bluuebunny/crossref_metadata_2025_split huggingface dataset:
Effect of bolus enteral tube feeding on body weight in ambulatory adults with obesity and type 2 diabetes: a feasibility pilot randomized trial
Authors: Beale E. O. , Lee W. , Lee A. , Lee C. , Soffer E. , Crookes P. F. , Eagilen K. , Chen R. , Mack W. J. , Tong H. 
Published: June 2020

Abstract
Background/objectives
To ascertain the effect on body weight of 14 days of bolus enteral feeding with mixed meal (MM) and electrolyte solution (ES) in ambulatory adults with type 2 diabetes and obesity, and also the safety and feasibility of using a modified, intraorally anchored enteral feeding tube for this purpose.

Subjects/methods
We conducted a randomized, crossover pilot trial with 16 participants. A 140 cm, 8-French feeding tube was placed in the jejunum under electromagnetic guidance and anchored intraorally. Participants were randomized to self-administer 120 mL 523 kJ (125 kcal) MM, or 50 kJ (12 kcal) ES four times/day for 14 days. After ≥14 days without the tube, participants crossed over to the other treatment. The primary outcome compared weight change between treatments. Thereafter, participants could elect to undergo additional MM cycles. Participants were encouraged to continue with all usual activities including eating ad lib throughout the study.

Results
Ten participants withdrew prior to completing two randomized 14-day cycles (4 social, 3 intolerant of anchor, and 3 intolerant of tube). Six participants were assessed for the primary outcome and showed no significant difference in weight loss between MM and ES (p = 0.082). For the secondary outcome of within-group weight loss, average weight loss from baseline was significant for MM but not for ES: −2.40 kg (95% CI: −3.78, −1.02; p = 0.008) vs. −0.64 kg (95% CI: −2.01, 0.74; p = 0.27). A total of 23 2-week cycles were completed (12 paired, 2 unpaired, and 9 additional), with no significant adverse events for 334 days of tube use.

Conclusions
Repeated bolus nutrient administration via enteral feeding tube is associated with weight loss in adults with obesity and type 2 diabetes, with no significant difference seen between MM and ES feeds. The prototype device was safe, but requires development for further investigation into the effect of bolus jejunal feeding on weight and to improve acceptability.
Dietary sodium and potassium intake in people with diabetes: are guidelines being met?
Authors: Baqar Sara , Michalopoulos Adrian , Jerums George , Ekinci Elif I. 
Published: June 2020

Abstract
Objective
Despite public health bodies advocating for lowering dietary sodium and increasing potassium intake to improve cardiovascular outcomes, people with diabetes are not meeting these targets. We hypothesize that (i) both at an individual level and within the cohort, there will be a low adherence to the guidelines and (ii) sodium and potassium intake will remain stable over time.

Methods
We conducted this prospective study in a cohort of 904 participants with diabetes who provided 24-h urine collections from 2009 to 2015. Dietary sodium and potassium intake were estimated from 24-h urinary sodium (uNa) and potassium (uK) measurements. Additional data were collected for: 24-h urinary volume (uVol), creatinine (uCr),; serum creatinine, urea, estimated glomerular filtration rate (eGFR), glycated haemoglobin (HbA1c), fasting glucose, lipids); clinical characteristics (age, blood pressure (BP), body mass index (BMI) and duration of diabetes). Adherence to recommended dietary sodium (uNa < 2300 mg/24 h (100mmol/24 h)) and potassium (uK > 4680 mg/24 h(120 mmol/24)) intake were the main outcome measures.

Results
Participants (n = 904) completed 3689 urine collections (average four collections/participant). The mean ± SD (mmol/24 h) for uNa was 181 ± 73 and uK was 76 ± 25. After correcting uNa for uCr, 7% and 5% of participants met dietary sodium and potassium guidelines respectively. Males were less likely to meet sodium guidelines (OR 0.40, p < 0.001) but were more likely to meet potassium guidelines (OR 6.13, p < 0.001). Longer duration of diabetes was associated with higher adherence to sodium and potassium guidelines (OR 1.04, p < 0.001 and OR 0.96, p = 0.006 respectively). Increasing age was significantly associated with adherence to potassium guidelines (OR 0.97, p = 0.007).

