bluuebunny/crossref_metadata_2025_split huggingface dataset:
Wave Modulation of Flows on Open and Closed Reefs
Authors: Lindhart M. , Rogers J. S. , Maticka S. A. , Woodson C. B. , Monismith S. G. 
Published: March 2021

AbstractUsing observations, numerical models, and theory, we explore a framework to classify reefs as open or closed based on their dynamics. While the concepts of open and closed reefs are used widely in studies of coral reef hydrodynamics and are generally based on geometry, there is no consensus on what qualifies as open and closed. With observations from Ofu, American Samoa, we show that the reef flat exhibits two different dynamical regimes depending on tidal and wave forcing. Flow over this reef flat resembles a classic one‐dimensional barrier reef flow during low tide, where wave setup creates a cross‐reef pressure gradient which forces flow on the flat. On high tide, however, flow on the flat is oblique to the crest, and at times directed offshore. We reproduce this behavior in an idealized numerical model of a fringing reef. We classify open reefs as a condition where an onshore, wave‐generated pressure gradient is balanced by friction, and closed reefs as a condition where an onshore radiation stress gradient is opposed by an offshore pressure gradient. Results from the fringing reef model show that the system transitions between open and closed behavior over a tidal cycle. Results from an additional barrier reef numerical model exhibits almost exclusively open reef behavior, for which we derive a simple theoretical model. We argue that classifying reefs as open or closed based on their dynamics, rather than geometry, is a more meaningful approach to comparing reefs and predicting their dynamical response to wave and tidal forcing.
Atmospherically Forced and Chaotic Interannual Variability of Regional Sea Level and Its Components Over 1993–2015
Authors: Carret Alice , Llovel William , Penduff Thierry , Molines Jean‐Marc 
Published: March 2021

AbstractSatellite altimetry data have revealed a global mean sea level rise of 3.1 mm/yr since 1993 with large regional sea level variability. These remote data highlight complex structures especially in strongly eddying regions. A recent study showed that over 38% of the global ocean area, the chaotic variability may hinder the attribution to the atmospheric forcing of regional sea level trends from 1993 to 2015. This study aims to complement this work by focusing on the atmospherically forced and chaotic interannual variability of regional sea level and its components. At interannual time scales, variability can hamper the detection of regional sea level trends. A global 1/4° ocean/sea‐ice 50‐member ensemble simulation is analyzed to disentangle the imprints of the atmospheric forcing and of the chaotic ocean variability on the interannual variability of regional sea level and of its steric and manometric components over 1993–2015. The atmospherically forced and chaotic interannual variabilities of sea level mainly have a steric origin, except in coastal areas. The chaotic part of the interannual variability of sea level and its components is stronger in the Pacific and Atlantic Oceans than in the Indian Ocean. The chaotic part of the interannual variance of sea level and of its steric component exceeds 20% over 48% of the global ocean area; this fractional area reduces to 26% for the manometric component. These results confirm the substantial imprint of the chaotic interannual variability on sea level components, questioning in several regions the attribution of their observed evolution to atmospheric causes.
Evolution and Features of Dust Devil‐Like Vortices in Turbulent Rayleigh‐Bénard Convection—A Numerical Study Using Direct Numerical Simulation
Authors: Giersch S. , Raasch S. 
Published: March 2021

AbstractDust devils are convective vortices with a vertical axis of rotation that are made visible by entrained soil particles. These soil particles contribute to the atmospheric aerosol input, influencing the Earth radiation budget. Quantifying this contribution requires reliable information about the statistics of dust devils, their formation process, and how they are maintained. In the past, this information was mainly derived from field experiments and large‐eddy simulations (LESs). Field experiments suffer from the erratic occurrence of dust devils and the limited area that can be monitored reliably. In LESs, dust devils cannot be resolved completely, especially close to the ground. Additionally, they are affected by numerical features of surface boundary conditions, as well as subgrid‐scale models in an unknown way. To mitigate these limitations, we employ direct numerical simulations (DNSs) to improve our understanding of dust devils. We comprehensively investigate the statistics and structure of dust devils for Rayleigh numbers up to 1011using DNS of Rayleigh‐Bénard convection between two plates for the first time. We find that dust devil‐like structures occur in DNS with Rayleigh numbers much lower than in the atmosphere (≥107). These results support previous DNS studies in which vortices with vertical axes were observed but not further investigated. The dust devil statistics strongly depend on the Rayleigh number and velocity boundary conditions, but depend little on the aspect ratio of the model domain. Simulated dust devils show very similar properties to convective vortices analyzed in LESs of the atmospheric boundary layer.
Response of Gross Primary Productivity to Drought Time‐Scales Across China
Authors: Sun Shaobo , Du Wenli , Song Zhaoliang , Zhang Dongbo , Wu Xiuchen , Chen Baozhang , Wu Yuntao 
Published: March 2021

