bluuebunny/crossref_metadata_2025 huggingface dataset:
The first Late Permian fish fossils from Leszczyna quarry in South-West Poland
Authors: DANKINA Darja , SPIRIDONOV Andrej , RACZYŃSKI Paweł , RADZEVIČIUS Sigitas , ANTCZAK Mateusz
Published: February 2023

Permian fishes and their isolated microremains are known from many localities in the Zechstein Basin. However, up to date the vertebrates have never been revealed in the southeasternmost part of this ancient sea. The new material consists of euselachian-type dermal denticles,?Listracanthus sp. dermal denticle,?Omanoselache sp. tooth, actinopterygian scales and actinopterygian teeth. Here, the detailed study of euselachian and actinopterygian remains, their stratigraphic distribution and geographical contexts is presented. Based on the qualitative analysis of teeth shapes several ecomorphotypes were described as well as the probable dietary preferences of fishes were reconstructed. These finds confirmed existence of small predators who fed on soft bodied prey as well as durophagous forms which were feeding on small shelly crustaceans or molluscs. The analysis of stratigraphic distribution of microremains, and their comparison with neighbouring sections revealed a spatially correlatable trend in increasing abundance of fishes in the more clayey parts of sections, interpreted to be positively associated with a sea level transgression event.
Nicotine exposure during breastfeeding alters the expression of endocannabinoid system biomarkers in female but not in male offspring at adulthood
Authors: Miranda Rosiane Aparecida , Rodrigues Vanessa Silva Tavares , Peixoto Thamara Cherem , Manhães Alex C. , de Moura Egberto Gaspar , Lisboa Patricia Cristina
Published: February 2023

Early nicotine exposure compromises offspring’s phenotype at long-term in both sexes. We hypothesize that offspring exposed to nicotine during breastfeeding show deregulated central and peripheral endocannabinoid system (ECS), compromising several aspects of their metabolism. Lactating rats received nicotine (NIC, 6 mg/Kg/day) or saline from postnatal day (PND) 2 to 16 through implanted osmotic minipumps. Offspring were analyzed at PND180. We evaluated protein expression of N-acylphosphatidylethanolamide-phospholipase D (NAPE-PLD), fatty acid amide hydrolase (FAAH), diacylglycerol lipase (DAGL), monoacylglycerol lipase (MAGL) and cannabinoid receptors (CB1 and/or CB2) in lateral hypothalamus, paraventricular nucleus of the hypothalamus, liver, visceral adipose tissue (VAT), adrenal and thyroid. NIC offspring from both sexes did not show differences in hypothalamic ECS markers. Peripheral ECS markers showed no alterations in NIC males. In contrast, NIC females had lower liver DAGL and CB1, higher VAT DAGL, higher adrenal NAPE-PLD and higher thyroid FAAH. Endocannabinoids biosynthesis was affected by nicotine exposure during breastfeeding only in females; alterations in peripheral tissues suggest lower action in liver and higher action in VAT, adrenal and thyroid. Effects of nicotine exposure during lactation on ECS markers are sex- and tissue-dependent. This characterization helps understanding the phenotype of the adult offspring in this model and may contribute to the development of new pharmacological targets for the treatment of several metabolic diseases that originate during development.
Vulnerability of Estuarine Systems in the Contiguous United States to Water Quality Change Under Future Climate and Land‐Use
Authors: Montefiore L. R. , Nelson N. G. , Staudinger M. D. , Terando A.
Published: February 2023

Changes in climate and land‐use and land‐cover (LULC) are expected to influence surface water runoff and nutrient characteristics of estuarine watersheds, but the extent to which estuaries are vulnerable to altered nutrient loading under future conditions is poorly understood. The present work aims to address this gap through the development of a new vulnerability assessment framework that accounts for (a) estuarine exposure to projected changes in total nitrogen (TN) and total phosphorus (TP) loads as a function of LULC and climate change under several scenarios, (b) sensitivity, and (c) adaptive capacity. The framework was applied to 112 estuaries and their contributing watersheds across the contiguous U.S., specifically to look at regional variability in estuarine vulnerability to nutrient loading. Study findings revealed that the largest increases in estuarine nutrient loads are expected in the North and South Atlantic regions and eastern Gulf of Mexico, while the lowest increases are expected in the North and South Pacific regions and the western Gulf of Mexico. However, the North Atlantic and the South Pacific had the highest adaptive capacity, which could potentially counteract the effects of LULC and climate change on nutrient loads. Strong variation in predicted estuarine nutrient loads was observed as a function of climate model projections, while projected LULC changes were more consistently associated with elevated loads. Our findings illustrate the benefits of integrating natural and socio‐ecological factors to identify opportunities to develop adaptation plans and policies to mitigate ecological degradation in vitally important estuaries.
Annually Resolved Propagation of CFCs and SF6 in the Global Ocean Over Eight Decades
Authors: Cimoli Laura , Gebbie Geoffrey , Purkey Sarah G. , Smethie William M.
Published: February 2023

