bluuebunny/crossref_metadata_2025 huggingface dataset:
Cooling low-dimensional electron systems into the microkelvin regime
Authors: Levitin Lev V. , van der Vliet Harriet , Theisen Terje , Dimitriadis Stefanos , Lucas Marijn , Corcoles Antonio D. , Nyéki Ján , Casey Andrew J. , Creeth Graham , Farrer Ian , Ritchie David A. , Nicholls James T. , Saunders John
Published: February 2022

Two-dimensional electron gases (2DEGs) with high mobility, engineered in semiconductor heterostructures host a variety of ordered phases arising from strong correlations, which emerge at sufficiently low temperatures. The 2DEG can be further controlled by surface gates to create quasi-one dimensional systems, with potential spintronic applications. Here we address the long-standing challenge of cooling such electrons to below 1 mK, potentially important for identification of topological phases and spin correlated states. The 2DEG device was immersed in liquid 3He, cooled by the nuclear adiabatic demagnetization of copper. The temperature of the 2D electrons was inferred from the electronic noise in a gold wire, connected to the 2DEG by a metallic ohmic contact. With effective screening and filtering, we demonstrate a temperature of 0.9 ± 0.1 mK, with scope for significant further improvement. This platform is a key technological step, paving the way to observing new quantum phenomena, and developing new generations of nanoelectronic devices exploiting correlated electron states.
Tracking cryptic SARS-CoV-2 lineages detected in NYC wastewater
Authors: Smyth Davida S. , Trujillo Monica , Gregory Devon A. , Cheung Kristen , Gao Anna , Graham Maddie , Guan Yue , Guldenpfennig Caitlyn , Hoxie Irene , Kannoly Sherin , Kubota Nanami , Lyddon Terri D. , Markman Michelle , Rushford Clayton , San Kaung Myat , Sompanya Geena , Spagnolo Fabrizio , Suarez Reinier , Teixeiro Emma , Daniels Mark , Johnson Marc C. , Dennehy John J.
Published: February 2022

Tracking SARS-CoV-2 genetic diversity is strongly indicated because diversifying selection may lead to the emergence of novel variants resistant to naturally acquired or vaccine-induced immunity. To monitor New York City (NYC) for the presence of novel variants, we deep sequence most of the receptor binding domain coding sequence of the S protein of SARS-CoV-2 isolated from the New York City wastewater. Here we report detecting increasing frequencies of novel cryptic SARS-CoV-2 lineages not recognized in GISAID’s EpiCoV database. These lineages contain mutations that had been rarely observed in clinical samples, including Q493K, Q498Y, E484A, and T572N and share many mutations with the Omicron variant of concern. Some of these mutations expand the tropism of SARS-CoV-2 pseudoviruses by allowing infection of cells expressing the human, mouse, or rat ACE2 receptor. Finally, pseudoviruses containing the spike amino acid sequence of these lineages were resistant to different classes of receptor binding domain neutralizing monoclonal antibodies. We offer several hypotheses for the anomalous presence of these lineages, including the possibility that these lineages are derived from unsampled human COVID-19 infections or that they indicate the presence of a non-human animal reservoir.
TAZ links exercise to mitochondrial biogenesis via mitochondrial transcription factor A
Authors: Hwang Jun-Ha , Kim Kyung Min , Oh Ho Taek , Yoo Gi Don , Jeong Mi Gyeong , Lee Hyun , Park Joori , Jeong Kwon , Kim Yoon Ki , Ko Young-Gyu , Hwang Eun Sook , Hong Jeong-Ho
Published: February 2022

