bluuebunny/crossref_metadata_2025_split huggingface dataset:
High Levels of Oxidative Stress and Skin Microbiome are Critical for Initiation and Development of Chronic Wounds in Diabetic Mice
Authors: Kim Jane H. , Yang Benjamin , Tedesco Amanda , Lebig Elyson Gavin D. , Ruegger Paul M. , Xu Karen , Borneman James , Martins-Green Manuela 
Published: December 2019

AbstractA balanced redox state is critical for proper healing. Although human chronic wounds are characterized by high levels of oxidative stress (OS), whether OS levels are critical for chronic wound development is not known. For these studies, we used our chronic wound model in diabetic mice that has similar characteristics as human chronic wounds, including naturally developed biofilm. We hypothesize that OS levels in wound tissues are critical for chronic wound initiation and development. We show that increased OS levels in the wound correlate with increased chronicity. Moreover, without increased OS levels, biofilm taken from chronic wounds and placed in new excision wounds do not create chronic wounds. Similarly, high OS levels in the wound tissue in the absence of the skin microbiome do not lead to chronic wounds. These findings show that both high OS levels and bacteria are needed for chronic wound initiation and development. In conclusion, OS levels in the wound at time of injury are critical for biofilm formation and chronic wound development and may be a good predictor of the degree of wound chronicity. Treating such wounds might be accomplished by managing OS levels with antioxidants combined with manipulation of the skin microbiome after debridement.
Lower risk of smoking-related cancer in individuals with familial hypercholesterolemia compared with controls: a prospective matched cohort study
Authors: Krogh Henriette W. , Svendsen Karianne , Igland Jannicke , Mundal Liv J. , Holven Kirsten B. , Bogsrud Martin P. , Leren Trond P. , Retterstøl Kjetil 
Published: December 2019

AbstractAccording to guidelines, individuals with familial hypercholesterolemia (FH) shall receive lifestyle intervention and intensive lipid-lowering treatment from early in life to reduce the risk of coronary heart disease. Our aim was to study if treatment of FH also could affect risk of lifestyle-related cancer. We presented cumulative incidence of total cancer and lifestyle-related cancer sites in individuals with genetically verified FH (n = 5531) compared with age and sex matched controls (n = 108354). Individuals with FH had 20% lower risk of smoking-related cancer compared with the control population [HR 0.80 (95% CI, 0.65–0.98)], in particular men with FH at 40–69 years at age of diagnosis with HR 0.69 (95% CI, 0.49–0.97). The FH population and controls had similar rates of total cancer [HR 0.97 (95% CI, 0.86–1.09)], cancer related to poor diet [HR 0.82 (95% CI, 0.59–1.15)], cancer related to physical inactivity [HR 0.93 (95% CI, 0.73–1.18)], alcohol-related cancer [HR 0.98 (95% CI, 0.80–1.22)] and cancer related to obesity [HR 1.03 (95% CI, 0.89–1.21)]. In summary, we found reduced risk of smoking-related cancer in individuals with FH, most likely due to a lower prevalence of smoking. Implications of these findings can be increased motivation and thus compliance to treatment of hypercholesterolemia.
Enhanced mitochondrial membrane potential and ATP synthesis by photobiomodulation increases viability of the auditory cell line after gentamicin-induced intrinsic apoptosis
Authors: Chang So-Young , Lee Min Young , Chung Phil-Sang , Kim Sehwan , Choi Bernard , Suh Myung-Whan , Rhee Chung-Ku , Jung Jae Yun 
Published: December 2019

AbstractPhotobiomodulation (PBM) has been suggested to have a therapeutic effect on irreversible hearing loss induced by aminoglycosides, including gentamicin (GM). However, its intracellular mechanism(s) in GM-induced ototoxicity remain poorly understood. In the present study, we investigated the effect of PBM in GM-induced ototoxicity in auditory cells. We tried to characterize the downstream process by PBM, and the process that triggered the increased cell viability of auditory cells. As a result, the effects of PBM against GM-induced ototoxicity by increasing ATP levels and mitochondrial membrane potential was confirmed. These results suggest a theory to explain the therapeutic effects and support the use of PBM for aminoglycoside-induced hearing loss.
Comparative genomics study reveals Red Sea Bacillus with characteristics associated with potential microbial cell factories (MCFs)
Authors: Othoum G. , Prigent S. , Derouiche A. , Shi L. , Bokhari A. , Alamoudi S. , Bougouffa S. , Gao X. , Hoehndorf R. , Arold S. T. , Gojobori T. , Hirt H. , Lafi F. F. , Nielsen J. , Bajic V. B. , Mijakovic I. , Essack M. 
Published: December 2019

