bluuebunny/crossref_metadata_2025_split huggingface dataset:
A C/ebpα isoform specific differentiation program in immortalized myelocytes
Authors: Garcia-Cuellar Maria-Paz , Akan Selin , Slany Robert K. 
Published: August 2023

AbstractThe transcription factor CCAAT-enhancer binding factor alpha (C/ebpα) is a master controller of myeloid differentiation that is expressed as long (p42) and short (p30) isoform. Mutations within the CEBPA gene selectively deleting p42 are frequent in human acute myeloid leukemia. Here we investigated the individual genomics and transcriptomics of p42 and p30. Both proteins bound to identical sites across the genome. For most targets, they induced a highly similar transcriptional response with the exception of a few isoform specific genes. Amongst those we identified early growth response 1 (Egr1) and tribbles1 (Trib1) as key targets selectively induced by p42 that are also underrepresented in CEBPA-mutated AML. Egr1 executed a program of myeloid differentiation and growth arrest. Oppositely, Trib1 established a negative feedback loop through activation of Erk1/2 kinase thus placing differentiation under control of signaling. Unexpectedly, differentiation elicited either by removal of an oncogenic input or by G-CSF did not peruse C/ebpα as mediator but rather directly affected the cell cycle core by upregulation of p21/p27 inhibitors. This points to functions downstream of C/ebpα as intersection point where transforming and differentiation stimuli converge and this finding offers a new perspective for therapeutic intervention.
Temporally resolved SMLM (with large PAR shift) enabled visualization of dynamic HA cluster formation and migration in a live cell
Authors: Basumatary Jigmi , Baro Neptune , Zanacchi Fancesca Cella , Mondal Partha Pratim 
Published: August 2023

AbstractThe blinking properties of a single molecule are critical for single-molecule localization microscopy (SMLM). Typically, SMLM techniques involve recording several frames of diffraction-limited bright spots of single-molecules with a detector exposure time close to the blinking period. This sets a limit on the temporal resolution of SMLM to a few tens of milliseconds. Realizing that a substantial fraction of single molecules emit photons for time scales much shorter than the average blinking period, we propose accelerating data collection to capture these fast emitters. Here, we put forward a short exposure-based SMLM (shortSMLM) method powered by sCMOS detector for understanding dynamical events (both at single molecule and ensemble level). The technique is demonstrated on an Influenza-A disease model, where NIH3T3 cells (both fixed and live cells) were transfected by Dendra2-HA plasmid DNA. Analysis shows a 2.76-fold improvement in the temporal resolution that comes with a sacrifice in spatial resolution, and a particle resolution shift PAR-shift (in terms of localization precision) of $$\sim$$
∼
11.82 nm compared to standard SMLM. We visualized dynamic HA cluster formation in transfected cells post 24 h of DNA transfection. It is noted that a reduction in spatial resolution does not substantially alter cluster characteristics (cluster density, $$\#$$
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molecules/cluster, cluster spread, etc.) and, indeed, preserves critical features. Moreover, the time-lapse imaging reveals the dynamic formation and migration of Hemagglutinin (HA) clusters in a live cell. This suggests that $$short-SMLM$$

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using a synchronized high QE sCMOS detector (operated at short exposure times) is excellent for studying temporal dynamics in cellular system.
Nintedanib administration after the onset of acute exacerbation of interstitial lung disease in the real world
Authors: Kato Motoyasu , Sasaki Shinichi , Mori Wataru , Kohmaru Makiko , Akimoto Takashi , Hayakawa Eri , Soma Soichiro , Arai Yuta , Matsubara Naho Sakamoto , Nakazawa Shun , Sueyasu Takuto , Hirakawa Haruki , Motomura Hiroaki , Sumiyoshi Issei , Ochi Yusuke , Watanabe Junko , Hoshi Kazuaki , Kadoya Kotaro , Ihara Hiroaki , Hou Jia , Togo Shinsaku , Takahashi Kazuhisa 
Published: August 2023