Mitochondria are energy-generating organelles and mitochondrial biogenesis is stimulated to meet energy requirements in response to extracellular stimuli, including exercise. However, the mechanisms underlying mitochondrial biogenesis remain unknown. Here, we demonstrate that transcriptional coactivator with PDZ-binding motif (TAZ) stimulates mitochondrial biogenesis in skeletal muscle. In muscle-specific TAZ-knockout (mKO) mice, mitochondrial biogenesis, respiratory metabolism, and exercise ability were decreased compared to wild-type mice. Mechanistically, TAZ stimulates the translation of mitochondrial transcription factor A via Ras homolog enriched in brain (Rheb)/Rheb like 1 (Rhebl1)-mTOR axis. TAZ stimulates Rhebl1 expression via TEA domain family transcription factor. Rhebl1 introduction by adeno-associated virus or mTOR activation recovered mitochondrial biogenesis in mKO muscle. Physiologically, mKO mice did not stimulate exercise-induced mitochondrial biogenesis. Collectively, our results suggested that TAZ is a novel stimulator for mitochondrial biogenesis and exercise-induced muscle adaptation.
Temporal dynamics of the neural representation of hue and luminance polarity
Authors: Hermann Katherine L. , Singh Shridhar R. , Rosenthal Isabelle A. , Pantazis Dimitrios , Conway Bevil R.
Published: February 2022

Hue and luminance contrast are basic visual features. Here we use multivariate analyses of magnetoencephalography data to investigate the timing of the neural computations that extract them, and whether they depend on common neural circuits. We show that hue and luminance-contrast polarity can be decoded from MEG data and, with lower accuracy, both features can be decoded across changes in the other feature. These results are consistent with the existence of both common and separable neural mechanisms. The decoding time course is earlier and more temporally precise for luminance polarity than hue, a result that does not depend on task, suggesting that luminance contrast is an updating signal that separates visual events. Meanwhile, cross-temporal generalization is slightly greater for representations of hue compared to luminance polarity, providing a neural correlate of the preeminence of hue in perceptual grouping and memory. Finally, decoding of luminance polarity varies depending on the hues used to obtain training and testing data. The pattern of results is consistent with observations that luminance contrast is mediated by both L-M and S cone sub-cortical mechanisms.
Cyclin B/CDK1 and Cyclin A/CDK2 phosphorylate DENR to promote mitotic protein translation and faithful cell division
Authors: Clemm von Hohenberg Katharina , Müller Sandra , Schleich Sibylle , Meister Matthias , Bohlen Jonathan , Hofmann Thomas G. , Teleman Aurelio A.
Published: February 2022

DENR and MCTS1 have been identified as oncogenes in several different tumor entities. The heterodimeric DENR·MCTS1 protein complex promotes translation of mRNAs containing upstream Open Reading Frames (uORFs). We show here that DENR is phosphorylated on Serine 73 by Cyclin B/CDK1 and Cyclin A/CDK2 at the onset of mitosis, and then dephosphorylated as cells exit mitosis. Phosphorylation of Ser73 promotes mitotic stability of DENR protein and prevents its cleavage at Asp26. This leads to enhanced translation of mRNAs involved in mitosis. Indeed, we find that roughly 40% of all mRNAs with elevated translation in mitosis are DENR targets. In the absence of DENR or of Ser73 phosphorylation, cells display elevated levels of aberrant mitoses and cell death. This provides a mechanism how the cell cycle regulates translation of a subset of mitotically relevant mRNAs during mitosis.
Deep phenotyping of Alzheimer’s disease leveraging electronic medical records identifies sex-specific clinical associations
Authors: Tang Alice S. , Oskotsky Tomiko , Havaldar Shreyas , Mantyh William G. , Bicak Mesude , Solsberg Caroline Warly , Woldemariam Sarah , Zeng Billy , Hu Zicheng , Oskotsky Boris , Dubal Dena , Allen Isabel E. , Glicksberg Benjamin S. , Sirota Marina
Published: February 2022

Alzheimer’s Disease (AD) is a neurodegenerative disorder that is still not fully understood. Sex modifies AD vulnerability, but the reasons for this are largely unknown. We utilize two independent electronic medical record (EMR) systems across 44,288 patients to perform deep clinical phenotyping and network analysis to gain insight into clinical characteristics and sex-specific clinical associations in AD. Embeddings and network representation of patient diagnoses demonstrate greater comorbidity interactions in AD in comparison to matched controls. Enrichment analysis identifies multiple known and new diagnostic, medication, and lab result associations across the whole cohort and in a sex-stratified analysis. With this data-driven method of phenotyping, we can represent AD complexity and generate hypotheses of clinical factors that can be followed-up for further diagnostic and predictive analyses, mechanistic understanding, or drug repurposing and therapeutic approaches.
Stratification in planetary cores by liquid immiscibility in Fe-S-H
Authors: Yokoo Shunpei , Hirose Kei , Tagawa Shoh , Morard Guillaume , Ohishi Yasuo
Published: February 2022

