bluuebunny/crossref_metadata_2025 huggingface dataset:
The Revised Child-to-Parent Aggressions Questionnaire: an Examination During the Covid-19 Pandemic
Authors: Calvete Esther , Jiménez-Granado Aitor , Orue Izaskun
Published: November 2022

Purpose

Child-to-parent violence (CPV) is an important type of family violence that has been relatively understudied. This study examined the main psychometric properties of the revised Child-to-Parent Aggression Questionnaire (CPAQ-R), which examines both violent behaviors against parents and reasons for these behaviors. The aims included identifying the dimensions of CPV and examining the magnitude of CPV during the COVID-19 pandemic.

Methods

A sample of 1,244 adolescents (aged from 12 to 17) from several schools in the Basque Country completed the CPAQ-R. Several confirmatory factor analyses were conducted, including exploratory, confirmatory, exploratory structural equation modeling (ESEM), and bifactor analyses.

Results

The data supported a bifactor ESEM model in which a general factor of violence against parents explained aggressions against both mothers and fathers. In addition, three reasons for the violence emerged: instrumental, reactive, and defensive reasons. Rates of CPV during the COVID-19 pandemic were high, with 16.5% of adolescents reporting reiterative aggressions against their parents. There were no differences between aggressions against mothers and fathers.

Conclusions

The CPAQ-R is an adequate questionnaire for assessing CPV in adolescents. The confinement and restrictions placed on families during the COVID-19 pandemic may explain the high prevalence of CPV and shed light on possible differences related to the sex of the parents.
Thermalization of Isolated Harmonic Networks Under Conservative Noise
Authors: Lepri Stefano
Published: November 2022

We study a scalar harmonic network with pair interactions and a binary collision rule, exchanging the momenta of a randomly-chosen couple of sites. We consider the case of the isolated network where the total energy is conserved. In the first part, we recast the dynamics as a stochastic map in normal modes (or action-angle) coordinates and provide a geometric interpretation of it. We formulate the problem for generic networks but, for completeness, also reconsider the translation-invariant lattices. In the second part, we examine the kinetic limit and its range of validity. A general form of the linear collision operator in terms of eigenstates of the network is given. This defines an action network, whose connectivity gives information on the out-of-equilibrium dynamics. We present a few examples (ordered and disordered chains and elastic networks) where the topology of connections in action spaces can be determined in a neat way. As an application, we consider the classic problem of relaxation to equipartition from the point of view of the dynamics of linear actions. We compare the results based on the spectrum of the collision operator with numerical simulation, performed with a novel scheme based on direct solution of the equations of motion in normal modes coordinates.
Analysis of the chloroplast genome and phylogenetic evolution of three species of Syringa
Authors: Yang Chengjun , Wang Kai , Zhang Hang , Guan Qingjie , Shen Jian
Published: November 2022

Background

By the time our study was completed, the chloroplast genomes of Syringa oblata, S. pubescents subsp. Microphylla, and S. reticulate subsp. Amurensis had not been sequenced, and their genetic background was not clear.

The research content

In this study, the chloroplast genomes of Syringa oblata, S. pubescents subsp. Microphylla, S. reticulate subsp. Amurensis, and five other species of Syringa were sequenced for a comparative genomics analysis, inverted repeat (IR) boundary analysis, collinearity analysis, codon preference analysis and a nucleotide variability analysis. Differences in the complete chloroplast genomes of 30 species of Oleaceae were compared with that of S. oblata as the reference species, and Ginkgo biloba was used as the out group to construct the phylogenetic tree.

Results

The results showed that the chloroplast genomes of S. oblata, S. pubescents subsp. Microphylla, and S. reticulate subsp. Amurensis were similar to those of other angiosperms and showed a typical four-segment structure, with full lengths of 155,569, 160,491, 155,419, and protein codes of 88, 95, and 87, respectively. Because the IR boundary of S. pubescents subsp. Microphylla was significantly expanded to the large single copy (LSC) region, resulting in complete replication of some genes in the IR region, the LSC region of S. pubescents subsp. Microphylla was significantly shorter than those of S. oblate and S. reticulate subsp. Amurensis. Similar to most higher plants, these three species have a preference for their codons ending with A/T.

Conclusions

We consider the genus Syringa to be a synphyletic group. The nucleotide variability and phylogenetic analyses showed that Syringa differentiated before Ligustrum and Ligustrum developed from Syringa. We propose removing the existing section division and directly dividing Syringa into five series.
Breaking Landauer's bound in a spin-encoded quantum computer
Authors: Wang Frank Zhigang
Published: November 2022

It is commonly recognized that Landauer's bound holds in (irreversible) quantum measurement. In this study, we overturned this common sense by extracting a single spin from a spin–spin magnetic interaction experiment to demonstrate that Landauer’s bound can be broken quantitatively by a factor of $$10^{4} \sim 10^{10}$$

10
4

∼

10
10

via quantum spin tunneling. It is the quantum limit ($$\hbar /2 \approx 10^{ - 34} \;{\text{J}} \cdot {\text{s}}$$

