bluuebunny/crossref_metadata_2025 huggingface dataset:
Clogging nets-Didemnum vexillum (Tunicata: Ascidiacea) is in action in the eastern Mediterranean
Authors: Çinar Melih Ertan , Özgül Aytaç
Published: November 2023

Didemnum vexillum is an aggressive, rapidly growing colonial ascidian and regarded as a global alien invasive species in temperate waters. It has recently become established in the western Mediterranean and the vectors of its introduction were assumed to be shipping or oyster trade. A dense settlement of it was encountered on nets of the bluefin tuna (Thunnus thynnus) cages placed at 60–65 m depths off the İzmir Peninsula (eastern Aegean Sea, eastern Mediterranean) in December 2022. It had considerably clogged net's eye openings, hindering water circulations inside cages. It had a vertical distributional pattern on 35 m long-nets, occurring solely on depths from surface down to 15 m, around where a summer thermocline develops. It has entirely replaced the native black mussel Mytilus galloprovincialis on nets. This colonial ascidian changed the routine cleaning procedure of nets in the farming. Three possible ways of its introduction to the eastern Mediterranean were proposed, but the most reasonable one is its secondary transfer via nets or ships from Malta. Mechanisms of its invasion biology and behaviour should be studied and monitored in the region.
A study on the development and trend of COLREGs – A broader perspective
Authors: Dong Wenhai , Li Jie , Tu Xinghua
Published: November 2023

With the rapid development of the maritime industry and the emergence of unmanned ships, it is necessary to continuously review the International Regulations for Preventing Collisions at Sea (1972, COLREGs). This paper provides an overview of the developing history of the COLREGs and summarises the interpretations made by the International Maritime Organization official and academic scholars. Additionally, the paper discusses the application of the COLREGs in collision avoidance geometry and autonomous collision avoidance systems. Furthermore, the necessity and key points of revisions to adapt to industry advancements are discussed, along with an analysis of the main challenges faced. Finally, in light of the continuous progress and implementation of the outcome of the Regulatory Scoping Exercise for the Use of Maritime Autonomous Surface Ships (MASS), the paper points out that achieving consistency between manned and unmanned vessels, as well as developing COLREGs-based autonomous collision avoidance systems for more complex scenarios, is expected to be a significant trend in the future.
120 GHz microstrip power amplifier MMICs in a commercial GaAs process
Authors: Mahon Simon J. , McCulloch MacCrae G. , Mihaljevic Jakov , Gorman Melissa C. , Parker Anthony E. , Heimlich Michael C.
Published: November 2023

Single-ended and balanced 90–120 GHz microstrip power amplifier MMICs have been designed for cost-sensitive 5G and 6G backhaul in a commercial 6-inch, 0.1-µm GaAs process. At 108 GHz, measured output power is 20.4 and 22.5 dBm, respectively. At 120 GHz, measured output is 12.6 and 17.4 dBm, respectively. This is the highest reported for GaAs, among the highest reported to date for microstrip MMIC amplifiers at these frequencies and competitive with more expensive InP and GaN processes. Measurement is compared with simulation.
Geophysical and Geochemical Constraints on Magma Storage Depths Along the Cascade Arc: Knowns and Unknowns
Authors: Wieser Penny E. , Kent Adam J. R. , Till Christy B. , Abers Geoff A.
Published: November 2023

The iconic volcanoes of the Cascade arc stretch from Lassen Volcanic Center in northern California, through Oregon and Washington, to the Garibaldi Volcanic Belt in British Columbia. Recent studies have reviewed differences in the distribution and eruptive volumes of vents, as well as variations in geochemical compositions and heat flux along strike (amongst other characteristics). We investigate whether these along‐arc trends manifest as variations in magma storage conditions. We compile available constraints on magma storage depths from InSAR, geodetics, seismic inversions, and magnetotellurics for each major edifice and compare these to melt inclusion saturation pressures, pressures calculated using mineral‐only barometers, and constraints from experimental petrology. The availability of magma storage depth estimates varies greatly along the arc, with abundant geochemical and geophysical data available for some systems (e.g., Lassen Volcanic Center, Mount St. Helens) and very limited data available for other volcanoes, including many which are classified as “very high threat” by the USGS (e.g., Glacier Peak, Mount Baker, Mount Hood, Three Sisters). Acknowledging the limitations of data availability and the large uncertainties associated with certain methods, available data are indicative of magma storage within the upper 15 km of the crust (∼2 ± 2 kbar) beneath the main edifices. These findings are consistent with previous work recognizing barometric estimates cluster within the upper crust in many arcs worldwide. There are no clear offsets in magma storage between arc segments that are in extension, transtension or compression, although substantially more petrological work is needed for fine scale evaluation of storage pressures.
Observed and Projected Changes in North Atlantic Seasonal Temperature Reduction and Their Drivers
Authors: Grist Jeremy P. , Josey Simon A. , Sinha Bablu
Published: November 2023