Liquid-liquid immiscibility has been widely observed in iron alloy systems at ambient pressure and is important for the structure and dynamics in iron cores of rocky planets. While such previously known liquid immiscibility has been demonstrated to disappear at relatively low pressures, here we report immiscible S(±Si,O)-rich liquid and H(±C)-rich liquid above ~20 GPa, corresponding to conditions of the Martian core. Mars’ cosmochemically estimated core composition is likely in the miscibility gap, and the separation of two immiscible liquids could have driven core convection and stable stratification, which explains the formation and termination of the Martian planetary magnetic field. In addition, we observed liquid immiscibility in Fe-S-H(±Si,O,C) at least to 118 GPa, suggesting that it can occur in the Earth’s topmost outer core and form a low-velocity layer below the core-mantle boundary.
A disease-linked lncRNA mutation in RNase MRP inhibits ribosome synthesis
Authors: Robertson Nic , Shchepachev Vadim , Wright David , Turowski Tomasz W. , Spanos Christos , Helwak Aleksandra , Zamoyska Rose , Tollervey David
Published: February 2022

RMRP encodes a non-coding RNA forming the core of the RNase MRP ribonucleoprotein complex. Mutations cause Cartilage Hair Hypoplasia (CHH), characterized by skeletal abnormalities and impaired T cell activation. Yeast RNase MRP cleaves a specific site in the pre-ribosomal RNA (pre-rRNA) during ribosome synthesis. CRISPR-mediated disruption of RMRP in human cells lines caused growth arrest, with pre-rRNA accumulation. Here, we analyzed disease-relevant primary cells, showing that mutations in RMRP impair mouse T cell activation and delay pre-rRNA processing. Patient-derived human fibroblasts with CHH-linked mutations showed similar pre-rRNA processing delay. Human cells engineered with the most common CHH mutation (70AG in RMRP) show specifically impaired pre-rRNA processing, resulting in reduced mature rRNA and a reduced ratio of cytosolic to mitochondrial ribosomes. Moreover, the 70AG mutation caused a reduction in intact RNase MRP complexes. Together, these results indicate that CHH is a ribosomopathy.
Granular porous landslide tsunami modelling – the 2014 Lake Askja flank collapse
Authors: Rauter Matthias , Viroulet Sylvain , Gylfadóttir Sigríður Sif , Fellin Wolfgang , Løvholt Finn
Published: February 2022

Subaerial landslides and volcano flank collapses can generate tsunamis with devastating consequences. The lack of comprehensive models incorporating both the landslide and the wave mechanics represents a gap in providing consistent predictions of real events. Here, we present a novel three-dimensional granular landslide and tsunami model and apply it to the 2014 Lake Askja landslide tsunami. For the first time, we consistently simulate small-scale laboratory experiments as well as full scale catastrophic events with the same model. The model captures the complete event chain from the landslide dynamics to the wave generation and inundation. Unique and complete field data, along with the limited geographic extent of Lake Askja enabled a rigorous validation. The model gives deep insights into the physical landslide processes and improves our understanding and prediction capabilities of frequent and catastrophic landslide tsunamis.
Dendritic autophagy degrades postsynaptic proteins and is required for long-term synaptic depression in mice
Authors: Kallergi Emmanouela , Daskalaki Akrivi-Dimitra , Kolaxi Angeliki , Camus Come , Ioannou Evangelia , Mercaldo Valentina , Haberkant Per , Stein Frank , Sidiropoulou Kyriaki , Dalezios Yannis , Savitski Mikhail M. , Bagni Claudia , Choquet Daniel , Hosy Eric , Nikoletopoulou Vassiliki
Published: February 2022

