bluuebunny/crossref_metadata_2025_split huggingface dataset:
Light-driven biological actuators to probe the rheology of 3D microtissues
Authors: Méry Adrien , Ruppel Artur , Revilloud Jean , Balland Martial , Cappello Giovanni , Boudou Thomas 
Published: February 2023

AbstractThe mechanical properties of biological tissues are key to their physical integrity and function. Although external loading or biochemical treatments allow the estimation of these properties globally, it remains difficult to assess how such external stimuli compare with cell-generated contractions. Here we engineer microtissues composed of optogenetically-modified fibroblasts encapsulated within collagen. Using light to control the activity of RhoA, a major regulator of cellular contractility, we induce local contractions within microtissues, while monitoring microtissue stress and strain. We investigate the regulation of these local contractions and their spatio-temporal distribution. We demonstrate the potential of our technique for quantifying tissue elasticity and strain propagation, before examining the possibility of using light to create and map local anisotropies in mechanically heterogeneous microtissues. Altogether, our results open an avenue to guide the formation of tissues while non-destructively charting their rheology in real time, using their own constituting cells as internal actuators.
Loss of phosphatase CTDNEP1 potentiates aggressive medulloblastoma by triggering MYC amplification and genomic instability
Authors: Luo Zaili , Xin Dazhuan , Liao Yunfei , Berry Kalen , Ogurek Sean , Zhang Feng , Zhang Liguo , Zhao Chuntao , Rao Rohit , Dong Xinran , Li Hao , Yu Jianzhong , Lin Yifeng , Huang Guoying , Xu Lingli , Xin Mei , Nishinakamura Ryuichi , Yu Jiyang , Kool Marcel , Pfister Stefan M. , Roussel Martine F. , Zhou Wenhao , Weiss William A. , Andreassen Paul , Lu Q. Richard 
Published: February 2023

AbstractMYC-driven medulloblastomas are highly aggressive childhood brain tumors, however, the molecular and genetic events triggering MYC amplification and malignant transformation remain elusive. Here we report that mutations in CTDNEP1, a CTD nuclear-envelope-phosphatase, are the most significantly enriched recurrent alterations in MYC-driven medulloblastomas, and define high-risk subsets with poorer prognosis. Ctdnep1 ablation promotes the transformation of murine cerebellar progenitors into Myc-amplified medulloblastomas, resembling their human counterparts. CTDNEP1 deficiency stabilizes and activates MYC activity by elevating MYC serine-62 phosphorylation, and triggers chromosomal instability to induce p53 loss and Myc amplifications. Further, phosphoproteomics reveals that CTDNEP1 post-translationally modulates the activities of key regulators for chromosome segregation and mitotic checkpoint regulators including topoisomerase TOP2A and checkpoint kinase CHEK1. Co-targeting MYC and CHEK1 activities synergistically inhibits CTDNEP1-deficient MYC-amplified tumor growth and prolongs animal survival. Together, our studies demonstrate that CTDNEP1 is a tumor suppressor in highly aggressive MYC-driven medulloblastomas by controlling MYC activity and mitotic fidelity, pointing to a CTDNEP1-dependent targetable therapeutic vulnerability.
Strong charge carrier scattering at grain boundaries of PbTe caused by the collapse of metavalent bonding
Authors: Wu Riga , Yu Yuan , Jia Shuo , Zhou Chongjian , Cojocaru-Mirédin Oana , Wuttig Matthias 
Published: February 2023

AbstractGrain boundaries (GBs) play a significant role in controlling the transport of mass, heat and charge. To unravel the mechanisms underpinning the charge carrier scattering at GBs, correlative microscopy combined with local transport measurements is realized. For the PbTe material, the strength of carrier scattering at GBs depends on its misorientation angle. A concomitant change in the barrier height is observed, significantly increasing from low- to high-angle GBs. Atom probe tomography measurements reveal a disruption of metavalent bonding (MVB) at the dislocation cores of low-angle GBs, as evidenced by the abrupt change in bond-rupture behavior. In contrast, MVB is completely destroyed at high-angle GBs, presumably due to the increased Peierls distortion. The collapse of MVB is accompanied by a breakdown of the dielectric screening, which explains the enlarged GB barrier height. These findings correlate charge carrier scattering with bonding locally, promising new avenues for the design of advanced functional materials.
Hedgehog is relayed through dynamic heparan sulfate interactions to shape its gradient
Authors: Gude Fabian , Froese Jurij , Manikowski Dominique , Di Iorio Daniele , Grad Jean-Noël , Wegner Seraphine , Hoffmann Daniel , Kennedy Melissa , Richter Ralf P. , Steffes Georg , Grobe Kay 
Published: February 2023

