bluuebunny/crossref_metadata_2025 huggingface dataset:
Continuous assessment of cowpea [Vigna unguiculata L. Walp.] nutritional status using diagnosis and recommendation integrated system approach
Authors: Anago Firmin Nonhouégnon , Agbangba Emile Codjo , Dagbenonbakin Gustave Dieudonné , Amadji Lucien Guillaume
Published: September 2023

Cowpea is one of the widely cultivated and consumed grain legumes in Africa, but its production is hampered by soil fertility degradation on farms. Here, we assessed the spatial nutritional diagnosis of cowpea and the variability of their productivity using the diagnosis and recommendation integrated system (DRIS) and geostatistics tool. We achieved a sampling of 200 geo-referred points in cowpea farms in four communes of Benin. In addition, we determined grain yield and the content of N, P, K, Ca, Mg, and Zn in the leaves. From DRIS, the order of nutrient deficiency was as follows: P > K > Ca > Zn > N > Mg; P > K > Ca > N > Zn > Mg; N > Mg > Zn > K > P > Ca; P > Ca > K > N > Mg > Zn, at Dassa-Zoume, Glazoue, Ketou, and Ouesse, respectively. Sampling points were close enough to detect the spatial variability of the DRIS Index, mean of nutrient balance index (NBIm), and cowpea productivity (spatial dependence index ˃ 50%). The combined analysis of the cowpea relative yield and NBIm maps showed that the NBIm map effectively indicated the spatial distribution of cowpea productivity. The spatial variability of the DRIS index has provided an accurate guide to where adjustments to fertilization rates are needed.
Fault diagnosis of gearbox based on Fourier Bessel EWT and manifold regularization ELM
Authors: Wang Ke , Qin Fengqing
Published: September 2023

The novel fault diagnosis method of gearbox based on Fourier Bessel series expansion-based empirical wavelet transform (FBEWT) and manifold regularization extreme learning machine (MRELM) is proposed to obtain excellent fault diagnosis results of gearbox in this paper. A new feature extraction strategy based on Fourier Bessel series expansion-based empirical wavelet transform is used to capture the key non-stationary features of the vibrational signal of gearbox, and significantly improve the diagnosis ability of gearbox. The ELM with manifold regularization is proposed for fault diagnosis of gearbox. In order to outstand the superiority and stability of the proposed FBEWT and manifold regularization ELM, the balanced dataset and unbalanced dataset, respectively, are used. The experimental results testify that FBEWT-MRELM are more superior and stable than FBEWT-ELM, EWT-MRELM, and EWT-ELM regardless of balanced dataset and unbalanced dataset.
Assessment of atmospheric emissivity models for clear-sky conditions with reanalysis data
Authors: Morales-Salinas Luis , Ortega-Farias Samuel , Riveros-Burgos Camilo , Chávez José L. , Wang Sufen , Tian Fei , Carrasco-Benavides Marcos , Neira-Román José , López-Olivari Rafael , Fuentes-Jaque Guillermo
Published: September 2023

Atmospheric longwave downward radiation (Ld) is one of the significant components of net radiation (Rn), and it drives several essential ecosystem processes.Ldcan be estimated with simple empirical methods using atmospheric emissivity (εa) submodels. In this study, eight global models for εawere evaluated, and the best-performing model was calibrated on a global scale using a parametric instability analysis approach. The climatic data were obtained from a dynamically consistent scale resolution of basic atmospheric quantities and computed parameters known as NCEP/NCAR reanalysis (NNR) data. The performance model was evaluated with monthly average values from the NNR data. The Brutsaert equation demonstrated the best performance, and then it was calibrated. The seasonal global trend of the Brutsaert equation calibrated coefficient ranged between 1.2 and 1.4, and the K-means analysis identified five homogeneous zones (clusters) with similar behavior. Finally, the calibrated Brutsaert equation improved the Rnestimation, with an error reduction, at the worldwide scale, of 64%. Meanwhile, the error reduction for each cluster ranged from 18 to 77%. Hence, Brutsaert’s equation coefficient should not be considered a constant value for use in εaestimation, nor in time or location.
Environmental and economic determinants of temporal dynamics of the ruminant movement network of Senegal
Authors: García García Katherin Michelle , Apolloni Andrea , Giacomini Alessandra , Ciss Mamadou , Fall Mathioro , Marème Gaye Adji , Arsevska Elena , Mesdour Asma , Chevanne Etienne , Rosso Fabrizio , Cardinale Eric , Squarzoni Diaw Cécile , Seck Ismaila , Lo Mbargou , Delabouglise Alexis
Published: September 2023

Our understanding of the drivers of the temporal dynamics of livestock mobility networks is currently limited, despite their significant implications for the surveillance and control of infectious diseases. We analyzed the effect of time-varying environmental and economic variables—biomass production, rainfall, livestock market prices, and religious calendar on long-distance movements of cattle and small ruminant herds in Senegal in the years 2014 and 2019. We used principal component analysis to explore the variation of the hypothesized explanatory variables in space and time and a generalized additive modelling approach to assess the effect of those variables on the likelihood of herd movement between pairs of administrative units. Contrary to environmental variables, the patterns of variation of market prices show significant differences across locations. The explanatory variables at origin had the highest contribution to the model deviance reduction. Biomass production and rainfall were found to affect the likelihood of herd movement for both species on at least 1 year. Market price at origin had a strong and consistent effect on the departure of small ruminant herds. Our study shows the potential benefits of regular monitoring of market prices for future efforts at forecasting livestock movements and associated sanitary risks.
Exploring the landscape of dismantling strategies based on the community structure of networks
Authors: Musciotto F. , Miccichè S.
Published: September 2023