ħ
/
2
≈

10

-
34

J
·
s

), rather than Landauer’s bound, that governs the performance of a spin qubit. An optically-manipulated spin-encoded quantum computer is designed, in which energy bound well below $$k_{B} T$$

k
B

T

to erase a spin qubit at the expense of a long spin relaxation time is theoretically sensible and experimentally verified. This work may represent the last piece of the puzzle in quantum Landauer erasure in terms of a single spin being the smallest and the closest to the quantum limit.
Co-occurrence of antibiotic and metal resistance in long-term sewage sludge-amended soils: influence of application rates and pedo-climatic conditions
Authors: Mokni-Tlili Sonia , Hechmi Sarra , Ouzari Hadda-Imene , Mechergui Najet , Ghorbel Manel , Jedidi Naceur , Hassen Abdennaceur , Hamdi Helmi
Published: November 2022

Urban sewage sludge (USS) is increasingly being used as an alternative organic amendment in agriculture. Because USS originates mostly from human excreta, partially metabolized pharmaceuticals have also been considered in risk assessment studies after reuse. In this regard, we investigated the cumulative effect of five annual USS applications on the spread of antibiotic-resistant bacteria (ARB) and their subsequent resistance to toxic metals in two unvegetated soils. Eventually, USS contained bacterial strains resistant to all addressed antibiotics with indices of resistance varying between 0.25 for gentamicin to 38% for ampicillin and azithromycin. Sludge-amended soils showed also the emergence of resistome for all tested antibiotics compared to non-treated controls. In this regard, the increase of sludge dose generally correlated with ARB counts, while soil texture had no influence. On the other hand, the multi-antibiotic resistance (MAR) of 52 isolates selected from USS and different soil treatments was investigated for 10 most prescribed antibiotics. Nine isolates showed significant MAR index (≥ 0.3) and co-resistance to Cd, As and Be as well. However, events including an extreme flash flood and the termination of USS applications significantly disrupted ARB communities in all soil treatments. In any case, this study highlighted the risks of ARB spread in sludge-amended soils and a greater concern with the recent exacerbation of antibiotic overuse following COVID-19 outbreak.
Neither friend, nor device
Authors: Wassmer Marlene , Schwarzenegger Christian
Published: November 2022

With smart speakers diffusing into society, artificial intelligence is moving from the imaginative reservoirs of dystopian storytelling into vernacular living. How do users perceive communication with it? Are Alexa and Siri considered simple devices, sentient assistants, or even artificial friends? Based on nine qualitative interviews with former smart speaker users in Germany, this study analyzes smart speaker use and related personal epistemologies within a media repertoire perspective. By presenting six interrelated action-guiding principles explaining smart speaker use and people’s ambivalent sensemaking, we argue that smart speakers appear neither as friends nor as mere neutral devices to their users. The identified principles explain the peripheral role of smart speakers within media repertoires as handy but suspicious gimmicks. For future smart speaker adoption, whether smart assistants are interpreted as simple-minded, exploitative gimmicks or relevant, reliable, and trustworthy companions will be crucial.
Insight into the Neuroprotective Effect of Genistein-3′-Sodium Sulfonate Against Neonatal Hypoxic-Ischaemic Brain Injury in Rats by Bioinformatics
Authors: Xie Ting , Shuang Liyan , Liu Gaigai , Zhao Shanshan , Yuan Zhidong , Cai Hao , Jiang Lixia , Huang Zhihua
Published: November 2022

Therapeutic hypothermia (TH) is the only intervention approved for the treatment of neonatal hypoxic-ischaemic encephalopathy (HIE), but its treatment window is narrow (within 6 h after birth), and its efficacy is not ideal. Thus, alternative treatments are urgently needed. Our previous studies showed that genistein-3′-sodium sulfonate (GSS), a derivative of genistein (Gen), has a strong neuroprotective effect in rats with ischaemic stroke, but its role in HIE is unclear. A hypoxia–ischaemia (HI) brain injury model was established in neonatal male Sprague‒Dawley (SD) rats. Twenty-four hours after reperfusion, rats treated with GSS were assessed for cerebral infarction, neurological function, and neuronal damage. RNA-Seq and bioinformatics analysis were used to explore differentially expressed genes (DEGs) and regulated signalling pathways, which were subsequently validated by Western blotting and immunofluorescence. In this study, we found that GSS not only significantly reduced the size of brain infarcts and alleviated nerve damage in rats with HIE but also inhibited neuronal loss and degeneration in neonatal rats with HIE. A total of 2170 DEGs, of which 1102 were upregulated and 1068 were downregulated, were identified in the GSS group compared with the HI group. In an analysis based on Kyoto Encyclopedia of Genes and Genomes (KEGG) categories, the downregulated DEGs were significantly enriched in the pathways “Phagosome”, “NF-κB signalling”, and “Complement and coagulation cascades”, amongst others. Meanwhile, the upregulated DEGs were significantly enriched in the pathways “Neurodegeneration”, “Glutamatergic synapse”, and “Calcium signalling pathway”, amongst others. These results indicate that GSS intervenes in the process of HIE-induced brain injury by participating in multiple pathways, which suggests potential candidate drugs for the treatment of HIE.