AbstractCellular differentiation is directly determined by concentration gradients of morphogens. As a central model for gradient formation during development, Hedgehog (Hh) morphogens spread away from their source to direct growth and pattern formation in Drosophila wing and eye discs. What is not known is how extracellular Hh spread is achieved and how it translates into precise gradients. Here we show that two separate binding areas located on opposite sides of the Hh molecule can interact directly and simultaneously with two heparan sulfate (HS) chains to temporarily cross-link the chains. Mutated Hh lacking one fully functional binding site still binds HS but shows reduced HS cross-linking. This, in turn, impairs Hhs ability to switch between both chains in vitro and results in striking Hh gradient hypomorphs in vivo. The speed and propensity of direct Hh switching between HS therefore shapes the Hh gradient, revealing a scalable design principle in morphogen-patterned tissues.
Wireless, multimodal sensors for continuous measurement of pressure, temperature, and hydration of patients in wheelchair
Authors: Cho Seokjoo , Han Hyeonseok , Park Hyunwoo , Lee Sung-Uk , Kim Jae-Hwan , Jeon Sung Woo , Wang Mengqiu , Avila Raudel , Xi Zhaoqian , Ko Kabseok , Park Minsu , Lee Jungyup , Choi Myungwoo , Lee Je-Sang , Min Weon Gi , Lee Byeong-Ju , Lee Soyeong , Choi Jungrak , Gu Jimin , Park Jaeho , Kim Min Seong , Ahn Junseong , Gul Osman , Han Chankyu , Lee Gihun , Kim Seunghwan , Kim Kyuyoung , Kim Jeonghyun , Kang Chang-Mo , Koo Jahyun , Kwak Sung Soo , Kim Sungbong , Choi Dong Yun , Jeon Seokwoo , Sung Hyung Jin , Park Yong Bae , Je Minkyu , Cho Young Tae , Oh Yong Suk , Park Inkyu 
Published: February 2023

AbstractIndividuals who are unable to walk independently spend most of the day in a wheelchair. This population is at high risk for developing pressure injuries caused by sitting. However, early diagnosis and prevention of these injuries still remain challenging. Herein, we introduce battery-free, wireless, multimodal sensors and a movable system for continuous measurement of pressure, temperature, and hydration at skin interfaces. The device design includes a crack-activated pressure sensor with nanoscale encapsulations for enhanced sensitivity, a temperature sensor for measuring skin temperature, and a galvanic skin response sensor for measuring skin hydration levels. The movable system enables power harvesting, and data communication to multiple wireless devices mounted at skin-cushion interfaces of wheelchair users over full body coverage. Experimental evaluations and numerical simulations of the devices, together with clinical trials for wheelchair patients, demonstrate the feasibility and stability of the sensor system for preventing pressure injuries caused by sitting.
Generation of a high yield vaccine backbone for influenza B virus in embryonated chicken eggs
Authors: Aslam Sadaf , Rajendran Madhusudan , Kriti Divya , Kurland Andrew , Johnson Jeffrey , van Bakel Harm , Krammer Florian , García-Sastre Adolfo , Ayllon Juan 
Published: February 2023