The pruning of dendritic spines during development requires autophagy. This process is facilitated by long-term depression (LTD)-like mechanisms, which has led to speculation that LTD, a fundamental form of synaptic plasticity, also requires autophagy. Here, we show that the induction of LTD via activation of NMDA receptors or metabotropic glutamate receptors initiates autophagy in the postsynaptic dendrites in mice. Dendritic autophagic vesicles (AVs) act in parallel with the endocytic machinery to remove AMPA receptor subunits from the membrane for degradation. During NMDAR-LTD, key postsynaptic proteins are sequestered for autophagic degradation, as revealed by quantitative proteomic profiling of purified AVs. Pharmacological inhibition of AV biogenesis, or conditional ablation of atg5 in pyramidal neurons abolishes LTD and triggers sustained potentiation in the hippocampus. These deficits in synaptic plasticity are recapitulated by knockdown of atg5 specifically in postsynaptic pyramidal neurons in the CA1 area. Conducive to the role of synaptic plasticity in behavioral flexibility, mice with autophagy deficiency in excitatory neurons exhibit altered response in reversal learning. Therefore, local assembly of the autophagic machinery in dendrites ensures the degradation of postsynaptic components and facilitates LTD expression.
Constructing neural network models from brain data reveals representational transformations linked to adaptive behavior
Authors: Ito Takuya , Yang Guangyu Robert , Laurent Patryk , Schultz Douglas H. , Cole Michael W.
Published: February 2022

The human ability to adaptively implement a wide variety of tasks is thought to emerge from the dynamic transformation of cognitive information. We hypothesized that these transformations are implemented via conjunctive activations in “conjunction hubs”—brain regions that selectively integrate sensory, cognitive, and motor activations. We used recent advances in using functional connectivity to map the flow of activity between brain regions to construct a task-performing neural network model from fMRI data during a cognitive control task. We verified the importance of conjunction hubs in cognitive computations by simulating neural activity flow over this empirically-estimated functional connectivity model. These empirically-specified simulations produced above-chance task performance (motor responses) by integrating sensory and task rule activations in conjunction hubs. These findings reveal the role of conjunction hubs in supporting flexible cognitive computations, while demonstrating the feasibility of using empirically-estimated neural network models to gain insight into cognitive computations in the human brain.
Pressure-induced concomitant topological and metal-insulator quantum phase transitions in Ce3Pd3Bi4
Authors: Xu Chenchao , Cao Chao , Zhu Jian-Xin
Published: February 2022

The electronic property and magnetic susceptibility of Ce3Pd3Bi4 were systemically investigated from 18 to 290 K for varying values of cell volume using dynamic mean-field theory coupled with density functional theory. By extrapolating to zero temperature, the ground state of Ce3Pd3Bi4 at ambient pressure is found to be a correlated semimetal due to insufficient hybridization. Upon applying pressure, the hybridization strength increases and a crossover to the Kondo insulator is observed at finite temperatures. The characteristic temperature signaling the formation of Kondo singlet, as well as the characteristic temperature associated with f-electron delocalization–localization change, simultaneously vanishes around a critical volume of 0.992 V0, suggesting that such metal–insulator transition is possibly associated with a quantum critical point. Finally, Wilson’s loop calculations indicate that the Kondo insulating side is topologically trivial, thus a topological transition also occurs across the quantum critical point.
Threat by marine heatwaves to adaptive large marine ecosystems in an eddy-resolving model
Authors: Guo Xiuwen , Gao Yang , Zhang Shaoqing , Wu Lixin , Chang Ping , Cai Wenju , Zscheischler Jakob , Leung L. Ruby , Small Justin , Danabasoglu Gokhan , Thompson Luanne , Gao Huiwang
Published: February 2022