AbstractRecent advancements in the use of microbial cells for scalable production of industrial enzymes encourage exploring new environments for efficient microbial cell factories (MCFs). Here, through a comparison study, ten newly sequenced Bacillus species, isolated from the Rabigh Harbor Lagoon on the Red Sea shoreline, were evaluated for their potential use as MCFs. Phylogenetic analysis of 40 representative genomes with phylogenetic relevance, including the ten Red Sea species, showed that the Red Sea species come from several colonization events and are not the result of a single colonization followed by speciation. Moreover, clustering reactions in reconstruct metabolic networks of these Bacillus species revealed that three metabolic clades do not fit the phylogenetic tree, a sign of convergent evolution of the metabolism of these species in response to special environmental adaptation. We further showed Red Sea strains Bacillus paralicheniformis (Bac48) and B. halosaccharovorans (Bac94) had twice as much secreted proteins than the model strain B. subtilis 168. Also, Bac94 was enriched with genes associated with the Tat and Sec protein secretion system and Bac48 has a hybrid PKS/NRPS cluster that is part of a horizontally transferred genomic region. These properties collectively hint towards the potential use of Red Sea Bacillus as efficient protein secreting microbial hosts, and that this characteristic of these strains may be a consequence of the unique ecological features of the isolation environment.
Clustering of atomic displacement parameters in bovine trypsin reveals a distributed lattice of atoms with shared chemical properties
Authors: Gagnér Viktor Ahlberg , Lundholm Ida , Garcia-Bonete Maria-Jose , Rodilla Helena , Friedman Ran , Zhaunerchyk Vitali , Bourenkov Gleb , Schneider Thomas , Stake Jan , Katona Gergely 
Published: December 2019

AbstractLow-frequency vibrations are crucial for protein structure and function, but only a few experimental techniques can shine light on them. The main challenge when addressing protein dynamics in the terahertz domain is the ubiquitous water that exhibit strong absorption. In this paper, we observe the protein atoms directly using X-ray crystallography in bovine trypsin at 100 K while irradiating the crystals with 0.5 THz radiation alternating on and off states. We observed that the anisotropy of atomic displacements increased upon terahertz irradiation. Atomic displacement similarities developed between chemically related atoms and between atoms of the catalytic machinery. This pattern likely arises from delocalized polar vibrational modes rather than delocalized elastic deformations or rigid-body displacements. The displacement correlation between these atoms were detected by a hierarchical clustering method, which can assist the analysis of other ultra-high resolution crystal structures. These experimental and analytical tools provide a detailed description of protein dynamics to complement the structural information from static diffraction experiments.
Investigation on energy bandgap states of amorphous SiZnSnO thin films
Authors: Lee Byeong Hyeon , Cho Kyung-Sang , Lee Doo-Yong , Sohn Ahrum , Lee Ji Ye , Choo Hyuck , Park Sungkyun , Kim Sang-Woo , Kim Sangsig , Lee Sang Yeol 
Published: December 2019

AbstractThe variation in energy bandgaps of amorphous oxide semiconducting SiZnSnO (a-SZTO) has been investigated by controlling the oxygen partial pressure (Op). The systematic change in Op during deposition has been used to control the electrical characteristics and energy bandgap of a-SZTO. As Op increased, the electrical properties degraded, while the energy bandgap increased systematically. This is mainly due to the change in the oxygen vacancy inside the a-SZTO thin film by controlling Op. Changes in oxygen vacancies have been observed by using X-ray photoelectron spectroscopy (XPS) and investigated by analyzing the variation in density of states (DOS) inside the energy bandgaps. In addition, energy bandgap parameters, such as valence band level, Fermi level, and energy bandgap, were extracted by using ultraviolet photoelectron spectroscopy, Kelvin probe force microscopy, and high-resolution electron energy loss spectroscopy. As a result, it was confirmed that the difference between the conduction band minimum and the Fermi level in the energy bandgap increased systematically as Op increases. This shows good agreement with the measured results of XPS and DOS analyses.
The Adult Murine Intestine is Dependent on Constitutive Laminin-γ1 Synthesis
Authors: Fields British , DeLaForest Ann , Zogg Mark , May Jennifer , Hagen Catherine , Komnick Kristin , Wieser Jon , Lundberg Alexander , Weiler Hartmut , Battle Michele A. , Carlson Karen-Sue 
Published: December 2019