The autumn‐winter seasonal temperature reduction (STR) of the surface North Atlantic Ocean is investigated with control and climate change simulations of a coupled model and an observation‐based sea surface temperature (SST) data set. In the climate change simulation, an increase in the magnitude of the STR is found over much of the North Atlantic, and this change is particularly marked in sea‐ice affected regions and the subpolar gyre. Similar results for the mid‐high latitude North Atlantic are obtained in the observational analysis. In particular, both the observation and climate model based results show that the STR has increased in magnitude by up to 0.3°C per decade in the subpolar gyre over the period 1951–2020. Drivers for the stronger STR are explored with a focus on potential contributions from increases in either ocean heat loss or the sensitivity of SST to heat loss. Over a large part of the mid‐high latitude North Atlantic surface heat loss is found to have weakened in recent decades and is therefore not responsible for the stronger STR (exceptions to this are the near‐coastal areas where sea‐ice loss is important). In contrast, analysis of daily sensible and latent heat flux data reveals that the sensitivity of SST to heat loss has increased indicating that this term has played a major role in the stronger STR. Areas of greater SST sensitivity (and greater STR) are associated with increased surface stratification brought about predominantly by warming of the northern ocean regions.
A New Approach to Soil Initialization for Studying Subseasonal Land‐Atmosphere Interactions
Authors: Jiang Yelin , Wang Guiling
Published: November 2023

Numerical experiments on sensitivity to land surface initializations are frequently conducted to investigate the predictability and uncertainties of hydrometeorological extremes. However, the conventional approaches to soil initialization often assume synchronized extremes over the target region, creating initial conditions that violate the intrinsic spatial pattern of hydrometeorological variability. Here we propose a “Slope” approach to accommodate unsynchronized anomalies, which creates initial conditions of a variable (soil temperature or soil moisture) across a large domain based on the slopes of linear regression between the variable averaged over a small target region and at each grid point in the surrounding regions. Within the target region, the “Slope” approach produces spatial patterns and temporal evolutions of hydrometeorological responses similar to the conventional approach, but generates stronger signals probably due to the nonlocal impact (excluded from the conventional approach). In the surrounding regions, the hydrometeorological responses in the “Slope” approach are consistent with the spatiotemporal variability of the model climate. Slope‐based experiments targeting different adjacent regions produce similar results, suggesting that one ensemble of experiments targeting one region may be sufficient to represent the responses from multiple ensembles each targeting a different region and thus providing the basis for increasing the computational efficiency of some land‐atmosphere interaction studies. While South America is used to demonstrate the concept in this study, the new approach offers the most advantages in regions with spatially unsynchronized or even anti‐phased hydrometeorological extremes.
Impacts of Channel‐Spanning Log Jams on Hyporheic Flow
Authors: Huang S. H. , Yang J. Q.
Published: November 2023

In‐stream wood structures, such as single logs, river steps, and debris dams, are known to drive hyporheic flow, defined as the flow that goes into the subsurface region and then back to the free‐flowing surface water. The hyporheic flow plays an important role in regulating water quality and biogeochemical cycles in rivers. Here, we investigated the impact of a channel‐spanning porous log jam, representing piles of wood logs, on hyporheic flow through a combination of direct visualization and theories. Specifically, we developed a method using refractive index‐matched sediment to directly visualize the hyporheic flow around and below a porous log jam, formed by piles of cylindrical rods, in a laboratory flume. We tracked the velocity of a fluorescent dye moving through the transparent sediment underneath the log jam. In addition, we measured the water surface profile and the spatially varying flow velocity near the log jam. Our results show that the normalized log jam‐induced hyporheic flux remained smaller than 10% at Froude numbers () below 0.06 and increased by a factor of five with increasing at . We combined the mass and momentum conservation equations of surface flow with Darcy's equation to explain the dependency of the log jam‐induced hyporheic flux on . Further, we observed that at , the water surface dropped noticeably and the turbulent kinetic energy increased immediately on the downstream side of the log jam. These findings will facilitate future quantification of hyporheic flow caused by channel‐spanning porous log jams.
Estimating the impact of transmitted and non-transmitted psychiatric and neurodevelopmental polygenic scores on youth emotional problems
Authors: Shakeshaft Amy , Martin Joanna , Dennison Charlotte A. , Riglin Lucy , Lewis Cathryn M. , O’Donovan Michael C. , Thapar Anita
Published: November 2023

Anxiety and depression (emotional disorders) are familial and heritable, especially when onset is early. However, other cross-generational studies suggest transmission of youth emotional problems is explained by mainly environmental risks. We set out to test the contribution of parental non-transmitted genetic liability, as indexed by psychiatric/neurodevelopmental common polygenic liability, to youth emotional problems using a UK population-based cohort: the Millennium Cohort Study. European (N = 6328) and South Asian (N = 814) ancestries were included, as well as a subset with genomic data from both parents (European: N = 2809; South Asian: N = 254). We examined the association of transmitted (PGST) and non-transmitted polygenic scores (PGSNT) for anxiety, depression, bipolar disorder and neurodevelopmental disorders (attention-deficit/hyperactivity disorder [ADHD], autism spectrum disorder [ASD], schizophrenia) with youth emotional disorder and symptom scores, measured using the parent- and self-reported Strengths and Difficulties Questionnaire emotional subscale at 6 timepoints between ages 3–17 years. In the European sample, PGST for anxiety and depression, but not bipolar disorder, were associated with emotional disorder and symptom scores across all ages, except age 3, with strongest association in adolescence. ADHD and ASD PGST also showed association across ages 11–17 years. In the South Asian sample, evidence for associations between all PGST and outcome measures were weaker. There was weak evidence of association between PGSNT for anxiety and depression and age 17 symptom scores in the South Asian sample, but not in the European sample for any outcome. Overall, PGST for depression, anxiety, ADHD and ASD contributed to youth emotional problems, with stronger associations in adolescence. There was limited support for non-transmitted genetic effects: these findings do not support the hypothesis that parental polygenic psychiatric/neurodevelopmental liability confer risk to offspring emotional problems through non-transmitted rearing/nurture effects.
Vasotocin receptor gene genotypes moderate the relationship between cortical thickness and sensory processing
Authors: Lee Seonkyoung , Cheong Yongjeon , Ryu Yeseul , Kosaka Hirotaka , Jung Minyoung
Published: November 2023