AbstractDrought largely affects terrestrial gross primary productivity (GPP) by its duration (i.e., drought time‐scales). However, the large‐scale impact of drought time‐scales on GPP is still not well understood, partly due to limited understanding of ecological processes and difficulties in quantifying drought time‐scales. Here, we examined the responses of GPP to drought in China during the last four decades, using state‐of‐the‐art GPP data estimates and a multiscalar drought metric. Most of the GPP data suggested that the time‐scales at which drought has the largest influence on annual GPP (dominant drought time‐scales) were well related to climate region and vegetation type. The GPP responded to drought more rapidly in arid regions than that in semiarid and subhumid regions, with a mean dominant drought time‐scale of 15 and 20 months, respectively; as plants in arid regions can rapidly adapt to water shortage through physiological strategies, while, in semiarid and subhumid regions plants usually can withstand a degree of water deficits. In a humid region, GPP did not rapidly respond to drought, probably because the high soil water availability buffered the effect of drought. In addition, most of the GPP estimates suggested that grasslands and croplands tended to respond to drought at shorter time‐scales than that of forests, shrublands, and sparse vegetation. The study highlights the importance of improving the effects of water availability on vegetation activity and further consideration of vegetation adaptability to drought in both remote sensing GPP algorithms and parameterizations of current terrestrial ecosystem models.
Spectral Analysis of Vertical Temperature Profile Time‐Series Data in Yellowstone Lake Sediments
Authors: Sohn Robert A. , Harris Robert N. 
Published: March 2021

AbstractWe use yearlong vertical temperature profile time‐series (seven thermistors at evenly spaced depth intervals from 10 to 70 cm) from five sites in and around the Deep Hole thermal area, southeast of Stevenson Island, Yellowstone Lake, to investigate heat and mass fluxes across the lake floor. The records demonstrate that thermal gradients in surficial sediments are modulated by a rich spectrum of bottom water temperature variations generated by hydrodynamic processes, and that sites inside the thermal area also respond to hydrothermal variations. We develop and implement a new method for estimating the sediment effective thermal diffusivity and pore fluid vertical flow rate that exploits the full spectrum of observed temperature variations to generate the parameter estimates, uncertainties, and metrics to assess statistical significance. Sediments at sites outside thermal areas have gradients of ∼7.5°C/m, in situ thermal diffusivities of ∼1.6 × 10−7 m2/s consistent with highly porous (80–90%) siliceous sediments, and experience hypolentic flow in the upper ∼20 cm. Sites inside the Deep Hole thermal area exhibit considerable spatial and temporal variability, with gradients of 1–32°C/m, and higher thermal diffusivities of ∼2–12 × 10−7 m2/s, consistent with hydrothermal alteration of biogenic silica to clays, quartz, and pyrite. Upward pore fluid flow at these sites is observed across multiple depth intervals, with maximum values of ∼3 cm/day. The observed spatial and temporal variability within the thermal area is consistent with upward finger flow combined with short wavelength convection within the porous sediments above a steam reservoir.
Grain‐Size Distribution and Propagation Effects on Seismic Signals Generated by Bedload Transport
Authors: Lagarde Sophie , Dietze Michael , Gimbert Florent , Laronne Jonathan B. , Turowski Jens M. , Halfi Eran 
Published: March 2021

