bluuebunny/crossref_metadata_2025 huggingface dataset:
Friction forces determine cytoplasmic reorganization and shape changes of ascidian oocytes upon fertilization
Authors: Caballero-Mancebo Silvia , Shinde Rushikesh , Bolger-Munro Madison , Peruzzo Matilda , Szep Gregory , Steccari Irene , Labrousse-Arias David , Zheden Vanessa , Merrin Jack , Callan-Jones Andrew , Voituriez Raphaël , Heisenberg Carl-Philipp
Published: January 2024

Contraction and flow of the actin cell cortex have emerged as a common principle by which cells reorganize their cytoplasm and take shape. However, how these cortical flows interact with adjacent cytoplasmic components, changing their form and localization, and how this affects cytoplasmic organization and cell shape remains unclear. Here we show that in ascidian oocytes, the cooperative activities of cortical actomyosin flows and deformation of the adjacent mitochondria-rich myoplasm drive oocyte cytoplasmic reorganization and shape changes following fertilization. We show that vegetal-directed cortical actomyosin flows, established upon oocyte fertilization, lead to both the accumulation of cortical actin at the vegetal pole of the zygote and compression and local buckling of the adjacent elastic solid-like myoplasm layer due to friction forces generated at their interface. Once cortical flows have ceased, the multiple myoplasm buckles resolve into one larger buckle, which again drives the formation of the contraction pole—a protuberance of the zygote’s vegetal pole where maternal mRNAs accumulate. Thus, our findings reveal a mechanism where cortical actomyosin network flows determine cytoplasmic reorganization and cell shape by deforming adjacent cytoplasmic components through friction forces.
Mitotic bookmarking redundancy by nuclear receptors in pluripotent cells
Authors: Chervova Almira , Molliex Amandine , Baymaz H. Irem , Coux Rémi-Xavier , Papadopoulou Thaleia , Mueller Florian , Hercul Eslande , Fournier David , Dubois Agnès , Gaiani Nicolas , Beli Petra , Festuccia Nicola , Navarro Pablo
Published: January 2024

Mitotic bookmarking transcription factors (TFs) are thought to mediate rapid and accurate reactivation after mitotic gene silencing. However, the loss of individual bookmarking TFs often leads to the deregulation of only a small proportion of their mitotic targets, raising doubts on the biological significance and importance of their bookmarking function. Here we used targeted proteomics of the mitotic bookmarking TF ESRRB, an orphan nuclear receptor, to discover a large redundancy in mitotic binding among members of the protein super-family of nuclear receptors. Focusing on the nuclear receptor NR5A2, which together with ESRRB is essential in maintaining pluripotency in mouse embryonic stem cells, we demonstrate conjoint bookmarking activity of both factors on promoters and enhancers of a large fraction of active genes, particularly those most efficiently reactivated in G1. Upon fast and simultaneous degradation of both factors during mitotic exit, hundreds of mitotic targets of ESRRB/NR5A2, including key players of the pluripotency network, display attenuated transcriptional reactivation. We propose that redundancy in mitotic bookmarking TFs, especially nuclear receptors, confers robustness to the reestablishment of gene regulatory networks after mitosis.
Public transport accessibility indicators to urban and regional services in Great Britain
Authors: Verduzco Torres J. Rafael , McArthur David Philip
Published: January 2024

Public transport accessibility to urban and regional services has been found to relate to various social and economic processes, such as unemployment, transport mode choice, property prices, and public health. A frequent type of measures representing accessibility are location-based. While these offer advantages, like flexibility and ease of interpretation, their estimation usually requires specialized skills and substantial computational resources. To lower these barriers, we have prepared a suite of accessibility indicators for key services across Great Britain at a spatially disaggregated level. The dataset includes ready-to-use public transport accessibility indicators for employment, general practitioners (GP, or family physician), hospitals, grocery stores, supermarkets, primary and secondary schools, and urban centres. It also includes the raw travel time matrix from each origin to every potential destination, a primary input for such indicator estimation. Altogether, this resource offers various levels of application, from direct input into a range of research topics to the foundation for creating comprehensive custom indicators.
Enhanced U-Pb detrital zircon, Lu-Hf zircon, δ18O zircon, and Sm-Nd whole rock global databases
Authors: Puetz Stephen J. , Spencer Christopher J. , Condie Kent C. , Roberts Nick M. W.
Published: January 2024

High-quality global isotopic databases provide Earth scientists with robust means for developing and testing a variety of geological hypotheses. Database design establishes the range of questions that can be addressed, and validation techniques can enhance data quality. Here, six validated global isotopic databases provide extensive records of analyses from U-Pb in detrital zircon, Lu-Hf in zircon, Sm-Nd from whole rocks, and δ18O in zircon. The U-Pb detrital zircon records are segregated into three independently sampled databases. Independent samples are critical for testing the replicability of results, a key requisite for gaining confidence in the validity of a hypothesis. An advantage of our updated databases is that a hypothesis developed from one of the global detrital zircon databases can be immediately tested with the other two independent detrital zircon databases to assess the replicability of results. The independent εHf(t) and εNd(t) values provide similar means of testing for replicable results. This contribution discusses database design, data limitations, and validation techniques used to ensure the data are optimal for subsequent geological investigations.
Red blood cell transfusion-related dynamics of extracellular vesicles in intensive care patients: a prospective subanalysis
Authors: Raeven Pierre , Karlhofer Katharina , Sztulman Larissa S. , Brugger Jonas , Hoetzenecker Konrad , Domenig Christoph , Leitner Gerda , Posch Martin , Baron David M. , Spittler Andreas
Published: January 2024