Network dismantling is a relevant research area in network science, gathering attention both from a theoretical and an operational point of view. Here, we propose a general framework for dismantling that prioritizes the removal of nodes that bridge together different network communities. The strategies we detect are not unique, as they depend on the specific realization of the community detection algorithm considered. However, when applying the methodology to some synthetic benchmark and real-world networks we find that the dismantling performances are strongly robust, and do not depend on the specific algorithm. Thus, the stochasticity inherently present in many community detection algorithms allows to identify several strategies that have comparable effectiveness but require the removal of distinct subsets of nodes. This feature is highly relevant in operational contexts in which the removal of nodes is costly and allows to identify the least expensive strategy that still holds high effectiveness.
Enhanced presynaptic mitochondrial energy production is required for memory formation
Authors: Underwood Erica L. , Redell John B. , Hood Kimberly N. , Maynard Mark E. , Hylin Michael , Waxham M. Neal , Zhao Jing , Moore Anthony N. , Dash Pramod K.
Published: September 2023

Some of the prominent features of long-term memory formation include protein synthesis, gene expression, enhanced neurotransmitter release, increased excitability, and formation of new synapses. As these processes are critically dependent on mitochondrial function, we hypothesized that increased mitochondrial respiration and dynamics would play a prominent role in memory formation. To address this possibility, we measured mitochondrial oxygen consumption (OCR) in hippocampal tissue punches from trained and untrained animals. Our results show that context fear training significantly increased basal, ATP synthesis-linked, and maximal OCR in the Shaffer collateral-CA1 synaptic region, but not in the CA1 cell body layer. These changes were recapitulated in synaptosomes isolated from the hippocampi of fear-trained animals. As dynamin-related protein 1 (Drp1) plays an important role in mitochondrial fission, we examined its role in the increased mitochondrial respiration observed after fear training. Drp1 inhibitors decreased the training-associated enhancement of OCR and impaired contextual fear memory, but did not alter the number of synaptosomes containing mitochondria. Taken together, our results show context fear training increases presynaptic mitochondria respiration, and that Drp-1 mediated enhanced energy production in CA1 pre-synaptic terminals is necessary for context fear memory that does not result from an increase in the number of synaptosomes containing mitochondria or an increase in mitochondrial mass within the synaptic layer.
Moderate intensity aerobic exercise may enhance neuroplasticity of the contralesional hemisphere after stroke: a randomised controlled study
Authors: Hill Gabrielle , Johnson Finn , Uy Jeric , Serrada Ines , Benyamin Beben , Van Den Berg Maayken , Hordacre Brenton
Published: September 2023

Upregulation of neuroplasticity might help maximize stroke recovery. One intervention that appears worthy of investigation is aerobic exercise. This study aimed to determine whether a single bout of moderate intensity aerobic exercise can enhance neuroplasticity in people with stroke. Participants were randomly assigned (1:1) to a 20-min moderate intensity exercise intervention or remained sedentary (control). Transcranial magnetic stimulation measured corticospinal excitability of the contralesional hemisphere by recording motor evoked potentials (MEPs). Intermittent Theta Burst Stimulation (iTBS) was used to repetitively activate synapses in the contralesional primary motor cortex, initiating the early stages of neuroplasticity and increasing excitability. It was surmised that if exercise increased neuroplasticity, there would be a greater facilitation of MEPs following iTBS. Thirty-three people with stroke participated in this study (aged 63.87 ± 10.30 years, 20 male, 6.13 ± 4.33 years since stroke). There was an interaction between Time*Group on MEP amplitudes (P = 0.009). Participants allocated to aerobic exercise had a stronger increase in MEP amplitude following iTBS. A non-significant trend indicated time since stroke might moderate this interaction (P = 0.055). Exploratory analysis suggested participants who were 2–7.5 years post stroke had a strong MEP facilitation following iTBS (P < 0.001). There was no effect of age, sex, resting motor threshold, self-reported physical activity levels, lesion volume or weighted lesion load (all P > 0.208). Moderate intensity cycling may enhance neuroplasticity in people with stroke. This therapy adjuvant could provide opportunities to maximize stroke recovery.
North American wintering mallards infected with highly pathogenic avian influenza show few signs of altered local or migratory movements
Authors: Teitelbaum Claire S. , Masto Nicholas M. , Sullivan Jeffery D. , Keever Allison C. , Poulson Rebecca L. , Carter Deborah L. , Blake-Bradshaw Abigail G. , Highway Cory J. , Feddersen Jamie C. , Hagy Heath M. , Gerhold Richard W. , Cohen Bradley S. , Prosser Diann J.
Published: September 2023