Sensory processing is the process by which the central nervous system gathers, interprets, and regulates sensory stimuli in response to environmental cues. However, our understanding of the genetic factors and neuroanatomical correlations that influence sensory processing is limited. The vasotocin system modulates sensory input responsiveness, making it a potential candidate for further investigation. Additionally, human neuroimaging studies have demonstrated that the ability to modulate sensory stimuli is related to neuroanatomical features such as cortical thickness. Therefore, this study aimed to examine the relationship between functional polymorphisms in vasotocin receptor (VTR) genes, sensory profiles, and neuroanatomical correlations. We used structural magnetic resonance imaging (MRI) and the Adolescent/Adult Sensory Profile (AASP) questionnaire in 98 healthy adult participants to assess sensory processing and identified seven single nucleotide polymorphisms. We found that A-allele carriers of rs1042615 in VTR had higher scores for “sensory sensitivity” and “sensation avoiding”. Moreover, higher scores for three AASP subscales were associated with decreased cortical thickness in various regions, including the right precentral, paracentral, and fusiform gyri, as well as bilateral inferior temporal gyri. This study sheds light on the potential role of genetic variations in the VTR in modulating sensory processing and correlation with cortical thickness which has future implications for better understanding sensory abnormalities in neurodevelopmental disorders.
Unifying the design space and optimizing linear and nonlinear truss metamaterials by generative modeling
Authors: Zheng Li , Karapiperis Konstantinos , Kumar Siddhant , Kochmann Dennis M.
Published: November 2023

The rise of machine learning has fueled the discovery of new materials and, especially, metamaterials—truss lattices being their most prominent class. While their tailorable properties have been explored extensively, the design of truss-based metamaterials has remained highly limited and often heuristic, due to the vast, discrete design space and the lack of a comprehensive parameterization. We here present a graph-based deep learning generative framework, which combines a variational autoencoder and a property predictor, to construct a reduced, continuous latent representation covering an enormous range of trusses. This unified latent space allows for the fast generation of new designs through simple operations (e.g., traversing the latent space or interpolating between structures). We further demonstrate an optimization framework for the inverse design of trusses with customized mechanical properties in both the linear and nonlinear regimes, including designs exhibiting exceptionally stiff, auxetic, pentamode-like, and tailored nonlinear behaviors. This generative model can predict manufacturable (and counter-intuitive) designs with extreme target properties beyond the training domain.
Isolation may select for earlier and higher peak viral load but shorter duration in SARS-CoV-2 evolution
Authors: Sunagawa Junya , Park Hyeongki , Kim Kwang Su , Komorizono Ryo , Choi Sooyoun , Ramirez Torres Lucia , Woo Joohyeon , Jeong Yong Dam , Hart William S. , Thompson Robin N. , Aihara Kazuyuki , Iwami Shingo , Yamaguchi Ryo
Published: November 2023

During the COVID-19 pandemic, human behavior change as a result of nonpharmaceutical interventions such as isolation may have induced directional selection for viral evolution. By combining previously published empirical clinical data analysis and multi-level mathematical modeling, we find that the SARS-CoV-2 variants selected for as the virus evolved from the pre-Alpha to the Delta variant had earlier and higher peak in viral load dynamics but a shorter duration of infection. Selection for increased transmissibility shapes the viral load dynamics, and the isolation measure is likely to be a driver of these evolutionary transitions. In addition, we show that a decreased incubation period and an increased proportion of asymptomatic infection are also positively selected for as SARS-CoV-2 mutated to adapt to human behavior (i.e., Omicron variants). The quantitative information and predictions we present here can guide future responses in the potential arms race between pandemic interventions and viral evolution.
Woven organic crystals
Authors: Lan Linfeng , Li Liang , Qi Jianqun , Pan Xiuhong , Di Qi , Naumov Panče , Zhang Hongyu
Published: November 2023

Woven architectures are prepared by physical entanglement of fibrous components to expand one-dimensional material into two-dimensional sheets with enhanced strength and resilience to wear. Here, we capitalize on the elastic properties of long organic crystals with a high aspect ratio to prepare an array of centimeter-size woven network structures. While being robust to mechanical impact, the woven patches are also elastic due to effective stress dissipation by the elasticity of the individual warp and weft crystals. The thermal stability of component crystals translates into favorable thermoelastic properties of the porous woven structures, where the network remains elastic over a range of 300 K. By providing means for physical entanglement of organic crystals, the weaving circumvents the natural limitation of the small size of slender organic crystals that is determined by their natural growth, thereby expanding the prospects for applications of organic crystals from one-dimensional entities to expandable, two-dimensional robust structures.
Heterogeneous encoding of temporal stimuli in the cerebellar cortex
Authors: De Zeeuw Chris. I. , Koppen Julius , Bregman George. G. , Runge Marit , Narain Devika
Published: November 2023