AbstractBedload transport is a key process in fluvial morphodynamics, but difficult to measure. The advent of seismic monitoring techniques has provided an alternative to in‐stream monitoring, which is often costly and cannot be utilized during large floods. Seismic monitoring is a method requiring several steps to convert seismic data into bedload flux data. State‐of‐the‐art conversion approaches exploit physical models predicting the seismic signal generated by bedload transport. However, due to a lack of well‐constrained validation data, the accuracy of the resulting inversions is unknown. We use field experiments to constrain a seismic bedload model and compare the results to high‐quality independent bedload measurements. Constraining the Green's function (i.e., seismic ground properties) with an active seismic survey resulted in an average absolute difference between modeled and empirically measured seismic bedload power of 11 dB in the relevant frequency band. Using generically estimated Green's function parameters resulted in a difference of 20 dB, thus highlighting the importance of using actual field parameters. Water turbulence and grain hiding are unlikely to be the cause of differences between field observations and our analysis. Rather, they may be either due to the inverted model being particularly sensitive to the coarse tail of the grain‐size distribution, which is least well constrained from field observations, or due to the seismic model underestimating effects of the largest grains.
EOMES is essential for antitumor activity of CD8+ T cells in chronic lymphocytic leukemia
Authors: Llaó-Cid Laura , Roessner Philipp M. , Chapaprieta Vicente , Öztürk Selcen , Roider Tobias , Bordas Marie , Izcue Ana , Colomer Dolors , Dietrich Sascha , Stilgenbauer Stephan , Hanna Bola , Martín-Subero José Ignacio , Seiffert Martina 
Published: March 2021

AbstractGenome-wide association studies identified a single-nucleotide polymorphism (SNP) affecting the transcription factor Eomesodermin (EOMES) associated with a significantly increased risk to develop chronic lymphocytic leukemia (CLL). Epigenetic analyses, RNA sequencing, and flow cytometry revealed that EOMES is not expressed in CLL cells, but in CD8+ T cells for which EOMES is a known master regulator. We thus hypothesized that the increased CLL risk associated with the EOMES SNP might be explained by its negative impact on CD8+ T-cell-mediated immune control of CLL. Flow cytometry analyses revealed a higher EOMES expression in CD8+ T cells of CLL patients compared to healthy individuals, and an accumulation of PD-1+ EOMES+ CD8+ T cells in lymph nodes rather than blood or bone marrow in CLL. This was in line with an observed expansion of EOMES+ CD8+ T cells in the spleen of leukemic Eµ-TCL1 mice. As EOMES expression was highest in CD8+ T cells that express inhibitory receptors, an involvement of EOMES in T-cell exhaustion and dysfunction seems likely. Interestingly, Eomes-deficiency in CD8+ T cells resulted in their impaired expansion associated with decreased CLL control in mice. Overall, these observations suggest that EOMES is essential for CD8+ T-cell expansion and/or maintenance, and therefore involved in adaptive immune control of CLL.
Portable and wearable self-powered systems based on emerging energy harvesting technology
Authors: Xu Chen , Song Yu , Han Mengdi , Zhang Haixia 
Published: March 2021

AbstractA self-powered system based on energy harvesting technology can be a potential candidate for solving the problem of supplying power to electronic devices. In this review, we focus on portable and wearable self-powered systems, starting with typical energy harvesting technology, and introduce portable and wearable self-powered systems with sensing functions. In addition, we demonstrate the potential of self-powered systems in actuation functions and the development of self-powered systems toward intelligent functions under the support of information processing and artificial intelligence technologies.
Tumor-secreted exosomal Wnt2B activates fibroblasts to promote cervical cancer progression
Authors: Liang Luo-Jiao , Yang Yang , Wei Wen-Fei , Wu Xiang-Guang , Yan Rui-Ming , Zhou Chen-Fei , Chen Xiao-Jing , Wu Sha , Wang Wei , Fan Liang-Sheng 
Published: March 2021

AbstractThe activation of stromal fibroblasts into cancer-associated fibroblasts (CAFs) has been suggested to promote primary tumor growth and progression; however, the mechanisms underlying the crosstalk between tumors and fibroblasts that drives stromal heterogeneity remain unknown. Here, we show that high Wnt2B levels were positively correlated with the number of CAFs in cervical cancer (CC). More importantly, Wnt2B was characteristically enriched in CC cell-secreted exosomes and transferred into fibroblasts to promote fibroblast activation via Wnt/β-catenin signaling, and inhibiting exosomal release or the Wnt/β-catenin signaling pathway diminished the activation induced by exosomal Wnt2B. Moreover, circulating exosomal Wnt2B also promoted CAF conversion in vitro and its expression was significantly higher in CC patients. In conclusion, our findings indicate that CC cell-derived Wnt2B can induce the activation of fibroblasts into CAFs, mainly via exosome-dependent secretion, thus providing directions for the development of diagnostic and therapeutic targets for CC progression.
C20orf204, a hepatocellular carcinoma-specific protein interacts with nucleolin and promotes cell proliferation
Authors: Burbano De Lara Sebastian , Tran Doan Duy Hai , Allister Aldrige Bernardus , Polenkowski Mareike , Nashan Björn , Koch Martina , Tamura Teruko 
Published: March 2021