Marine heatwaves (MHWs), episodic periods of abnormally high sea surface temperature, severely affect marine ecosystems. Large marine ecosystems (LMEs) cover ~22% of the global ocean but account for 95% of global fisheries catches. Yet how climate change affects MHWs over LMEs remains unknown because such LMEs are confined to the coast where low-resolution climate models are known to have biases. Here, using a high-resolution Earth system model and applying a ‘future threshold’ that considers MHWs as anomalous warming above the long-term mean warming of sea surface temperatures, we find that future intensity and annual days of MHWs over the majority of the LMEs remain higher than in the present-day climate. Better resolution of ocean mesoscale eddies enables simulation of more realistic MHWs than low-resolution models. These increases in MHWs under global warming pose a serious threat to LMEs, even if resident organisms could adapt fully to the long-term mean warming.
ResOpsUS, a dataset of historical reservoir operations in the contiguous United States
Authors: Steyaert Jennie C. , Condon Laura E. , W.D. Turner Sean , Voisin Nathalie
Published: February 2022

There are over 52,000 dams in the contiguous US ranging from 0.5 to 243 meters high that collectively hold 600,000 million cubic meters of water. These structures have dramatically affected the river dynamics of every major watershed in the country. While there are national datasets that document dam attributes, there is no national dataset of reservoir operations. Here we present a dataset of historical reservoir inflows, outflows and changes in storage for 679 major reservoirs across the US, called ResOpsUS. All of the data are provided at a daily temporal resolution. Temporal coverage varies by reservoir depending on construction date and digital data availability. Overall, the data spans from 1930 to 2020, although the best coverage is for the most recent years, particularly 1980 to 2020. The reservoirs included in our dataset cover more than half of the total storage of large reservoirs in the US (defined as reservoirs with storage greater 0.1 km3). We document the assembly process of this dataset as well as its contents. Historical operations are also compared to static reservoir attribute datasets for validation.
The case for altruism in institutional diagnostic testing
Authors: Specht Ivan , Sani Kian , Botti-Lodovico Yolanda , Hughes Michael , Heumann Kristin , Bronson Amy , Marshall John , Baron Emily , Parrie Eric , Glennon Olivia , Fry Ben , Colubri Andrés , Sabeti Pardis C.
Published: February 2022

Amid COVID-19, many institutions deployed vast resources to test their members regularly for safe reopening. This self-focused approach, however, not only overlooks surrounding communities but also remains blind to community transmission that could breach the institution. To test the relative merits of a more altruistic strategy, we built an epidemiological model that assesses the differential impact on case counts when institutions instead allocate a proportion of their tests to members’ close contacts in the larger community. We found that testing outside the institution benefits the institution in all plausible circumstances, with the optimal proportion of tests to use externally landing at 45% under baseline model parameters. Our results were robust to local prevalence, secondary attack rate, testing capacity, and contact reporting level, yielding a range of optimal community testing proportions from 18 to 58%. The model performed best under the assumption that community contacts are known to the institution; however, it still demonstrated a significant benefit even without complete knowledge of the contact network.
Algorithm for sample availability prediction in a hospital-based epidemiological study spreadsheet-based sample availability calculator
Authors: Sudershan Amrit , Mahajan Kanak , Panjaliya Rakesh K. , Dhar Manoj K. , Kumar Parvinder
Published: February 2022

Looking at the population’s behavior by taking samples is quite uncertain due to its big and dynamic structure and unimaginable variability. All quantitative sampling approaches aim to draw a representative sample from the population so that the results of the studying samples can then be generalized back to the population. The probability of detecting a true effect of a study largely depends on the sample size and if taking small samples will give lowers statistical power, higher risk of missing a meaningful underlying difference. The probability of rejecting the null hypothesis i.e., finding significant difference using the sample largely depends upon the statistical power. There are a lot of online tools used for calculating the sample size, but none tell us about the availability of samples from single site in a fixed span. This study aims to provide an efficient calculation method for the availability of samples during a specific period of a research study which is an important question to be answered during the research study design. So, we have designed a spreadsheet-based sample availability calculator tool implemented in MS-Excel 2007.
Well-differentiated liver cancers reveal the potential link between ACE2 dysfunction and metabolic breakdown
Authors: Desquilles Lise , Cano Luis , Ghukasyan Gevorg , Mouchet Nicolas , Landreau Clémence , Corlu Anne , Clément Bruno , Turlin Bruno , Désert Romain , Musso Orlando
Published: February 2022