AbstractInfluenza B virus (IBV) strains are one of the components of seasonal influenza vaccines in both trivalent and quadrivalent formulations. The vast majority of these vaccines are produced in embryonated chickens’ eggs. While optimized backbones for vaccine production in eggs exist and are in use for influenza A viruses, no such backbones exist for IBVs, resulting in unpredictable production yields. To generate an optimal vaccine seed virus backbone, we have compiled a panel of 71 IBV strains from 1940 to present day, representing the known temporal and genetic variability of IBV circulating in humans. This panel contains strains from the B/Victoria/2/87-like lineage, B/Yamagata/16/88-like lineage and the ancestral lineage that preceded their split to provide a diverse set that would help to identify a suitable backbone which can be used in combination with hemagglutinin (HA) and neuraminidase (NA) glycoproteins from any IBV strain to be incorporated into the seasonal vaccine. We have characterized and ranked the growth profiles of the 71 IBV strains and the best performing strains were used for co-infection of eggs, followed by serial passaging to select for high-growth reassortant viruses. After serial passaging, we selected 10 clonal isolates based on their growth profiles assessed by hemagglutination and plaque-forming units. We then generated reverse genetics systems for the three clones that performed best in growth curves. The selected backbones were then used to generate different reassortant viruses with HA/NA combinations from high and low titer yielding wild type IBV. When the growth profiles of the recombinant reassortant viruses were tested, the low titer yielding HA/NA viruses with the selected backbones yielded higher titers similar to those from high titer yielding HA/NA combinations. The use of these IBV backbones with improved replication in eggs might increase yields for the influenza B virus components of seasonal influenza virus vaccines.
Characterization of antibiotic resistomes by reprogrammed bacteriophage-enabled functional metagenomics in clinical strains
Authors: Apjok Gábor , Számel Mónika , Christodoulou Chryso , Seregi Viktória , Vásárhelyi Bálint Márk , Stirling Tamás , Eszenyi Bálint , Sári Tóbiás , Vidovics Fanni , Nagrand Erika , Kovács Dorina , Szili Petra , Lantos Ildikó Ilona , Méhi Orsolya , Jangir Pramod K. , Herczeg Róbert , Gálik Bence , Urbán Péter , Gyenesei Attila , Draskovits Gábor , Nyerges Ákos , Fekete Gergely , Bodai László , Zsindely Nóra , Dénes Béla , Yosef Ido , Qimron Udi , Papp Balázs , Pál Csaba , Kintses Bálint 
Published: February 2023

AbstractFunctional metagenomics is a powerful experimental tool to identify antibiotic resistance genes (ARGs) in the environment, but the range of suitable host bacterial species is limited. This limitation affects both the scope of the identified ARGs and the interpretation of their clinical relevance. Here we present a functional metagenomics pipeline called Reprogrammed Bacteriophage Particle Assisted Multi-species Functional Metagenomics (DEEPMINE). This approach combines and improves the use of T7 bacteriophage with exchanged tail fibres and targeted mutagenesis to expand phage host-specificity and efficiency for functional metagenomics. These modified phage particles were used to introduce large metagenomic plasmid libraries into clinically relevant bacterial pathogens. By screening for ARGs in soil and gut microbiomes and clinical genomes against 13 antibiotics, we demonstrate that this approach substantially expands the list of identified ARGs. Many ARGs have species-specific effects on resistance; they provide a high level of resistance in one bacterial species but yield very limited resistance in a related species. Finally, we identified mobile ARGs against antibiotics that are currently under clinical development or have recently been approved. Overall, DEEPMINE expands the functional metagenomics toolbox for studying microbial communities.
Imaging ferroelectric domains with a single-spin scanning quantum sensor
Authors: Huxter William S. , Sarott Martin F. , Trassin Morgan , Degen Christian L. 
Published: February 2023

AbstractThe ability to sensitively image electric fields is important for understanding many nanoelectronic phenomena, including charge accumulation at surfaces1 and interfaces2 and field distributions in active electronic devices3. A particularly exciting application is the visualization of domain patterns in ferroelectric and nanoferroic materials4,5, owing to their potential in computing and data storage6–8. Here, we use a scanning nitrogen-vacancy (NV) microscope, well known for its use in magnetometry9, to image domain patterns in piezoelectric (Pb[Zr0.2Ti0.8]O3) and improper ferroelectric (YMnO3) materials through their electric fields. Electric field detection is enabled by measuring the Stark shift of the NV spin10,11 using a gradiometric detection scheme12. Analysis of the electric field maps allows us to discriminate between different types of surface charge distributions, as well as to reconstruct maps of the three-dimensional electric field vector and charge density. The ability to measure both stray electric and magnetic fields9,13 under ambient conditions opens opportunities for the study of multiferroic and multifunctional materials and devices8,14.
Freezing-induced wetting transitions on superhydrophobic surfaces
Authors: Lambley Henry , Graeber Gustav , Vogt Raphael , Gaugler Leon C. , Baumann Enea , Schutzius Thomas M. , Poulikakos Dimos 
Published: February 2023