Avian influenza viruses pose a threat to wildlife and livestock health. The emergence of highly pathogenic avian influenza (HPAI) in wild birds and poultry in North America in late 2021 was the first such outbreak since 2015 and the largest outbreak in North America to date. Despite its prominence and economic impacts, we know relatively little about how HPAI spreads in wild bird populations. In January 2022, we captured 43 mallards (Anas platyrhynchos) in Tennessee, USA, 11 of which were actively infected with HPAI. These were the first confirmed detections of HPAI H5N1 clade 2.3.4.4b in the Mississippi Flyway. We compared movement patterns of infected and uninfected birds and found no clear differences; infected birds moved just as much during winter, migrated slightly earlier, and migrated similar distances as uninfected birds. Infected mallards also contacted and shared space with uninfected birds while on their wintering grounds, suggesting ongoing transmission of the virus. We found no differences in body condition or survival rates between infected and uninfected birds. Together, these results show that HPAI H5N1 clade 2.3.4.4b infection was unrelated to body condition or movement behavior in mallards infected at this location during winter; if these results are confirmed in other seasons and as HPAI H5N1 continues to evolve, they suggest that these birds could contribute to the maintenance and dispersal of HPAI in North America. Further research on more species across larger geographic areas and multiple seasons would help clarify potential impacts of HPAI on waterfowl and how this emerging disease spreads at continental scales, across species, and potentially between wildlife and domestic animals.
Study on transient photocurrent induced by energy level defect of schottky diode irradiated by high power pulsed laser
Authors: Wang Y. H. , Su J. H. , Wang T. W. , Lei Z. Y. , Chen Z. J. , Shangguan S. P. , Han J. W. , Ma Y. Q.
Published: September 2023

The transient photocurrent is one of the key parameters of the spatial radiation effect of photoelectric devices, and the energy level defect affects the transient photocurrent. In this paper, by studying the deep level transient spectrum of a self-designed Schottky diode, the defect properties of the interface region of the anode metal AlCu and Si caused by high-temperature annealing at 150 ℃, 200 ℃ and 300 ℃ for 1200 h have been quantitatively analyzed. The study shows that the defect is located at the position of + 0.41 eV on the valence band, the concentration is 2.8 $$\times$$
×
 1013/cm2, and the capture cross section is $$\sigma$$
σ
 = 8.5 $$\times$$
×
 1017. The impurity energy level mainly comes from the diffusion of Al atom in anode metal. We found that the defect did not cause the electrical performance degradation and obvious morphology change of the device, but the transient photocurrent increased significantly. The reason is that the high temperature treatment results in a growth in the density of states at the interface between AlCu–Si. The more mismatched dislocations and recombination center increased the reverse current of the heterojunction. The above view is proved by the TCAD simulation test.
Reversible suppression of circadian-driven locomotor rhythms in mice using a gradual fragmentation of the day-night cycle
Authors: Richardson Melissa E. S. , Browne Chérie-Akilah , Mazariegos Citlali I. Huerta
Published: September 2023

Circadian rhythms are regulated by molecular clockwork and drive 24-h behaviors such as locomotor activity, which can be rendered non-functional through genetic knockouts of clock genes. Circadian rhythms are robust in constant darkness (DD) but are modulated to become exactly 24 h by the external day-night cycle. Whether ill-timed light and dark exposure can render circadian behaviors non-functional to the extent of genetic knockouts is less clear. In this study, we discovered an environmental approach that led to a reduction or lack in rhythmic 24-h-circadian wheel-running locomotor behavior in mice (referred to as arrhythmicity). We first observed behavioral circadian arrhythmicity when mice were gradually exposed to a previously published disruptive environment called the fragmented day-night cycle (FDN-G), while maintaining activity alignment with the four dispersed fragments of darkness. Remarkably, upon exposure to constant darkness (DD) or constant light (LL), FDN-G mice lost any resemblance to the FDN-G-only phenotype and instead, exhibited sporadic activity bursts. Circadian rhythms are maintained in control mice with sudden FDN exposure (FDN-S) and fully restored in FDN-G mice either spontaneously in DD or after 12 h:12 h light–dark exposure. This is the first study to generate a light–dark environment that induces reversible suppression of circadian locomotor rhythms in mice.
Multispectral in-line hologram reconstruction with aberration compensation applied to Gram-stained bacteria microscopy
Authors: Brault Dylan , Olivier Thomas , Faure Nicolas , Dixneuf Sophie , Kolytcheff Chloé , Charmette Elodie , Soulez Ferréol , Fournier Corinne
Published: September 2023

In multispectral digital in-line holographic microscopy (DIHM), aberrations of the optical system affect the repeatability of the reconstruction of transmittance, phase and morphology of the objects of interest. Here we address this issue first by model fitting calibration using transparent beads inserted in the sample. This step estimates the aberrations of the optical system as a function of the lateral position in the field of view and at each wavelength. Second, we use a regularized inverse problem approach (IPA) to reconstruct the transmittance and phase of objects of interest. Our method accounts for shift-variant chromatic and geometrical aberrations in the forward model. The multi-wavelength holograms are jointly reconstructed by favouring the colocalization of the object edges. The method is applied to the case of bacteria imaging in Gram-stained blood smears. It shows our methodology evaluates aberrations with good repeatability. This improves the repeatability of the reconstructions and delivers more contrasted spectral signatures in transmittance and phase, which could benefit applications of microscopy, such as the analysis and classification of stained bacteria.
Density-dependent predatory impacts of an invasive beetle across a subantarctic archipelago
Authors: Géron Charly , Cuthbert Ross N. , Hotte Hoël , Renault David
Published: September 2023