Angiotensin-converting enzyme 2 (ACE2) is the receptor of the Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) causing Coronavirus disease 2019 (COVID-19). Transmembrane serine protease 2 (TMPRSS2) is a coreceptor. Abnormal hepatic function in COVID-19 suggests specific or bystander liver disease. Because liver cancer cells express the ACE2 viral receptor, they are widely used as models of SARS-CoV-2 infection in vitro. Therefore, the purpose of this study was to analyze ACE2 and TMPRSS2 expression and localization in human liver cancers and in non-tumor livers. We studied ACE2 and TMPRSS2 in transcriptomic datasets totaling 1503 liver cancers, followed by high-resolution confocal multiplex immunohistochemistry and quantitative image analysis of a 41-HCC tissue microarray. In cancers, we detected ACE2 and TMPRSS2 at the biliary pole of tumor hepatocytes. In whole mount sections of five normal liver samples, we identified ACE2 in hepatocyte’s bile canaliculi, biliary epithelium, sinusoidal and capillary endothelial cells. Tumors carrying mutated β-catenin showed ACE2 DNA hypomethylation and higher mRNA and protein expression, consistently with predicted β-catenin response sites in the ACE2 promoter. Finally, ACE2 and TMPRSS2 co-expression networks highlighted hepatocyte-specific functions, oxidative stress and inflammation, suggesting a link between inflammation, ACE2 dysfunction and metabolic breakdown.
Growth in infants, children and adolescents with unilateral and bilateral cerebral palsy
Authors: Ruiz Brunner Maria de las Mercedes , Cuestas Eduardo , Heinen Florian , Schroeder Andreas Sebastian
Published: February 2022

To compare growth patterns during infancy, childhood and adolescence in children with unilateral and bilateral cerebral palsy (CP) phenotype and to assess the association with gross motor impairment, dysphagia and gestational age. We retrospectively studied 389 children with CP from a single center population in Munich, Germany. 1536 measurements of height and weight were tabulated and z-scored from 6 to 180 months of age. Generalized linear mixed model were used to examine the association between growth, GMFCS, dysphagia and gestational age by CP phenotype. Children with unilateral CP tend to grow similarly to their typically developed peers. In the main effect model, bilateral CP phenotype was significantly associated with decreased mean z-scores for height (β [95% CI] − 0.953 [− 1.145, − 0.761], p < 0.001), weight (− 0.999 [− 1.176, − 0.807], p < 0.001) and BMI (β [95% CI] − 0.437 [− 0.799, − 0.075]), compared with unilateral CP phenotype. This association remained significant in the interaction models. The height-for-age z-scores, weight-for-age decreased z-scores and BMI-for-age z-scores of children with bilateral CP and GMFCS III–V or dysphagia decreased more significantly than those of children with unilateral CP. Preterm birth was not significantly associated with decreased growth in height, weight and BMI. Reduced growth in children with bilateral CP was strongly associated with moderate to severe impairment in gross motor function (GMFCS III–V) and dysphagia.
First genome-wide association study investigating blood pressure and renal traits in domestic cats
Authors: Jepson R. E. , Warren H. , Wallace M. D. , Syme H. M. , Elliott J. , Munroe P. B.
Published: February 2022

Hypertension (HTN) and chronic kidney disease (CKD) are common in ageing cats. In humans, blood pressure (BP) and renal function are complex heritable traits. We performed the first feline genome-wide association study (GWAS) of quantitative traits systolic BP and creatinine and binary outcomes HTN and CKD, testing 1022 domestic cats with a discovery, replication and meta-analysis design. No variants reached experimental significance level in the discovery stage for any phenotype. Follow up of the top 9 variants for creatinine and 5 for systolic BP, one SNP reached experimental-wide significance for association with creatinine in the combined meta-analysis (chrD1.10258177; P = 1.34 × 10–6). Exploratory genetic risk score (GRS) analyses were performed. Within the discovery sample, GRS of top SNPs from the BP and creatinine GWAS show strong association with HTN and CKD but did not validate in independent replication samples. A GRS including SNPs corresponding to human CKD genes was not significant in an independent subset of cats. Gene-set enrichment and pathway-based analysis (GSEA) was performed for both quantitative phenotypes, with 30 enriched pathways with creatinine. Our results support the utility of GWASs and GSEA for genetic discovery of complex traits in cats, with the caveat of our findings requiring validation.
Novel ensemble intelligence methodologies for rockburst assessment in complex and variable environments
Authors: Li Diyuan , Liu Zida , Armaghani Danial Jahed , Xiao Peng , Zhou Jian
Published: February 2022