Graphical Abstract
In silico and in vitro analysis of the impact of single substitutions within EXO-motifs on Hsa-MiR-1246 intercellular transfer in breast cancer cell
Authors: Rybarczyk Agnieszka , Lehmann Tomasz , Iwańczyk-Skalska Ewa , Juzwa Wojciech , Pławski Andrzej , Kopciuch Kamil , Blazewicz Jacek , Jagodziński Paweł P.
Published: November 2022

MiR-1246 has recently gained much attention and many studies have shown its oncogenic role in colorectal, breast, lung, and ovarian cancers. However, miR-1246 processing, stability, and mechanisms directing miR-1246 into neighbor cells remain still unclear. In this study, we aimed to determine the role of single-nucleotide substitutions within short exosome sorting motifs — so-called EXO-motifs: GGAG and GCAG present in miR-1246 sequence on its intracellular stability and extracellular transfer. We applied in silico methods such as 2D and 3D structure analysis and modeling of protein interactions. We also performed in vitro validation through the transfection of fluorescently labeled miRNA to MDA-MB-231 cells, which we analyzed by flow cytometry and fluorescent microscopy. Our results suggest that nucleotides alterations that disturbed miR-1246 EXO-motifs were able to modulate miRNA-1246 stability and its transfer level to the neighboring cells, suggesting that the molecular mechanism of RNA stability and intercellular transfer can be closely related.
Molecular background of Leber congenital amaurosis in a Polish cohort of patients—novel variants discovered by NGS
Authors: Skorczyk-Werner Anna , Sowińska-Seidler Anna , Wawrocka Anna , Walczak-Sztulpa Joanna , Krawczyński Maciej Robert
Published: November 2022

Leber congenital amaurosis (LCA) is the most severe form of inherited retinal dystrophies and the most frequent cause of congenital blindness in children. To date, 25 genes have been implicated in the pathogenesis of this rare disorder. Performing an accurate molecular diagnosis is crucial as gene therapy is becoming available. This study aimed to report the molecular basis of Leber congenital amaurosis, especially novel and rare variants in 27 Polish families with a clinical diagnosis of LCA fully confirmed by molecular analyses. Whole exome sequencing or targeted next-generation sequencing (NGS) of inherited retinal dystrophies-associated (IRD) genes was applied to identify potentially pathogenic variants. Bidirectional Sanger sequencing and quantitative PCR (qPCR) were carried out for validation and segregation analysis of the variants identified within the families. We identified 28 potentially pathogenic variants, including 11 novel, in 8 LCA genes: CEP290, CRB1, GUCY2D, NMNAT1, RPGRIP1, CRX, LRAT1, and LCA5. This study expands the mutational spectrum of the LCA genes. Moreover, these results, together with the conclusions from our previous studies, allow us to point to the most frequently mutated genes and variants in the Polish cohort of LCA patients.
Pre-service teachers' use of ICT to collaborate to complete assessment tasks
Authors: Slater Eileen V. , Barwood Donna , Cordery Zina
Published: November 2022

This research explored the use of ICT products by n = 123 pre-service teachers to complete collaborative assessments. Students responded to a questionnaire relating to the use, benefits and limitations, and what would better enable the use of ICT for collaborative assessment purposes. The ICT products favoured by students did not support some key elements necessary for online collaboration, through either student use or product functionality. Poor Internet access was a commonly cited limitation with the effect of reducing access to available ICT skills training. Suggestions for changes to course structure and content and further research are made.
Effective practices during emergency school lockdowns: shared experiences of four Australian schools
Authors: Kearney M. , Schuck S. , Fergusson J. , Perry R.
Published: November 2022

This study investigates common features of a set of diverse schools’ responses to the initial school lockdown period during the pandemic in 2020, with a focus on practices supporting learning, inclusion and wellbeing. It comprises a collective case study of four Australian schools that were selected based on their reputation for impactful support of students and teachers during the emergency remote teaching period. Methods included interviews and focus groups with school leaders, teachers and students. The schools had widely differing contexts, technology access and student needs. Despite these varied contexts, the findings provided important insights into common practices supporting effective remote teaching. Emerging principles of effective practice illuminate ways forward to mitigate the significant risks accompanying emergency remote teaching, and guide practices in a variety of school contexts.
Immunocompromised Patients with Protracted COVID-19: a Review of “Long Persisters”
Authors: Dioverti Veronica , Salto-Alejandre Sonsoles , Haidar Ghady
Published: November 2022

Purpose of Review

Certain immunocompromised individuals are at risk for protracted COVID-19, in which SARS-CoV-2 leads to a chronic viral infection. However, the pathogenesis, diagnosis, and management of this phenomenon remain ill-defined.

Recent Findings

Herein, we review key aspects of protracted SARS-CoV-2 infection in immunocompromised individuals, or the so-called long persisters, and describe the clinical presentation, risk factors, diagnosis, and treatment modalities of this condition, as well as intra-host viral evolution. Based on the available data, we also propose a framework of criteria with which to approach this syndrome.