Extracellular vesicles (EVs) accumulate during packed red blood cell (PRBC) storage. To date, the involvement of EVs in transfusion-related immunomodulation (TRIM) has not been prospectively evaluated in intensive care unit (ICU) patients. This was a prospective subanalysis of a recent observational feasibility study in postoperative ICU patients after: (1) open aortic surgery (Aorta), (2) bilateral lung transplantation (LuTx), and (3) other types of surgery (Comparison). Patient plasma was collected three times each before and after leukoreduced PRBC transfusion at 30-min intervals. The total number of EVs and EVs derived from erythrocytes (EryEVs), total platelets (total PEVs), activated platelets, granulocytes (GEVs), monocytes, and myeloid cells in PRBC samples and patient plasma were analyzed by flow cytometry. Statistical analysis was performed by Spearman’s correlation test, linear mixed models and pairwise comparisons by Wilcoxon matched-pairs test. Twenty-three patients (Aorta n = 5, LuTx n = 9, Comparison n = 9) were included in the final analysis. All EV subgroups analyzed were detectable in all PRBCs samples (n = 23), but concentrations did not correlate with storage time. Moreover, all EVs analyzed were detectable in all plasma samples (n = 138), and EV counts were consistent before transfusion. Concentrations of total EVs, EryEVs, total PEVs, and GEVs increased after transfusion compared with baseline in the entire cohort but not in specific study groups. Furthermore, the change in plasma EV counts (total EVs and EryEVs) after transfusion correlated with PRBC storage time in the entire cohort. Extracellular vesicles were detectable in all PRBC and plasma samples. Individual EV subtypes increased after transfusion in the entire cohort, and in part correlated with storage duration. Future clinical studies to investigate the role of EVs in TRIM are warranted and should anticipate a larger sample size.

Trial registration: Clinicaltrials.gov: NCT03782623.
Cross-sectional and longitudinal neural predictors of physical activity and sedentary behaviour from a 6-month randomized controlled trial
Authors: Falck Ryan Stanley , Hsu Chun Liang , Best John R. , Boa Sorte Silva Narlon Cassio , Hall Peter A. , Li Linda C. , Liu-Ambrose Teresa
Published: January 2024

A sedentary lifestyle offers immediate gratification, but at the expense of long-term health. It is thus critical to understand how the brain evaluates immediate rewards and long-term health effects in the context of deciding whether to engage in moderate-to-vigorous physical activity (MVPA) or sedentary behaviour (SB). In this secondary analysis of a 6-month randomized controlled trial to increase MVPA and reduce SB among community-dwelling adults, we explored how neural activity during an executive control task was associated with MVPA and SB levels. At baseline, a subset of participants (n = 26/61) underwent task-based functional magnetic resonance imaging (fMRI) to examine neural activity underlying executive control using the Now/Later task. MVPA and SB were measured objectively using the Sensewear Mini at baseline, and 2, 4, and 6 months follow-up. We then examined the associations of baseline neural activation underlying executive control with: (1) baseline MVPA or SB; and (2) changes in MVPA and SB over 6 months. Our results determined that there is a complex neurocognitive system associated with MVPA levels, while SB appears to lack any neurocognitive control. In other words, MVPA appears to require neurocognitive effort, while SB may be the default behavioural pattern in adults.
Changes of dry eye parameters after small incision lenticule extraction surgery in patients with different ocular surface disease index scores
Authors: Cui Ge , Wang Tianjiao , Di Yu , Yang Shan , Li Ying , Chen Di
Published: January 2024

To evaluate the changes of dry eye parameters after small incision lenticule extraction (SMILE) surgery in patients with different ocular surface disease index (OSDI) scores. Prospective research. Participants were divided into two groups: Group A, OSDI < 13; and Group B, OSDI ≥ 13. The OSDI scores, tear meniscus height (TMH), first non-invasive tear film break-up time (NIBUT-First), and meibomian gland loss (MGL, %) were recorded at postoperative 1 -week and 1-month.113 eyes (57 patients) were enrolled, 70 eyes in Group A, and 43 eyes in Group B. In Group A, the OSDI scores significantly increased at 1-week and 1-month postoperative (all P < 0.001); the TMH, NIBUT-First and lipid layer grade significantly decreased at postoperative 1-week (P = 0.003, 0.005, 0.007, 0.004, respectively), but returned to preoperative level at 1-month postoperative. In Group B, only the lipid layer grade significantly decreased at postoperative 1-week (P < 0.05). Patients with different preoperative OSDI scores may experience different changes early after SMILE surgery. Patients with OSDI scores < 13 may experience more dramatic changes in dry eye symptoms which would resolve, while subjective complains could still exists at 1 month after surgery.
Characteristics of long COVID and the impact of COVID-19 vaccination on long COVID 2 years following COVID-19 infection: prospective cohort study
Authors: Kim Yoonjung , Bae Sohyun , Chang Hyun-Ha , Kim Shin-Woo
Published: January 2024