AbstractIn most human cancers, a large number of proteins with driver mutations are involved in tumor development, implying that multiple fine tuners are involved in cancer formation and/or maintenance. A useful strategy for cancer therapy may therefore be to target multiple cancer type-specific fine tuners. Furthermore, genome-wide association studies of tumor samples have identified a large number of long noncoding (lnc)RNA associated with various types of tumor. In this context we have previously found that C20orf204 (a splice variant of Linc00176) RNA contains a 189 amino acid (AA) long open reading frame (C20orf204-189AA) that is expressed predominantly in hepatocellular carcinoma (HCC). We report here that a protein, C20orf204-189AA, was detected in the nucleus of 14 out of 20 primary HCC, but not in control livers. Strikingly, overexpression of C20orf204-189AA enhanced cell proliferation and ribosomal RNA transcription. C20orf204-189AA is co-localized, and interacted with nucleolin via the C-terminal and with ribosomal RNA via the N-terminal domain. Furthermore, the expression of C20orf204-189AA upregulates the protein level of nucleolin. Nucleolin and C20orf204 mRNA levels in HCC are correlated with tumor differentiation grade and patient survival, suggesting that C20orf204-189AA is a cancer type-specific fine tuner in some HCC that presents itself for potential targeting therapy and cancer biomarker. Thus, cancer cells exhibit remarkable transcriptome alterations partly by adopting cancer-specific splicing isoforms of noncoding RNAs and may participate in tumor development.
BNST specific mGlu5 receptor knockdown regulates sex-dependent expression of negative affect produced by adolescent ethanol exposure and adult stress
Authors: Kasten Chelsea R. , Holmgren Eleanor B. , Lerner Mollie R. , Wills Tiffany A. 
Published: March 2021

AbstractAdolescent alcohol use is one of the strongest predictors for the development of an alcohol use disorder (AUD). Notably, this period of risk coincides with the development of affective disorders, which disproportionately impact and drive problematic drinking behavior in women. Stress is a particularly salient factor that drives relapse during periods of abstinence. Previous work in our lab has shown that adolescent intermittent ethanol vapor (AIE) produces sex-dependent changes in glutamatergic activity in the bed nucleus of the stria terminalis (BNST) and behavioral outcomes following acute restraint stress in adulthood. In females, AIE disrupts group 1 metabotropic glutamate (mGlu1/5) receptor activity and enhances anhedonia-like behavior. The current study site-specifically knocked down mGlu5 receptors in the BNST of male and female Grm5loxp mice, exposed them to AIE, and observed the interaction of AIE and stress on negative affect-like behaviors in adulthood. These negative affect-like behaviors included the novelty-induced hypophagia task following acute restraint stress, open field activity, and contextual fear conditioning. Overall, we replicated our previous findings that AIE enhanced anhedonia-like activity in the novelty-induced hypophagia task in females and fear acquisition in males. The primary effect of BNST-mGlu5 receptor knockdown was that it independently enhanced anhedonia-like activity in females. Correlation analyses revealed that behavior in these paradigms showed poor interdependence. These results indicate that preclinical models of negative affective-like states encompass distinct features that may have independent, clinically relevant mechanisms. Further, modulating mGlu5 receptors is a prospective treatment target for females experiencing anhedonic-like states that make them susceptible to alcohol relapse.
Prioritization of schizophrenia risk genes from GWAS results by integrating multi-omics data
Authors: He Dan , Fan Cong , Qi Mengling , Yang Yuedong , Cooper David N. , Zhao Huiying 
Published: March 2021