AbstractNintedanib reduces the decline in forced vital capacity and extends the time to the first acute exacerbation of interstitial lung disease (AE-ILD). However, the effect of additional nintedanib administration after AE-ILD onset is unknown. This study aimed to investigate the efficacy and safety of nintedanib administration after AE-ILD development. We retrospectively collected the data of 33 patients who developed AE-ILD between April 2014 and January 2022. Eleven patients who received nintedanib after AE-ILD development and the remaining who did not were classified into the N and No-N groups, respectively. The survival time in the N group tended to be longer than that in the No-N group. The generalized Wilcoxson test revealed that the cumulative mortality at 90 days from AE-ILD onset was significantly lower in the N group. The time to subsequent AE-ILD development was significantly longer in the N group than that in the No-N group. The incidence of adverse gastrointestinal effects and liver dysfunction in the N group was 9–18%. Treatment without nintedanib after AE-ILD development and the ratio of arterial oxygen partial pressure to fractional inspired oxygen were significant independent prognostic factors in the multivariate analysis. Thus, nintedanib administration may be a treatment option for AE-ILD.
Physiological and proteomic changes of Castanopsis fissa in response to drought stress
Authors: Li Chaonan , Chen Sanxiong , Wang Yi 
Published: August 2023

AbstractCastanopsis fissa is a native, broadleaf tree species in Guangdong with characteristics of barrenness and fast growth and is often used as a pioneer species for vegetation restoration with excellent ecological benefits. To explore the response of C.fissa to drought, this study investigated the drought tolerance mechanism of C.fissa using physiological and proteomic assessments. Using a potted continuous drought experimental method with normal water supply as a control, we measured photosynthetic parameters, antioxidant enzyme activities, and osmoregulatory substances of C. fissa in response to drought stress for 1 to 4 weeks, respectively. In addition, we used TMT quantitative proteomics to identify differentially expressed proteins (DEPs) between the drought-stress-treated C. fissa leaves and the control leaves. With the extension of drought stress time, the photosynthetic indexes and peroxidase (POD) activity of C. fissa leaves showed a decreasing trend. The malondialdehyde (MDA) content; superoxide Dismutase (SOD) and catalase (CAT) activities; and proline (Pro), soluble sugar (SS) and soluble protein (SP) contents showed an overall increasing trend, all of which reached significant differences at 4 w of stress. We identified 177 and 529 DEPs in the 2 and 4 weeks drought-stress leaves, respectively, in reference to the control leaves. These DEPs were closely related to physiological metabolic processes such as photosynthesis, energy and carbohydrate metabolism, stress response and defense, transcriptional regulation, and signal ion transduction. Drought stress mainly affects photosynthesis, carbohydrate metabolism, and protein synthesis and degradation in C. fissa leaves. At 2 weeks of stress, the expression of carbon metabolism, pyruvate metabolism and ribosome-related proteins was significantly changed, however, and at 4 weeks of stress, protein processing in the endoplasmic reticulum and spliceosome-related proteins were significantly increased in plant leaves. To alleviate the effect of water unavailability, the drought-stressed C.fissa leaves increased its oxidative protective enzyme system to eliminate excess reactive oxygen species (ROS) and also increased its Pro and SP contents to maintain the intracellular osmotic potential balance.
First stage of labour duration and associated risk of adverse neonatal outcomes
Authors: Lundborg Louise , Åberg Katarina , Sandström Anna , Liu Xingrong , Tilden Ellen L. , Bolk Jenny , Ladfors Linnea V. , Stephansson Olof , Ahlberg Mia 
Published: August 2023

AbstractPrior evidence evaluating the benefits and harms of expectant labour duration during active first stage is inconclusive regarding potential consequences for the neonate. Population-based cohort study in Stockholm-Gotland region, Sweden, including 46,040 women (Robson 1), between October 1st, 2008 and June 15th, 2020. Modified Poisson regression was used for the association between active first stage of labour duration and adverse neonatal outcomes. 94.2% experienced a delivery with normal neonatal outcomes. Absolute risk for severe outcomes increased from 1.9 to 3.0%, moderate outcomes increased from 2.8 to 6.2% (> 10.1 h). Compared to the reference, (< 5.1 h; median), the adjusted relative risk (aRR) of severe neonatal outcome significantly increased beyond 10.1 h (> 90th percentile) (aRR 1.53, 95% CI 1.26, 1.87), for moderate neonatal outcome the aRR began to slowly increase beyond 5.1 h (≥ 50 percentile; aRR 1.40, 95% CI 1.24, 1.58). Mediation analysis indicate that most of the association was due to a longer active first stage of labour, 13% (severe neonatal outcomes) and 20% (moderate neonatal outcomes) of the risk was mediated (indirect effect) by longer second stage of labour duration. We report an association between increasing active first stage duration and increased risk of adverse neonatal outcomes. We did not observe a clear labour duration risk threshold.
Bayesian reconstruction of magnetic resonance images using Gaussian processes
Authors: Xu Yihong , Farris Chad W. , Anderson Stephan W. , Zhang Xin , Brown Keith A. 
Published: August 2023