Biological invasions represent a major threat to biodiversity, especially in cold insular environments characterized by high levels of endemism and low species diversity which are heavily impacted by global warming. Terrestrial invertebrates are very responsive to environmental changes, and native terrestrial invertebrates from cold islands tend to be naive to novel predators. Therefore, understanding the relationships between predators and prey in the context of global changes is essential for the management of these areas, particularly in the case of non-native predators. Merizodus soledadinus (Guérin-Méneville, 1830) is an invasive non-native insect species present on two subantarctic archipelagos, where it has extensive distribution and increasing impacts. While the biology of M. soledadinus has recently received attention, its trophic interactions have been less examined. We investigated how characteristics of M. soledadinus, its density, as well as prey density influence its predation rate on the Kerguelen Islands where the temporal evolution of its geographic distribution is precisely known. Our results show that M. soledadinus can have high ecological impacts on insect communities when present in high densities regardless of its residence time, consistent with the observed decline of the native fauna of the Kerguelen Islands in other studies. Special attention should be paid to limiting factors enhancing its dispersal and improving biosecurity for invasive insect species.
Autonomous assessment of spontaneous retinal venous pulsations in fundus videos using a deep learning framework
Authors: Panahi Amirhossein , Rezaee Alireza , Hajati Farshid , Shariflou Sahar , Agar Ashish , Golzan S. Mojtaba
Published: September 2023

The presence or absence of spontaneous retinal venous pulsations (SVP) provides clinically significant insight into the hemodynamic status of the optic nerve head. Reduced SVP amplitudes have been linked to increased intracranial pressure and glaucoma progression. Currently, monitoring for the presence or absence of SVPs is performed subjectively and is highly dependent on trained clinicians. In this study, we developed a novel end-to-end deep model, called U3D-Net, to objectively classify SVPs as present or absent based on retinal fundus videos. The U3D-Net architecture consists of two distinct modules: an optic disc localizer and a classifier. First, a fast attention recurrent residual U-Net model is applied as the optic disc localizer. Then, the localized optic discs are passed on to a deep convolutional network for SVP classification. We trained and tested various time-series classifiers including 3D Inception, 3D Dense-ResNet, 3D ResNet, Long-term Recurrent Convolutional Network, and ConvLSTM. The optic disc localizer achieved a dice score of 95% for locating the optic disc in 30 milliseconds. Amongst the different tested models, the 3D Inception model achieved an accuracy, sensitivity, and F1-Score of 84 ± 5%, 90 ± 8%, and 81 ± 6% respectively, outperforming the other tested models in classifying SVPs. To the best of our knowledge, this research is the first study that utilizes a deep neural network for an autonomous and objective classification of SVPs using retinal fundus videos.
Early growth, development and allometry of glyphosate-resistant and susceptible Amaranthus palmeri in response to current and elevated temperature and CO2
Authors: de Souza Rodrigues Juliana , Shilling Donn , Tishchenko Viktor , Bowen Samantha , Deng Shiyuan , Hall Daniel B. , Grey Timothy L.
Published: September 2023

This study aimed to evaluate the influence of CO2 and temperature on glyphosate-resistant and susceptible biotypes of Amaranthus palmeri (Palmer amaranth) in terms of morphological development. Height (cm), stem diameter (cm), leaf area (cm2), number of leaves, leaf, stem, and root dry matter, plant volume (m3), as well as shoot-to-root allometry were evaluated. The Palmer amaranth biotypes were grown under four different scenarios: 1—low temperature (23/33 °C) and CO2 (410 ± 25 ppm); 2—low temperature (23/33 °C) and high CO2 (750 ± 25 ppm); 3—high temperature (26/36 °C) and low CO2 (410 ± 25 ppm); and 4—high temperature (26/36 °C) and CO2 (750 ± 25 ppm). Between CO2 and temperature, the majority of differences observed were driven by CO2 levels. Palmer amaranth grown under 750 ppm of CO2 was 15.5% taller, displayed 10% more leaf area (cm2), 18% more stem dry matter, and had a 28.4% increase in volume (m3) compared to 410 ppm of CO2. GA2017 and GA2020 were 18% and 15.5% shorter, respectively. The number of leaves was 27% greater for GA2005. Plant volume decreased in GA2017 (35.6%) and GA2020 (23.8%). The shoot-to-root ratio was isomeric, except at 14 and 21 DAT, where an allometric growth towards shoot development was significant. Palmer amaranth biotypes responded differently to elevated CO2, and the impacts of temperature need further investigation on weed physiology. Thus, environmental and genetic background may affect the response of glyphosate-resistant and susceptible populations to climate change scenarios.
Benefits of symbiotic ectomycorrhizal fungi to plant water relations depend on plant genotype in pinyon pine
Authors: Sevanto Sanna , Gehring Catherine A. , Ryan Max G. , Patterson Adair , Losko Adrian S. , Vogel Sven C. , Carter Kelsey R. , Dickman L. Turin , Espy Michelle A. , Kuske Cheryl R.
Published: September 2023

Rhizosphere microbes, such as root-associated fungi, can improve plant access to soil resources, affecting plant health, productivity, and stress tolerance. While mycorrhizal associations are ubiquitous, plant–microbe interactions can be species specific. Here we show that the specificity of the effects of microbial symbionts on plant function can go beyond species level: colonization of roots by ectomycorrhizal fungi (EMF) of the genus Geopora has opposite effects on water uptake, and stomatal control of desiccation in drought tolerant and intolerant genotypes of pinyon pine (Pinus edulis Engelm.). These results demonstrate, for the first time, that microorganisms can have significant and opposite effects on important plant functional traits like stomatal control of desiccation that are associated with differential mortality and growth in nature. They also highlight that appropriate pairing of plant genotypes and microbial associates will be important for mitigating climate change impacts on vegetation.
FUS-ERG induces late-onset azacitidine resistance in acute myeloid leukaemia cells
Authors: Asai-Nishishita Ai , Kawahara Masahiro , Tatsumi Goichi , Iwasa Masaki , Fujishiro Aya , Nishimura Rie , Minamiguchi Hitoshi , Kito Katsuyuki , Murata Makoto , Andoh Akira
Published: September 2023