This prospective cohort study aimed to identify characteristics of long COVID and any potential mitigating effects of COVID-19 vaccinations in patients 24 months following COVID-19 infection. Adult patients diagnosed with COVID-19 between February 17, 2020, and March 24, 2020, were scheduled to visit the study hospital four times (6, 12, 18, and 24 months after infection) to assess their symptoms, quality of life, and mental health. Among the 235 patients, 121 (51.5%) completed the study visits. Of these, 59.5% were female, with a median age of 52 years. Mild to moderate disease severity were identified in 101 (83.4%) patients. A total of 75 participants (62.0%) were still experiencing long COVID symptoms 24 months after acute infection. Fatigue, amnesia, difficulty concentrating, and insomnia were the most common symptoms. The frequency of neuropsychiatric symptoms did not differ based on vaccination status or the number of doses received. Quality of life improved over time for the participants, but 32.2% of respondents still reported anxiety/depression at the end of the study. Overall, our cohort demonstrates that long COVID can persist up to 24 months after COVID-19 infection, affecting mental health and quality of life.
C and N stable isotopes enlighten the trophic behaviour of the dugong (Dugong dugon)
Authors: Thibault Martin , Letourneur Yves , Cleguer Christophe , Bonneville Claire , Briand Marine J. , Derville Solène , Bustamante Paco , Garrigue Claire
Published: January 2024

The dugong (Dugong dugon), a large marine mammal herbivore of the Indo-Pacific, is vulnerable to extinction at a global scale due to a combination of human-related threats including habitat degradation. The species forages on seagrass habitats (marine phanerogams) and plays a key role in the functioning and sensitivity of these declining coastal ecosystems. The trophic behaviour and plasticity of dugong populations in response to extrinsic and intrinsic factors are therefore crucial features to both dugong and seagrass conservation. Yet, this knowledge remains limited to few visual observations and analyses of mouth, stomach or faecal contents of stranded individuals. We take advantage of a long-term monitoring of stranded individuals from the endangered New Caledonian population to depict features of dugongs’ trophic ecology from Carbon and Nitrogen stable isotopes. A total of 59 dugong skin samples were used to portrait the stable isotope niche of dugongs according to their sex and maturity. In light of previous work conducted in New Caledonia, a subset of these samples was used to model the trophic mix of dugong males and females. Our stable isotope mixing models used C and N isotope values of 10 taxa bbelonging to five divisions of metazoans, plants, and chromists. Our results represent the first estimate of the species dietary niche in the isotopic space. They suggest that the diet of dugong calves overlaps more with that of adult females (δ13C: − 6.38 ± 1.13 ‰; δ15N: 2.49 ± 1.10 ‰) than males (δ13C: − 5.92 ± 1.10 ‰; δ15N: 3.69 ± 1.28 ‰). Further, we highlight differences in the expected trophic mix of dugong adult males and females. From these, we formulate a sex-specific foraging behaviour hypothesis in dugongs, whereby lactating females could forage over smaller spatial ranges but more diverse food sources thanmales. The study emphasizes the importance of long-term stranding monitoring programs to study the ecology of marine mammals.. Finally, it depicts an ecological feature that may contribute to the sensitivity of vulnerable dugongs to ongoing changes on tropical coastal ecosystems.
Performance of textured dual mobility total hip prosthesis with a concave dimple during Muslim prayer movements
Authors: Muchammad M. , Tauviqirrahman Mohammad , Ammarullah Muhammad Imam , Iqbal Muhammad , Setiyana Budi , Jamari J.
Published: January 2024

The single mobility bearing as a previous bearing design of total hip prosthesis has severe mobility constraints that can result in dislocation during Muslim (people who follow the Islam as religion) prayer movements, specifically shalat that requires intense movement. There are five intense movements (i.e., bowing, prostration, sitting, transition from standing to prostration, and final sitting) during Muslim prayer that may generate an impingement problem for patients with total hip prosthesis. In this work, textured dual mobility total hip prosthesis with two textured cases (i.e., textured femoral head and textured inner liner) are presented and their performances are numerically evaluated against untextured surface model during Muslim prayer movement. The concave dimple design is chosen for surface texturing, while for simulating femoral head materials, SS 316L and CoCrMo is choosen. To represent the real condition, three-dimensional computational fluid dynamics (CFD) coupled with two-way fluid–structure interaction (FSI) methods are employed to analyze elastohydrodynamic lubrication problem with non-Newtonian synovial fluid model. The main aim of the present study is to investigate the tribological performance on dual mobility total hip prosthesis with applied textured surface with concave dimple in femoral head and inner liner surface under Muslim prayer movements. It is found that applying surface texturing has a beneficial effect on the lubrication performance for some intense movements. The textured femoral head model performs better than textured inner liner model and untextured model (both femoral head and inner liner). The numerical results also indicate superior performance of CoCrMo femoral head compared to SS 316L femoral head. These findings can be used as a reference for biomedical engineers and orthopedic surgeons in designing and choosing suitable total hip prosthesis for Muslims makes they can carry out Muslim prayer movements like humans in general who have normal hip joints.
The influence of molecular shape on reorientation dynamics of sizable glass-forming isomers at ambient and elevated pressure
Authors: Błażytko Alfred , Rams-Baron Marzena , Paluch Marian
Published: January 2024