AbstractA central goal of modern magnetic resonance imaging (MRI) is to reduce the time required to produce high-quality images. Efforts have included hardware and software innovations such as parallel imaging, compressed sensing, and deep learning-based reconstruction. Here, we propose and demonstrate a Bayesian method to build statistical libraries of magnetic resonance (MR) images in k-space and use these libraries to identify optimal subsampling paths and reconstruction processes. Specifically, we compute a multivariate normal distribution based upon Gaussian processes using a publicly available library of T1-weighted images of healthy brains. We combine this library with physics-informed envelope functions to only retain meaningful correlations in k-space. This covariance function is then used to select a series of ring-shaped subsampling paths using Bayesian optimization such that they optimally explore space while remaining practically realizable in commercial MRI systems. Combining optimized subsampling paths found for a range of images, we compute a generalized sampling path that, when used for novel images, produces superlative structural similarity and error in comparison to previously reported reconstruction processes (i.e. 96.3% structural similarity and < 0.003 normalized mean squared error from sampling only 12.5% of the k-space data). Finally, we use this reconstruction process on pathological data without retraining to show that reconstructed images are clinically useful for stroke identification. Since the model trained on images of healthy brains could be directly used for predictions in pathological brains without retraining, it shows the inherent transferability of this approach and opens doors to its widespread use.
Development of a green metallochromic indicator for selective and visual detection of copper(II) ions
Authors: Minabi-Nezhad Mehran , Moeinpour Farid , Mohseni-Shahri Fatemeh S. 
Published: August 2023

AbstractHeavy metal ions, i.e., copper(II) (Cu(II)), are harmful to the environment and our health. The current research established an eco-friendly and efficient metal-sensitive indicator, which can identify Cu(II) ions in both liquid and solid forms, by utilizing anthocyanin extract obtained from jambolao fruit (Syzgium cumini) that is incorporated within bacterial cellulose nanofibers (BCNF).The CIE Lab color parameters demonstrated that Cu(II) binding causes a sensible change in color. It was observed that the visible color altered with an increase in the Cu(II) concentration. The bacterial cellulose nanofibers that were altered with anthocyanin were analyzed using ATR-FTIR and FESEM. The sensor's selectivity was tested by using a range of metal ions such as lead (Pb2+), cobalt (Co2+), cadmium (Cd2+), nickel (Ni2+), aluminium (Al3+), barium (Ba2+), manganese (Mn2+), zinc (Zn2+), mercury (Hg2+) and sodium (Na+). The findings demonstrated that the suggested sensor showed excellent selectivity toward Cu(II) ion. Cu(II) can be accurately identified using the sensing technique, with detection limits ranging from 10–400 ppm and 50–500 ppm for liquid and solid samples, respectively, and through observation with naked eye. The fabricated green metallochromic sensor is promising to be a simple, cheap, mobile and easily operable for the real-time and on-site detection of Cu(II) ion.
Synthesis and characterization of lead-based metal–organic framework nano-needles for effective water splitting application
Authors: Eliwa Ayman S. , Hefnawy Mahmoud A. , Medany Shymaa S. , Deghadi Reem G. , Hosny Wafaa M. , Mohamed Gehad G. 
Published: August 2023