Local feedforward and recurrent connectivity are rife in the frontal areas of the cerebral cortex, which gives rise to rich heterogeneous dynamics observed in such areas. Recently, similar local connectivity motifs have been discovered among Purkinje and molecular layer interneurons of the cerebellar cortex, however, task-related activity in these neurons has often been associated with relatively simple facilitation and suppression dynamics. Here, we show that the rodent cerebellar cortex supports heterogeneity in task-related neuronal activity at a scale similar to the cerebral cortex. We provide a computational model that inculcates recent anatomical insights into local microcircuit motifs to show the putative basis for such heterogeneity. We also use cell-type specific chronic viral lesions to establish the involvement of cerebellar lobules in associative learning behaviors. Functional heterogeneity in neuronal profiles may not merely be the remit of the associative cerebral cortex, similar principles may be at play in subcortical areas, even those with seemingly crystalline and homogenous cytoarchitectures like the cerebellum.
The structure of the teleost Immunoglobulin M core provides insights on polymeric antibody evolution, assembly, and function
Authors: Lyu Mengfan , Malyutin Andrey G. , Stadtmueller Beth M.
Published: November 2023

Polymeric (p) immunoglobulins (Igs) serve broad functions during vertebrate immune responses. Typically, pIgs contain between two and six Ig monomers, each with two antigen binding fragments and one fragment crystallization (Fc). In addition, many pIgs assemble with a joining-chain (JC); however, the number of monomers and potential to include JC vary with species and heavy chain class. Here, we report the cryo-electron microscopy structure of IgM from a teleost (t) species, which does not encode JC. The structure reveals four tIgM Fcs linked through eight C-terminal tailpieces (Tps), which adopt a single β-sandwich-like domain (Tp assembly) located between two Fcs. Specifically, two of eight heavy chains fold uniquely, resulting in a structure distinct from mammalian IgM, which typically contains five IgM monomers, one JC and a centrally-located Tp assembly. Together with mutational analysis, structural data indicate that pIgs have evolved a range of assembly mechanisms and structures, each likely to support unique antibody effector functions.
Distinct value computations support rapid sequential decisions
Authors: Mah Andrew , Schiereck Shannon S. , Bossio Veronica , Constantinople Christine M.
Published: November 2023

The value of the environment determines animals’ motivational states and sets expectations for error-based learning1–3. How are values computed? Reinforcement learning systems can store or cache values of states or actions that are learned from experience, or they can compute values using a model of the environment to simulate possible futures3. These value computations have distinct trade-offs, and a central question is how neural systems decide which computations to use or whether/how to combine them4–8. Here we show that rats use distinct value computations for sequential decisions within single trials. We used high-throughput training to collect statistically powerful datasets from 291 rats performing a temporal wagering task with hidden reward states. Rats adjusted how quickly they initiated trials and how long they waited for rewards across states, balancing effort and time costs against expected rewards. Statistical modeling revealed that animals computed the value of the environment differently when initiating trials versus when deciding how long to wait for rewards, even though these decisions were only seconds apart. Moreover, value estimates interacted via a dynamic learning rate. Our results reveal how distinct value computations interact on rapid timescales, and demonstrate the power of using high-throughput training to understand rich, cognitive behaviors.
A distinct Acyl-CoA binding protein (ACBP6) shapes tissue plasticity during nutrient adaptation in Drosophila
Authors: Li Xiaotong , Karpac Jason
Published: November 2023

Nutrient availability is a major selective force in the evolution of metazoa, and thus plasticity in tissue function and morphology is shaped by adaptive responses to nutrient changes. Utilizing Drosophila, we reveal that distinct calibration of acyl-CoA metabolism, mediated by Acbp6 (Acyl-CoA binding-protein 6), is critical for nutrient-dependent tissue plasticity. Drosophila Acbp6, which arose by evolutionary duplication and binds acyl-CoA to tune acetyl-CoA metabolism, is required for intestinal resizing after nutrient deprivation through activating intestinal stem cell proliferation from quiescence. Disruption of acyl-CoA metabolism by Acbp6 attenuation drives aberrant ‘switching’ of metabolic networks in intestinal enterocytes during nutrient adaptation, impairing acetyl-CoA metabolism and acetylation amid intestinal resizing. We also identified STAT92e, whose function is influenced by acetyl-CoA levels, as a key regulator of acyl-CoA and nutrient-dependent changes in stem cell activation. These findings define a regulatory mechanism, shaped by acyl-CoA metabolism, that adjusts proliferative homeostasis to coordinately regulate tissue plasticity during nutrient adaptation.
Identification of NAD-RNA species and ADPR-RNA decapping in Archaea
Authors: Gomes-Filho José Vicente , Breuer Ruth , Morales-Filloy Hector Gabriel , Pozhydaieva Nadiia , Borst Andreas , Paczia Nicole , Soppa Jörg , Höfer Katharina , Jäschke Andres , Randau Lennart
Published: November 2023

NAD is a coenzyme central to metabolism that also serves as a 5′-terminal cap for bacterial and eukaryotic transcripts. Thermal degradation of NAD can generate nicotinamide and ADP-ribose (ADPR). Here, we use LC-MS/MS and NAD captureSeq to detect and identify NAD-RNAs in the thermophilic model archaeon Sulfolobus acidocaldarius and in the halophilic mesophile Haloferax volcanii. None of the four Nudix proteins of S. acidocaldarius catalyze NAD-RNA decapping in vitro, but one of the proteins (Saci_NudT5) promotes ADPR-RNA decapping. NAD-RNAs are converted into ADPR-RNAs, which we detect in S. acidocaldarius total RNA. Deletion of the gene encoding the 5′−3′ exonuclease Saci-aCPSF2 leads to a 4.5-fold increase in NAD-RNA levels. We propose that the incorporation of NAD into RNA acts as a degradation marker for Saci-aCPSF2. In contrast, ADPR-RNA is processed by Saci_NudT5 into 5′-p-RNAs, providing another layer of regulation for RNA turnover in archaeal cells.
Optomechanical ring resonator for efficient microwave-optical frequency conversion
Authors: Chen I-Tung , Li Bingzhao , Lee Seokhyeong , Chakravarthi Srivatsa , Fu Kai-Mei , Li Mo
Published: November 2023