Conclusions
People with diabetes do not follow current dietary sodium and potassium guidelines and are less likely to change their dietary intake of sodium and potassium over time.
p53 destabilizing protein skews asymmetric division and enhances NOTCH activation to direct self-renewal of TICs
Authors: Choi Hye Yeon , Siddique Hifzur R. , Zheng Mengmei , Kou Yi , Yeh Da-Wei , Machida Tatsuya , Chen Chia-Lin , Uthaya Kumar Dinesh Babu , Punj Vasu , Winer Peleg , Pita Alejandro , Sher Linda , Tahara Stanley M. , Ray Ratna B. , Liang Chengyu , Chen Lin , Tsukamoto Hidekazu , Machida Keigo 
Published: June 2020

AbstractTumor-initiating stem-like cells (TICs) are defective in maintaining asymmetric cell division and responsible for tumor recurrence. Cell-fate-determinant molecule NUMB-interacting protein (TBC1D15) is overexpressed and contributes to p53 degradation in TICs. Here we identify TBC1D15-mediated oncogenic mechanisms and tested the tumorigenic roles of TBC1D15 in vivo. We examined hepatocellular carcinoma (HCC) development in alcohol Western diet-fed hepatitis C virus NS5A Tg mice with hepatocyte-specific TBC1D15 deficiency or expression of non-phosphorylatable NUMB mutations. Liver-specific TBC1D15 deficiency or non-p-NUMB expression reduced TIC numbers and HCC development. TBC1D15–NuMA1 association impaired asymmetric division machinery by hijacking NuMA from LGN binding, thereby favoring TIC self-renewal. TBC1D15–NOTCH1 interaction activated and stabilized NOTCH1 which upregulated transcription of NANOG essential for TIC expansion. TBC1D15 activated three novel oncogenic pathways to promote self-renewal, p53 loss, and Nanog transcription in TICs. Thus, this central regulator could serve as a potential therapeutic target for treatment of HCC.
The integrated genomic and epigenomic landscape of brainstem glioma
Authors: Chen Lee H. , Pan Changcun , Diplas Bill H. , Xu Cheng , Hansen Landon J. , Wu Yuliang , Chen Xin , Geng Yibo , Sun Tao , Sun Yu , Zhang Peng , Wu Zhen , Zhang Junting , Li Deling , Zhang Yang , Wu Wenhao , Wang Yu , Li Guangyu , Yang Jie , Wang Xiaoyue , Xu Ce , Wang Sizhen , Waitkus Matthew S. , He Yiping , McLendon Roger E. , Ashley David M. , Yan Hai , Zhang Liwei 
Published: June 2020

AbstractBrainstem gliomas are a heterogeneous group of tumors that encompass both benign tumors cured with surgical resection and highly lethal cancers with no efficacious therapies. We perform a comprehensive study incorporating epigenetic and genomic analyses on a large cohort of brainstem gliomas, including Diffuse Intrinsic Pontine Gliomas. Here we report, from DNA methylation data, distinct clusters termed H3-Pons, H3-Medulla, IDH, and PA-like, each associated with unique genomic and clinical profiles. The majority of tumors within H3-Pons and-H3-Medulla harbors H3F3A mutations but shows distinct methylation patterns that correlate with anatomical localization within the pons or medulla, respectively. Clinical data show significantly different overall survival between these clusters, and pathway analysis demonstrates different oncogenic mechanisms in these samples. Our findings indicate that the integration of genetic and epigenetic data can facilitate better understanding of brainstem gliomagenesis and classification, and guide future studies for the development of novel treatments for this disease.
Were changes in stress state responsible for the 2019 Ridgecrest, California, earthquakes?
Authors: Nanjo K. Z. 
Published: June 2020

AbstractMonitoring the Earth’s stress state plays a role in our understanding of an earthquake’s mechanism and in the distribution of hazards. Crustal deformation due to the July 2019 earthquake sequence in Ridgecrest (California) that culminated in a preceding quake of magnitude (M) 6.4 and a subsequent M7.1 quake caused stress perturbation in a nearby region, but implications of future seismicity are still uncertain. Here, the occurrence of small earthquakes is compared to larger ones, using b-values, showing that the rupture initiation from an area of low b-values, indicative of high stress, was common to both M6.4 and M7.1 quakes. The post-M7.1-quake sequence reveals that another low-b-value zone, which avoided its ruptured area, fell into an area near the Garlock fault that hosted past large earthquakes. If this area were more stressed, there would be a high-likelihood of further activation of seismicity that might influence the Garlock fault.
Unconventional Hund metal in a weak itinerant ferromagnet
Authors: Chen Xiang , Krivenko Igor , Stone Matthew B. , Kolesnikov Alexander I. , Wolf Thomas , Reznik Dmitry , Bedell Kevin S. , Lechermann Frank , Wilson Stephen D. 
Published: June 2020