Protracted COVID-19 is an uncharacterized syndrome affecting patients with B-cell depletion; our proposed diagnostic approach and definitions will inform much needed future research.
Principles of Enterprise Law
Authors: McGaughey Ewan
Published: November 2022

Major enterprises shape our lives in countless ways: big tech and 'surveillance media' that affect democratic debate, algorithms that influence online shopping, transport to work and home, energy and agriculture corporations that drive climate damage, and public services that provide our education, health, water, and housing. The twentieth century experienced swings between private and public ownership, between capitalism and socialism, without any settled, principled outcome, and without settling major questions of how enterprises should be financed, governed and the rights we have in them. This book's main question is 'are there principles of enterprise law', and, if they are missing, 'what principles of enterprise law should there be'? Principles of Enterprise Law gives a functional account of the 'general' enterprise laws of companies, investment, labour, competition and insolvency, before moving into specific enterprises, from universities to the military. It is an original guide to our economic constitution and human rights.
Optimally Irrational
Authors: Page Lionel
Published: November 2022

For a long time, economists have assumed that we were cold, self-centred, rational decision makers – so-called Homo economicus; the last few decades have shattered this view. The world we live in and the situations we face are of course rich and complex, revealing puzzling aspects of our behaviour. Optimally Irrational argues that our improved understanding of human behaviour shows that apparent 'biases' are good solutions to practical problems – that many of the 'flaws' identified by behavioural economics are actually adaptive solutions. Page delivers an ambitious overview of the literature in behavioural economics and, through the exposition of these flaws and their meaning, presents a sort of unified theory of behaviouralism, cognitive psychology and evolutionary biology. He gathers theoretical and empirical evidence about the causes of behavioural 'biases' and proposes a big picture of what the discipline means for economics.
A Tattoo on my Brain
Authors: Gibbs Daniel , Barker Teresa H.
Published: November 2022

Dr Daniel Gibbs is one of 50 million people worldwide with an Alzheimer's disease diagnosis. Unlike most patients with Alzheimer's, however, Dr Gibbs worked as a neurologist for twenty-five years, caring for patients with the very disease now affecting him. Also unusual is that Dr Gibbs had begun to suspect he had Alzheimer's several years before any official diagnosis could be made. Forewarned by genetic testing showing he carried alleles that increased the risk of developing the disease, he noticed symptoms of mild cognitive impairment long before any tests would have alerted him. In this highly personal account, Dr Gibbs documents the effect his diagnosis has had on his life and explains his advocacy for improving early recognition of Alzheimer's. Weaving clinical knowledge from decades caring for dementia patients with his personal experience of the disease, this is an optimistic tale of one man's journey with early-stage Alzheimer's disease. Soon to be a documentary film on MTV/Paramount +.
Transnational Law
Authors: Dowdle Michael W.
Published: November 2022

Globalisation impacts every aspect of modern society and today's law graduates are expected to deal with complex legal problems that require knowledge and training that goes beyond domestic law. This textbook provides an overview of how law is becoming increasingly transnational, facilitating theoretical and practical engagement with transnational legal institutions and phenomena. It advances an analytic framework that will help students to understand what to look for when they encounter transnational legal institutions and practices, and what are the practical and normative implications of their findings. By considering both the theory and practice of transnational law and taking a discursive approach to the material, students are encouraged to arrive at their own conclusions. Adopting interdisciplinary techniques and using case studies from around the world, this book offers a holistic, balanced exploration of a new and emerging discipline.
New insight into the tectonic setting of fault-bounded Indian Gondwana coal basins from U–Pb detrital zircon provenance ages of the Bokaro and Jharia basins, central east India
Authors: Jeffrey Laura Leigh , Beukes Nicolas , Vorster Clarisa , Mukhopadhyay Joydip
Published: November 2022

A detrital zircon U–Pb laser ablation–inductively coupled plasma–quadrupole mass spectrometry (LA-ICP-QMS) provenance study was undertaken on samples selected from the Lower Gondwana successions preserved in the fault-bounded Bokaro and Jharia basins in India to investigate the provenance of the sediment and determine whether the strata were deposited in isolated syn-depositional graben basins or formed part of a wider regional depositional system. A total of 730 concordant U–Pb detrital zircon ages revealed six distinct age fractions: (i) a latest Neoproterozoic to earliest Cambrian age fraction (530 to 510 Ma), which tails down in some samples to older Neoproterozoic ages (650 to 630 Ma); (ii) a major age fraction with an age peak of earliest Neoproterozoic (950 Ma), accompanied in some samples by a twin Mesoproterozoic peak (1000 Ma); (iii) a middle Mesoproterozoic age fraction (1330 to 1300 Ma); (iv) a prominent earliest Mesoproterozoic zircon age fraction (1600 Ma); (v) a less well-defined late Palaeoproterozoic zircon age fraction (2100 to 1700 Ma, or 1600 Ma); and (vi) an Archaean zircon age fraction that typically comprises two zircon age fractions, namely zircons with early Neoarchaean ages (2800 to 2750 Ma) coupled with zircons with ages older than 3100 Ma. Comparison of these newly obtained age fractions with detrital zircon age data presented by Veevers & Saeed (2009) shows similarities with the Gondwana strata of the Mahanadi and Pranhita–Godavari basins, implying that strata preserved in the fault-bounded Gondwana basins in central east India formed part of a much wider regional depositional system and that they were not deposited in isolated half-graben or graben basins. Potential source regions to the Gondwana strata of the Bokaro and Jharia basins include the Eastern Ghats Mobile Belt and rock units in Antarctica.
Seminal quality comparison of first and second cryopreserved ejaculates of Alpine kid goats by flow cytometry
Authors: Novaes Marco Aurélio Schiavo , Almeida Palloma Porto , Souza Netto Domingos Lollobrigida de , de Carvalho Victor Hugo Rabelo , Lovatti João Vitor Ribeiro , da Silveira Joana Diniz , Leite Giulia Berzoini Costa , Torres Ciro Alexandre Alves
Published: November 2022