We used dielectric spectroscopy to access the molecular dynamics of three isomers with a structure based on a sizable, partially rigid, and non-polar core connected to a polar phenylene unit differing in the position of the polar group, and, consequently, the direction and magnitude of the dipole moment to address the question how unique molecular properties, in particular large size and elongated shape, affect the dynamics. The position of the polar group differentiates the molecular shape and isomer’s anisotropy and leads to different thermal and dynamic properties of the isomers. The shape of permittivity loss spectra was governed by magnitudes of the longitudinal and transverse components of dipole moment to a large extent. For para isomer with negligible traverse component of dipole moment, the narrowest loss peak was found while for meta isomer, the bimodal loss peak was observed at high temperatures. Its shape evolved on cooling limiting the possibility of individual mode separation near glass transition where the dynamics were more cooperative. High-pressure dielectric studies showed that sizable isomers were characterized by the pronounced sensitivity of glass transition temperature, Tg, to compression. Observed high activation volumes, such as 735 cm3/mol at Tg for para isomer, were found to correlate with the length scale of dynamic cooperativity. The number of dynamically correlated molecules depended on molecular shape and varied among isomers while the determined values were much smaller than that reported for other glass-forming liquids. We discussed here the obtained results in the context of the specific properties of the systems studied showing the overriding role of anisotropy.
Individual-specific change points in circadian rest-activity rhythm and sleep in individuals tapering their antidepressant medication: an actigraphy study
Authors: Minaeva Olga , Schat Evelien , Ceulemans Eva , Kunkels Yoram K. , Smit Arnout C. , Wichers Marieke , Booij Sanne H. , Riese Harriëtte
Published: January 2024

Group-level studies showed associations between depressive symptoms and circadian rhythm elements, though whether these associations replicate at the within-person level remains unclear. We investigated whether changes in circadian rhythm elements (namely, rest-activity rhythm, physical activity, and sleep) occur close to depressive symptom transitions and whether there are differences in the amount and direction of circadian rhythm changes in individuals with and without transitions. We used 4 months of actigraphy data from 34 remitted individuals tapering antidepressants (20 with and 14 without depressive symptom transitions) to assess circadian rhythm variables. Within-person kernel change point analyses were used to detect change points (CPs) and their timing in circadian rhythm variables. In 69% of individuals experiencing transitions, CPs were detected near the time of the transition. No-transition participants had an average of 0.64 CPs per individual, which could not be attributed to other known events, compared to those with transitions, who averaged 1 CP per individual. The direction of change varied between individuals, although some variables showed clear patterns in one direction. Results supported the hypothesis that CPs in circadian rhythm occurred more frequently close to transitions in depression. However, a larger sample is needed to understand which circadian rhythm variables change for whom, and more single-subject research to untangle the meaning of the large individual differences.
Density clustering-based automatic anatomical section recognition in colonoscopy video using deep learning
Authors: Kim Byeong Soo , Cho Minwoo , Chung Goh Eun , Lee Jooyoung , Kang Hae Yeon , Yoon Dan , Cho Woo Sang , Lee Jung Chan , Bae Jung Ho , Kong Hyoun-Joong , Kim Sungwan
Published: January 2024

Recognizing anatomical sections during colonoscopy is crucial for diagnosing colonic diseases and generating accurate reports. While recent studies have endeavored to identify anatomical regions of the colon using deep learning, the deformable anatomical characteristics of the colon pose challenges for establishing a reliable localization system. This study presents a system utilizing 100 colonoscopy videos, combining density clustering and deep learning. Cascaded CNN models are employed to estimate the appendix orifice (AO), flexures, and "outside of the body," sequentially. Subsequently, DBSCAN algorithm is applied to identify anatomical sections. Clustering-based analysis integrates clinical knowledge and context based on the anatomical section within the model. We address challenges posed by colonoscopy images through non-informative removal preprocessing. The image data is labeled by clinicians, and the system deduces section correspondence stochastically. The model categorizes the colon into three sections: right (cecum and ascending colon), middle (transverse colon), and left (descending colon, sigmoid colon, rectum). We estimated the appearance time of anatomical boundaries with an average error of 6.31 s for AO, 9.79 s for HF, 27.69 s for SF, and 3.26 s for outside of the body. The proposed method can facilitate future advancements towards AI-based automatic reporting, offering time-saving efficacy and standardization.
A stochastic programming approach for EOL electric vehicle batteries recovery network design under uncertain conditions
Authors: Yan Wei , Wang Xiao , Liu Ying , Zhang Xu-mei , Jiang Zhi-gang , Huang Lin
Published: January 2024

With the development of the electric vehicle industry, the number of power batteries has increased dramatically. Establishing a recycling EOL (end-of-life) battery network for secondary use is an effective way to solve resource shortage and environmental pollution. However, existing networks are challenging due to the high uncertainty of EOL batteries, e.g., quantity and quality, resulting in a low recycling rate of the recovery network. To fill this gap, this paper proposes a stochastic programming approach for recovery network design under uncertain conditions of EOL batteries. Firstly, a multi-objective model for battery recovery network is established, considering carbon emissions and economic benefits. Secondly, a stochastic programming approach is proposed to clarify the model. Subsequently, the genetic algorithm is employed to solve the proposed model. Finally, a recovery network case of Region T is given to verify the credibility and superiority of the proposed method. The results demonstrate that the proposed model reduces carbon emissions by 20 metric tons and increases overall economic benefits by 10 million yuan in Region T compared to the deterministic model. Furthermore, the two portions affecting the optimization results are also discussed to provide a reference for reducing carbon emissions and improving economic efficiency in recycling networks.
Basketball free-throw training with augmented reality-based optimal shot trajectory for novice shooters
Authors: Ueyama Yuki , Harada Masanori
Published: January 2024