AbstractThe physics of weak itinerant ferromagnets is challenging due to their small magnetic moments and the ambiguous role of local interactions governing their electronic properties, many of which violate Fermi-liquid theory. While magnetic fluctuations play an important role in the materials’ unusual electronic states, the nature of these fluctuations and the paradigms through which they arise remain debated. Here we use inelastic neutron scattering to study magnetic fluctuations in the canonical weak itinerant ferromagnet MnSi. Data reveal that short-wavelength magnons continue to propagate until a mode crossing predicted for strongly interacting quasiparticles is reached, and the local susceptibility peaks at a coherence energy predicted for a correlated Hund metal by first-principles many-body theory. Scattering between electrons and orbital and spin fluctuations in MnSi can be understood at the local level to generate its non-Fermi liquid character. These results provide crucial insight into the role of interorbital Hund’s exchange within the broader class of enigmatic multiband itinerant, weak ferromagnets.
Pile-up transmission and reflection of topological defects at grain boundaries in colloidal crystals
Authors: Cao Xin , Panizon Emanuele , Vanossi Andrea , Manini Nicola , Tosatti Erio , Bechinger Clemens 
Published: June 2020

AbstractCrystalline solids typically contain large amounts of defects such as dislocations and interstitials. How they travel across grain boundaries (GBs) under external stress is crucial to understand the mechanical properties of polycrystalline materials. Here, we experimentally and theoretically investigate with single-particle resolution how the atomic structure of GBs affects the dynamics of interstitial defects driven across monolayer colloidal polycrystals. Owing to the complex inherent GB structure, we observe a rich dynamical behavior of defects near GBs. Below a critical driving force defects cannot cross GBs, resulting in their accumulation near these locations. Under certain conditions, defects are reflected at GBs, leading to their enrichment at specific regions within polycrystals. The channeling of defects within samples of specifically-designed GB structures opens up the possibility to design novel materials that are able to confine the spread of damage to certain regions.
Modifying angular and polarization selection rules of high-order harmonics by controlling electron trajectories in k-space
Authors: Sanari Yasuyuki , Otobe Tomohito , Kanemitsu Yoshihiko , Hirori Hideki 
Published: June 2020

AbstractRecent advances in generation of strong laser pulses have enabled the acceleration of electrons in solids into regions far away from the band edge. Because nonlinear currents can be generated by laser-driven carriers in the non-parabolic region, tailored laser fields may allow control of optical properties of high-order harmonics (HHs). So far, investigations on laser-induced nonlinear optical phenomena have focused on the simple electron motion induced by linearly or elliptically polarized fields. However, more complex trajectories can be important for development of novel optoelectronic devices. Here, we show that a weak laser field (optical frequency is ω2) applied in a direction orthogonal to a strong main field (ω1) enhances certain HH intensity components of bulk GaSe by a factor of 100. Good agreement between the experiments and calculations shows that manipulation of the electron trajectory allows breaking inversion symmetry of the electronic states felt by the accelerated electrons and leading to a modification of selection rules for frequency-mixing processes of HHs. Owing to our usage of non-integer multiples for ω1 and ω2, it is found that the generation of HHs constitutes a novel way of ultrafast control of light polarization and optical switching.
Cryo-EM structures of HKU2 and SADS-CoV spike glycoproteins provide insights into coronavirus evolution
Authors: Yu Jinfang , Qiao Shuyuan , Guo Runyu , Wang Xinquan 
Published: June 2020