Oceanic transient tracers, such as chlorofluorocarbons (CFCs) and sulfur‐hexafluoride (SF6), trace the propagation of intermediate‐to‐abyssal water masses in the ocean interior. Their temporal and spatial sparsity, however, has limited their utility in quantifying the global ocean circulation and its decadal variability. The Time‐Correction Method (TCM) presented here is a new approach to leverage the available CFCs and SF6 observations to solve for the Green's functions (GFs) describing the steady‐state transport from the surface to the ocean interior. From the GFs, we reconstruct global tracer concentrations (and associated uncertainties) in the ocean interior at annual resolution (1940–2021). The spatial resolution includes 50 neutral density levels that span the water column along World Ocean Circulation Experiment/Global Ocean Ship‐Based Hydrographic Investigations Program lines. The reconstructed tracer concentrations return a global view of CFCs and SF6 spreading into new regions of the interior ocean, such as the deep north‐western Pacific. For example, they capture the southward spreading and equatorial recirculation of distinct North Atlantic Deep Water components, and the spreading of CFC‐rich Antarctic Bottom Water out of the Southern Ocean and into the North Pacific, East Indian, and West Atlantic. The reconstructed tracer concentrations fit the data in most locations (∼75%), indicating that a steady‐state circulation holds for the most part. Discrepancies between the reconstructed and observed concentrations offer insight into ventilation rate changes on decadal timescales. As an example, we infer decadal changes in Subantartic Mode Water (SAMW) and find an increase in SAMW ventilation from 1992 to 2014, highlighting the skill of the TCM in leveraging the sparse tracer observations.
Novel causative variants of VEXAS in UBA1 detected through whole genome transcriptome sequencing in a large cohort of hematological malignancies
Authors: Sakuma Maki , Blombery Piers , Meggendorfer Manja , Haferlach Claudia , Lindauer Markus , Martens Uwe M. , Kern Wolfgang , Haferlach Torsten , Walter Wencke
Published: February 2023

UBA1 is an X-linked gene and encodes an ubiquitin-activating enzyme. Three somatic mutations altering the alternative start codon (M41) in UBA1 in hematopoietic precursor cells have recently been described, resulting in a syndrome of severe inflammation, cytopenias, and the presence of intracellular vacuoles in hematopoietic precursors - termed VEXAS syndrome, a predominantly male disease. Here we present a patient with clinical features of VEXAS who harbored two novel somatic variants in UBA1 (I894S and N606I). To better understand the clinical relevance and biological consequences of non-M41 (UBA1non-M41) variants, we analyzed the whole genome and transcriptome data of 4168 patients with hematological malignancies and detected an additional 16 UBA1non-M41 putative somatic variants with a clear sex-bias in patients with myeloid malignancies. Patients diagnosed with myeloid malignancies carrying UBA1non-M41 putative somatic variants either had vacuoles or immunodysregulatory symptoms. Analysis of the transcriptome confirmed neutrophil activation in VEXAS patients compared to healthy controls but did not result in a specific transcriptomic signature of UBA1M41 patients in comparison with MDS patients. In summary, we have described multiple putative novel UBA1non-M41 variants in patients with various hematological malignancies expanding the genomic spectrum of VEXAS syndrome.
TEFM variants impair mitochondrial transcription causing childhood-onset neurological disease
Authors: Van Haute Lindsey , O’Connor Emily , Díaz-Maldonado Héctor , Munro Benjamin , Polavarapu Kiran , Hock Daniella H. , Arunachal Gautham , Athanasiou-Fragkouli Alkyoni , Bardhan Mainak , Barth Magalie , Bonneau Dominique , Brunetti-Pierri Nicola , Cappuccio Gerarda , Caruana Nikeisha J. , Dominik Natalia , Goel Himanshu , Helman Guy , Houlden Henry , Lenaers Guy , Mention Karine , Murphy David , Nandeesh Bevinahalli , Olimpio Catarina , Powell Christopher A. , Preethish-Kumar Veeramani , Procaccio Vincent , Rius Rocio , Rebelo-Guiomar Pedro , Simons Cas , Vengalil Seena , Zaki Maha S. , Ziegler Alban , Thorburn David R. , Stroud David A. , Maroofian Reza , Christodoulou John , Gustafsson Claes , Nalini Atchayaram , Lochmüller Hanns , Minczuk Michal , Horvath Rita
Published: February 2023

Mutations in the mitochondrial or nuclear genomes are associated with a diverse group of human disorders characterized by impaired mitochondrial respiration. Within this group, an increasing number of mutations have been identified in nuclear genes involved in mitochondrial RNA biology. The TEFM gene encodes the mitochondrial transcription elongation factor responsible for enhancing the processivity of mitochondrial RNA polymerase, POLRMT. We report for the first time that TEFM variants are associated with mitochondrial respiratory chain deficiency and a wide range of clinical presentations including mitochondrial myopathy with a treatable neuromuscular transmission defect. Mechanistically, we show muscle and primary fibroblasts from the affected individuals have reduced levels of promoter distal mitochondrial RNA transcripts. Finally, tefm knockdown in zebrafish embryos resulted in neuromuscular junction abnormalities and abnormal mitochondrial function, strengthening the genotype-phenotype correlation. Our study highlights that TEFM regulates mitochondrial transcription elongation and its defect results in variable, tissue-specific neurological and neuromuscular symptoms.
Low-dimensional encoding of decisions in parietal cortex reflects long-term training history
Authors: Latimer Kenneth W. , Freedman David J.
Published: February 2023

Neurons in parietal cortex exhibit task-related activity during decision-making tasks. However, it remains unclear how long-term training to perform different tasks over months or even years shapes neural computations and representations. We examine lateral intraparietal area (LIP) responses during a visual motion delayed-match-to-category task. We consider two pairs of male macaque monkeys with different training histories: one trained only on the categorization task, and another first trained to perform fine motion-direction discrimination (i.e., pretrained). We introduce a novel analytical approach—generalized multilinear models—to quantify low-dimensional, task-relevant components in population activity. During the categorization task, we found stronger cosine-like motion-direction tuning in the pretrained monkeys than in the category-only monkeys, and that the pretrained monkeys’ performance depended more heavily on fine discrimination between sample and test stimuli. These results suggest that sensory representations in LIP depend on the sequence of tasks that the animals have learned, underscoring the importance of considering training history in studies with complex behavioral tasks.
Gene-encoding DNA origami for mammalian cell expression
Authors: Kretzmann Jessica A. , Liedl Anna , Monferrer Alba , Mykhailiuk Volodymyr , Beerkens Samuel , Dietz Hendrik
Published: February 2023