Phonons traveling in solid-state devices are emerging as a universal excitation for coupling different physical systems. Phonons at microwave frequencies have a similar wavelength to optical photons in solids, enabling optomechanical microwave-optical transduction of classical and quantum signals. It becomes conceivable to build optomechanical integrated circuits (OMIC) that guide both photons and phonons and interconnect photonic and phononic devices. Here, we demonstrate an OMIC including an optomechanical ring resonator (OMR), where  co-resonant infrared photons and GHz phonons induce significantly enhanced interconversion. The platform is hybrid, using wide bandgap semiconductor gallium phosphide (GaP) for waveguiding and piezoelectric zinc oxide (ZnO) for phonon generation. The OMR features photonic and phononic quality factors of >1 × 105 and 3.2 × 103, respectively. The optomechanical interconversion between photonic modes achieved an internal conversion efficiency $${\eta }_{i}=(2.1\pm 0.1)\%$$

η

i

=

(

2.1
±
0.1

)

%
and a total device efficiency $${\eta }_{{tot}}=0.57{\times 10}^{-6}$$

η

t
o
t

=
0.57

×
10

−
6

at a low acoustic pump power of 1.6 mW. The efficient conversion in OMICs enables microwave-optical transduction for quantum information and microwave photonics applications.
Comprehensive energy efficiency optimization algorithm for steel load considering network reconstruction and demand response
Authors: Zang Yuxiu , Wang Shunjiang , Ge Weichun , Li Yaping , Cui Jia
Published: November 2023

Industrial loads are usually energy intensive and inefficient. The optimization of energy efficiency management in steel plants is still in the early stage of development. Considering the topology of power grid, it is an urgent problem to improve the operation economy and load side energy efficiency of steel plants. In this paper, a two-level collaborative optimization method is proposed, which takes into account the dynamic reconstruction cost, transmission loss cost, energy cost and demand response benefit. The upper level objective is the optimization of topology in the grid structure to optimize the power loss and dynamic reconstruction costs of the grid. The lower level is the energy cost considering demand response, real time price and dynamic demand response price. Firstly, the mathematical models of stable load, impact load and the steel production line load are built. The key parameters are identified by the Back Propagation neural network algorithm according to the actual production data. Secondly, considering the constraints of grid structure and load operation capacity, the impact of dynamic grid loss and real-time dynamic electricity price on the energy efficiency of the whole grid are analyzed in depth. The optimal operation model considering the dynamic reconfiguration and grid tramission loss of distribution network is built. Taking a steel plant park in Northeast China as an example, it is proved that the optimization model can improve energy efficiency on the load side by optimizing energy consumption and demand response participation time on load side. The energy cost is reduced by 17.77% on the load side, the network loss is reduced by 1.8%, and the operating cost of the power grid is reduced by 26.2%, which has a positive effect on improving energy utilization efficiency, reducing distribution network loss, and improving overall economic efficiency.
Protective effect of ligustrazine on oxidative stress and apoptosis following testicular torsion in rats
Authors: Chen Songmao , Liao Zhengjian , Zheng Tingting , Zhu Yuanfan , Ye Liefu
Published: November 2023

Testicular torsion is a common urologic emergency and one of the causes of infertility in males. It has been reported that ligustrazine may decrease oxidative stress and reduce ischemia–reperfusion injury. This study aims to investigate the protective effect of ligustrazine in ischemia–reperfusion injury after testicular torsion-detorsion. First, 40 rats were randomly and equally divided into TMP (Ligustrazine) group, the Testicular torsion (T/D) group, the Sham (Sham operation) group, and Control group. The left testis of rats in the TMP and T/D group was rotated for 2 h. The TMP group was intraperitoneally injected with ligustrazine solution and the T/D and the Sham groups were injected with normal saline. The left testes of four groups were obtained for assay on the 4th day after the operation. Average level of superoxide dismutase (SOD), glutathione peroxidase (GPX), and catalase (CAT) were higher in Sham and Control groups than T/D group and TMP group. Conversely, average level of malondialdehyde (MDA) and reactive oxygen species (ROS) was lower in Sham and Control groups than T/D group and TMP group. In contrast with the T/D group, SOD, GPX, and CAT enzymatic activities increased, whereas MDA and ROS content decreased in the TMP group (P < 0.05). Microscopic observation showed that the testicular tissue of the Sham and Control groups were basically normal. The TMP and T/D groups had significant testicular tissue damage, whereas the TMP group had less damage and apoptosis than the T/D group. The apoptotic index of germ cells in the TMP group (13.05 ± 4.41) was lower than the T/D group (30.23 ± 11.31) (P < 0.05) and higher (P < 0.05) than the Sham group (0.56 ± 0.29). So we found that Ligustrazine lowered ischemia–reperfusion injury after testicular torsion-detorsion by decreasing the reactive oxygen species and suppressing apoptosis.
Broad-spectrum metastasis suppressing compounds and therapeutic uses thereof in human tumors
Authors: Komlosh Pnina Gottfried , Chen Jonathan L. , Childs-Disney Jessica , Disney Matthew D. , Canaani Dan
Published: November 2023