Discarding the first ejaculate is recommended as an alternative for improving seminal quality after long sexual resting, especially when semen should be used for cryopreservation. However, when the males are not in sexual resting the necessity to discarding the first ejaculate is still unknown. Therefore, this study aimed to compare by flow cytometry the quality of the first and second ejaculates. Ten kids and uniform goats between 5 and 6 months of age were used in a completely randomized design. Semen collection was carried out every 4 days, until a total of five ejaculates per animal in each treatment was completed. The fresh and frozen semen collected were processed and analyzed using macroscopic and microscopic parameters, resistance test, hypo-osmotic medium test, and flow cytometry (FC). The FC parameters were production of reactive oxygen species, plasma and acrosomal membrane integrity, and lipid peroxidation of the plasma membrane. The ejaculates did not differ for the resistance test, the reactivity in the hypo-osmotic medium and for the macroscopic and microscopic seminal parameters, except for sperm volume and concentration. The first ejaculate had a higher percentage of minor and total defects. None of the FC parameters analyzed differed between the first and second ejaculates. The first and second ejaculates demonstrated similar seminal qualities, so for Alpine kid goats without a sexual resting period, discarding the first ejaculate it is not recommended.
Coseismic Folding During Ramp Failure at the Front of the Sulaiman Fold‐and‐Thrust Belt
Authors: Javed Muhammad Tahir , Barbot Sylvain , Javed Farhan , Ali Aamir , Braitenberg Carla
Published: November 2022

The Sulaiman Fold Thrust (SFT) in Central Pakistan formed during the India‐Eurasia collision in the late Cenozoic. However, the mechanics of shortening of the brittle crust at time scales of seismic cycles is still poorly understood. Here, we use radar interferometry to analyze the deformation associated with the 2015 magnitude (Mw) 5.7 Dajal blind earthquake at the eastern boundary of the SFT. We use kinematic inversions to determine the distribution of slip on the frontal ramp and of flexural slip along active axial surfaces for the forward‐ and backward‐verging two end‐member models: a double fault‐bend‐fold system and a fault‐propagation‐fold. In both models, a décollement branches into a shallow ramp at approximately 7.5 km depth with coseismic folding in the hanging wall. The Dajal earthquake ruptured the base of the Boundary Thrust buried under the sediment from the Indus‐River floodplain, representing fault‐bend or fault‐propagation folding some 30 km off its nearest surface exposure.
Investigating the Role of Amazonian Mesoscale Wind Patterns and Strength on the Spatial Distribution of Martian Bedrock Exposures
Authors: Gary‐Bicas C. E. , Michaels T. I. , Rogers A. D. , Fenton L. K. , Warner N. H. , Cowart A. C.
Published: November 2022

The Martian highlands contain Noachian‐aged areally‐extensive (>225 km2) bedrock exposures that have been mapped using thermal and visible imaging datasets. Given their age, crater density and impact gardening should have led to the formation of decameter scale layers of regolith that would overlie and bury these outcrops if composed of competent materials like basaltic lavas. However, many of these regions lack thick regolith layers and show clear exposures of bedrock materials with elevated thermal inertia values compared to the global average. Hypothesized reasons for the lack of regolith include: (a) relatively weaker material properties than lavas, where friable materials are comminuted and deflated during wind erosion, (b) long‐term protection from regolith development through burial and later exhumation through one or more surface processes, and (c) spatially concentrated aeolian erosion and wind energetics on well‐lithified basaltic substrates. To test the third hypothesis, we used the Mars Regional Atmospheric Modeling System to calculate wind erosive strength at 10 regions throughout the Martian highlands and compared it to their thermophysical properties by using thermal infrared data derived from the Thermal Emission Spectrometer to understand the effect that Amazonian mesoscale wind patterns may have on the exposure of bedrock. We also investigated the effect of planet obliquity, Ls of perihelion, and atmospheric mean pressure on wind erosion potential. We found no evidence for increased aeolian activity over bedrock‐containing regions relative to surrounding terrains, including at the mafic floor unit at Jezero crater (Máaz formation), supporting the first or second hypotheses for these regions.
Leveraging the CYGNSS Spaceborne GNSS‐R Observations to Detect Ionospheric Irregularities Over the Oceans: Method and Verification
Authors: Ren Xiaodong , Liu Hang , Mei Dengkui , Yang Pengxin , Zhang Zhiyu , Freeshah Mohamed , Zhang Xiaohong
Published: November 2022

The Global Navigation Satellite System (GNSS) has significantly facilitated the detection of ionospheric irregularities. Nevertheless, the ground‐based GNSS stations are inhomogeneously distributed around the world with large gaps, especially in the vast ocean regions. This adversely affects the interpretation of the spatio‐temporal variation characteristics of the ionospheric irregularities. In this study, ionospheric irregularities over the regions of the equatorial, and low‐latitude ocean during a G4‐class strong geomagnetic storm were investigated by utilizing the spaceborne GNSS reflectometry (GNSS‐R) technique. We derived and validated the ionospheric regularities index S4R from the signal‐to‐noise ratio measurements of the spaceborne GNSS‐R. Meanwhile, we utilized the ionospheric irregularities data from ground‐based (GNSS and ionosonde) and space‐based (Swarm and FORMOSAT‐3/COSMIC) instruments to evaluate and analyze the CYGNSS‐derived S4R. All comparisons and validations conducted within this study illustrate that the spaceborne GNSS‐R measurements provide complementary data and realize the timely observation as well as confirmation of the ionospheric irregularities at the same location over the oceans. It is expected to benefit the application of spaceborne GNSS‐R in ionospheric irregularities monitoring and applications over the ocean area.
Emergent many-body composite excitations of interacting spin-1/2 trimers
Authors: Bera Anup Kumar , Yusuf S. M. , Saha Sudip Kumar , Kumar Manoranjan , Voneshen David , Skourski Yurii , Zvyagin Sergei A.
Published: November 2022