AbstractLaminin-γ1 is required for early embryonic development; however, the need for laminin-γ1 synthesis in adulthood is unknown. A global and inducible mouse model of laminin-γ1 deficiency was generated to address this question. Genetic ablation of the Lamc1 gene in adult mice was rapidly lethal. Despite global Lamc1 gene deletion in tamoxifen-induced mutant mice, there was minimal change in total cardiac, pulmonary, hepatic or renal laminin protein. In contrast, laminin-γ1 was significantly depleted in the small intestines, which showed crypt hyperplasia and dissociation of villous epithelium from adjacent mesenchyme. We conclude that the physiologic requirement for laminin-γ1 synthesis in adult mice is dependent on a tissue-specific basal rate of laminin-γ1 turnover that results in rapid depletion of laminin-γ1 in the intestine.
Exploring ultrafast threshold switching in In3SbTe2 phase change memory devices
Authors: Saxena Nishant , Persch Christoph , Wuttig Matthias , Manivannan Anbarasu 
Published: December 2019

AbstractPhase change memory (PCM) offers remarkable features such as high-speed and non-volatility for universal memory. Yet, simultaneously achieving better thermal stability and fast switching remains a key challenge. Thus, exploring novel materials with improved characteristics is of utmost importance. We report here, a unique property-portfolio of high thermal stability and picosecond threshold switching characteristics in In3SbTe2 (IST) PCM devices. Our experimental findings reveal an improved thermal stability of amorphous IST compared to most other phase change materials. Furthermore, voltage dependent threshold switching and current-voltage characteristics corroborate an extremely fast, yet low electric field threshold switching operation within an exceptionally small delay time of less than 50 picoseconds. The combination of low electric field and high speed switching with improved thermal stability of IST makes the material attractive for next-generation high-speed, non-volatile memory applications.
Morphological, physiochemical and antioxidant responses of Maclura pomifera to drought stress
Authors: Khaleghi Alireza , Naderi Rohangiz , Brunetti Cecilia , Maserti Bianca Elena , Salami Seyed Alireza , Babalar Mesbah 
Published: December 2019

AbstractDrought is one of the most important environmental factor limiting the growth of woody and non woody plants. In the present paper, we aimed to explore the performance of Maclura pomifera under a prolonged drought period followed by re-watering. M. pomifera plants were exposed to four different watering regimes (100%, 75%, 50% and 30% of the field capacity (FC)) for three weeks and then rewatered. The exposure to drought affected physiological, morphological and biochemical traits of M. pomifera. Leaf area, relative water content and water potential of leaf decreased in parallel with increased water deficit. Malondialdehyde content increased along with the drought stress experiment. Soluble carbohydrates (sucrose, glucose and fructose) accumulated during drought stress, but decreased after 22 days of water deficit in severe stressed plants (30% FC). Proline and mannitol, two compatible osmolytes, were higher in drought stresses plants than in control plants. Additionally the activity of antioxidant enzymes (SOD, APX, DHAR and GR) resulted affected by drought stress. In the recovery period, the physiological parameters as well as the proline content recovered at control levels, whereas soluble sugars, mannitol and total activity of antioxidant enzymes remained slight higher than in control plants, presumably to allow plants a complete recovery after stress. Our results suggest that M. pomifera has a good adaptive response to drought stress, probably corresponded to decreasing oxidative injury by induction of the antioxidant system and accumulation of stable and protective osmolytes such as proline and mannitol at higher rates.
Morphometric analysis of sella turcica in growing patients: an observational study on shape and dimensions in different sagittal craniofacial patterns
Authors: Tepedino Michele , Laurenziello Michele , Guida Laura , Montaruli Graziano , Troiano Giuseppe , Chimenti Claudio , Colonna Marco , Ciavarella Domenico 
Published: December 2019