AbstractMetal organic frameworks (MOFs) are a class of porous materials characterized by robust linkages between organic ligands and metal ions. Metal–organic frameworks (MOFs) exhibit significant characteristics such as high porosity, extensive surface area, and exceptional chemical stability, provided the constituent components are meticulously selected. A metal–organic framework (MOF) containing lead and ligands derived from 4-aminobenzoic acid and 2-carboxybenzaldehyde has been synthesized using the sonochemical methodology. The crystals produced were subjected to various analytical techniques such as Fourier-transform infrared spectroscopy (FT-IR), Powder X-ray diffraction (PXRD), scanning electron microscopy (SEM), energy dispersive X-ray (EDX), Brunauer–Emmett–Teller (BET), and thermal analysis. The BET analysis yielded results indicating a surface area was found to be 1304.27 m2 g−1. The total pore volume was estimated as 2.13 cm3 g−1 with an average pore size of 4.61 nm., rendering them highly advantageous for a diverse range of practical applications. The activity of the modified Pb-MOF electrode was employed toward water-splitting applications. The electrode reached the current density of 50 mA cm−2 at an overpotential of − 0.6 V (vs. RHE) for hydrogen evolution, and 50 mA cm−2 at an overpotential of 1.7 V (vs. RHE) for oxygen evolution.
Frictional melting mechanisms of rocks during earthquake fault slip
Authors: Woo Sangwoo , Han Raehee , Oohashi Kiyokazu 
Published: August 2023

AbstractRapid slip, at rates in the order of 1 m/s or more, may induce frictional melting in rocks during earthquakes. The short-lived melting has been thought to be a disequilibrium process, for decades. We conducted frictional melting experiments on acidic, basic, and ultrabasic silicate rocks at a slip rate of 1.3 m/s. The experiments and microstructural observations reveal that all minerals in the rocks are melted at temperatures below their known melting temperatures (Tm); e.g., quartz is melted at ~ 1000–1200 °C, not ~ 1720 °C, while olivine at ~ 1300 °C, rather than ~ 1700 °C. The low-temperature melting is incompatible with the conventional disequilibrium melting, and may be caused predominantly by grain size reduction and phase boundary reactions during the early and later stages of slip, respectively. The newly estimated Tmand the melting mechanisms should be considered for understanding the mechanics of earthquakes, landslides, and caldera collapses.
Hyperuricemia is accompanied by elevated peripheral CD4+ T cells
Authors: Yu Qiuyang , Sun Zhengyi , Wang Ying , Du Xue , Huang Jing , Wang Liying 
Published: August 2023

AbstractHyperuricemia (HUA) makes a chronic inflammation status, which affects immune cells. The association between HUA and immune cells, such as monocytes and neutrophils, has been extensively studied. However, studies on HUA and lymphocytes are still limited. We selected 1543 healthy participants and 258 individuals with HUA to analyze the correlation between serum uric acid (SUA) levels and immune cells, and 98 healthy participants and 16 individuals with HUA were used to study the relationship between SUA levels and cytokine levels. Then, we used soluble UA to stimulate peripheral blood mononuclear cells in vitro and examined lymphocyte subset counts and activation by flow cytometry. The results revealed that the number of lymphocytes in the HUA group was significantly increased, particularly CD4+ T cell numbers, which were higher than those in the total population (P = 0.0019), females (P = 0.0142), and males (P = 0.0199) of the healthy control group. Concomitantly, interleukin (IL)-4 and IL-10 levels significantly increased in people with HUA (P = 0.0254; P = 0.0019). In vitro, soluble UA promoted the proliferation and activation of CD4+ T and CD19+ B cells. Thus, HUA is accompanied by elevated peripheral CD4+ T cells and may cause a Th2-dominant immune status.
A prophylactic TXA administration effectively reduces the risk of intraoperative bleeding during open management of pelvic and acetabular fractures
Authors: Kenmegne Guy Romeo , Zou Chang , Lin Yixiang , Yin Yijie , Huang Shenbo , Banneyake Erandathie Lasanda , Gunasekera Imani Savishka , Fang Yue 
Published: August 2023

AbstractThis study aimed to evaluate the efficacy of perioperative intravenous TXA in reducing blood loss in pelvic and acetabular fracture patients managed surgically. The study included 306 consecutive patients, divided as: group I, 157 patients who did not receive perioperative infusion of TXA and group II, 149 patients who received perioperative TXA. The perioperative blood test results and complication rates were compared between the two groups. The average perioperative hematocrit was higher during the preoperative period than during the first, second and third postoperative day in both groups. In the estimated blood loss between the two groups, there was a significant difference of 1391 (± 167.49) ml in group I and 725 (± 403.31) ml in group II respectively (p = 0.02). No significant difference was seen in the total of intraoperative transfusion units as well as in the total units of blood transfused. There was a reduced level of postoperative hemoglobin (9.28 ± 17.88 g/dl in group I and 10.06 ± 27.57 g/dl in group II compared to the values obtained in preoperative investigations (10.4 ± 2.37 g/dl in group I and 11.4 ± 2.08 g/dl in group II); with a significant difference in postoperative transfusion rates (p = 0.03). Therefore, the use of TXA effectively reduces the risk of intraoperative bleeding during open management of pelvic and acetabular fractures.
Dickkopf1 induces enteric neurogenesis and gliogenesis in vitro if apoptosis is evaded
Authors: Scharr Melanie , Scherer Simon , Hirt Bernhard , Neckel Peter H. 
Published: August 2023