Previously, we have identified a novel human metastasis-inducing lncRNA (named SKAI1BC), that suppresses the KAI1/CD82 metastasis-suppressing gene and is upregulated in triple negative breast cancer and melanoma derived cell lines. Modeling of the SKAI1BC lncRNA secondary structure and its potential interaction with Inforna compounds, led us to identify several compounds that might bind the SKAI1BC lncRNA. We found that these compounds inhibit metastasis invasion and cell migration in culture, in all eight types of solid human cancers tested: several of which are the most lethal and/or frequent human malignancies. Moreover, in most cases, the mechanism of action of several of our compounds involves enhancement of KAI1/CD82 RNA level depending on the specific compound and the human tumor type. With the epigenetic inactivation of KAI1/CD82 in at least ten additional solid human cancers, this implies a very good chance to broaden the spectrum of human cancers affected by our compounds. This is the first time that modeling of a large lncRNA (> 700 bp) secondary structure followed by its potential interaction with Inforna like compounds database has led to the identification of potential biologically active small molecule drugs.
Untargeted metabolomics reveal pathways associated with neuroprotective effect of oxyresveratrol in SH-SY5Y cells
Authors: Mahamud Nureesun , Songvut Phanit , Muangnoi Chawanphat , Rodsiri Ratchanee , Dahlan Winai , Tansawat Rossarin
Published: November 2023

Oxyresveratrol has been documented benefits for neurodegenerative disease. However, the specific molecular mechanisms and pathways involved is currently limited. This study aimed to investigate the potential neuroprotective mechanisms of oxyresveratrol using rotenone-induced human neuroblastoma SH-SY5Y cytotoxicity. Cells were divided into the following groups: control, rotenone, and oxyresveratrol pre-treated before being exposed to rotenone. Cellular assays were performed to investigate neuroprotective effects of oxyresveratrol. The results showed that 20 μM oxyresveratrol was effective in preventing rotenone-induced cell death and decreasing ROS levels in the cells. The alteration of metabolites and pathways involved in the neuroprotective activities of oxyresveratrol were further investigated using LC-QTOF-MS/MS untargeted metabolomics approach. We hypothesized that oxyresveratrol's neuroprotective effects would be associated with neurodegenerative pathways. A total of 294 metabolites were identified. 7,8-dihydrobiopterin exhibited the highest VIP scores (VIP > 3.0; p < 0.05), thus considered a biomarker in this study. Our results demonstrated that pretreatment with oxyresveratrol upregulated the level of 7,8-dihydrobiopterin compared to the positive control. Pathway analysis verified that 7,8-dihydrobiopterin was primarily associated with phenylalanine, tyrosine, and tryptophan metabolism (impact = 1, p < 0.001), serving as essential cofactors for enzymatic function in the dopamine biosynthesis pathway. In conclusion, oxyresveratrol may be benefit for the prevention of neurodegenerative diseases by increasing 7,8-dihydrobiopterin concentration.
Hepatocyte integrity depends on c-Jun-controlled proliferation in Schistosoma mansoni infected mice
Authors: Härle Lukas , von Bülow Verena , Knedla Lukas , Stettler Frederik , Müller Heike , Zahner Daniel , Haeberlein Simone , Windhorst Anita , Tschuschner Annette , Burg-Roderfeld Monika , Köhler Kernt , Grevelding Christoph G. , Roeb Elke , Roderfeld Martin
Published: November 2023

Schistosomiasis is a parasitic disease affecting more than 250 million people worldwide. The transcription factor c-Jun, which is induced in S. mansoni infection-associated liver disease, can promote hepatocyte survival but can also trigger hepatocellular carcinogenesis. We aimed to analyze the hepatic role of c-Jun following S. mansoni infection. We adopted a hepatocyte-specific c-Jun knockout mouse model (Alb-Cre/c-Jun loxP) and analyzed liver tissue and serum samples by quantitative real-time PCR array, western blotting, immunohistochemistry, hydroxyproline quantification, and functional analyses. Hepatocyte-specific c-Jun knockout (c-JunΔli) was confirmed by immunohistochemistry and western blotting. Infection with S. mansoni induced elevated aminotransferase-serum levels in c-JunΔli mice. Of note, hepatic Cyclin D1 expression was induced in infected c-Junf/f control mice but to a lower extent in c-JunΔli mice. S. mansoni soluble egg antigen-induced proliferation in a human hepatoma cell line was diminished by inhibition of c-Jun signaling. Markers for apoptosis, oxidative stress, ER stress, inflammation, autophagy, DNA-damage, and fibrosis were not altered in S. mansoni infected c-JunΔli mice compared to infected c-Junf/f controls. Enhanced liver damage in c-JunΔli mice suggested a protective role of c-Jun. A reduced Cyclin D1 expression and reduced hepatic regeneration could be the reason. In addition, it seems likely that the trends in pathological changes in c-JunΔli mice cumulatively led to a loss of the protective potential being responsible for the increased hepatocyte damage and loss of regenerative ability.
Crystal plasticity simulations with representative volume element of as-build laser powder bed fusion materials
Authors: Bulgarevich Dmitry S. , Nomoto Sukeharu , Watanabe Makoto , Demura Masahiko
Published: November 2023