AbstractThe aim of this study was to evaluate the differences in sella dimensions and shape between growing patients with Class I, Class II, and Class III skeletal malocclusions, evaluated through morphometric analysis. Seventy-eight subjects aged between 9 and 13 years were selected and assigned to either the Class I, Class II, or Class III groups according to the measured ANB angle (the angle between the Nasion, skeletal A-point and skeletal B-point). Six landmarks were digitised to outline the shape of the sella turcica. Linear measurements of the sella length and depth were also performed. Procrustes superimposition, principal component analysis, and canonical variate analysis were used to evaluate the differences in sella shape between the three groups. A one-way MANOVA and Tukey’s or Games-Howell tests were used to evaluate the presence of differences in sella dimensions between the three groups, gender, and age. The canonical variate analysis revealed a statistically significant difference in sella shape between the Class I and the Class II groups, mostly explained by the CV1 axis and related to the posterior clinoidal process and the floor of the sella. No differences were found regarding linear measurements, except between subjects with different age. These differences in sella shape, that are present in the earlier developmental stages, could be used as a predictor of facial growth, but further studies are needed.
Real-time monitoring of the reaction between aniline and acetonylacetone using extractive electorspray ionization tandem mass spectrometry
Authors: Zhang Xinglei , Pei Miaorong , Wu Debo , Yang Shuiping , Le Zhanggao 
Published: December 2019

AbstractIn this work an on-line monitoring method was developed to study the mechanism of acetic acid catalyzed reaction between aniline and acetonylacetone using extractive electorspray ionization-tandem mass spectrometry (EESI-MS). The signals of reactants, intermediates and various byproducts were continuously detected as a function of reaction time. The chemical assignment of each signal was done via multi-stage collision induced dissociation (CID) analysis, and the reaction mechanism between aniline and acetonylacetone was deduced based on the generated molecular ions and fragment ions. The results indicate that on-line EESI-MS is an effective technique for the real time analysis of chemical reactions. EESI avoids off-line sample pretreatment and provides “soft” ionization, which allows direct analysis of various analytes at molecular level.
Rumen Bacteria and Serum Metabolites Predictive of Feed Efficiency Phenotypes in Beef Cattle
Authors: Clemmons Brooke A. , Martino Cameron , Powers Joshua B. , Campagna Shawn R. , Voy Brynn H. , Donohoe Dallas R. , Gaffney James , Embree Mallory M. , Myer Phillip R. 
Published: December 2019

AbstractThe rumen microbiome is critical to nutrient utilization and feed efficiency in cattle. Consequently, the objective of this study was to identify microbial and biochemical factors in Angus steers affecting divergences in feed efficiency using 16S amplicon sequencing and untargeted metabolomics. Based on calculated average residual feed intake (RFI), steers were divided into high- and low-RFI groups. Features were ranked in relation to RFI through supervised machine learning on microbial and metabolite compositions. Residual feed intake was associated with several features of the bacterial community in the rumen. Decreased bacterial α- (P = 0.03) and β- diversity (P < 0.001) was associated with Low-RFI steers. RFI was associated with several serum metabolites. Low-RFI steers had greater abundances of pantothenate (P = 0.02) based on fold change (high/low RFI). Machine learning on RFI was predictive of both rumen bacterial composition and serum metabolomic signature (AUC ≥ 0.7). Log-ratio proportions of the bacterial classes Flavobacteriia over Fusobacteriia were enriched in low-RFI steers (F = 6.8, P = 0.01). Reductions in Fusobacteriia and/or greater proportions of pantothenate-producing bacteria, such as Flavobacteriia, may result in improved nutrient utilization in low-RFI steers. Flavobacteriia and Pantothenate may potentially serve as novel biomarkers to predict or evaluate feed efficiency in Angus steers.
The Detection of Early Epigenetic Inheritance of Mitochondrial Stress in C. Elegans with a Microfluidic Phenotyping Platform
Authors: Atakan H. B. , Hof K. S. , Cornaglia M. , Auwerx J. , Gijs M. A. M. 
Published: December 2019