We propose an augmented reality (AR)-based training system for basketball free-throws. The optimal shot trajectory for free-throws is projected by a head-mounted display according to the shooter’s release point. The efficacy of the training system was assessed in novice shooters by comparing changes in success rates and eye-gaze behavior (quiet eye [QE]) between AR-training and control-training groups. The success rate during the AR training with the optimal trajectory did not differ from the pre-training rate; however, in post-AR training, i.e., after removal of the optimal trajectory, the success rate increased. Additionally, AR training increased the QE duration (QED) compared with that recorded during pre- and post-training blocks. In contrast, the control group showed no change in the success rate or QED. These findings imply that our AR training system affected QE behavior and improved free-throwing shooting performance after training. Thus, our system is expected to enhance basketball free-throw shooting performance.
Sex-biased phenotypic plasticity affects sexual dimorphism patterns under changing environmental conditions
Authors: Cordeschi Giulia , Canestrelli Daniele , Porretta Daniele
Published: January 2024

Sexual dimorphism is almost ubiquitous in animals. A common pattern observed across multiple taxa involves differences in development time (sexual bimaturism) and body size (sexual size dimorphism) between conspecific males and females. Furthermore, a strict association of dimorphism at these traits has been documented in several taxa, where the sex showing shorter development time also has a smaller body size than the other sex. Growth and development are strongly dependent on environmental conditions during individual life-cycle in ectotherms, inducing considerable phenotypic plasticity. However, how phenotypic plasticity affects the association between sexual dimorphism in development time and body size remains unclear. Here, we tracked development time, body size, and body mass throughout the ontogeny of the mosquito Aedes mariae. The larval development of this species is strictly linked to Mediterranean Sea rock-pools, whose highly variable environmental conditions over minimal time frames make this organism-environment system ideal for exploring plasticity-led eco-evolutionary processes. We found differential plasticity between males and females, dissolving the link between dimorphism in development time and body size under increasing temperature and decreasing salinity conditions. These findings contrast with the current hypotheses proposed to explain the origin of the association between sexual bimaturism and sexual size dimorphism, highlighting the condition dependence of sexual dimorphism patterns and the need to consider phenotypic plasticity in future studies on their evolution.
Automated procedure to detect subtle motor alterations in the balance beam test in a mouse model of early Parkinson’s disease
Authors: Bidgood Raphaëlle , Zubelzu Maider , Ruiz-Ortega Jose Angel , Morera-Herreras Teresa
Published: January 2024

Parkinson’s disease (PD) is the most common motor neurodegenerative disorder, characterised by aggregated α-synuclein (α-syn) constituting Lewy bodies. We aimed to investigate temporal changes in motor impairments in a PD mouse model induced by overexpression of α-syn with the conventional manual analysis of the balance beam test and a novel approach using machine learning algorithms to automate behavioural analysis. We combined automated animal tracking using markerless pose estimation in DeepLabCut, with automated behavioural classification in Simple Behavior Analysis. Our automated procedure was able to detect subtle motor deficits in mouse performances in the balance beam test that the manual analysis approach could not assess. The automated model revealed time-course significant differences for the “walking” behaviour in the mean interval between each behavioural bout, the median event bout duration and the classifier probability of occurrence in male PD mice, even though no statistically significant loss of tyrosine hydroxylase in the nigrostriatal system was found in either sex. These findings are valuable for early detection of motor impairment in early PD animal models. We provide a user-friendly, step-by-step guide for automated assessment of mouse performances in the balance beam test, which aims to be replicable without any significant computational and programming knowledge.
The underlying mechanisms of DNA methylation in high salt memory in hypertensive vascular disease
Authors: Liu Nannan , Chen Yixiao , Wang Yuhan , Wu Sha , Wang Jie , Qi Luming , Deng Tingting , Xia Lina
Published: January 2024

This study demonstrates the effect and DNA methylation-related mechanisms of a high-salt diet and salt memory-induced hypertension and vasculopathy. Thirty Sprague Dawley rats were randomly divided into a control (CON) group (n = 6) and a modeling group (n = 24). A 12% NaCl solution (1 mL/100 g) was intragastrically administered for 60 consecutive days for modeling. An increase in blood pressure up to 140 mmHg was considered successful modeling. Twelve of fifteen successfully modeled rats were randomly selected and divided into a High Salt Diet (HSD) group and a High Salt Memory (HSM) group (n = 6). Rats in HSD group were intragastrically administered a 12% NaCl solution, while rats in HSM group were administered a 3% NaCl solution twice a day for 30 days. At the end of the intervention, blood pressure and the serum levels of ET-1, NO, TNF-α and IL-1β were measured. RRBS-heavy sulfite sequencing technology was selected for DNA methylation analysis. The systolic blood pressure of rats in the HSD group and HSM group was significantly higher than that in the CON group. Compared with those in the CON group, the serum levels of ET-1 in the HSM group and the serum levels of NO in the HSD group and HSM group were significantly increased. The methylation level of the CON group was lower than that of the HSD group and the HSM group, and there was no significant difference between the HSD group and the HSM group. The methylation level of Myoz3 was downregulated in the HSD group and HSM group. The methylation level of Fgd3 were upregulated in HSD group and downregulated in the HSM group. The methylation levels of AC095693.1, Adamts3, PDGFA and PDGFRα were downregulated in the HSD group and upregulated in the HSM group. According to the GO database, the differentially methylated genes were significantly enriched in the coordination of cell function, genetic development, and RNA transcription. There were three main metabolic pathways that were enriched in the differentially expressed genes between the groups: the PI3K-Akt signaling pathway, MAPK signaling pathway, and Hippo signaling pathway. Excessive salt intake may cause hypertension and vascular damage, and this damage may continue after the reduction of salt intake. Therefore, salt memory phenomenon exists, and this memory effect may be correlated with the levels of DNA methylation.
Hydrocarbon generation potential evaluation via petrographic and geochemical analyses of El-Maghara coal in Sinai, Egypt
Authors: Salman S. A. , Abou El-Anwar E. A. , Makled W. A. , Mahfouz K. H. , Belal Z. L.
Published: January 2024