AbstractPorcine coronavirus SADS-CoV has been identified from suckling piglets with severe diarrhea in southern China in 2017. The SADS-CoV genome shares ~95% identity to that of bat α-coronavirus HKU2, suggesting that SADS-CoV may have emerged from a natural reservoir in bats. Here we report the cryo-EM structures of HKU2 and SADS-CoV spike (S) glycoprotein trimers at 2.38 Å and 2.83 Å resolution, respectively. We systematically compare the domains of HKU2 spike with those of α-, β-, γ-, and δ-coronavirus spikes, showing that the S1 subunit N- and C-terminal domains of HKU2/SADS-CoV are ancestral domains in the evolution of coronavirus spike proteins. The connecting region after the fusion peptide in the S2 subunit of HKU2/SADS-CoV adopts a unique conformation. These results structurally demonstrate a close evolutionary relationship between HKU2/SADS-CoV and β-coronavirus spikes and provide insights into the evolution and cross-species transmission of coronaviruses.
Post-surgical adhesions are triggered by calcium-dependent membrane bridges between mesothelial surfaces
Authors: Fischer Adrian , Koopmans Tim , Ramesh Pushkar , Christ Simon , Strunz Maximilian , Wannemacher Juliane , Aichler Michaela , Feuchtinger Annette , Walch Axel , Ansari Meshal , Theis Fabian J. , Schorpp Kenji , Hadian Kamyar , Neumann Philipp-Alexander , Schiller Herbert B. , Rinkevich Yuval 
Published: June 2020

AbstractSurgical adhesions are bands of scar tissues that abnormally conjoin organ surfaces. Adhesions are a major cause of post-operative and dialysis-related complications, yet their patho-mechanism remains elusive, and prevention agents in clinical trials have thus far failed to achieve efficacy. Here, we uncover the adhesion initiation mechanism by coating beads with human mesothelial cells that normally line organ surfaces, and viewing them under adhesion stimuli. We document expansive membrane protrusions from mesothelia that tether beads with massive accompanying adherence forces. Membrane protrusions precede matrix deposition, and can transmit adhesion stimuli to healthy surfaces. We identify cytoskeletal effectors and calcium signaling as molecular triggers that initiate surgical adhesions. A single, localized dose targeting these early germinal events completely prevented adhesions in a preclinical mouse model, and in human assays. Our findings classifies the adhesion pathology as originating from mesothelial membrane bridges and offer a radically new therapeutic approach to treat adhesions.
Preparation of hundreds of microscopic atomic ensembles in optical tweezer arrays
Authors: Wang Yibo , Shevate Sayali , Wintermantel Tobias Martin , Morgado Manuel , Lochead Graham , Whitlock Shannon 
Published: June 2020

AbstractWe present programmable two-dimensional arrays of microscopic atomic ensembles consisting of more than 400 sites with nearly uniform filling and small atom number fluctuations. Our approach involves direct projection of light patterns from a digital micromirror device with high spatial resolution onto an optical pancake trap acting as a reservoir. This makes it possible to load large arrays of tweezers in a single step with high occupation numbers and low power requirements per tweezer. Each atomic ensemble is confined to ~1 μm3 with a controllable occupation from 20 to 200 atoms and with (sub)-Poissonian atom number fluctuations. Thus, they are ideally suited for quantum simulation and for realizing large arrays of collectively encoded Rydberg-atom qubits for quantum information processing.
Assessing morphological congruence in Dinobryon species and their stomatocysts, including a newly established Dinobryon pediforme–stomatocyst connection
Authors: Piątek Jolanta , Lenarczyk Joanna , Piątek Marcin 
Published: June 2020

AbstractThe chrysophyte genus Dinobryon Ehrenberg consists of 44 taxa, which occur in freshwaters, rarely marine waters, mostly in temperate regions of the world. The taxa of Dinobryon produce characteristic solitary or dendroid colonies and resting stages called stomatocysts. Only 20 Dinobryon taxa have information on produced stomatocysts and only four stomatocysts are reliably linked with vegetative stages using modern identification standards employing scanning electron microscopy (SEM) analyses. In this study, an encysted material of Dinobryon pediforme (Lemmermann) Steinecke was collected in two lakes in contrasting regions of Poland. Light microscopy (LM) and scanning electron microscopy (SEM) analyses revealed that Dinobryon pediforme produces stomatocyst #61, Piątek J. that is described here as new morphotype following the International Statospore Working Group (ISWG) guidelines. This raises to five the number of reliable links between vegetative stages of Dinobryon species and corresponding stomatocysts. Phenotypic similarities between Dinobryon species and their stomatocysts, analysed for five reliably established links, showed no relationships in size and shape between loricas and stomatocysts belonging to the same species. The morphological characters of loricas and stomatocysts mapped onto the phylogenetic tree of the five Dinobryon species revealed only little congruence between their morphology and phylogenetic relationships.
Unsupervised generative and graph representation learning for modelling cell differentiation
Authors: Bica Ioana , Andrés-Terré Helena , Cvejic Ana , Liò Pietro 
Published: June 2020