FUS-ERG is a chimeric gene with a poor prognosis, found in myelodysplastic syndromes (MDS) and acute myeloid leukaemia (AML). It remains unclear whether DNA hypomethylating agents, including azacitidine (Aza), are effective in FUS-ERG-harbouring AML and how FUS-ERG induces chemoresistance. Stable Ba/F3 transfectants with FUS-ERG were repeatedly exposed to Aza for 7 days of treatment and at 21-day intervals to investigate Aza sensitivity. Stable FUS-ERG transfectants acquired resistance acquired resistance after three courses of Aza exposure. RNA sequencing (RNA-seq) was performed when Aza susceptibility began to change; genes with altered expression or transcript variants were identified. Molecular signatures of these genes were analysed using gene ontology. RNA-seq analyses identified 74 upregulated and 320 downregulated genes involved in cell motility, cytokine production, and kinase activity. Additionally, 1321 genes with altered transcript variants were identified, revealing their involvement in chromatin organisation. In a clinical case of AML with FUS-ERG, we compared whole-genome alterations between the initial MDS diagnosis and AML recurrence after Aza treatment. Genes with non-synonymous or near mutations in transcription regulatory areas (TRAs), additionally detected in AML recurrence, were collated with the gene list from RNA-seq to identify genes involved in acquiring Aza resistance in the presence of FUS-ERG. Whole-genome sequencing of clinical specimens identified 29 genes with non-synonymous mutations, including BCOR, and 48 genes located within 20 kb of 54 TRA mutations in AML recurrence. These genes were involved in chromatin organisation and included NCOR2 as an overlapping gene with RNA-seq data. Transcription regulators involved in mutated TRAs were skewed and included RCOR1 in AML recurrence. We tested the efficacy of BH3 mimetics, including venetoclax and S63845, in primary Aza-resistant AML cells treated with FUS-ERG. Primary FUS-ERG-harbouring AML cells acquiring Aza resistance affected the myeloid cell leukaemia-1 (MCL1) inhibitor S63845 but not while using venetoclax, despite no mutations in BCL2. FUS-ERG promoted Aza resistance after several treatments. The disturbance of chromatin organisation might induce this by co-repressors, including BCOR, NCOR2, and RCOR1. MCL1 inhibition could partially overcome Aza resistance in FUS-ERG-harbouring AML cells.
Attention-based bidirectional-long short-term memory for abnormal human activity detection
Authors: Kumar Manoj , Patel Anoop Kumar , Biswas Mantosh , Shitharth S.
Published: September 2023

Abnormal human behavior must be monitored and controlled in today’s technology-driven era, since it may cause damage to society in the form of assault or web-based violence, such as direct harm to a person or the propagation of hate crimes through the internet. Several authors have attempted to address this issue, but no one has yet come up with a solution that is both practical and workable. Recently, deep learning models have become popular as a means of handling massive amounts of data but their potential to categorize the aberrant human activity remains unexplored. Using a convolutional neural network (CNN), a bidirectional long short-term memory (Bi-LSTM), and an attention mechanism to pay attention to the unique spatiotemporal characteristics of raw video streams, a deep-learning approach has been implemented in the proposed framework to detect anomalous human activity. After analyzing the video, our suggested architecture can reliably assign an abnormal human behavior to its designated category. Analytic findings comparing the suggested architecture to state-of-the-art algorithms reveal an accuracy of 98.9%, 96.04%, and 61.04% using the UCF11, UCF50, and subUCF crime datasets, respectively.
Side effects following vaccination in multiple sclerosis: a prospective, multi-centre cohort study
Authors: Winkelmann Alexander , Metze Christoph , Zettl Uwe K. , Loebermann Micha
Published: September 2023

Vaccines play a crucial role in preventing infections in patients with multiple sclerosis (MS), although concerns have been raised about potential worsening of the underlying disease. To investigate this, we conducted a prospective, multicentre, non-randomized observational study assessing changes in disease activity, safety, and clinical tolerability of vaccination in 222 MS patients on disease-modifying drugs. The majority of patients were female (76.6%) and 89.6% had relapsing–remitting MS. The vaccines administered were primarily seasonal influenza (56.3%) or tetanus-based vaccines (33.8%). Disease activity, as measured by annualized relapse rate, decreased significantly from 0.64 the year prior to vaccination to 0.38 in the following year. Moreover, the extended disability status scale remained stable within six months after vaccination in comparison to pre-vaccination values. Side effects were reported in 19.2% of vaccinated subjects, most commonly local side effects (65.2%) or flu-like symptoms (34.8%). Our findings suggest that standard non-live vaccines are safe and well-tolerated in MS patients and do not negatively impact disease activity.
Molecular detection and characterization of SARS-CoV-2 in cats and dogs of positive owners during the first COVID-19 wave in Brazil
Authors: Galhardo Juliana Arena , Barbosa David Soeiro , Kmetiuk Louise Bach , de Carvalho Otávio Valério , Teixeira Ana Izabel Passarella , Fonseca Paula Luize Camargos , de Araújo e Santos Luiza Campos Guerra , Queiroz Daniel Costa , Miranda João Victor Oliveira , da Silva Filho Aluisio Pereira , Castillo Anisleidy Pérez , Araujo Ricardo Nascimento , da Silveira Julia Angelica Gonçalves , Ristow Luiz Eduardo , Brandespim Daniel Friguglietti , Pettan-Brewer Christina , de Sá Guimarães Ana Marcia , Dutra Valéria , de Morais Helio Autran , dos Santos Andrea Pires , Agopian Rafael Garabet , de Aguiar Renato Santana , Biondo Alexander Welker
Published: September 2023