DNA origami may enable more versatile gene delivery applications through its ability to create custom nanoscale objects with specific targeting, cell-invading, and intracellular effector functionalities. Toward this goal here we describe the expression of genes folded in DNA origami objects delivered to mammalian cells. Genes readily express from custom-sequence single-strand scaffolds folded within DNA origami objects, provided that the objects can denature in the cell. We demonstrate enhanced gene expression efficiency by including and tuning multiple functional sequences and structures, including virus-inspired inverted-terminal repeat-like (ITR) hairpin motifs upstream or flanking the expression cassette. We describe gene-encoding DNA origami bricks that assemble into multimeric objects to enable stoichiometrically controlled co-delivery and expression of multiple genes in the same cells. Our work provides a framework for exploiting DNA origami for gene delivery applications.
An optogenetic toolkit for light-inducible antibiotic resistance
Authors: Sheets Michael B. , Tague Nathan , Dunlop Mary J.
Published: February 2023

Antibiotics are a key control mechanism for synthetic biology and microbiology. Resistance genes are used to select desired cells and regulate bacterial populations, however their use to-date has been largely static. Precise spatiotemporal control of antibiotic resistance could enable a wide variety of applications that require dynamic control of susceptibility and survival. Here, we use light-inducible Cre recombinase to activate expression of drug resistance genes in Escherichia coli. We demonstrate light-activated resistance to four antibiotics: carbenicillin, kanamycin, chloramphenicol, and tetracycline. Cells exposed to blue light survive in the presence of lethal antibiotic concentrations, while those kept in the dark do not. To optimize resistance induction, we vary promoter, ribosome binding site, and enzyme variant strength using chromosome and plasmid-based constructs. We then link inducible resistance to expression of a heterologous fatty acid enzyme to increase production of octanoic acid. These optogenetic resistance tools pave the way for spatiotemporal control of cell survival.
PHGDH arginine methylation by PRMT1 promotes serine synthesis and represents a therapeutic vulnerability in hepatocellular carcinoma
Authors: Wang Kui , Luo Li , Fu Shuyue , Wang Mao , Wang Zihao , Dong Lixia , Wu Xingyun , Dai Lunzhi , Peng Yong , Shen Guobo , Chen Hai-Ning , Nice Edouard Collins , Wei Xiawei , Huang Canhua
Published: February 2023

Serine synthesis is crucial for tumor growth and survival, but its regulatory mechanism in cancer remains elusive. Here, using integrative metabolomics and transcriptomics analyses, we show a heterogeneity between metabolite and transcript profiles. Specifically, the level of serine in hepatocellular carcinoma (HCC) tissues is increased, whereas the expression of phosphoglycerate dehydrogenase (PHGDH), the first rate-limiting enzyme in serine biosynthesis pathway, is markedly downregulated. Interestingly, the increased serine level is obtained by enhanced PHGDH catalytic activity due to protein arginine methyltransferase 1 (PRMT1)-mediated methylation of PHGDH at arginine 236. PRMT1-mediated PHGDH methylation and activation potentiates serine synthesis, ameliorates oxidative stress, and promotes HCC growth in vitro and in vivo. Furthermore, PRMT1-mediated PHGDH methylation correlates with PHGDH hyperactivation and serine accumulation in human HCC tissues, and is predictive of poor prognosis of HCC patients. Notably, blocking PHGDH methylation with a TAT-tagged nonmethylated peptide inhibits serine synthesis and restrains HCC growth in an HCC patient-derived xenograft (PDX) model and subcutaneous HCC cell-derived xenograft model. Overall, our findings reveal a regulatory mechanism of PHGDH activity and serine synthesis, and suggest PHGDH methylation as a potential therapeutic vulnerability in HCC.
The phonon thermal Hall angle in black phosphorus
Authors: Li Xiaokang , Machida Yo , Subedi Alaska , Zhu Zengwei , Li Liang , Behnia Kamran
Published: February 2023

The origin of phonon thermal Hall Effect (THE) observed in a variety of insulators is yet to be identified. Here, we report on the observation of a thermal Hall conductivity in a non-magnetic elemental insulator, with an amplitude exceeding what has been previously observed. In black phosphorus (BP), the longitudinal (κii), and the transverse, κij, thermal conductivities peak at the same temperature and at this peak temperature, the κij/κjj/B is ≈ 10−4−10−3 T−1. Both these features are shared by other insulators displaying THE, despite an absolute amplitude spreading over three orders of magnitude. The absence of correlation between the thermal Hall angle and the phonon mean-free-path imposes a severe constraint for theoretical scenarios of THE. We show that in BP a longitudinal and a transverse acoustic phonon mode anti-cross, facilitating wave-like transport across modes. The anisotropic charge distribution surrounding atomic bonds can pave the way for coupling between phonons and the magnetic field.
Structure of human NaV1.6 channel reveals Na+ selectivity and pore blockade by 4,9-anhydro-tetrodotoxin
Authors: Li Yue , Yuan Tian , Huang Bo , Zhou Feng , Peng Chao , Li Xiaojing , Qiu Yunlong , Yang Bei , Zhao Yan , Huang Zhuo , Jiang Daohua
Published: February 2023