Understanding exotic forms of magnetism in quantum spin systems is an emergent topic of modern condensed matter physics. Quantum dynamics can be described by particle-like carriers of information, known-as quasiparticles that appear from the collective behaviour of the underlying system. Spinon excitations, governing the excitations of quantum spin-systems, have been accurately calculated and precisely verified experimentally for the antiferromagnetic chain model. However, identification and characterization of novel quasiparticles emerging from the topological excitations of the spin system having periodic exchange interactions are yet to be obtained. Here, we report the identification of emergent composite excitations of the novel quasiparticles doublons and quartons in spin-1/2 trimer-chain antiferromagnet Na2Cu3Ge4O12 (having periodic intrachain exchange interactions J1-J1-J2) and its topologically protected quantum 1/3 magnetization-plateau state. The characteristic energies, dispersion relations, and dynamical structure factor of neutron scattering as well as macroscopic quantum 1/3 magnetization-plateau state are in good agreement with the state-of-the-art dynamical density matrix renormalization group calculations.
Real-time brain-machine interface in non-human primates achieves high-velocity prosthetic finger movements using a shallow feedforward neural network decoder
Authors: Willsey Matthew S. , Nason-Tomaszewski Samuel R. , Ensel Scott R. , Temmar Hisham , Mender Matthew J. , Costello Joseph T. , Patil Parag G. , Chestek Cynthia A.
Published: November 2022

Despite the rapid progress and interest in brain-machine interfaces that restore motor function, the performance of prosthetic fingers and limbs has yet to mimic native function. The algorithm that converts brain signals to a control signal for the prosthetic device is one of the limitations in achieving rapid and realistic finger movements. To achieve more realistic finger movements, we developed a shallow feed-forward neural network to decode real-time two-degree-of-freedom finger movements in two adult male rhesus macaques. Using a two-step training method, a recalibrated feedback intention–trained (ReFIT) neural network is introduced to further improve performance. In 7 days of testing across two animals, neural network decoders, with higher-velocity and more natural appearing finger movements, achieved a 36% increase in throughput over the ReFIT Kalman filter, which represents the current standard. The neural network decoders introduced herein demonstrate real-time decoding of continuous movements at a level superior to the current state-of-the-art and could provide a starting point to using neural networks for the development of more naturalistic brain-controlled prostheses.
Lipid-mediated prestin organization in outer hair cell membranes and its implications in sound amplification
Authors: Dehghani-Ghahnaviyeh Sepehr , Zhao Zhiyu , Tajkhorshid Emad
Published: November 2022

Prestin is a high-density motor protein in the outer hair cells (OHCs), whose conformational response to acoustic signals alters the shape of the cell, thereby playing a major role in sound amplification by the cochlea. Despite recent structures, prestin’s intimate interactions with the membrane, which are central to its function remained unresolved. Here, employing a large set (collectively, more than 0.5 ms) of coarse-grained molecular dynamics simulations, we demonstrate the impact of prestin’s lipid-protein interactions on its organization at densities relevant to the OHCs and its effectiveness in reshaping OHCs. Prestin causes anisotropic membrane deformation, which mediates a preferential membrane organization of prestin where deformation patterns by neighboring copies are aligned constructively. The resulting reduced membrane rigidity is hypothesized to maximize the impact of prestin on OHC reshaping. These results demonstrate a clear case of protein-protein cooperative communication in membrane, purely mediated by interactions with lipids.
Lipid-mediated activation of plasma membrane-localized deubiquitylating enzymes modulate endosomal trafficking
Authors: Vogel Karin , Bläske Tobias , Nagel Marie-Kristin , Globisch Christoph , Maguire Shane , Mattes Lorenz , Gude Christian , Kovermann Michael , Hauser Karin , Peter Christine , Isono Erika
Published: November 2022

The abundance of plasma membrane-resident receptors and transporters has to be tightly regulated by ubiquitin-mediated endosomal degradation for the proper coordination of environmental stimuli and intracellular signaling. Arabidopsis OVARIAN TUMOR PROTEASE (OTU) 11 and OTU12 are plasma membrane-localized deubiquitylating enzymes (DUBs) that bind to phospholipids through a polybasic motif in the OTU domain. Here we show that the DUB activity of OTU11 and OTU12 towards K63-linked ubiquitin is stimulated by binding to lipid membranes containing anionic lipids. In addition, we show that the DUB activity of OTU11 against K6- and K11-linkages is also stimulated by anionic lipids, and that OTU11 and OTU12 can modulate the endosomal degradation of a model cargo and the auxin efflux transporter PIN2-GFP in vivo. Our results suggest that the catalytic activity of OTU11 and OTU12 is tightly connected to their ability to bind membranes and that OTU11 and OTU12 are involved in the fine-tuning of plasma membrane proteins in Arabidopsis.
Durability and cross-reactivity of immune responses induced by a plant-based virus-like particle vaccine for COVID-19
Authors: Gobeil Philipe , Pillet Stéphane , Boulay Iohann , Charland Nathalie , Lorin Aurélien , Cheng Matthew P. , Vinh Donald C. , Boutet Philippe , Van Der Most Robbert , Roman François , Ceregido Maria Angeles , Landry Nathalie , D’Aoust Marc-André , Ward Brian J.
Published: November 2022