Despite previous reports of SARS-CoV-2 infection in dogs and cats worldwide, the type of swab sample used for its detection through RT-qPCR needs to be better compared and described. Accordingly, as part of a multicenter study in Brazil, the aim of the present study was to assess which rectal or oropharyngeal swabs would be more appropriate for detecting SARS-CoV-2 in cats and dogs, through viral load comparison. Pets of owners diagnosed with COVID-19 in the last 7 days were eligible. A total of 148 animals from four of the five Brazilian geographical regions were analyzed, among which 10/48 cats (20.83%) and 11/100 dogs (11.00%) were positive. The results suggested that oropharyngeal swabs should be considered for SARS-CoV-2 detection, particularly in cats, due to the higher cDNA viral load. Also, the genomic results showed similarities between SARS-CoV-2 animal variants and human variants that were circulating at the time of sampling, thus corroborating the existence of zooanthroponotic transmission. In conclusion, the present study highlighted the importance of SARS-CoV-2 monitoring among cats and dogs, as virus modification may indicate the possibility of mutations in animals and spillover back to owners. Thus, positive individuals should always self-isolate from their pets during COVID-19, to prevent trans-species transmission and mutation.
Magnetic dynamics and nonreciprocal excitation in uniform hedgehog order in icosahedral 1/1 approximant crystal
Authors: Watanabe Shinji
Published: September 2023

The hedgehog state in the icosahedral quasicrystal (QC) has attracted great interest as the theoretical discovery of topological magnetic texture in aperiodic systems. The revealed magnetic dynamics exhibits nonreciprocal excitation in the vast extent of the reciprocal lattice $${\varvec{q}}$$

q

-energy $$\omega$$
ω
space, whose emergence mechanism remains unresolved. Here, we analyze the dynamical as well as static structure of the hedgehog order in the 1/1 approximant crystal (AC) composed of the cubic lattice with spatial inversion symmetry. We find that the dispersion of the magnetic excitation energy exhibits nonreciprocal feature along the N-P-$$\Gamma$$
Γ
line in the $${\varvec{q}}$$

q

space. The dynamical structure factor exhibits highly structured intensities where high intensities appear in the high-energy branches along the $$\Gamma$$
Γ
-H line and the P-$$\Gamma$$
Γ
-N line in the $${\varvec{q}}$$

q

space. The nonreciprocity in the 1/1 AC and also in the QC is understood to be ascribed to inversion symmetry breaking by the hedgehog ordering. The sharp contrast on the emergence regime of nonreciprocal magnetic excitation between the QC and the 1/1 AC indicates that the emergence in the vast $${\varvec{q}}$$

q

-$$\omega$$
ω
regime in the QC is attributed to the QC lattice structure.
Entropy generation optimization of cilia regulated MHD ternary hybrid Jeffery nanofluid with Arrhenius activation energy and induced magnetic field
Authors: Mishra Nidhish K. , Sharma Bhupendra K. , Sharma Parikshit , Muhammad Taseer , Pérez Laura M.
Published: September 2023

This study deals with the entropy generation analysis of synthetic cilia using a ternary hybrid nanofluid (Al–Cu–Fe2O3/Blood) flow through an inclined channel. The objective of the current study is to investigate the effects of entropy generation optimization, heat, and mass transfer on ternary hybrid nanofluid passing through an inclined channel in the proximity of the induced magnetic field. The novelty of the current study is present in studying the combined effect of viscous dissipation, thermophoresis, Brownian motion, exponential heat sink/source, porous medium, endothermic–exothermic chemical reactions, and activation energy in the proximity of induced magnetic field is examined. The governing partial differential equations (PDEs) are transformed into the ordinary differential equations (ODEs) using appropriate transformations. Applying the low Reynolds number and the long-wavelength approximation, resultant ODEs are numerically solved using shooting technique via BVP5C in MATLAB. The velocity, temperature, concentration, and induced magnetism profiles are visually discussed and graphically analyzed for various fluid flow parameters. Graphical analysis of physical interest quantities like mass transfer rate, heat transfer rate, entropy generation optimization, and skin friction coefficient are also graphically discussed. The entropy generation improves for enhancing values of Reynolds number, solutal Grashof number, heat sink/source parameter, Brinkman number, magnetic Prandtl number, and endothermic-exothermic reaction parameter while the reverse effect is noticed for chemical reaction and induced magnetic field parameter. The findings of this study can be applied to enhance heat transfer efficiency in biomedical devices, optimizing cooling systems, designing efficient energy conversion processes, and spanning from renewable energy technologies to aerospace propulsion systems.
Contrasting patterns of foraging behavior in neotropical stingless bees using pollen and honey metabarcoding
Authors: Martins Aline C. , Proença Carolyn E. B. , Vasconcelos Thais N. C. , Aguiar Antonio J. C. , Farinasso Hannah C. , de Lima Aluisio T. F. , Faria Jair E. Q. , Norrana Krissya , Costa Marcella B. R. , Carvalho Matheus M. , Dias Rodrigo L. , Bustamante Mercedes M. C. , Carvalho Fernanda A. , Keller Alexander
Published: September 2023