Additive manufacturing of as-build metal materials with laser powder bed fusion typically leads to the formations of various chemical phases and their corresponding microstructure types. Such microstructures have very complex shape and size anisotropic distributions due to the history of the laser heat gradients and scanning patterns. With higher complexity compared to the post-heat-treated materials, the synthetic volume reconstruction of as-build materials for accurate modelling of their mechanical properties is a serious challenge. Here, we present an example of complete workflow pipeline for such nontrivial task. It takes into account the statistical distributions of microstructures: object sizes for each phase, several shape parameters for each microstructure type, and their morphological and crystallographic orientations. In principle, each step in the pipeline, including the parameters in the crystal plasticity model, can be fine-tuned to achieve suitable correspondence between experimental and synthetic microstructures as well as between experimental stress–strain curves and simulated results. To our best knowledge, this work represents an example of the most challenging synthetic volume reconstruction for as-build additive manufacturing materials to date.
Functional genome analysis and anti-Helicobacter pylori activity of a novel bacteriocinogenic Lactococcus sp. NH2-7C from Thai fermented pork (Nham)
Authors: Kingkaew Engkarat , Woraprayote Weerapong , Booncharoen Auttaporn , Niwasabutra Kanidta , Janyaphisan Thitiphorn , Vilaichone Ratha-Korn , Yamaoka Yoshio , Visessanguan Wonnop , Tanasupawat Somboon
Published: November 2023

Helicobacter pylori, linked to gastric diseases, is targeted for probiotic treatment through bacteriocin production. Bacteriocins have gained recognition for their non-toxic effects on host cells and their ability to combat a wide range of pathogens.This study aimed to taxonomically characterize and evaluate the safety and probiotic properties of the novel species ofLactococcussp. NH2-7C isolated from fermented pork, as well as its bacteriocin NH2-7C, both in vitro and in silico. Comparative genotypic analysis revealed an average nucleotide identity of 94.96%, an average amino acid identity of 94.29%, and a digital DNA-DNA hybridization value of 63.80% when compared toLactococcus lactissubsp.lactisJCM 5805T. These findings suggest that strain NH2-7C represents a novel species within the genusLactococcus. In silico assessments confirmed the non-pathogenic nature of strain NH2-7C and the absence of genes associated with virulence and biogenic amine formation. Whole-genome analysis revealed the presence of thenisAgene responsible for nisin A production, indicating its potential as a beneficial compound with anti-Helicobacter pyloriactivity and non-toxic characteristics. Probiotic assessments indicated bile salt hydrolase and cholesterol assimilation activities, along with the modulation of interleukin-6 and tumour necrosis factor-α secretion. Strain NH2-7C demonstrated gastrointestinal tolerance and the ability to adhere to Caco-2 cells, affirming its safety and probiotic potential. Additionally, its ability to produce bacteriocins supports its suitability as a functional probiotic strain with therapeutic potential. However, further in vitro and in vivo investigations are crucial to ensure its safety and explore potential applications forLactococcussp. NH2-7C as a probiotic agent.
Insight into the on/off switch that regulates expression of the MSMEG-3762/63 efflux pump in Mycobacterium smegmatis
Authors: Campolattano Nicoletta , D’Abrosca Gianluca , Russo Luigi , De Siena Barbara , Della Gala Milena , De Chiara Ida , Marasco Rosangela , Goff Aaron , Waddell Simon J. , Sacco Margherita , Muscariello Lidia
Published: November 2023

Drug resistance is one of the most difficult challenges facing tuberculosis (TB) control. Drug efflux is among the mechanisms leading to drug resistance. In our previous studies, we partially characterized the ABC-type MSMEG-3762/63 efflux pump in Mycobacterium smegmatis, which shares high percentage of identity with the Mycobacterium tuberculosis Rv1687/86c pump. MSMEG-3762/63 was shown to have extrusion activity for rifampicin and ciprofloxacin, used in first and second-line anti-TB treatments. Moreover, we described the functional role of the TetR-like MSMEG-3765 protein as a repressor of the MSMEG_3762/63/65 operon and orthologous Rv1687/86/85c in M. tuberculosis. Here we show that the operon is upregulated in the macrophage environment, supporting a previous observation of induction triggered by acid-nitrosative stress. Expression of the efflux pump was also induced by sub-inhibitory concentrations of rifampicin or ciprofloxacin. Both these drugs also prevented the binding of the MSMEG-3765 TetR repressor protein to its operator in the MSMEG_3762/63/65 operon. The hypothesis that these two drugs might be responsible for the induction of the efflux pump operon was assessed by bioinformatics analyses. Docking studies using a structural model of the regulator MSMEG-3765 showed that both antibiotics abolished the ability of this transcriptional repressor to recognize the efflux pump operon by interacting with the homodimer at different binding sites within the same binding pocket. Reduced binding of the repressor leads to induction of the efflux pump in M. smegmatis, and reduced efficacy of these two anti-mycobacterial drugs.
Phosphodiesterase 4 inhibition after retrieval switches the memory fate favoring extinction instead of reconsolidation
Authors: Machado Batista Sohn Jeferson , Cardoso Nathalie Carla , Raymundi Ana Maria , Prickaerts Jos , Stern Cristina Aparecida Jark
Published: November 2023