As the SARS-CoV-2 pandemic evolves, vaccine evaluation needs to include consideration of both durability and cross-reactivity. This report expands on previously reported results from a Phase 1 trial of an AS03-adjuvanted, plant-based coronavirus-like particle (CoVLP) displaying the spike (S) glycoprotein of the ancestral SARS-CoV-2 virus in healthy adults (NCT04450004). Humoral and cellular responses against the ancestral strain were evaluated 6 months post-second dose (D201) as secondary outcomes. Independent of dose, all vaccinated individuals retain binding antibodies, and ~95% retain neutralizing antibodies (NAb). Interferon gamma and interleukin-4 responses remain detectable in ~94% and ~92% of vaccinees respectively. In post-hoc analyses, variant-specific (Alpha, Beta, Delta, Gamma and Omicron) NAb were assessed at D42 and D201. Using a live virus neutralization assay, broad cross-reactivity is detectable against all variants at D42. At D201, cross-reactive antibodies are detectable in almost all participants against Alpha, Gamma and Delta variants (94%) and the Beta variant (83%) and in a smaller proportion against Omicron (44%). Results are similar with the pseudovirion assay. These data suggest that two doses of 3.75 µg CoVLP+AS03 elicit a durable and cross-reactive response that persists for at least 6 months post-vaccination.
Machine-learning-based intelligent framework for discovering refractory high-entropy alloys with improved high-temperature yield strength
Authors: Giles Stephen A. , Sengupta Debasis , Broderick Scott R. , Rajan Krishna
Published: November 2022

Refractory high-entropy alloys (RHEAs) show significant elevated-temperature yield strengths and have potential to use as high-performance materials in gas turbine engines. Exploring the vast RHEA compositional space experimentally is challenging, and a small fraction of this space has been explored to date. This work demonstrates the development of a state-of-the-art machine learning framework coupled with optimization methods to intelligently explore the vast compositional space and drive the search in a direction that improves high-temperature yield strengths. Our yield strength model is shown to have a significantly improved predictive accuracy relative to the state-of-the-art approach, and also provides inherent uncertainty quantification through the use of repeatedk-fold cross-validation. Upon developing and validating a robust yield strength prediction model, the coupled framework is used to discover RHEAs with superior high temperature yield strength. We have shown that RHEA compositions can be customized to have maximum yield strength at a specific temperature.
Temporal and spatial evolution of enzymatic degradation of amorphous PET plastics
Authors: Lippold Holger , Kahle Laura , Sonnendecker Christian , Matysik Jörg , Fischer Cornelius
Published: November 2022

Biocatalytic degradation is an emerging strategy aiming for energy-efficient recycling of poly(ethylene terephthalate) (PET), the most commonly used thermoplastic polyester. Besides material composition and physico-chemical parameters, the degradation kinetics is co-determined by the evolving nanotopography. In this study, the 3-dimensional development of the surface characteristics of an amorphous PET film, reacted with a highly effective hydrolase enzyme for up to 24 h, was explored by vertical scanning interferometry and confocal microscopy. The spatio-temporal analysis unveiled that the degradation process is not uniform with respect to reaction time and spatial reactivity distribution. An early phase of an unspecific roughness evolution is followed by an advanced phase characterized by a circular degradation pattern, consisting of shallow pits that are steadily renewed over time. The data suggest a hindrance of degradation during the initial roughening process, demonstrating the potential role of targeted surface modification in the large-scale treatment of plastic waste.
Plasma p-tau181, neurofilament light chain and association with cognition in Parkinson’s disease
Authors: Batzu Lucia , Rota Silvia , Hye Abdul , Heslegrave Amanda , Trivedi Dhaval , Gibson Lucy L. , Farrell Chloe , Zinzalias Pavlos , Rizos Alexandra , Zetterberg Henrik , Chaudhuri K. Ray , Aarsland Dag
Published: November 2022

Early identification of cognitive impairment in Parkinson’s disease (PD) has important clinical and research implications. The aim of our study was to investigate the role of plasma tau phosphorylated at amino acid 181 (p-tau181) and plasma neurofilament light chain (NfL) as biomarkers of cognition in PD. Baseline concentrations of plasma p-tau181 and NfL were measured in a cohort of 136 patients with PD and 63 healthy controls (HC). Forty-seven PD patients were followed up for up to 2 years. Cross-sectional and longitudinal associations between baseline plasma biomarkers and cognitive progression were investigated using linear regression and linear mixed effects models. At baseline, plasma p-tau181 concentration was significantly higher in PD subjects compared with HC (p = 0.026). In PD patients, higher plasma NfL was associated with lower MMSE score at baseline, after adjusting for age, sex and education (p = 0.027). Baseline plasma NfL also predicted MMSE decline over time in the PD group (p = 0.020). No significant association between plasma p-tau181 concentration and baseline or longitudinal cognitive performance was found. While the role of p-tau181 as a diagnostic biomarker for PD and its relationship with cognition need further elucidation, plasma NfL may serve as a feasible, non-invasive biomarker of cognitive progression in PD.
Parkin deficiency exacerbates fasting-induced skeletal muscle wasting in mice
Authors: Peker Nesibe , Sharma Mridula , Kambadur Ravi
Published: November 2022