AbstractUsing machine learning techniques to build representations from biomedical data can help us understand the latent biological mechanism of action and lead to important discoveries. Recent developments in single-cell RNA-sequencing protocols have allowed measuring gene expression for individual cells in a population, thus opening up the possibility of finding answers to biomedical questions about cell differentiation. In this paper, we explore unsupervised generative neural methods, based on the variational autoencoder, that can model cell differentiation by building meaningful representations from the high dimensional and complex gene expression data. We use disentanglement methods based on information theory to improve the data representation and achieve better separation of the biological factors of variation in the gene expression data. In addition, we use a graph autoencoder consisting of graph convolutional layers to predict relationships between single-cells. Based on these models, we develop a computational framework that consists of methods for identifying the cell types in the dataset, finding driver genes for the differentiation process and obtaining a better understanding of relationships between cells. We illustrate our methods on datasets from multiple species and also from different sequencing technologies.
Genomic deregulation of PRMT5 supports growth and stress tolerance in chronic lymphocytic leukemia
Authors: Schnormeier Ann-Kathrin , Pommerenke Claudia , Kaufmann Maren , Drexler Hans G. , Koeppel Max 
Published: June 2020

AbstractPatients suffering from chronic lymphocytic leukemia (CLL) display highly diverse clinical courses ranging from indolent cases to aggressive disease, with genetic and epigenetic features resembling this diversity. Here, we developed a comprehensive approach combining a variety of molecular and clinical data to pinpoint translocation events disrupting long-range chromatin interactions and causing cancer-relevant transcriptional deregulation. Thereby, we discovered a B cell specific cis-regulatory element restricting the expression of genes in the associated locus, including PRMT5 and DAD1, two factors with oncogenic potential. Experimental PRMT5 inhibition identified transcriptional programs similar to those in patients with differences in PRMT5 abundance, especially MYC-driven and stress response pathways. In turn, such inhibition impairs factors involved in DNA repair, sensitizing cells for apoptosis. Moreover, we show that artificial deletion of the regulatory element from its endogenous context resulted in upregulation of corresponding genes, including PRMT5. Furthermore, such disruption renders PRMT5 transcription vulnerable to additional stimuli and subsequently alters the expression of downstream PRMT5 targets. These studies provide a mechanism of PRMT5 deregulation in CLL and the molecular dependencies identified might have therapeutic implementations.
Shotgun proteomics reveals putative polyesterases in the secretome of the rock-inhabiting fungus Knufia chersonesos
Authors: Tesei Donatella , Quartinello Felice , Guebitz Georg M. , Ribitsch Doris , Nöbauer Katharina , Razzazi-Fazeli Ebrahim , Sterflinger Katja 
Published: June 2020

AbstractKnufia chersonesos is an ascomycotal representative of black fungi, a morphological group of polyextremotolerant melanotic fungi, whose ability to resort to recalcitrant carbon sources makes it an interesting candidate for degradation purposes. A secretome screening towards polyesterases was carried out for the fungus and its non-melanized mutant, grown in presence of the synthetic copolyester Polybutylene adipate terephthalate (PBAT) as additional or sole carbon source, and resulted in the identification of 37 esterolytic and lipolytic enzymes across the established cultivation conditions. Quantitative proteomics allowed to unveil 9 proteins being constitutively expressed at all conditions and 7 which were instead detected as up-regulated by PBAT exposure. Protein functional analysis and structure prediction indicated similarity of these enzymes to microbial polyesterases of known biotechnological use such as MHETase from Ideonella sakaiensis and CalA from Candida antarctica. For both strains, PBAT hydrolysis was recorded at all cultivation conditions and primarily the corresponding monomers were released, which suggests degradation to the polymer’s smallest building block. The work presented here aims to demonstrate how investigations of the secretome can provide new insights into the eco-physiology of polymer degrading fungi and ultimately aid the identification of novel enzymes with potential application in polymer processing, recycling and degradation.