bluuebunny/crossref_metadata_2025_split huggingface dataset:
Using cDNA SCoT method to identify differentially expressed genes in date palm (Phoenix dactylifera L.)
Authors: Rhouma Soumaya , Saad Fatma , Ben Saad Ahlem , Moussa Maha , Chatti Khaled 
Published: April 2023

AbstractDate palm is a relatively salt- and drought-tolerant plant and more recent efforts have been focused on recognizing genes and pathways that confer stress tolerance in this species. The cDNA start codon targeted marker (cDNA–SCoT) technique is a novel, simple, fast and effective method for differential gene expression investigation. In the present study, this technique was exploited to identify differentially expressed genes during several stress treatments in date palm. A total of 12 SCoT primers combined with oligo-dT primers amplified differentially expressed fragments among the stress treatments and control samples. Differentially expressed fragments were highly homologous to known genes or encoded unclassified proteins with unknown functions. The expression patterns of the genes that had direct or indirect relationships with salinity and drought stress response were identified and their possible roles were discussed. This study suggests that the cDNA-SCoT differential display method is a useful tool to serve as an initial step for characterizing transcriptional changes induced by abiotic stresses and provide gene information for further study and application in genetic improvement and breeding in date palm.
Origin of Alkaline Basaltic Intrusive Rocks in an Exhumed Accretionary Complex: Implications for Past Petit‐Spot Volcanism in the Ocean
Authors: Motohashi Ginta , Sano Takashi , Ujiie Kohtaro , Frank Madison 
Published: April 2023

AbstractAccreted basaltic rocks are expected to provide information on intraplate volcanism in the oceans. Basaltic rocks, originating from mid‐ocean ridges, plateaus, and seamounts, have been reported from exhumed accretionary complexes. However, basaltic rocks related to petit‐spot volcanism remain poorly documented. We examined basaltic intrusive rocks in an exhumed accretionary complex on Amami‐Oshima Island, Ryukyu Arc. Basaltic sills intruded mélange composed of seamount‐derived micritic limestone and basaltic rocks, which deformed together with the mudstone‐dominated mélange in the subduction zone. A separate basaltic sill intruded pelagic chert before being incorporated as a mélange block in the mudstone matrix during deformation in the subduction zone. Geochemical discrimination diagrams and trace element patterns indicate that the accreted dolerites and nonintrusive basalts likely originate from mid‐ocean ridges and hotspots, respectively. On the other hand, the geochemical characteristics of basaltic sills are compatible with alkaline basalt with enriched in incompatible trace elements relative to other basaltic rocks of hotspot origin and may represent a low degree of partial melting from a deeper mantle source (>90 km). A higher ratio of gadolinium to ytterbium in the basaltic sills relative to hotspot or mid‐ocean ridge‐related basalt indicates both a deeper melting depth, and a magma source which upwelled through thick oceanic lithosphere far from the mid‐ocean ridge. Based on the timing of basaltic intrusion and geochemical features, we suggest that the basaltic intrusive rocks could record past petit‐spot volcanism in the oceanic plate.
Using High‐Resolution Satellite Imagery and Deep Learning to Track Dynamic Seasonality in Small Water Bodies
Authors: Mullen Andrew L. , Watts Jennifer D. , Rogers Brendan M. , Carroll Mark L. , Elder Clayton D. , Noomah Jonas , Williams Zachary , Caraballo‐Vega Jordan A. , Bredder Allison , Rickenbaugh Eliza , Levenson Eric , Cooley Sarah W. , Hung Jacqueline K. Y. , Fiske Greg , Potter Stefano , Yang Yili , Miller Charles E. , Natali Susan M. , Douglas Thomas A. , Kyzivat Ethan D. 
Published: April 2023