Stingless bees are major flower visitors in the tropics, but their foraging preferences and behavior are still poorly understood. Studying stingless bee interactions with angiosperms is methodologically challenging due to the high tropical plant diversity and inaccessibility of upper canopy flowers in forested habitats. Pollen DNA metabarcoding offers an opportunity of assessing floral visitation efficiently and was applied here to understand stingless bee floral resources spectra and foraging behavior. We analyzed pollen and honey from nests of three distantly related stingless bee species, with different body size and social behavior: Melipona rufiventris, Scaptotrigona postica and Tetragonisca angustula. Simultaneously, we evaluate the local floristic components through seventeen rapid botanical surveys conducted at different distances from the nests. We discovered a broad set of explored floral sources, with 46.3 plant species per bee species in honey samples and 53.67 in pollen samples. Plant families Myrtaceae, Asteraceae, Euphorbiaceae, Melastomataceae and Malpighiaceae dominated the records, indicating stingless bee preferences for abundant resources that flowers of these families provide in the region. Results also reinforce the preference of stingless bees for forest trees, even if only available at long distances. Our high-resolution results encourage future bee-plant studies using pollen and honey metabarcoding in hyper-diverse tropical environments.
Structure based virtual screening and molecular simulation study of FDA-approved drugs to inhibit human HDAC6 and VISTA as dual cancer immunotherapy
Authors: Shahab Muhammad , Al-Madhagi Haitham , Zheng Guojun , Zeb Amir , Alasmari Abdullah Fayez , Alharbi Metab , Alasmari Fawaz , Khan Muhammad Qayash , Khan Momin , Wadood Abdul
Published: September 2023

Cancer immunotherapy has significantly contributed to the treatment of various types of cancers mainly by targeting immune checkpoint inhibitors (ICI). Among them, V-domain immunoglobulin suppressor of T cell activation (VISTA) has been explored as a promising therapeutic target. Besides, histone deacetylase 6 (HDAC6) has been demonstrated to be efficacious target for several cancers. The current theoretical work was performed to explore the virtual repurposing of the FDA-approved drugs as inhibitors against these two (VISTA and HDAC6) cancers therapeutic targets. The crystal structure of the two proteins were downloaded from PDB and subjected to virtual screening by DrugRep webserver while using FDA-approved drugs library as ligands database. Our study revealed that Oxymorphone and Bexarotene are the top-ranked inhibitors of VISTA and HDAC6, respectively. The docking score of Bexarotene was predicted as − 10 kcal/mol while the docking score of Oxymorphone was predicted as − 6.2 kcal/mol. Furthermore, a total of 100 ns MD simulation revealed that the two drugs Oxymorphone and Bexarotene formed stable complexes with VISTA and HDAC6 drug targets. As compared to the standard drug the two drugs Oxymorphone and Bexarotene revealed great stability during the whole 100 ns MD simulation. The binding free energy calculation further supported the Root Mean Square Deviation (RMSD) result which stated that as compared to the ref/HDAC6 (− 18.0253 ± 2.6218) the binding free energy score of the Bexarotene/HDAC6 was good (− 51.9698 ± 3.1572 kcal/mol). The binding free energy score of Oxymorphone/VISTA and Ref/VISTA were calculated as − 36.8323 ± 3.4565, and − 21.5611 ± 4.8581 respectively. In conclusion, the two drugs deserve further consideration as cancer treatment option.
In vitro anticancer potential of laminarin and fucoidan from Brown seaweeds
Authors: Sanniyasi Elumalai , Gopal Rajesh Kanna , Damodharan Rajesh , Arumugam Arthi , Sampath Kumar Madhumitha , Senthilkumar Nandhini , Anbalagan Monisha
Published: September 2023

Marine seaweeds are rich source of polysaccharides present in their cell wall and are cultivated and consumed in China, Japan, Korea, and South Asian countries. Brown seaweeds (Phaeophyta) are rich source of polysaccharides such as Laminarin and Fucoidan. In present study, both the laminarin and fucoidan were isolated was yielded higher in PP (Padina pavonica) (4.36%) and STM (Stoechospermum marginatum) (2.32%), respectively. The carbohydrate content in laminarin and fucoidan was 86.91% and 87.36%, whereas the sulphate content in fucoidan was 20.68%. Glucose and mannose were the major monosaccharide units in laminarin (PP), however, fucose, galactose, and xylose in fucoidan (STM). FT-IR down peaks represent the carbohydrate of laminarin and fucoidan except, for 1219 cm−1, and 843 cm−1, illustrating the sulphate groups of fucoidan. The molecular weight of laminarin was 3–5 kDa, and the same for fucoidan was 2–6 kDa, respectively. Both the Fucoidan and Laminarin showed null cytotoxicity on Vero cells. Contrastingly, the fucoidan possess cytotoxic activity on human liver cancer cells (HepG2) (IC50—24.4 ± 1.5 µg/mL). Simultaneously, laminarin also shown cytotoxicity on human colon cancer cells (HT-29) (IC50—57 ± 1.2 µg/mL). The AO/EB (Acriding Orange/Ethidium Bromide) assay significantly resulted in apoptosis and necrosis upon laminarin and fucoidan treatments, respectively. The DNA fragmentation results support necrotic cancer cell death. Therefore, laminarin and fucoidan from PP and STM were potential bioactive compounds for anticancer therapy.
Detecting schizophrenia with 3D structural brain MRI using deep learning
Authors: Zhang Junhao , Rao Vishwanatha M. , Tian Ye , Yang Yanting , Acosta Nicolas , Wan Zihan , Lee Pin-Yu , Zhang Chloe , Kegeles Lawrence S. , Small Scott A. , Guo Jia
Published: September 2023