Phosphodiesterase 4 (PDE4), an enzyme expressed in the dorsal hippocampus (DH), hydrolyzes the cAMP, limiting the PKA-induced CREB phosphorylation (pCREB) and BDNF expression. Depending on the brain region, PKA and pCREB mediate reconsolidation or extinction, whereas BDNF is mainly related to extinction facilitation. The mechanisms underpinning the switch between reconsolidation and extinction are relatively unknown. Here, we tested the hypothesis that PDE4 might control these processes. We showed in Wistar rats submitted to contextual fear conditioning that PDE4 inhibition with roflumilast (ROF) within the DH, after a short retrieval, did not change freezing behavior after one day (TestA1). After 10 days, the ROF-treated group significantly reduced the expression of freezing behavior. This effect depended on retrieval, Test A1 exposure, and reinstated after a remainder foot shock, suggesting an extinction facilitation. The ROF effect depended on PKA after retrieval or, protein synthesis after Test A1. After retrieval, ROF treatment did not change the pCREB/CREB ratio in the DH. It enhanced proBDNF expression without changing pre-proBDNF or mature BDNF in the DH after Test A1. The results suggest that the inhibition of PDE4 in the DH after a short retrieval changes the memory sensibility from reconsolidation to extinction via regulating proBDNF expression.
Effect of automated head-thorax elevation during chest compressions on lung ventilation: a model study
Authors: Duhem Hélène , Terzi Nicolas , Segond Nicolas , Bellier Alexandre , Sanchez Caroline , Louis Bruno , Debaty Guillaume , Guérin Claude
Published: November 2023

Our goal was to investigate the effects of head-thorax elevation (HUP) during chest compressions (CC) on lung ventilation. A prospective study was performed on seven human cadavers. Chest was automatically compressed-decompressed in flat position and during progressive HUP from 18 to 35°. Lung ventilation was measured with electrical impedance tomography. In each cadaver, 5 sequences were randomly performed: one without CC at positive end-expiratory pressure (PEEP) 0cmH2O, 3 s with CC at PEEP0, 5 or 10cmH2O and 1 with CC and an impedance threshold device at PEEP0cmH2O. The minimal-to-maximal change in impedance (VTEIT in arbitrary unit a.u.) and the minimal impedance in every breathing cycle (EELI) the) were compared between flat, 18°, and 35° in each sequence by a mixed-effects model. Values are expressed as median (1st–3rd quartiles). With CC, between flat, 18° and 35° VTEIT decreased at each level of PEEP. It was 12416a.u. (10,689; 14,442), 11,239 (7667; 13,292), and 6457 (4631; 9516), respectively, at PEEP0. The same was true with the impedance threshold device. EELI/VTEIT significantly decreased from − 0.30 (− 0.40; − 0.15) before to − 1.13 (− 1.70; − 0.61) after the CC (P = 0.009). With HUP lung ventilation decreased with CC as compared to flat position. CC are associated with decreased in EELI.
Investigating the efficiency of oak powder as a new natural coagulant for eliminating polystyrene microplastics from aqueous solutions
Authors: Esmaeili Nasrabadi Afsaneh , Zahmatkesh Anbarani Mohaddeseh , Bonyadi Ziaeddin
Published: November 2023

Polystyrene (PS) is a commonly used plastic material in disposable containers. However, it readily breaks down into microplastic particles when exposed to water environments. In this research, oak powder was used as a natural, inexpensive, and eco-friendly coagulant. The present study aims to determine the effectiveness of oak powder in removing PS from aquatic environments. The Box-Behnken model (BBD) was used to determine the optimal conditions for removal. The removal efficiency was evaluated for various parameters including PS concentration (100–900 mg/L), pH (4–10), contact time (10–40 min), and oak dosage (100–400 mg/L). The maximum removal of PS microplastics (89.1%) was achieved by using an oak dose of 250 mg/L, a PS concentration of 900 mg/L, a contact time of 40 min, and a pH of 7. These results suggest that oak powder can effectively remove PS microplastics through surface adsorption and charge neutralization mechanisms, likely due to the presence of tannin compounds. Based on the results obtained, it has been found that the natural coagulant derived from oak has the potential to effectively compete with harmful chemical coagulants in removing microplastics from aqueous solutions.
Non-linear association between daily mean temperature and children’s hand foot and mouth disease in Chongqing, China
Authors: Yang Lin , Liu Tian , Tian Dechao , Zhao Han , Xia Yu , Wang Ju , Li Tingting , Li Qin , Qi Li
Published: November 2023

Chongqing was seriously affected by hand, foot, and mouth disease (HFMD), but the relationships between daily mean temperature and the incidence of HFMD remain unclear. This study used distributed lag nonlinear model to evaluate the effect of daily mean temperature on the incidence of HFMD in children aged < 5 years in Chongqing. Daily HFMD data from 2012 to 2019 in Chongqing were retrieved from the notifiable infectious disease surveillance system. A total of 413,476 HFMD cases aged < 5 years were reported in Chongqing from 2012 to 2019. The exposure–response curve of daily mean temperature and daily HFMD cases was wavy-shaped. The relative risks (RRs) increased as daily mean temperature below 5.66 °C or above 9.43 °C, with two peaks at 16.10 °C and 26.68 °C. The RRs reached the highest when the daily mean temperature at 26.68 °C on the current day (RR = 1.20, 95% CI 1.09–1.32), followed by the daily mean temperature at 16.10 °C at lag 5 days (RR = 1.07, 95% CI 1.05–1.08). The RRs for girls and daycare children were much higher than those for boys and scattered children, respectively. Taken together, daily mean temperature has strong effect on HFMD in children aged < 5 years old in Chongqing, particularly for girls and daycare children.
A laser-induced graphene-based electrochemical immunosensor for nucleic acid methylation detection
Authors: Guo Jingyi , Zhao Mei , Chen Chen , Wang Fang , Chen Zilin
Published: November 2023

Completed LIG biosensor for m6A-RNA and 5mC-ssDNA detection.