AbstractSmall water bodies (i.e., ponds; <0.01 km2) play an important role in Earth System processes, including carbon cycling and emissions of methane. Detection and monitoring of ponds using satellite imagery has been extremely difficult and many water maps are biased toward lakes (>0.01 km2). We leverage high‐resolution (3 m) optical satellite imagery from Planet Labs and deep learning methods to map seasonal changes in pond and lake areal extent across four regions in Alaska. Our water maps indicate that changes in open water extent over the snow‐free season are especially pronounced in ponds. To investigate potential impacts of seasonal changes in pond area on carbon emissions, we provide a case study of open water methane emission budgets using the new water maps. Our approach has widespread applications for water resources, habitat and land cover change assessments, wildlife management, risk assessments, and other biogeochemical modeling efforts.
Wintertime Synoptic Patterns of Midlatitude Boundary Layer Clouds Over the Western North Atlantic: Climatology and Insights From In Situ ACTIVATE Observations
Authors: Painemal David , Chellappan Seethala , Smith William L. , Spangenberg Douglas , Park J. Minnie , Ackerman Andrew , Chen Jingyi , Crosbie Ewan , Ferrare Richard , Hair Johnathan , Kirschler Simon , Li Xiang‐Yu , McComiskey Allison , Moore Richard H. , Sanchez Kevin , Sorooshian Armin , Tornow Florian , Voigt Christiane , Wang Hailong , Winstead Edward , Zeng Xubin , Ziemba Luke , Zuidema Paquita 
Published: April 2023

AbstractThe winter synoptic evolution of the western North Atlantic and its influence on the atmospheric boundary layer is described by means of a regime classification based on Self‐Organizing Maps applied to 12 years of data (2009–2020). The regimes are classified into categories according to daily 600‐hPa geopotential height: dominant ridge, trough to ridge eastward transition (trough‐ridge), dominant trough, and ridge to trough eastward transition (ridge–trough). A fifth synoptic regime resembles the winter climatological mean. Coherent changes in sea‐level pressure and large‐scale winds are in concert with the synoptic regimes: (a) the ridge regime is associated with a well‐developed anticyclone; (b) the trough‐ridge gives rise to a low‐pressure center over the ocean, ascents, and northerly winds over the coastal zone; (c) trough is associated with the eastward displacement of a cyclone, coastal subsidence, and northerly winds, all representative characteristics of cold‐air outbreaks; and (d) the ridge–trough regime features the development of an anticyclone and weak coastal winds. Low clouds are characteristic of the trough regime, with both trough and trough–ridge featuring synoptic maxima in cloud droplet number concentration (Nd). The Nd increase is primarily observed near the coast, concomitant with strong surface heat fluxes exceeding by more than 400 W m−2 compared to fluxes further east. Five consecutive days of aircraft observations collected during the ACTIVATE campaign corroborates the climatological characterization, confirming the occurrence of high Nd for days identified as trough. This study emphasizes the role of boundary‐layer dynamics and aerosol activation and their roles in modulating cloud microphysics.
Automated Symbolic Upscaling: 2. Model Generation for Extended Applicability Regimes
Authors: Pietrzyk Kyle , Battiato Ilenia 
Published: April 2023

AbstractIn this second part of the two paper series, we detail an algorithmic procedure for systematically implementing the generalized closure form strategy presented in Part 1. This strategy extends the applicability of homogenized models with respect to classical homogenization theory, as demonstrated in Part 1 where upscaled models are rigorously derived in moderately reactive physical regimes. After encoding the algorithm into Symbolica, an automated upscaling framework, we upscale two reactive mass transport problems and numerically validate the resulting nonlinear homogenized models by showing the absolute error estimates predicted by homogenization theory are satisfied. In both problems, nontrivial closure forms and closure problems are automatically formulated using the encoded strategy with no human interaction, nor prior knowledge regarding the closure required for the systems. We hope these demonstrations spark further interest in automated analytical frameworks for multiscale modeling, as such capabilities are invaluable for generating rigorous multiscale models of complex phenomena in porous media.
The implications of alternative pre-mRNA splicing in cell signal transduction
Authors: Choi Sunkyung , Cho Namjoon , Kim Kee K. 
Published: April 2023

AbstractCells produce multiple mRNAs through alternative splicing, which ensures proteome diversity. Because most human genes undergo alternative splicing, key components of signal transduction pathways are no exception. Cells regulate various signal transduction pathways, including those associated with cell proliferation, development, differentiation, migration, and apoptosis. Since proteins produced through alternative splicing can exhibit diverse biological functions, splicing regulatory mechanisms affect all signal transduction pathways. Studies have demonstrated that proteins generated by the selective combination of exons encoding important domains can enhance or attenuate signal transduction and can stably and precisely regulate various signal transduction pathways. However, aberrant splicing regulation via genetic mutation or abnormal expression of splicing factors negatively affects signal transduction pathways and is associated with the onset and progression of various diseases, including cancer. In this review, we describe the effects of alternative splicing regulation on major signal transduction pathways and highlight the significance of alternative splicing.
An interconnect-free micro-electromechanical 7-bit arithmetic device for multi-operand programmable computing
Authors: Zou Xuecui , Yaqoob Usman , Ahmed Sally , Wang Yue , Salama Khaled Nabil , Fariborzi Hossein 
Published: April 2023