Parkinson’s Disease (PD) is a chronic and progressive neurodegenerative disease manifesting itself with tremors, muscle stiffness, bradykinesia, dementia, and depression. Mutations of mitochondrial E3 ligase, PARKIN, have been associated with juvenile PD. Previous studies have characterized muscle atrophy and motor deficits upon loss of functional Parkin in fly and rodent models. However, the mechanisms behind pathophysiology of Parkin deficient muscle remains to be elusive. Here, results suggested that knock down of Parkin significantly increases proteolytic activities in skeletal muscle cell line, the C2C12 myotubes. However, the atrogene levels increase moderately in Parkin deficient cell line. To further investigate the role of Parkin in skeletal muscle atrophy, Parkin knock out (KO) and wild type mice were subjected to 48 h starvation. After 48 h fasting, a greater reduction in skeletal muscle weights was observed in Parkin KO mice as compared to age matched wild type control, suggesting elevated proteolytic activity in the absence of Parkin. Subsequent microarray analyses revealed further enhanced expression of FOXO and ubiquitin pathway in fasted Parkin KO mice. Furthermore, a greater reduction in the expression of cytoskeleton genes was observed in Parkin KO mice following 48 h fasting. Collectively, these results suggest that Parkin deficiency exacerbates fasting-induced skeletal muscle wasting, through upregulating genes involved in catabolic activities in skeletal muscle.
Electrical two-qubit gates within a pair of clock-qubit magnetic molecules
Authors: Ullah Aman , Hu Ziqi , Cerdá Jesús , Aragó Juan , Gaita-Ariño Alejandro
Published: November 2022

Enhanced coherence in HoW10 molecular spin qubits has been demonstrated by use of clock-transitions (CTs). More recently it was shown that, while operating at the CTs, it was possible to use an electrical field to selectively address HoW10 molecules pointing in a given direction, within a crystal that contains two kinds of identical but inversion-related molecules. Herein we theoretically explore the possibility of employing the electric field to effect entangling two-qubit quantum gates within a 2-qubit Hilbert space resulting from dipolar coupling of two CT-protected HoW10 molecules in a diluted crystal. We estimate the thermal evolution of T1, T2, find that CTs are also optimal operating points from the point of view of phonons, and lay out how to combine a sequence of microwave and electric field pulses to achieve coherent control within a switchable two-qubit operating space between symmetric and asymmetric qubit states that are protected both from spin-bath and from phonon-bath decoherence. This two-qubit gate approach presents an elegant correspondence between physical stimuli and logical operations, meanwhile avoiding any spontaneous unitary evolution of the qubit states. Finally, we found a highly protected 1-qubit subspace resulting from the interaction between two clock molecules.
The ImSURE phantoms: a digital dataset for radiomic software benchmarking and investigation
Authors: Bettinelli Andrea , Marturano Francesca , Sarnelli Anna , Bertoldo Alessandra , Paiusco Marta
Published: November 2022

In radiology and oncology, radiomic models are increasingly employed to predict clinical outcomes, but their clinical deployment has been hampered by lack of standardisation. This hindrance has driven the international Image Biomarker Standardisation Initiative (IBSI) to define guidelines for image pre-processing, standardise the formulation and nomenclature of 169 radiomic features and share two benchmark digital phantoms for software calibration. However, to better assess the concordance of radiomic tools, more heterogeneous phantoms are needed. We created two digital phantoms, called ImSURE phantoms, having isotropic and anisotropic voxel size, respectively, and 90 regions of interest (ROIs) each. To use these phantoms, we designed a systematic feature extraction workflow including 919 different feature values (obtained from the 169 IBSI-standardised features considering all possible combinations of feature aggregation and intensity discretisation methods). The ImSURE phantoms will allow to assess the concordance of radiomic software depending on interpolation, discretisation and aggregation methods, as well as on ROI volume and shape. Eventually, we provide the feature values extracted from these phantoms using five open-source IBSI-compliant software.
Modeling community standards for metadata as templates makes data FAIR
Authors: Musen Mark A. , O’Connor Martin J. , Schultes Erik , Martínez-Romero Marcos , Hardi Josef , Graybeal John
Published: November 2022

It is challenging to determine whether datasets are findable, accessible, interoperable, and reusable (FAIR) because the FAIR Guiding Principles refer to highly idiosyncratic criteria regarding the metadata used to annotate datasets. Specifically, the FAIR principles require metadata to be “rich” and to adhere to “domain-relevant” community standards. Scientific communities should be able to define their ownmachine-actionable templatesfor metadata that encode these “rich,” discipline-specific elements. We have explored this template-based approach in the context of two software systems. One system is the CEDAR Workbench, which investigators use to author new metadata. The other is the FAIRware Workbench, which evaluates the metadata of archived datasets for their adherence to community standards. Benefits accrue when templates for metadata become central elements in an ecosystem of tools to manage online datasets—both because the templates serve as a community reference for what constitutes FAIR data, and because they embody that perspective in a form that can be distributed among a variety of software applications to assist with data stewardship and data sharing.