The energy demand increased dramatically owing to the evolution of industrial and domestic requirements and the associated decrease in oil and gas resources. This study aims to evaluate El-Maghara coal (with about 52 MT reserve) as a potential hydrocarbon source. The collect samples were subjected to petrographic, chemical analyses and Rock–Eval pyrolysis to investigate the detailed characteristics of this coal. Chemically, this coal is high volatile bituminous coal with high H and S content. The high H/C ratio indicates the high extraction yield of coal. The main maceral group in the studied samples is vitrinite (62.8%) followed by liptinite (31.3%) and inertinite (5.8%). The content of liptinite indicates the capability of this coal for petroleum production. Based on Rock–Eval Pyrolysis results and TOC content, the coal has excellent petroleum potential. The hydrogen index (HI) and H/C atomic ratio indicate the II kerogen type (oil prone) of this coal. This coal has Tmax and vitrinite reflectance values around 415.8 °C and 0.37%, respectively, indicating the immature stage of kerogen. The high reactive maceral content (94.2%), oil-yield (65.5%) and conversion from coal to oil (95.4%), indicated that this coal has a hydrocarbon generation potential for oil.
Global analysis of the abundance of AU-rich mRNAs in response to glucocorticoid treatment
Authors: Muazzen Zeyad , Moghrabi Walid , Bakheet Tala , Mahmoud Linah , Al-Saif Maher , Khabar Khalid S. A. , Hitti Edward G.
Published: January 2024

Glucocorticoids (GC) like dexamethasone (Dex) are potent anti-inflammatory agents with diverse cellular functions including the potentiation of the activity of AU-rich elements (AREs). AREs are cis-acting instability sequence elements located in the 3′UTRs of many inflammatory mediator mRNAs. Here, available RNA-seq data were used to investigate the effect of GCs on the ARE-mRNA-transcriptome. At a global scale, ARE-mRNAs had a tendency to be downregulated after GC-treatment of the A549 lung cancer cell-line, but with notable cases of upregulation. mRNA stability experiments indicated that not only the downregulated, but also the upregulated ARE-mRNAs are destabilized by Dex-treatment. Several of the most upregulated ARE-mRNAs code for anti-inflammatory mediators including the established GC targets DUSP1 and ZFP36; both code for proteins that target ARE-containing mRNAs for destruction. GCs are widely used in the treatment of COVID-19 patients; we show that ARE-mRNAs are more likely to regulate in opposite directions between Dex-treatment and SARS-CoV-2 infections compared to non-ARE mRNAs. The effect of GC treatment on ARE-mRNA abundance was also investigated in blood monocytes of COVID-19 patients. The results were heterogeneous; however, in agreement with in vitro observations, ZFP36 and DUSP1 were often amongst the most differentially expressed mRNAs. The results of this study propose a universal destabilization of ARE-mRNAs by GCs, but a diverse overall outcome in vitro likely due to induced transcription or due to the heterogeneity of COVID-19 patient’s responses in vivo.
Federated clustered multi-domain learning for health monitoring
Authors: Jiang Shiyi , Li Yuan , Firouzi Farshad , Chakrabarty Krishnendu
Published: January 2024

Wearable Internet of Things (WIoT) and Artificial Intelligence (AI) are rapidly emerging technologies for healthcare. These technologies enable seamless data collection and precise analysis toward fast, resource-abundant, and personalized patient care. However, conventional machine learning workflow requires data to be transferred to the remote cloud server, which leads to significant privacy concerns. To tackle this problem, researchers have proposed federated learning, where end-point users collaboratively learn a shared model without sharing local data. However, data heterogeneity, i.e., variations in data distributions within a client (intra-client) or across clients (inter-client), degrades the performance of federated learning. Existing state-of-the-art methods mainly consider inter-client data heterogeneity, whereas intra-client variations have not received much attention. To address intra-client variations in federated learning, we propose a federated clustered multi-domain learning algorithm based on ClusterGAN, multi-domain learning, and graph neural networks. We applied the proposed algorithm to a case study on stress-level prediction, and our proposed algorithm outperforms two state-of-the-art methods by 4.4% in accuracy and 0.06 in the F1 score. In addition, we demonstrate the effectiveness of the proposed algorithm by investigating variants of its different modules.
Seed priming with selenium improves growth and yield of quinoa plants suffering drought
Authors: Raza Muhammad Aown Sammar , Aslam Muhammad Usman , Valipour Mohammad , Iqbal Rashid , Haider Imran , Mustafa Abd El-Zaher M. A. , Elshikh Mohamed S. , Ali Iftikhar , Roy Rana , Elshamly Ayman M. S.
Published: January 2024