The sodium channel NaV1.6 is widely expressed in neurons of the central and peripheral nervous systems, which plays a critical role in regulating neuronal excitability. Dysfunction of NaV1.6 has been linked to epileptic encephalopathy, intellectual disability and movement disorders. Here we present cryo-EM structures of human NaV1.6/β1/β2 alone and complexed with a guanidinium neurotoxin 4,9-anhydro-tetrodotoxin (4,9-ah-TTX), revealing molecular mechanism of NaV1.6 inhibition by the blocker. The apo-form structure reveals two potential Na+ binding sites within the selectivity filter, suggesting a possible mechanism for Na+ selectivity and conductance. In the 4,9-ah-TTX bound structure, 4,9-ah-TTX binds to a pocket similar to the tetrodotoxin (TTX) binding site, which occupies the Na+ binding sites and completely blocks the channel. Molecular dynamics simulation results show that subtle conformational differences in the selectivity filter affect the affinity of TTX analogues. Taken together, our results provide important insights into NaV1.6 structure, ion conductance, and inhibition.
Monocular metasurface camera for passive single-shot 4D imaging
Authors: Shen Zicheng , Zhao Feng , Jin Chunqi , Wang Shuai , Cao Liangcai , Yang Yuanmu
Published: February 2023

It is a grand challenge for an imaging system to simultaneously obtain multi-dimensional light field information, such as depth and polarization, of a scene for the accurate perception of the physical world. However, such a task would conventionally require bulky optical components, time-domain multiplexing, and active laser illumination. Here, we experimentally demonstrate a compact monocular camera equipped with a single-layer metalens that can capture a 4D image, including 2D all-in-focus intensity, depth, and polarization of a target scene in a single shot under ambient illumination conditions. The metalens is optimized to have a conjugate pair of polarization-decoupled rotating single-helix point-spread functions that are strongly dependent on the depth of the target object. Combined with a straightforward, physically interpretable image retrieval algorithm, the camera can simultaneously perform high-accuracy depth sensing and high-fidelity polarization imaging over an extended depth of field for both static and dynamic scenes in both indoor and outdoor environments. Such a compact multi-dimensional imaging system could enable new applications in diverse areas ranging from machine vision to microscopy.
Flexible magnetoelectric complex oxide heterostructures on muscovite for proximity sensor
Authors: Wang Yong-Jyun , Chen Jia-Wei , Lai Yu-Hong , Shao Pao-Wen , Bitla Yugandhar , Chen Yi-Chun , Chu Ying-Hao
Published: February 2023

In modern technology, recent advances in multi-functional devices are rapidly developed for the diverse demands of human beings. Meanwhile, durability and adaptability to extreme environmental conditions are also required. In this study, a flexible magnetoelectric (ME) heterostructure based on CoFe2O4/Pb(Zr,Ti)O3 composite thin film on muscovite is presented, with two geometries of the constituents, namely laminar heterostructure, and vertical nanostructure, adopted for the comparison. On the other hand, credited to the mechanical flexibility of muscovite, the impact of flexibility on ME properties is also discussed with a series of bending tests. Moreover, the ME response sustains for 10,000 times bending without significant decrease, validating the mechanical durability of this heterostructure on muscovite. With these advantages, a flexible proximity sensor based on this heterostructure is demonstrated for motion detection. It is expected to offer a pathway for creating the next-generational flexible devices, showing potential for future practical application.
Immunogenicity and protective efficacy of GBP510/AS03 vaccine against SARS-CoV-2 delta challenge in rhesus macaques
Authors: Jacob-Dolan Catherine , Yu Jingyou , McMahan Katherine , Giffin Victoria , Chandrashekar Abishek , Martinot Amanda J. , Anioke Tochi , Powers Olivia C. , Hall Kevin , Hope David , Miller Jessica , Hachmann Nichole P. , Chung Benjamin , Gardner Sarah , Sellers Daniel , Barrett Julia , Lewis Mark G. , Andersen Hanne , Kleanthous Harry , Seo Ki-Woen , Lee Su Jeen , Park Yong Wook , Kim Hun , Barouch Dan H.
Published: February 2023

Despite the availability of several effective SARS-CoV-2 vaccines, additional vaccines will be required for optimal global vaccination. In this study, we investigate the immunogenicity and protective efficacy of the GBP510 protein subunit vaccine adjuvanted with AS03, which has recently been authorized for marketing in South Korea under the trade name SKYCovioneTM. The antigen in GBP510/AS03 is a two-part recombinant nanoparticle, which displays 60 receptor binding domain (RBD) proteins of SARS-CoV-2 Spike on its surface. In this study we show that GBP510/AS03 induced robust immune responses in rhesus macaques and protected against a high-dose SARS-CoV-2 Delta challenge. We vaccinated macaques with two or three doses of GBP510/AS03 matched to the ancestral Wuhan strain of SARS-CoV-2 or with two doses of GBP510/AS03 matched to the ancestral strain and one dose matched to the Beta strain. Following the challenge with Delta, the vaccinated macaques rapidly controlled the virus in bronchoalveolar lavage and nasal swabs. Binding and neutralizing antibody responses prior to challenge correlated with protection against viral replication postchallenge. These data are consistent with data with this vaccine from the phase 3 clinical trial.
Intranasal multivalent adenoviral-vectored vaccine protects against replicating and dormant M.tb in conventional and humanized mice
Authors: Afkhami Sam , D’Agostino Michael R. , Vaseghi-Shanjani Maryam , Lepard Madeleine , Yang Jack X. , Lai Rocky , Choi Margaret Wa Yan , Chacon Alexis , Zganiacz Anna , Franken Kees L. M. C. , Ertl Hildegund C. , Ottenhoff Tom H. M. , Jeyanathan Mangalakumari , Gillgrass Amy , Xing Zhou
Published: February 2023