AbstractComputational power density and interconnection between transistors have grown to be the dominant challenges for the continued scaling of complementary metal–oxide–semiconductor (CMOS) technology due to limited integration density and computing power. Herein, we designed a novel, hardware-efficient, interconnect-free microelectromechanical 7:3 compressor using three microbeam resonators. Each resonator is configured with seven equal-weighted inputs and multiple driven frequencies, thus defining the transformation rules for transmitting resonance frequency to binary outputs, performing summation operations, and displaying outputs in compact binary format. The device achieves low power consumption and excellent switching reliability even after 3 × 103 repeated cycles. These performance improvements, including enhanced computational power capacity and hardware efficiency, are paramount for moderately downscaling devices. Finally, our proposed paradigm shift for circuit design provides an attractive alternative to traditional electronic digital computing and paves the way for multioperand programmable computing based on electromechanical systems.
Aktiia cuffless blood pressure monitor yields equivalent daytime blood pressure measurements compared to a 24-h ambulatory blood pressure monitor: Preliminary results from a prospective single-center study
Authors: Almeida Tiago P. , Cortés Meritxell , Perruchoud David , Alexandre Jérémy , Vermare Pascale , Sola Josep , Shah Jay , Marques Luisa , Pellaton Cyril 
Published: April 2023

AbstractIn this preliminary study, we compared daytime blood pressure (BP) measurements performed by a commercially available cuffless—and continual—BP monitor (Aktiia monitor, Neuchâtel, Switzerland) and a traditional ambulatory BP monitor (ABPM; Dyasis 3, Novacor, Paris, France) from 52 patients enrolled in a 12-week cardiac rehabilitation (CR) program (Neuchâtel, Switzerland). Daytime (9am–9pm) systolic (SBP) and diastolic (DBP) BP from 7-day averaged data from Aktiia monitor were compared to 1-day averaged BP data from ABPM. No significant differences were found between the Aktiia monitor and the ABPM for SBP (μ ± σ [95% confidence interval]: 1.6 ± 10.5 [−1.5, 4.6] mmHg, P = 0.306; correlation [R2]: 0.70; ± 10/ ± 15 mmHg agreements: 60%, 84%). Marginally non-significant bias was found for DBP (−2.2 ± 8.0 [−4.5, 0.1] mmHg, P = 0.058; R2: 0.66; ±10/±15 mmHg agreements: 78%, 96%). These intermediate results show that daytime BP measurements using the Aktiia monitor generate data comparable to that of an ABPM monitor.
Unequivocal identification of two-bond heteronuclear correlations in natural products at nanomole scale by i-HMBC
Authors: Wang Yunyi , Fan Aili , Cohen Ryan D. , Dal Poggetto Guilherme , Huang Zheng , Yang Haifeng , Martin Gary E. , Sherer Edward C. , Reibarkh Mikhail , Wang Xiao 
Published: April 2023

AbstractHMBC is an essential NMR experiment for determining multiple bond heteronuclear correlations in small to medium-sized organic molecules, including natural products, yet its major limitation is the inability to differentiate two-bond from longer-range correlations. There have been several attempts to address this issue, but all reported approaches suffer various drawbacks, such as restricted utility and poor sensitivity. Here we present a sensitive and universal methodology to identify two-bond HMBC correlations using isotope shifts, referred to as i-HMBC (isotope shift detection HMBC). Experimental utility was demonstrated at the sub-milligram / nanomole scale with only a few hours of acquisition time required for structure elucidation of several complex proton-deficient natural products, which could not be fully elucidated by conventional 2D NMR experiments. Because i-HMBC overcomes the key limitation of HMBC without significant reduction in sensitivity or performance, i-HMBC can be used as a complement to HMBC when unambiguous identifications of two-bond correlations are needed.
Hybrid magnonics in hybrid perovskite antiferromagnets
Authors: Comstock Andrew H. , Chou Chung-Tao , Wang Zhiyu , Wang Tonghui , Song Ruyi , Sklenar Joseph , Amassian Aram , Zhang Wei , Lu Haipeng , Liu Luqiao , Beard Matthew C. , Sun Dali 
Published: April 2023