Drought stress is a worldwide threat to the productivity of crops, especially in arid and semi-arid zones of the world. In the present study, the effect of selenium (Se) seed priming on the yield of quinoa under normal and drought conditions was investigated. A pot trial was executed to enhance the drought tolerance in quinoa by Se seed priming (0, 3, 6, and 9 mg Se L−1). The plants were exposed to water stress at three different growth stages of quinoa, viz. multiple leaf, flowering, and seed filling. It was noticed that drought significantly affected the yield components of quinoa, however, Se priming improved the drought tolerance potential and yield of quinoa by maintaining the plant water status. Se priming significantly increased main panicle length (20.29%), main panicle weight (26.43%), and thousand grain weight (15.41%) as well as the gas exchange parameters (transpiration rate (29.74%), stomatal conductance (35.29%), and photosynthetic rate (28.79%), total phenolics (29.36%), leaf chlorophyll contents (35.97%), water relations (leaf relative water contents (14.55%), osmotic potential (10.32%), water potential (38.35%), and turgor potential (31.37%), and economic yield (35.99%) under drought stress. Moreover, Se priming markedly improved grain quality parameters i.e., phosphorus, potassium, and protein contents by 21.28%, 18.92%, and 15.04%, respectively. The principal component analysis connected the various study scales and showed the ability of physio-biochemical factors to describe yield fluctuations in response to Se seed priming under drought conditions. In conclusion, a drought at the seed-filling stage has a far more deleterious impact among other critical growth stages and seed priming with Se (6 mg L−1) was found more effective in alleviating the detrimental effects of drought on the grain yield of quinoa.
A cold-atom Ramsey clock with a low volume physics package
Authors: Bregazzi A. , Batori E. , Lewis B. , Affolderbach C. , Mileti G. , Riis E. , Griffin P. F.
Published: January 2024

We demonstrate a Ramsey-type microwave clock interrogating the 6.835 GHz ground-state transition in cold $$^{87}$$

87

Rb atoms loaded from a grating magneto-optical trap (GMOT) enclosed in an additively manufactured loop-gap resonator microwave cavity. A short-term stability of $$1.5 \times 10^{-11} \tau ^{-1/2}$$

1.5
×

10

-
11

τ

-
1
/
2

is demonstrated, in reasonable agreement with predictions from the signal-to-noise ratio of the measured Ramsey fringes. The cavity-grating package has a volume of $$\approx $$
≈
67 cm$$^{3}$$

3

, ensuring an inherently compact system while the use of a GMOT drastically simplifies the optical requirements for laser cooled atoms. This work is another step towards the realisation of highly compact portable cold-atom frequency standards.
Mitofusin 1 silencing decreases the senescent associated secretory phenotype, promotes immune cell recruitment and delays melanoma tumor growth after chemotherapy
Authors: Tarallo Doménica , Martínez Jennyfer , Leyva Alejandro , Mónaco Amy , Perroni Carolina , Tassano Marcos , Gambini Juan Pablo , Cappetta Mónica , Durán Rosario , Moreno María , Quijano Celia
Published: January 2024

Cellular senescence is a therapy endpoint in melanoma, and the senescence-associated secretory phenotype (SASP) can affect tumor growth and microenvironment, influencing treatment outcomes. Metabolic interventions can modulate the SASP, and mitochondrial energy metabolism supports resistance to therapy in melanoma. In a previous report we showed that senescence, induced by the DNA methylating agent temozolomide, increased the level of fusion proteins mitofusin 1 and 2 in melanoma, and silencing Mfn1 or Mfn2 expression reduced interleukin-6 secretion by senescent cells. Here we expanded these observations evaluating the secretome of senescent melanoma cells using shotgun proteomics, and explored the impact of silencing Mfn1 on the SASP. A significant increase in proteins reported to reduce the immune response towards the tumor was found in the media of senescent cells. The secretion of several of these immunomodulatory proteins was affected by Mfn1 silencing, among them was galectin-9. In agreement, tumors lacking mitofusin 1 responded better to treatment with the methylating agent dacarbazine, tumor size was reduced and a higher immune cell infiltration was detected in the tumor. Our results highlight mitochondrial dynamic proteins as potential pharmacological targets to modulate the SASP in the context of melanoma treatment.
Sediment temperature characteristics and their relation to distribution patterns of two sentinel crab species in intertidal flats in western Japan
Authors: Koyama Akihiko , Inui Ryutei
Published: January 2024

In the context of global climate change, monitoring focused on temperature and benthic animals in intertidal flats and the development of metrics to assess climate change and ecosystem responses are essential for a sustainable society. However, few studies have assessed the relationship between intertidal sediment temperature and the distribution of benthic animals. To address this gap, in the present study, intertidal sediment temperatures were observed in 12 intertidal flats in 11 survey areas over 335 days, from October 2, 2019, to August 31, 2020, using water temperature data loggers. The characteristics of intertidal sediment temperatures were variable among the survey areas, and a correlation analysis suggested that such characteristics are possibly influenced by various spatial-scale factors, such as geographical, basin, and habitat scales. Furthermore, two sentinel crab species, Macrophthalmus japonicus and Macrophthalmus banzai were collected, and the number of wintering individuals of each species was estimated based on their carapace width to analyze the changes in abundances of the two species in each survey area. The results show that the number of days with daily minimum temperature ≥ 19 °C was the factor that influenced the abundance rate, suggesting that M. japonicus and M. banzai populations may decrease and increase, respectively, according to future climate change in Japan. Our findings emphasize the importance of long-term monitoring of sediment temperatures and benthic animals in intertidal flats to evaluate the influence of future climate change.
Microstructure and hydrogen storage properties of the Mg2−xYxNi0.9Co0.1 (x = 0, 0.2, 0.3, and 0.4) alloys
Authors: Li Defa , Huang Feng , Ren Bingzhi , Wang Shujie , Zhang Wei , Zhu Liming
Published: January 2024