Viral-vectored vaccines are highly amenable for respiratory mucosal delivery as a means of inducing much-needed mucosal immunity at the point of pathogen entry. Unfortunately, current monovalent viral-vectored tuberculosis (TB) vaccine candidates have failed to demonstrate satisfactory clinical protective efficacy. As such, there is a need to develop next-generation viral-vectored TB vaccine strategies which incorporate both vaccine antigen design and delivery route. In this study, we have developed a trivalent chimpanzee adenoviral-vectored vaccine to provide protective immunity against pulmonary TB through targeting antigens linked to the three different growth phases (acute/chronic/dormancy) of Mycobacterium tuberculosis (M.tb) by expressing an acute replication-associated antigen, Ag85A, a chronically expressed virulence-associated antigen, TB10.4, and a dormancy/resuscitation-associated antigen, RpfB. Single-dose respiratory mucosal immunization with our trivalent vaccine induced robust, sustained tissue-resident multifunctional CD4+ and CD8+ T-cell responses within the lung tissues and airways, which were further quantitatively and qualitatively improved following boosting of subcutaneously BCG-primed hosts. Prophylactic and therapeutic immunization with this multivalent trivalent vaccine in conventional BALB/c mice provided significant protection against not only actively replicating M.tb bacilli but also dormant, non-replicating persisters. Importantly, when used as a booster, it also provided marked protection in the highly susceptible C3HeB/FeJ mice, and a single respiratory mucosal inoculation was capable of significant protection in a humanized mouse model. Our findings indicate the great potential of this next-generation TB vaccine strategy and support its further clinical development for both prophylactic and therapeutic applications.
A large-scale dataset for end-to-end table recognition in the wild
Authors: Yang Fan , Hu Lei , Liu Xinwu , Huang Shuangping , Gu Zhenghui
Published: February 2023

Table recognition (TR) is one of the research hotspots in pattern recognition, which aims to extract information from tables in an image. Common table recognition tasks include table detection (TD), table structure recognition (TSR) and table content recognition (TCR). TD is to locate tables in the image, TCR recognizes text content, and TSR recognizes spatial & ontology (logical) structure. Currently, the end-to-end TR in real scenarios, accomplishing the three sub-tasks simultaneously, is yet an unexplored research area. One major factor that inhibits researchers is the lack of a benchmark dataset. To this end, we propose a new large-scale dataset named Table Recognition Set (TabRecSet) with diverse table forms sourcing from multiple scenarios in the wild, providing complete annotation dedicated to end-to-end TR research. It is the largest and first bi-lingual dataset for end-to-end TR, with 38.1 K tables in which 20.4 K are in English and 17.7 K are in Chinese. The samples have diverse forms, such as the border-complete and -incomplete table, regular and irregular table (rotated, distorted, etc.). The scenarios are multiple in the wild, varying from scanned to camera-taken images, documents to Excel tables, educational test papers to financial invoices. The annotations are complete, consisting of the table body spatial annotation, cell spatial & logical annotation and text content for TD, TSR and TCR, respectively. The spatial annotation utilizes the polygon instead of the bounding box or quadrilateral adopted by most datasets. The polygon spatial annotation is more suitable for irregular tables that are common in wild scenarios. Additionally, we propose a visualized and interactive annotation tool named TableMe to improve the efficiency and quality of table annotation.
On the identification of internal solitary waves from moored observations in the northern South China Sea
Authors: Gong Qinglong , Chen Liang , Diao Yina , Xiong Xuejun , Sun Jilin , Lv Xianqing
Published: February 2023

Based on the temperature data recorded by a mooring system deployed in the northern South China Sea (SCS), this study compares the traditional methods of identifying and extracting internal solitary waves (ISWs): the whole water column isotherm (WCI) method and the single isotherm (SI) method, and proposes a novel method: the temperature superposition (TS) method. Results indicate that the TS method identifies the most ISWs, followed by the WCI method, and the SI method identifies the fewest. When the ISW amplitudes are smaller than 60 m, the TS method can identify the most ISWs. When the ISW amplitudes are greater than 60 m, the number of ISWs identified by the three methods is the same. The TS method removes the internal tides, takes into account the temperature of all depth layers, and amplifies the signal of ISWs to a certain extent, so as to effectively identify ISWs.
Impact of reboxetine plus oxybutynin treatment for obstructive sleep apnea on cardiovascular autonomic modulation
Authors: Perger Elisa , Castiglioni Paolo , Faini Andrea , Soranna Davide , Zambon Antonella , Rosa Debora , Vicini Stefano , Meriggi Paolo , Pini Laura , Baratto Claudia , Caravita Sergio , Azarbarzin Ali , Parati Gianfranco , Lombardi Carolina
Published: February 2023