AbstractNeurogenesis in the postnatal enteric nervous system (ENS) is controversially discussed. Yet, deciphering the regenerative potential of the ENS is essential for our understanding and therapy of human enteric neuropathies. Dickkopf1 (DKK1) is a Wnt-antagonist and involved in the homeostasis of various tissues. We hypothesize that DKK1 could function as a negative regulator on the proliferation of ENS-progenitors in the postnatal gut of mice and human infants. Here, we provide evidence that DKK1 is expressed in the murine and human ENS. If applied to ENS-progenitors in vitro, DKK1 leads to an increased proliferation, however, followed by extensive apoptosis. Yet, once we block apoptosis, DKK1-stimulation markedly increases enteric neurogenesis in murine and human ENS-progenitors. Thus, DKK1 is a strong, ambivalent regulator of the ENS-progenitor cell pool in mice and humans. These results are fundamental steps to reshaping our understanding of the homeostasis of the ENS in health and disease.
Selection signatures and population dynamics of transposable elements in lima bean
Authors: Lozano-Arce Daniela , García Tatiana , Gonzalez-Garcia Laura Natalia , Guyot Romain , Chacón-Sánchez Maria Isabel , Duitama Jorge 
Published: August 2023

AbstractThe domestication process in lima bean (Phaseolus lunatus L.) involves two independent events, within the Mesoamerican and Andean gene pools. This makes lima bean an excellent model to understand convergent evolution. The mechanisms of adaptation followed by Mesoamerican and Andean landraces are largely unknown. Genes related to these adaptations can be selected by identification of selective sweeps within gene pools. Previous genetic analyses in lima bean have relied on Single Nucleotide Polymorphism (SNP) loci, and have ignored transposable elements (TEs). Here we show the analysis of whole-genome sequencing data from 61 lima bean accessions to characterize a genomic variation database including TEs and SNPs, to associate selective sweeps with variable TEs and to predict candidate domestication genes. A small percentage of genes under selection are shared among gene pools, suggesting that domestication followed different genetic avenues in both gene pools. About 75% of TEs are located close to genes, which shows their potential to affect gene functions. The genetic structure inferred from variable TEs is consistent with that obtained from SNP markers, suggesting that TE dynamics can be related to the demographic history of wild and domesticated lima bean and its adaptive processes, in particular selection processes during domestication.
Skp2-mediated MLKL degradation confers cisplatin-resistant in non-small cell lung cancer cells
Authors: Zhou Huiling , Zhou Li , Guan Qing , Hou Xuyang , Wang Cong , Liu Lijun , Wang Jian , Yu Xinfang , Li Wei , Liu Haidan 
Published: August 2023

AbstractNon-small cell lung cancer (NSCLC) is the most prevalent type of cancer and the leading cause of cancer-related death. Chemotherapeutic resistance is a major obstacle in treating NSCLC patients. Here, we discovered that the E3 ligase Skp2 is overexpressed, accompanied by the downregulation of necroptosis-related regulator MLKL in human NSCLC tissues and cell lines. Knockdown of Skp2 inhibited viability, anchorage-independent growth, and in vivo tumor development of NSCLC cells. We also found that the Skp2 protein is negatively correlated with MLKL in NSCLC tissues. Moreover, Skp2 is increased and accompanied by an upregulation of MLKL ubiquitination and degradation in cisplatin-resistant NSCLC cells. Accordingly, inhibition of Skp2 partially restores MLKL and sensitizes NSCLC cells to cisplatin in vitro and in vivo. Mechanistically, Skp2 interacts and promotes ubiquitination-mediated degradation of MLKL in cisplatin-resistant NSCLC cells. Our results provide evidence of an Skp2-dependent mechanism regulating MLKL degradation and cisplatin resistance, suggesting that targeting Skp2-ubiquitinated MLKL degradation may overcome NSCLC chemoresistance.