRAD) exercise sessions matched for work (3 × 10 in TRAD and 3 × 20 in CONC and ECC; all at 65% 1RM). Blood pressure was collected at baseline and every 15 min after exercise for 120 min. Brachial blood flow and vascular conductance were also assessed at baseline, immediately after exercise, and every 30 min after exercise. ⩒O2 was lower during ECC compared to CONC and TRAD (−2.7 mL/Kg/min ± 0.4 and −2.2 mL/Kg/min ± 0.4, respectively p < 0.001). CONC augmented the PEH response (Peak ΔMAP −3.3 mmHg ± 0.9 [mean ± SE], p = 0.006) through 75 min of recovery and ECC elicited a post‐exercise hypertensive response through 120 min of recovery (Peak ΔMAP +4.5 mmHg ± 0.8, p < 0.001). CONC and TRAD elicited greater increases in brachial blood flow post exercise than ECC (Peak Δ brachial flow +190.4 mL/min ± 32.3, +202.3 mL/min ± 39.2, and 69.6 mL/min ± 19.8, respectively, p ≤ 0.005), while conductance increased immediately post exercise in all conditions and then decreased throughout recovery following ECC (−32.9 mL/min/mmHg ± 9.3, p = 0.005). These data suggest that more metabolically demanding concentric exercise augments PEH compared to work‐matched eccentric exercise.
President Obama, poverty, and the scope and limits of social policy change
Authors: Waddan Alex 
Published: January 2019

AbstractThere has been a growing discussion in recent years about rising inequality in the U.S. Yet, this discourse, in focusing on the fortunes of the top 1%, distracted attention from the design of policy initiatives aimed at improving socio-economic conditions for the poor. This paper examines the development of anti-poverty politics and policy in the US during the Obama era. It analyses how effective the strategies and programmes adopted were and asks how they fit with models of policy change. The paper illustrates that the Obama administration did adopt an array of anti-poverty measures in the stimulus bill, but these built on existing programmes rather than create new ones and much of the effort was stymied by institutional obstacles. The expansion of the Medicaid program, which was part of the ACA, was also muted by institutional opposition, but it was a more path breaking reform than is often appreciated.
The Effects of Farm Subsidies on Farm Exports in the United States
Authors: Tong Lan Anh , Pham Cong S , Ulubaşoğlu Mehmet A 
Published: January 2019

AbstractWe estimate the elasticity of U.S. farm exports to U.S. farm subsidies using a gravity model of state‐level farm exports to 100 major trading destinations for the period 1999 to 2011. Our identification strategy exploits the within‐state variation that is free of endogeneity bias in the levels and trends of farm subsidies and farm exports. We find that a 1% decrease in farm subsidies would reduce U.S. farm exports by 0.40% per annum. This equivalently means that the complete abolishment of the farm subsidy program would reduce U.S. farm exports by approximately $15.3 billion per year. Importantly, we document robust evidence that amber box subsidy programs such as counter‐cyclical payments and marketing loan gains have the strongest effect on farm exports, while green box subsidy payments, such as direct payments have negligible effects. Finally, subsidy payments affect exports only in agricultural commodities, not in livestock. Our subsidy elasticity estimates are statistically significant, stable, and economically meaningful, and are vitally needed by U.S. and global policymakers in the face of critical domestic and international developments.