The combination of noradrenergic (reboxetine) plus antimuscarinic (oxybutynin) drugs (reb-oxy) reduced obstructive sleep apnea (OSA) severity but no data are available on its effects on cardiac autonomic modulation. We sought to evaluate the impact of 1-week reb-oxy treatment on cardiovascular autonomic control in OSA patients. OSA patients were randomized to a double-blind, crossover trial comparing 4 mg reboxetine plus 5 mg oxybutynin to a placebo for OSA treatment. Heart rate (HR) variability (HRV), ambulatory blood pressure (BP) monitoring (ABPM) over 24 h baseline and after treatment were performed. Baroreflex sensitivity was tested over beat-to-beat BP recordings. 16 subjects with (median [interquartile range]) age 57 [51–61] years and body mass index 30 [26–36]kg/m2 completed the study. The median nocturnal HR was 65 [60–69] bpm at baseline and increased to 69 [64–77] bpm on reb-oxy vs 66 [59–70] bpm on placebo (p = 0.02). The mean 24 h HR from ABPM was not different among treatment groups. Reb-oxy administration was not associated with any modification in HRV or BP. Reb-oxy increased the baroreflex sensitivity and did not induce orthostatic hypotension. In conclusion, administration of reb-oxy did not induce clinically relevant sympathetic overactivity over 1-week and, together with a reduction in OSA severity, it improved the baroreflex function.
Implementation of a free water protocol at a long term acute care hospital
Authors: Gaidos Stefanie , Hrdlicka Henry C. , Corbett John
Published: February 2023

This feasibility study aimed to trial a Free Water Protocol (FWP) for patients with thin liquid dysphagia in the Long-Term Acute Care Hospital (LTACH) setting. Patients with dysphagia are often prescribed thickened liquids to avoid or mitigate aspiration. While this clinical intervention can minimize the risk of aspiration pneumonia (PNA), it is generally not well received by patients. As such, the goal of this study was to determine if patients who knowingly aspirate thin liquids can safely tolerate thin liquid water, and if so, to what degree of benefit. The study assessed for adverse events, fluid intake, hydration status, quality of life, and overall swallow function outcomes. These measurements were taken over a 7 day trial period using inventories, lab work, clinical judgment, and observation. Ten participants were enrolled in this study with 9 having sufficient data for analysis (n = 9). No adverse events related to the FWP were observed, and patients saw improved total fluid intake (P = 0.0074), swallow-related quality of life (P = 0.0273), and overall swallow function (P = 0.0002). The results in this feasibility study allowed for the hospital wide implementation of the FWP and laid out the groundwork for future studies looking at longitudinal effects of a FWP.
Expanded profiling of Remdesivir as a broad-spectrum antiviral and low potential for interaction with other medications in vitro
Authors: Radoshitzky Sheli R. , Iversen Patrick , Lu Xianghan , Zou Jing , Kaptein Suzanne J. F. , Stuthman Kelly S. , Van Tongeren Sean A. , Steffens Jesse , Gong Ruoyu , Truong Hoa , Sapre Annapurna A. , Yang Huiling , Xie Xiaodong , Chia Jia Jun , Song Zhijuan J. , Leventhal Stacey M. , Chan Josolyn , Shornikov Alex , Zhang Xin , Cowfer David , Yu Helen , Warren Travis , Cihlar Tomas , Porter Danielle P. , Neyts Johan , Shi Pei-Yong , Wells Jay , Bilello John P. , Feng Joy Y.
Published: February 2023

Remdesivir (GS-5734; VEKLURY) is a single diastereomer monophosphoramidate prodrug of an adenosine analog (GS-441524). Remdesivir is taken up by target cells and metabolized in multiple steps to form the active nucleoside triphosphate (GS-443902), which acts as a potent inhibitor of viral RNA-dependent RNA polymerases. Remdesivir and GS-441524 have antiviral activity against multiple RNA viruses. Here, we expand the evaluation of remdesivir’s antiviral activity to members of the families Flaviviridae, Picornaviridae, Filoviridae, Orthomyxoviridae, and Hepadnaviridae. Using cell-based assays, we show that remdesivir can inhibit infection of flaviviruses (such as dengue 1–4, West Nile, yellow fever, Zika viruses), picornaviruses (such as enterovirus and rhinovirus), and filoviruses (such as various Ebola, Marburg, and Sudan virus isolates, including novel geographic isolates), but is ineffective or is significantly less effective against orthomyxoviruses (influenza A and B viruses), or hepadnaviruses B, D, and E. In addition, remdesivir shows no antagonistic effect when combined with favipiravir, another broadly acting antiviral nucleoside analog, and has minimal interaction with a panel of concomitant medications. Our data further support remdesivir as a broad-spectrum antiviral agent that has the potential to address multiple unmet medical needs, including those related to antiviral pandemic preparedness.
Wound swab quality grading is dependent on Gram smear screening approach
Authors: Clark Shawn T. , Forbes Jessica D. , Matukas Larissa M.
Published: February 2023

Superficial skin swab collections are inherently low-quality and may be of little clinical value due to their poor sensitivity and specificity. Clinical microbiology laboratories can use Gram smears to screen and differentiate higher and lower quality specimens to direct the extent of potential pathogen work up, including antimicrobial susceptibility testing (AST). We compared the impact of two different smear grading approaches to our current reporting practices for superficial wound swab cultures. Two variations of the Q score methodology (low power under 10X (QS10) and high power under 100X (QS100) were compared to our existing oil immersion method (OM100) (100X). We further evaluated the QS100 method by scoring superficial swab smears previously screened by OM100 from cultures submitted between November 2018 and December 2019. No significant difference in the number of low-quality specimens (N = 50) was identified by QS10 or QS100 grading (N = 9; 18%; N = 8; 16% respectively). Among 968 additional QS100 screened smears, 67 (6.9%) low quality swabs were identified and 7.4% fewer organisms (76/1020 organisms) would require reporting with AST. Implementing the Q score for superficial wound swab cultures would provide minimal improvements in their clinical relevance, laboratory quality and efficiency in our laboratory due to the low number of poor-quality swabs received.
Induction of primordial germ cell-like cells from common marmoset embryonic stem cells by inhibition of WNT and retinoic acid signaling
Authors: Shono Mayumi , Kishimoto Keiko , Hikabe Orie , Hayashi Masafumi , Semi Katsunori , Takashima Yasuhiro , Sasaki Erika , Kato Kiyoko , Hayashi Katsuhiko
Published: February 2023