Schizophrenia is a chronic neuropsychiatric disorder that causes distinct structural alterations within the brain. We hypothesize that deep learning applied to a structural neuroimaging dataset could detect disease-related alteration and improve classification and diagnostic accuracy. We tested this hypothesis using a single, widely available, and conventional T1-weighted MRI scan, from which we extracted the 3D whole-brain structure using standard post-processing methods. A deep learning model was then developed, optimized, and evaluated on three open datasets with T1-weighted MRI scans of patients with schizophrenia. Our proposed model outperformed the benchmark model, which was also trained with structural MR images using a 3D CNN architecture. Our model is capable of almost perfectly (area under the ROC curve = 0.987) distinguishing schizophrenia patients from healthy controls on unseen structural MRI scans. Regional analysis localized subcortical regions and ventricles as the most predictive brain regions. Subcortical structures serve a pivotal role in cognitive, affective, and social functions in humans, and structural abnormalities of these regions have been associated with schizophrenia. Our finding corroborates that schizophrenia is associated with widespread alterations in subcortical brain structure and the subcortical structural information provides prominent features in diagnostic classification. Together, these results further demonstrate the potential of deep learning to improve schizophrenia diagnosis and identify its structural neuroimaging signatures from a single, standard T1-weighted brain MRI.
Substituted salicylic acid analogs offer improved potency against multidrug-resistant Neisseria gonorrhoeae and good selectivity against commensal vaginal bacteria
Authors: Almolhim Hanan , Elhassanny Ahmed E. M. , Abutaleb Nader S. , Abdelsattar Abdallah S. , Seleem Mohamed N. , Carlier Paul R.
Published: September 2023

Drug-resistant Neisseria gonorrhoeae represents a major threat to public health; without new effective antibiotics, untreatable gonococcal infections loom as a real possibility. In a previous drug-repurposing study, we reported that salicylic acid had good potency against azithromycin-resistant N. gonorrhoeae. We now report that the anti-gonococcal activity in this scaffold is easily lost by inopportune substitution, but that select substituted naphthyl analogs (3b, 3o and 3p) have superior activity to salicylic acid itself. Furthermore, these compounds retained potency against multiple ceftriaxone- and azithromycin-resistant strains, exhibited rapid bactericidal activity against N. gonorrhoeae, and showed high tolerability to mammalian cells (CC50 > 128 µg/mL). Promisingly, these compounds also show very weak growth inhibition of commensal vaginal bacteria.
Sensitivity of standardised radiomics algorithms to mask generation across different software platforms
Authors: Whybra Philip , Spezi Emiliano
Published: September 2023

The field of radiomics continues to converge on a standardised approach to image processing and feature extraction. Conventional radiomics requires a segmentation. Certain features can be sensitive to small contour variations. The industry standard for medical image communication stores contours as coordinate points that must be converted to a binary mask before image processing can take place. This study investigates the impact that the process of converting contours to mask can have on radiomic features calculation. To this end we used a popular open dataset for radiomics standardisation and we compared the impact of masks generated by importing the dataset into 4 medical imaging software. We interfaced our previously standardised radiomics platform with these software using their published application programming interface to access image volume, masks and other data needed to calculate features. Additionally, we used super-sampling strategies to systematically evaluate the impact of contour data pre processing methods on radiomic features calculation. Finally, we evaluated the effect that using different mask generation approaches could have on patient clustering in a multi-center radiomics study. The study shows that even when working on the same dataset, mask and feature discrepancy occurs depending on the contour to mask conversion technique implemented in various medical imaging software. We show that this also affects patient clustering and potentially radiomic-based modelling in multi-centre studies where a mix of mask generation software is used. We provide recommendations to negate this issue and facilitate reproducible and reliable radiomics.
Tandem NBPF 3mer HORs (Olduvai triplets) in Neanderthal and two novel HOR tandem arrays in human chromosome 1 T2T-CHM13 assembly
Authors: Glunčić Matko , Vlahović Ines , Rosandić Marija , Paar Vladimir
Published: September 2023

It is known that the ~ 1.6 kb Neuroblastoma BreakPoint Family (NBPF) repeats are human specific and contributing to cognitive capabilities, with increasing frequency in higher order repeat 3mer HORs (Olduvai triplets). From chimpanzee to modern human there is a discontinuous jump from 0 to ~ 50 tandemly organized 3mer HORs. Here we investigate the structure of NBPF 3mer HORs in the Neanderthal genome assembly of Pääbo et al., comparing it to the results obtained for human hg38.p14 chromosome 1. Our findings reveal corresponding NBPF 3mer HOR arrays in Neanderthals with slightly different monomer structures and numbers of HOR copies compared to humans. Additionally, we compute the NBPF 3mer HOR pattern for the complete telomere-to-telomere human genome assembly (T2T-CHM13) by Miga et al., identifying two novel tandem arrays of NBPF 3mer HOR repeats with 5 and 9 NBPF 3mer HOR copies. We hypothesize that these arrays correspond to novel NBPF genes (here referred to as NBPFA1 and NBPFA2). Further improving the quality of the Neanderthal genome using T2T-CHM13 as a reference would be of great interest in determining the presence of such distant novel NBPF genes in the Neanderthal genome and enhancing our understanding of human evolution.