AbstractHybrid magnonic systems are a newcomer for pursuing coherent information processing owing to their rich quantum engineering functionalities. One prototypical example is hybrid magnonics in antiferromagnets with an easy-plane anisotropy that resembles a quantum-mechanically mixed two-level spin system through the coupling of acoustic and optical magnons. Generally, the coupling between these orthogonal modes is forbidden due to their opposite parity. Here we show that the Dzyaloshinskii–Moriya-Interaction (DMI), a chiral antisymmetric interaction that occurs in magnetic systems with low symmetry, can lift this restriction. We report that layered hybrid perovskite antiferromagnets with an interlayer DMI can lead to a strong intrinsic magnon-magnon coupling strength up to 0.24 GHz, which is four times greater than the dissipation rates of the acoustic/optical modes. Our work shows that the DMI in these hybrid antiferromagnets holds promise for leveraging magnon-magnon coupling by harnessing symmetry breaking in a highly tunable, solution-processable layered magnetic platform.
Increased warm water intrusions could cause mass loss in East Antarctica during the next 200 years
Authors: Jordan James R. , Miles B. W. J. , Gudmundsson G. H. , Jamieson S. S. R. , Jenkins A. , Stokes C. R. 
Published: April 2023

AbstractThe East Antarctic Ice Sheet (EAIS) is currently surrounded by relatively cool water, but climatic shifts have the potential to increase basal melting via intrusions of warm modified Circumpolar Deep Water (mCDW) onto the continental shelf. Here we use an ice sheet model to show that under the current ocean regime, with only limited intrusions of mCDW, the EAIS will likely gain mass over the next 200 years due to the increased precipitation from a warming atmosphere outweighing increased ice discharge due to ice-shelf melting. However, if the ocean regime were to become dominated by greater mCDW intrusions, the EAIS would have a negative mass balance, contributing up to 48 mm of SLE over this time period. Our modelling finds George V Land to be particularly at risk to increased ocean induced melting. With warmer oceans, we also find that a mid range RCP4.5 emissions scenario is likely to result in a more negative mass balance than a high RCP8.5 emissions scenario, as the relative difference between increased precipitation due to a warming atmosphere and increased ice discharge due to a warming ocean is more negative in the mid range RCP4.5 emission scenario.
Development of rechargeable high-energy hybrid zinc-iodine aqueous batteries exploiting reversible chlorine-based redox reaction
Authors: Liang Guojin , Liang Bochun , Chen Ao , Zhu Jiaxiong , Li Qing , Huang Zhaodong , Li Xinliang , Wang Ying , Wang Xiaoqi , Xiong Bo , Jin Xu , Bai Shengchi , Fan Jun , Zhi Chunyi 
Published: April 2023

AbstractThe chlorine-based redox reaction (ClRR) could be exploited to produce secondary high-energy aqueous batteries. However, efficient and reversible ClRR is challenging, and it is affected by parasitic reactions such as Cl2 gas evolution and electrolyte decomposition. Here, to circumvent these issues, we use iodine as positive electrode active material in a battery system comprising a Zn metal negative electrode and a concentrated (e.g., 30 molal) ZnCl2 aqueous electrolyte solution. During cell discharge, the iodine at the positive electrode interacts with the chloride ions from the electrolyte to enable interhalogen coordinating chemistry and forming ICl3-. In this way, the redox-active halogen atoms allow a reversible three-electrons transfer reaction which, at the lab-scale cell level, translates into an initial specific discharge capacity of 612.5 mAh gI2−1 at 0.5 A gI2−1 and 25 °C (corresponding to a calculated specific energy of 905 Wh kgI2−1). We also report the assembly and testing of a Zn | |Cl-I pouch cell prototype demonstrating a discharge capacity retention of about 74% after 300 cycles at 200 mA and 25 °C (final discharge capacity of about 92 mAh).
In situ orderly self-assembly strategy affording NIR-II-J-aggregates for in vivo imaging and surgical navigation
Authors: Li Zhe , Liang Ping-Zhao , Xu Li , Zhang Xing-Xing , Li Ke , Wu Qian , Lou Xiao-Feng , Ren Tian-Bing , Yuan Lin , Zhang Xiao-Bing 
Published: April 2023