Reconstitution of the germ cell lineage using pluripotent stem cells provides a unique platform to deepen our understanding of the mechanisms underlying germ cell development and to produce functional gametes for reproduction. This study aimed to establish a culture system that induces a robust number of primordial germ cell-like cells (PGCLCs) from common marmoset (Callithrix jacchus) embryonic stem cells. The robust induction was achieved by not only activation of the conserved PGC-inducing signals, WNT and BMP4, but also temporal inhibitions of WNT and retinoic acid signals, which prevent mesodermal and neural differentiation, respectively, during PGCLC differentiation. Many of the gene expression and differentiation properties of common marmoset PGCLCs were similar to those of human PGCLCs, making this culture system a reliable and useful primate model. Finally, we identified PDPN and KIT as surface marker proteins by which PGCLCs can be isolated from embryonic stem cells without genetic manipulation. This study will expand the opportunities for research on germ cell development and production of functional gametes to the common marmoset.
Integrative taxonomy and species distribution models of the genus Diamesus Hope, 1840 (Coleoptera: Staphylinidae: Silphinae)
Authors: Růžička Jan , Jakubec Pavel , Mahlerová Karolina , Šípková Hana , Nishikawa Masaaki
Published: February 2023

Integrative taxonomy ofDiamesusHope, 1840 (Coleoptera: Silphinae) is presented. Adults ofD. bimaculatusPortevin, 1914 (endemic to Taiwan) andD. osculans(Vigors, 1825) (widely distributed from northern India to Australia) are redescribed, keyed and figured, including characters of the male and female genitalia of both species. Variation in elytral maculation inD. osculansis discussed and illustrated. The absence of diagnostic differences ofD.osculansvar.reductusPic, 1917 fromD. osculansis discussed, and the former name is confirmed as a junior subjective synonym ofD. osculans. Types of all three names available were studied; a lectotype and paralectotypes are designated for the nameD. osculansvar.bimaculatusPortevin, 1914. Molecular phylogenetic analysis confirms the genusDiamesusis sister group to the genusNecrodesLeach, 1815, andD. osculansandD. bimaculatusare two, well supported clades. Detailed data on the distribution ofD. bimaculatusandD. osculansare presented and mapped. Species distribution models for both species were created and interpreted.Diamesus osculansis reported for the first time from India: Uttarakhand, China: Anhui, Hainan, Hunan, Jiangxi, Shaanxi and Zhejiang Provinces, and Australia: Victoria; it is also recently confirmed from Taiwan, being sympatric in distribution there withD. bimaculatus. Available data on the ecology and seasonality of both species ofDiamesusare also discussed.
Facile preparation of flame-retardant cellulose composite with biodegradable and water resistant properties for electronic device applications
Authors: Chandrasekaran Saravanan , Cruz-Izquierdo Alvaro , Castaing Remi , Kandola Baljinder , Scott Janet L.
Published: February 2023

The aim of the present study is to produce flexible, flame-retardant, water-resistant and biodegradable composite materials. The ultimate goal of this research is to develop simple processes for the production of bio-based materials capable of replacing non-degradable substrates in printed circuit board. Cellulose was chosen as a renewable resource, and dissolved in 1-ethyl-3-methylimidazolium acetate ionic liquid to prepare a cellulosic continuous film. Since flame retardancy is an important criterion for electronic device applications and cellulose is naturally flammable, we incorporated ammonium polyphosphate (APP) as a flame-retardant filler to increase the flame retardancy of the produced materials. The developed material achieved a UL-94 HB rating in the flammability test, while the cellulose sample without APP failed the test. Two hydrophobic agents, ethyl 2-cyanoacrylate and trichloro(octadecyl)silane were applied by a simple dip-coating technique to impart hydrophobicity to the cellulose-APP composites. Dynamic mechanical analysis indicated that the mechanical properties of the cellulosic materials were not significantly affected by the addition of APP or the hydrophobic agents. Moreover, the biodegradability of the cellulosic materials containing APP increased owing to the presence of the cellulase enzyme. The hydrophobic coating slightly decreased the biodegradability of cellulose-APP, but it was still higher than that of pure cellulose film.
Hippocampal volumetry to determine the resection side in patients with intractable non-lesional bilateral temporal lobe epilepsy
Authors: Seyama Go , Iida Koji , Kagawa Kota , Katagiri Masaya , Okamura Akitake , Morioka Hiromi , Horie Nobutaka
Published: February 2023