AbstractSupercooled droplet freezing on surfaces occurs frequently in nature and industry, often adversely affecting the efficiency and reliability of technological processes. The ability of superhydrophobic surfaces to rapidly shed water and reduce ice adhesion make them promising candidates for resistance to icing. However, the effect of supercooled droplet freezing—with its inherent rapid local heating and explosive vaporization—on the evolution of droplet–substrate interactions, and the resulting implications for the design of icephobic surfaces, are little explored. Here we investigate the freezing of supercooled droplets resting on engineered textured surfaces. On the basis of investigations in which freezing is induced by evacuation of the atmosphere, we determine the surface properties required to promote ice self-expulsion and, simultaneously, identify two mechanisms through which repellency falters. We elucidate these outcomes by balancing (anti-)wetting surface forces with those triggered by recalescent freezing phenomena and demonstrate rationally designed textures to promote ice expulsion. Finally, we consider the complementary case of freezing at atmospheric pressure and subzero temperature, where we observe bottom-up ice suffusion within the surface texture. We then assemble a rational framework for the phenomenology of ice adhesion of supercooled droplets throughout freezing, informing ice-repellent surface design across the phase diagram.
Physical properties of computationally informed phyto-engineered 2-D nanoscaled hydronium jarosite
Authors: Botha N. L. , Cloete K. J. , Welegergs G. G. , Akbari M. , Morad R. , Kotsedi L. , Matinise N. , Bucher R. , Azizi S. , Maaza M. 
Published: February 2023

AbstractThis study describes a molecular dynamics computational modelling informed bioengineering of nano-scaled 2-D hydronium jarosite. More specifically, a phyto-engineering approach using green nano-chemistry and agro-waste in the form of avocado seed natural extract was utilized as a green, economic, and eco-friendly approach to synthesize this unique mineral at the nanoscale via the reduction of iron (II) sulphate heptahydrate. The nanoproduct which was found to exhibit a quasi-2D structure was characterized using a multi-technique approach to describe its morphological, optical, electrochemical, and magnetic properties. Radial distribution function and electrostatic potential maps revealed that flavone, a phenolic compound within the avocado seed natural extract, has a higher affinity of interaction with the nanoparticle's surface, whilst vanillic acid has a higher wetting tendency and thus a lower affinity for interacting with the hydronium jarosite nanoparticle surface compared to other phytoactive compounds. XRD and HRTEM results indicated that the nanoscale product was representative of crystalline rhombohedral hydronium jarosite in the form of quasi-triangular nanosheets decorated on the edges with nanoparticles of approximately 5.4 nm diameter that exhibited significant electrochemical and electroconductive behaviours. Magnetic studies further showed a diamagnetic behaviour based on the relationship of the inverse susceptibility of the nanomaterial with temperature sweep.
Identifying links between monsoon variability and rice production in India through machine learning
Authors: Bowden Christopher , Foster Timothy , Parkes Ben 
Published: February 2023

AbstractClimate change poses a major threat to global food security. Agricultural systems that rely on monsoon rainfall are especially vulnerable to changes in climate variability. This paper uses machine learning to deepen understanding of how monsoon variability impacts agricultural productivity. We demonstrate that random forest modelling is effective in representing rice production variability in response to monsoon weather variability. Our random forest modelling found monsoon weather predictors explain similar levels of detrended anomaly variation in both rice yield (33%) and area harvested (35%). The role of weather in explaining harvested rice area highlights that production area changes are an important pathway through which weather extremes impact agricultural productivity, which may exacerbate losses that occur through changes in per-area yields. We find that downwelling shortwave radiation flux is the most important weather variable in explaining variation in yield anomalies, with proportion of area under irrigation being the most important predictor overall. Machine learning modelling is capable of representing crop-climate variability in monsoonal agriculture and reveals additional information compared to traditional parametric models. For example, non-linear yield and area responses of irrigation, monsoon onset and season length all match biophysical expectations. Overall, we find that random forest modelling can reveal complex non-linearities and interactions between climate and rice production variability.
Comprehensive analysis of the correlation of the pan-cancer gene HAUS5 with prognosis and immune infiltration in liver cancer
Authors: Zhang Wenbing , Yang Chi , Hu Yan , Yi Ke , Xiao Wangwen , Xu Xiaohui , Chen Zhihua 
Published: February 2023