AbstractSchizophrenia (SCZ) is a polygenic disease with a heritability approaching 80%. Over 100 SCZ-related loci have so far been identified by genome-wide association studies (GWAS). However, the risk genes associated with these loci often remain unknown. We present a new risk gene predictor, rGAT-omics, that integrates multi-omics data under a Bayesian framework by combining the Hotelling and Box–Cox transformations. The Bayesian framework was constructed using gene ontology, tissue-specific protein–protein networks, and multi-omics data including differentially expressed genes in SCZ and controls, distance from genes to the index single-nucleotide polymorphisms (SNPs), and de novo mutations. The application of rGAT-omics to the 108 loci identified by a recent GWAS study of SCZ predicted 103 high-risk genes (HRGs) that explain a high proportion of SCZ heritability (Enrichment = 43.44 and $$p = 9.30 \times 10^{ - 9}$$

p
=
9.30
×
1

0

−
9

). HRGs were shown to be significantly ($$p_{\mathrm{adj}} = 5.35 \times 10^{ - 7}$$

p

adj

=
5.35
×
1

0

−
7

) enriched in genes associated with neurological activities, and more likely to be expressed in brain tissues and SCZ-associated cell types than background genes. The predicted HRGs included 16 novel genes not present in any existing databases of SCZ-associated genes or previously predicted to be SCZ risk genes by any other method. More importantly, 13 of these 16 genes were not the nearest to the index SNP markers, and them would have been difficult to identify as risk genes by conventional approaches while ten out of the 16 genes are associated with neurological functions that make them prime candidates for pathological involvement in SCZ. Therefore, rGAT-omics has revealed novel insights into the molecular mechanisms underlying SCZ and could provide potential clues to future therapies.
Anomalous brain gyrification patterns in major psychiatric disorders: a systematic review and transdiagnostic integration
Authors: Sasabayashi Daiki , Takahashi Tsutomu , Takayanagi Yoichiro , Suzuki Michio 
Published: March 2021

AbstractAnomalous patterns of brain gyrification have been reported in major psychiatric disorders, presumably reflecting their neurodevelopmental pathology. However, previous reports presented conflicting results of patients having hyper-, hypo-, or normal gyrification patterns and lacking in transdiagnostic consideration. In this article, we systematically review previous magnetic resonance imaging studies of brain gyrification in schizophrenia, bipolar disorder, major depressive disorder, and autism spectrum disorder at varying illness stages, highlighting the gyral pattern trajectory for each disorder. Patients with each psychiatric disorder may exhibit deviated primary gyri formation under neurodevelopmental genetic control in their fetal life and infancy, and then exhibit higher-order gyral changes due to mechanical stress from active brain changes (e.g., progressive reduction of gray matter volume and white matter integrity) thereafter, representing diversely altered pattern trajectories from those of healthy controls. Based on the patterns of local connectivity and changes in neurodevelopmental gene expression in major psychiatric disorders, we propose an overarching model that spans the diagnoses to explain how deviated gyral pattern trajectories map onto clinical manifestations (e.g., psychosis, mood dysregulation, and cognitive impairments), focusing on the common and distinct gyral pattern changes across the disorders in addition to their correlations with specific clinical features. This comprehensive understanding of the role of brain gyrification pattern on the pathophysiology may help to optimize the prediction and diagnosis of psychiatric disorders using objective biomarkers, as well as provide a novel nosology informed by neural circuits beyond the current descriptive diagnostics.
Non-secretory multiple myeloma with unusual TFG-ALK fusion showed dramatic response to ALK inhibition
Authors: Masood Ashiq , Christ Trevor , Asif Samia , Rajakumar Priya , Gustafson Beth A. , Shune Leyla O. , Salahudeen Ameen , Nedvad Drew , Nanua Suparna , Paner Agne , Kuzel Timothy M. , Levy Mia , Subramanian Janakiraman , Raza Shahzad 
Published: March 2021

AbstractNon-secretory multiple myeloma (NSMM) constitutes a distinct entity of multiple myeloma characterized by the absence of detectable monoclonal protein and rarely an absence of free light chains in the serum and urine. Given its rarity, the genomic landscape, clinical course, and prognosis of NSSM are not well characterized. Here, we report a case of a patient with relapsed and refractory NSMM with brain metastasis harboring a TFG-ALK fusion showing a dramatic and durable (over two years) response to commercially available anaplastic lymphoma kinase (ALK) inhibitors. The case emphasizes the beneficial role of molecular profiling in this target-poor disease.