Bilateral Temporal lobe epilepsy (BTLE) cases may result in poor surgical outcomes due to the difficulty in determining/localizing the epileptogenic zone. In this study, we investigated whether hippocampal volume (HV) would be useful for the determination of the best resection side in BTLE. Eighteen cases of BTLE determined by a scalp video electroencephalogram (SVEEG) underwent resection via intracranial electroencephalography (IVEEG). Patients with lesions or semiologically determined focus lateralization were excluded. In addition to SVEEG, an epilepsy protocol magnetic resonance imaging (MRI) including hippocampus fluid-attenuated inversion recovery (FLAIR) and HV, 18F-fluorodeoxyglucose positron emission tomography (FDG-PET), single-photon emission computed tomography with 123I-iomazenil (IMZ-SPECT), and magnetoencephalography (MEG) were performed for the preoperative evaluation of the lateralization. The resection side was determined based on the IVEEG results, and the seizure outcome at two years postoperatively was classified as either a well-controlled seizure outcome (Engel class I), or residual (classes II–V). We used a Fisher's exact test to compare the concordance between the determination of the epileptic focus by each modality and the resected side where patients achieved a well-controlled seizure outcome. Seizures were well controlled in 9/18 patients after surgery. Eight out of 11 patients (72.7%), in whom the HV results (strongly atrophic side) and the resection side were matched, had well-controlled seizure outcomes (P = 0.0498). The concordance of other presurgical evaluations with the resection side was not significantly related to a well-controlled seizure outcome. HV may be a useful method to determine the optimal resection side of the epileptic focus/foci in cases of suspected BTLE.
Study of the anticorrosive behavior of samarium as a corrosion inhibitor in multilayer systems for aluminum alloy
Authors: Cabello Mendez José Antonio , Arguelles Rojas Ailed , Pérez Bueno José de Jesús , Meas Vong Yunny
Published: February 2023

This study shows a multilayer system based on samarium compounds as a corrosion inhibitor and a continuous SiO2 layer by atmospheric pressure plasma jet (APPJ) as a protective barrier for aluminim alloy AA3003. One of the main advantages of this new coating is that it does not require vacuum chambers, which makes it easy to incorporate into production lines for automotive and aeronautical components, etc. The deposit of samarium corrosion inhibitor was carried out by two methods for comparison, the immersion method and a novel method to deposit corrosion inhibitor by APPJ. The multilayer system generated was homogeneous, continuous, adherent, and dense. The electrochemical behavior shows that the samarium compound was completely oxidized on coatings by the immersion method and favors corrosion. The APPJ deposition method shows a protective behavior against corrosion by both samarium compounds and silica depositions. XPS analyses show that the amount of Sm(OH)3 increases by the APPJ method compared with the immersion method since the spectrum of O1s is mainly controlled by OH. It was determined that the best processing times for the electrochemical study of the multilayer system were 40 min for the immersion method and 30 s for the APPJ method for the layer of corrosion inhibitor. In the case of the SiO2 barrier layer by APPJ, the best time was 60 s of exposure to the plasma jet and this coating could reduce the corrosion of AA3003 by 31.42%.
A facile novel synthesis of AgCuO2 delafossite nanoparticles and evaluation of their antimicrobial activity
Authors: Ateia Ebtesam E. , Arman M. M. , Mohamed Amira T.
Published: February 2023

Bi-functional nano-oxides are of growing interest to address environmental issues. In the present study, the structural and magnetic data are presented together with the antimicrobial activities (AMA). For the first time, silver delafossite oxide (AgCuO2) is successfully fabricated using a simple, low-cost technique to target antibiotic photodegradation and inactivation of model waterborne pathogens. It is prepared with an equimolar initial Ag+:Cu+ concentration ratio. The structure, morphology, and magnetic properties are studied by different characterization techniques. The size and shape of AgCuO2 NPs, in addition to their structural polytypes of 2H (hexagonal) or 3R (rhombohedral), are dependent on the preparation conditions. The existence of Cu, Ag, and O in the synthesized delafossite AgCuO2 NPs with no evidence of any impurity is ratified by the XPS spectrum. AFM measurements are taken to characterize the surface morphologies of AgCuO2. The distributed spiks are evaluated by roughness kurtosis (Rku). The roughness kurtosis has a value of 2.65 (< 3), indicating that the prepared sample is classified as bumpy. The prepared sample has 13.0, 10.0, 14.0, and 14.0 mm Inhibition Zone Diameter (IZD) antimicrobial activity against gram-positive Bacillus subtilis (B. subtilis), Bacillus cereus (B. cereus), Enterococcus faecalis (E. faecalis), and Staphylococcus aureus (S. aureus), respectively. The IZD for gram-negative Escherichia coli (E. coli), Neisseria Gonorrhoeae (N. Gonorrhoeae), Pseudomonas aeruginosa (P. aeruginosa), and Salmonella typhimrium (S. typhimrium) were found to be 12.0, 13.0, 14.0, and 13.0 mm, respectively. Therefore, the AgCuO2 NPs reveal excellent antimicrobial efficiency, and they can be effortlessly separated using a tiny magnet or a simple magnetic separator. The adequate cytotoxicity and magnetic characteristics of the antimicrobial sample suggest a promising future for it in biomedical applications.
Identifying important nodes in complex networks based on extended degree and E-shell hierarchy decomposition
Authors: Liu Jun , Zheng Jiming
Published: February 2023

The identification of important nodes is a hot topic in complex networks. Many methods have been proposed in different fields for solving this problem. Most previous work emphasized the role of a single feature and, as a result, rarely made full use of multiple items. This paper proposes a new method that utilizes multiple characteristics of nodes for the evaluation of their importance. First, an extended degree is defined to improve the classical degree. And E-shell hierarchy decomposition is put forward for determining nodes’ position through the network’s hierarchical structure. Then, based on the combination of these two components, a hybrid characteristic centrality and its extended version are proposed for evaluating the importance of nodes. Extensive experiments are conducted in six real networks, and the susceptible–infected–recovered model and monotonicity criterion are introduced to test the performance of the new approach. The comparison results demonstrate that the proposed new approach exposes more competitive advantages in both accuracy and resolution compared to the other five approaches.