Rare earth elements have excellent catalytic effects on improving hydrogen storage properties of the Mg2Ni-based alloys. This study used a small amount of Y to substitute Mg partially in Mg2Ni0.9Co0.1 and characterized and discussed the effects of Y on the solidification and de-/hydrogenation behaviors. The Mg2−xYxNi0.9Co0.1 (x = 0, 0.2, 0.3, and 0.4) hydrogen storage alloys were prepared using a metallurgy method. The phase composition of the alloys was studied using X-ray diffraction (XRD). Additionally, their microstructure and chemical composition were studied using scanning electron microscopy and energy-dispersive X-ray spectroscopy, respectively. The hydrogen absorption and desorption properties of the alloys were studied using pressure-composition isotherms and differential scanning calorimetric (DSC) measurements. The structure of the as-cast Mg2Ni0.9Co0.1 alloy was composed of the peritectic Mg2Ni, eutectic Mg–Mg2Ni, and a small amount of pre-precipitated Mg–Ni–Co ternary phases, and was converted into the Mg2NiH4, Mg2Ni0.9Co0.1H4, and MgH2 phases after hydrogen absorption. Furthermore, the XRD patterns of the alloys showed the MgYNi4 phase and a trace amount of the Y2O3 phase along with the Mg and Mg2Ni phases after the addition of Y. After hydrogen absorption, the phase of the alloys was composed of the Mg2NiH4, MgH2, MgYNi4, YH3, Y2O3, and Mg2NiH0.3 phases. With the increase of Y addition, the area ratios of the peritectic Mg2Ni matrix phase in the Mg2−xYxNi0.9Co0.1 (x = 0, 0.2, 0.3, and 0.4) alloys gradually decreased until they disappeared. However, the eutectic structure gradually increased, and the microstructures of the alloys were obviously refined. The addition of Y improves the activation performance of the alloys. The alloy only needed one cycle of de-/hydrogenation to complete the activation for x = 0.4. The DSC curves showed that the initial dehydrogenation temperatures of Mg2Ni0.9Co0.1 and Mg1.8Y0.2Ni0.9Co0.1 were 200 and 156 °C, respectively. The desorption activation energies of the hydrides of the Mg2Ni0.9Co0.1 and Mg1.8Y0.2Ni0.9Co0.1 alloys calculated using the Kissinger method were 94.7 and 56.5 kJ/mol, respectively. Moreover, the addition of Y reduced the initial desorption temperature of the alloys and improved their kinetic properties.
A first report on prokaryotic diversity in northwestern Arafura deep-sea sediments, Indonesia
Authors: Tapilatu Yosmina , Fauzan Ihsan , Pradipta Ariel , Kusuma Ali Budhi
Published: January 2024

Indonesia's deep-sea microbial communities remain poorly understood, prompting the need for comprehensive investigations. This study aimed to assess the bacterial and archaeal diversities in northwestern Arafura deep-sea sediments, spanning depths of 100 to 1,457 m using a 16S rRNA based-metagenomic sequencing approach, without technical and biological replicates. Principal component analyses based on the Bray–Curtis dissimilarity index indicated that most of the bacterial and archaeal communities were habitat-specific and influenced by depth. The most prevalent known bacterial phylotypes were detected from all samples belonging to the phylum of Desulfobacteriota, Pseudomonadota, and Firmicutes. In addition, the samples also harbored diverse members of the Archaea domain, including Crenarchaeota, Nanoarchaeota and Haloarchaeota. Notably, the sequencing data revealed the significant presence of rare prokaryotic taxa, including uncultured counterparts with less than 1% abundance. The findings suggest that novel and rare prokaryotic taxa are abundant in northwestern Arafura deep-sea ecosystem, offering unique opportunities for further bioprospecting and functional ecology studies.
Farming practices to enhance biodiversity across biomes: a systematic review
Authors: Cozim-Melges Felipe , Ripoll-Bosch Raimon , Veen G. F. , Oggiano Philipp , Bianchi Felix J. J. A. , van der Putten Wim H. , van Zanten Hannah H. E.
Published: January 2024

Intensive agriculture for food and feed production is a key driver of global biodiversity loss. It is generally assumed that more extensive practices are needed to reconcile food production with biodiversity conservation. In a literature review across biomes and for seven taxa, we retrieved 35 alternative practices (e.g. no-tillage, cover crops, organic fertilizer) from 331 studies. We found that no single practice enhanced all taxonomic groups, but that overall less intensive agricultural practices are beneficial to biodiversity. Nevertheless, often practices had no effects observed and very rarely contrasting impacts on aboveground versus belowground taxa. Species responses to practices were mostly consistent across biomes, except for fertilization. We conclude that alternative practices generally enhance biodiversity, but there is also variation in impacts depending on taxonomic group or type of practice. This suggests that a careful selection of practices is needed to secure biodiversity across taxa in future food systems worldwide.