AbstractJ-aggregation, an effective strategy to extend wavelength, has been considered as a promising method for constructing NIR-II fluorophores. However, due to weak intermolecular interactions, conventional J-aggregates are easily decomposed into monomers in the biological environment. Although adding external carriers could help conventional J-aggregates stabilize, such methods still suffer from high-concentration dependence and are unsuitable for activatable probes design. Besides, these carriers-assisted nanoparticles are risky of disassembly in lipophilic environment. Herein, by fusing the precipitated dye (HPQ) which has orderly self-assembly structure, onto simple hemi-cyanine conjugated system, we construct a series of activatable, high-stability NIR-II-J-aggregates which overcome conventional J-aggregates carrier’s dependence and could in situ self-assembly in vivo. Further, we employ the NIR-II-J-aggregates probe HPQ-Zzh-B to achieve the long-term in situ imaging of tumor and precise tumor resection by NIR-II imaging navigation for reducing lung metastasis. We believe this strategy will advance the development of controllable NIR-II-J-aggregates and precise bioimaging in vivo.
The effect of classroom environment on literacy development
Authors: Rance Gary , Dowell Richard C. , Tomlin Dani 
Published: April 2023

AbstractThe physical characteristics of a child’s learning environment can affect health, wellbeing and educational progress. Here we investigate the effect of classroom setting on academic progress in 7–10-year-old students comparing reading development in “open-plan” (multiple class groups located within one physical space) and “enclosed-plan” (one class group per space) environments. All learning conditions (class group, teaching personnel, etc.) were held constant throughout, while physical environment was alternated term-by-term using a portable, sound-treated dividing wall. One hundred and ninety-six students underwent academic, cognitive and auditory assessment at baseline and 146 of these were available for repeat assessment at the completion of 3 school terms, allowing within-child changes across an academic year to be calculated. Reading fluency development (change in words read-per-minute) was greater for the enclosed-classroom phases (P < 0.001; 95%CI 3.7, 10.0) and the children who showed the greatest condition difference (i.e. slower rate of development in the open-plan) were those with the worst speech perception in noise and/or poorest attention skills. These findings highlight the important role classroom setting plays in the academic development of young students.
DNA segment capture by Smc5/6 holocomplexes
Authors: Taschner Michael , Gruber Stephan 
Published: April 2023

AbstractThree distinct structural maintenance of chromosomes (SMC) complexes facilitate chromosome folding and segregation in eukaryotes, presumably by DNA loop extrusion. How SMCs interact with DNA to extrude loops is not well understood. Among the SMC complexes, Smc5/6 has dedicated roles in DNA repair and preventing a buildup of aberrant DNA junctions. In the present study, we describe the reconstitution of ATP-dependent DNA loading by yeast Smc5/6 rings. Loading strictly requires the Nse5/6 subcomplex which opens the kleisin neck gate. We show that plasmid molecules are topologically entrapped in the kleisin and two SMC subcompartments, but not in the full SMC compartment. This is explained by the SMC compartment holding a looped DNA segment and by kleisin locking it in place when passing between the two flanks of the loop for neck-gate closure. Related segment capture events may provide the power stroke in subsequent DNA extrusion steps, possibly also in other SMC complexes, thus providing a unifying principle for DNA loading and extrusion.
Using machine learning to determine the time of exposure to infection by a respiratory pathogen
Authors: Sharma Kartikay , Aminian Manuchehr , Ghosh Tomojit , Liu Xiaoyu , Kirby Michael 
Published: April 2023

AbstractGiven an infected host, estimating the time that has elapsed since initial exposure to the pathogen is an important problem in public health. In this paper we use longitudinal gene expression data from human challenge studies of viral respiratory illnesses for building predictive models to estimate the time elapsed since onset of respiratory infection. We apply sparsity driven machine learning to this time-stamped gene expression data to model the time of exposure by a pathogen and subsequent infection accompanied by the onset of the host immune response. These predictive models exploit the fact that the host gene expression profile evolves in time and its characteristic temporal signature can be effectively modeled using a small number of features. Predicting the time of exposure to infection to be in first 48 h after exposure produces BSR in the range of 80–90% on sequestered test data. A variety of machine learning experiments provide evidence that models developed on one virus can be used to predict exposure time for other viruses, e.g., H1N1, H3N2, and HRV. The interferon $$\alpha /\beta $$

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signaling pathway appears to play a central role in keeping time from onset of infection. Successful prediction of the time of exposure to a pathogen has potential ramifications for patient treatment and contact tracing.