AbstractFluctuations and deterioration in environmental conditions potentially have a phenotypic impact that extends over generations. Transgenerational epigenetics is the defined term for such intergenerational transient inheritance without an alteration in the DNA sequence. The model organism Caenorhabditis elegans is exceptionally valuable to address transgenerational epigenetics due to its short lifespan, well-mapped genome and hermaphrodite behavior. While the majority of the transgenerational epigenetics on the nematodes focuses on generations-wide heritage, short-term and in-depth analysis of this phenomenon in a well-controlled manner has been lacking. Here, we present a novel microfluidic platform to observe mother-to-progeny heritable transmission in C. elegans at high imaging resolution, under significant automation, and enabling parallelized studies. After approximately 24 hours of culture of L4 larvae under various concentrations and application periods of doxycycline, we investigated if mitochondrial stress was transferred from the mother nematodes to the early progenies. Automated and custom phenotyping algorithms revealed that a minimum doxycycline concentration of 30 µg/mL and a drug exposure time of 15 hours applied to the mothers could induce mitochondrial stress in first embryo progenies indeed, while this inheritance was not clearly observed later in L1 progenies. We believe that our new device could find further usage in transgenerational epigenetic studies modeled on C. elegans.
One-Pot Radiosynthesis and Biological Evaluation of a Caspase-3 Selective 5-[123,125I]iodo-1,2,3-triazole derived Isatin SPECT Tracer
Authors: Glaser Matthias , Rajkumar Vineeth , Diocou Seckou , Gendron Thibault , Yan Ran , Sin Pak Kwan Brian , Sander Kerstin , Carroll Laurence , Pedley R. Barbara , Aboagye Eric O. , Witney Timothy H. , Årstad Erik 
Published: December 2019

AbstractInduction of apoptosis is often necessary for successful cancer therapy, and the non-invasive monitoring of apoptosis post-therapy could assist in clinical decision making. Isatins are a class of compounds that target activated caspase-3 during apoptosis. Here we report the synthesis of the 5-iodo-1,2,3-triazole (FITI) analog of the PET tracer [18F]ICMT11 as a candidate tracer for imaging of apoptosis with SPECT, as well as PET. Labelling with radioiodine (123,125I) was achieved in 55 ± 12% radiochemical yield through a chelator-accelerated one-pot cycloaddition reaction mediated by copper(I) catalysis. The caspase-3 binding affinity and selectivity of FITI compares favourably to that of [18F]ICMT11 (Ki = 6.1 ± 0.9 nM and 12.4 ± 4.7 nM, respectively). In biodistribution studies, etoposide-induced cell death in a SW1222 xenograft model resulted in a 2-fold increase in tumour uptake of the tracer. However, the tumour uptake was too low to allow in vivo imaging of apoptosis with SPECT.
Desiderata for delivering NLP to accelerate healthcare AI advancement and a Mayo Clinic NLP-as-a-service implementation
Authors: Wen Andrew , Fu Sunyang , Moon Sungrim , El Wazir Mohamed , Rosenbaum Andrew , Kaggal Vinod C. , Liu Sijia , Sohn Sunghwan , Liu Hongfang , Fan Jungwei 
Published: December 2019

AbstractData is foundational to high-quality artificial intelligence (AI). Given that a substantial amount of clinically relevant information is embedded in unstructured data, natural language processing (NLP) plays an essential role in extracting valuable information that can benefit decision making, administration reporting, and research. Here, we share several desiderata pertaining to development and usage of NLP systems, derived from two decades of experience implementing clinical NLP at the Mayo Clinic, to inform the healthcare AI community. Using a framework, we developed as an example implementation, the desiderata emphasize the importance of a user-friendly platform, efficient collection of domain expert inputs, seamless integration with clinical data, and a highly scalable computing infrastructure.
Evening out the spin and charge parity to increase $${T}_{c}$$ in $${{\rm{Sr}}}_{2}{{\rm{RuO}}}_{4}$$
Authors: Acharya Swagata , Pashov Dimitar , Weber Cédric , Park Hyowon , Sponza Lorenzo , Schilfgaarde Mark Van 
Published: December 2019

AbstractUnconventional superconductivity in $${{\rm{Sr}}}_{2}{{\rm{RuO}}}_{4}$$Sr2RuO4 has been intensively studied for decades. However, the nature of pairing continues to be widely debated. Here we develop a detailed ab initio theory, coupling quasiparticle self-consistent GW approximation with dynamical mean field theory (DMFT), including both local and non-local correlations to address the subtle interplay among spin, charge and orbital degrees of freedom. We report that the superconducting instability has multiple triplet and singlet components. In the unstrained case the triplet eigenvalues are larger than the singlets. Under uniaxial strain, the triplet eigenvalues drop and the singlet components increase. This is concomitant with our observation of spin and charge fluctuations shifting closer to wave-vectors favoring singlet pairing. We identify a complex mechanism where charge fluctuations and spin fluctuations co-operate in the even-parity channel under strain leading to increment in critical temperature (Tc), thus proposing a novel mechanism for pushing the frontier of critical temperature (Tc) in unconventional ‘triplet’ superconductors.