AbstractLiver hepatocellular carcinoma (LIHC) is one of the most common malignancies and places a heavy burden on patients worldwide. HAUS augmin-like complex subunit 5 (HAUS5) is involved in the occurrence and development of various cancers. However, the functional role and significance of HAUS5 in LIHC remain unclear. The Cancer Genome Atlas (TCGA), Genotype-Tissue Expression (GTEx), Cancer Cell Line Encyclopedia (CCLE) and Gene Expression Omnibus (GEO) databases were used to analyze the mRNA expression of HAUS5. The value of HAUS5 in predicting LIHC prognosis and the relationship between HAUS5 and clinicopathological features were assessed by the Kaplan–Meier plotter and UALCAN databases. Functional enrichment analyses and nomogram prediction model construction were performed with the R packages. The LinkedOmics database was searched to reveal co-expressed genes associated with HAUS5. The relationship between HAUS5 expression and immune infiltration was explored by searching the TISIDB database and single-sample gene set enrichment analysis (ssGSEA). The Clinical Proteomic Tumor Analysis Consortium (CPTAC) and the Human Protein Atlas (HPA) databases were used to evaluate HAUS5 protein expression. Finally, the effect of HAUS5 on the proliferation of hepatoma cells was verified by CCK-8, colony formation and EdU assays. HAUS5 is aberrantly expressed and associated with a poor prognosis in most tumors, including LIHC. The expression of HAUS5 is significantly correlated with clinicopathological indicators in patients with LIHC. Functional enrichment analysis showed that HAUS5 was closely related to DNA replication, cell cycle and p53 signaling pathway. HAUS5 may serve as an independent risk factor for LIHC prognosis. The nomogram based on HAUS5 had area under the curve (AUC) values of 0.74 and 0.77 for predicting the 3-year and 5-year overall survival (OS) of LIHC patients. Immune correlation analysis showed that HAUS5 was significantly associated with immune infiltration. Finally, the results of in vitro experiments showed that when HAUS5 was knocked down, the proliferation of hepatoma cells was significantly decreased. The pan-oncogene HAUS5 is a positive regulator of LIHC progression and is closely associated with a poor prognosis in LIHC. Moreover, HAUS5 is involved in immune infiltration in LIHC. HAUS5 may be a new prognostic marker and therapeutic target for LIHC patients.
A comparison of patient dose and occupational eye dose to the operator and nursing staff during transcatheter cardiac and endovascular procedures
Authors: Wilson-Stewart Kelly S. , Fontanarosa Davide , Malacova Eva , Trapp Jamie V. 
Published: February 2023

AbstractThe number and complexity of transcatheter procedures continue to increase, raising concerns regarding radiation exposure to patients and staff. Procedures such as transaortic valve implantations (TAVI) have led to cardiologists adopting higher dose techniques, such as digital subtraction angiography (DSA). This study compared the estimated patient and occupational eye dose during coronary angiography (CA), percutaneous coronary intervention (PCI), TAVI workups (TWU), TAVI, endovascular aneurysm repairs (EVAR), and other peripheral diagnostic (VD) and interventional (VI) vascular procedures. A quantitative analysis was performed on patient dose during 299 endovascular and 1498 cardiac procedures. Occupational dose was measured for the cardiologists (n = 24), vascular surgeons (n = 3), scrub (n = 32) and circulator nurses (n = 35). TAVI and EVAR were associated with the highest average dose for all staff, and significantly higher patient dose area product, probably attributable to the use of DSA. Scrub nurses were exposed to higher average doses than the operator and scout nurse during CA, VD and VI. Circulating nurses had the highest average levels of exposure during TAVI. This study has demonstrated that EVAR and TAVI have similar levels of occupational and patient dose, with a notable increase in circulator dose during TAVI. The use of DSA during cardiac procedures is associated with an increase in patient and staff dose, and cardiologists should evaluate whether DSA is necessary. Scrub nurses may be exposed to higher levels of occupational dose than the operator.