Rockburst is a severe geological hazard that restricts deep mine operations and tunnel constructions. To overcome the shortcomings of widely used algorithms in rockburst prediction, this study investigates the ensemble trees, i.e., random forest (RF), extremely randomized tree (ET), adaptive boosting machine (AdaBoost), gradient boosting machine, extreme gradient boosting machine (XGBoost), light gradient boosting machine, and category gradient boosting machine, for rockburst estimation based on 314 real rockburst cases. Additionally, Bayesian optimization is utilized to optimize these ensemble trees. To improve performance, three combination strategies, voting, bagging, and stacking, are adopted to combine multiple models according to training accuracy. ET and XGBoost receive the best capabilities (85.71% testing accuracy) in single models, and except for AdaBoost, six ensemble trees have high accuracy and can effectively foretell strong rockburst to prevent large-scale underground disasters. The combination models generated by voting, bagging, and stacking perform better than single models, and the voting 2 model that combines XGBoost, ET, and RF with simple soft voting, is the most outstanding (88.89% testing accuracy). The performed sensitivity analysis confirms that the voting 2 model has better robustness than single models and has remarkable adaptation and superiority when input parameters vary or miss, and it has more power to deal with complex and variable engineering environments. Eventually, the rockburst cases in Sanshandao Gold Mine, China, were investigated, and these data verify the practicability of voting 2 in field rockburst prediction.
Honey bees and climate explain viral prevalence in wild bee communities on a continental scale
Authors: Piot Niels , Schweiger Oliver , Meeus Ivan , Yañez Orlando , Straub Lars , Villamar-Bouza Laura , De la Rúa Pilar , Jara Laura , Ruiz Carlos , Malmstrøm Martin , Mustafa Sandra , Nielsen Anders , Mänd Marika , Karise Reet , Tlak-Gajger Ivana , Özgör Erkay , Keskin Nevin , Diévart Virginie , Dalmon Anne , Gajda Anna , Neumann Peter , Smagghe Guy , Graystock Peter , Radzevičiūtė Rita , Paxton Robert J. , de Miranda Joachim R.
Published: February 2022

Viruses are omnipresent, yet the knowledge on drivers of viral prevalence in wild host populations is often limited. Biotic factors, such as sympatric managed host species, as well as abiotic factors, such as climatic variables, are likely to impact viral prevalence. Managed and wild bees, which harbor several multi-host viruses with a mostly fecal–oral between-species transmission route, provide an excellent system with which to test for the impact of biotic and abiotic factors on viral prevalence in wild host populations. Here we show on a continental scale that the prevalence of three broad host viruses: the AKI-complex (Acute bee paralysis virus,Kashmir bee virusandIsraeli acute paralysis virus),Deformed wing virus, andSlow bee paralysis virusin wild bee populations (bumble bees and solitary bees) is positively related to viral prevalence of sympatric honey bees as well as being impacted by climatic variables. The former highlights the need for good beekeeping practices, includingVarroa destructormanagement to reduce honey bee viral infection and hive placement. Furthermore, we found that viral prevalence in wild bees is at its lowest at the extreme ends of both temperature and precipitation ranges. Under predicted climate change, the frequency of extremes in precipitation and temperature will continue to increase and may hence impact viral prevalence in wild bee communities.
Simple, sensitive, specific self-sampling assay secures SARS-CoV-2 antibody signals in sero-prevalence and post-vaccine studies
Authors: Khan Maryam , Rosadas Carolina , Katsanovskaja Ksenia , Weber Isaac D. , Shute Justin , Ijaz Samreen , Marchesin Federica , McClure Eleanor , Elias Salem , Flower Barnaby , Gao He , Quinlan Rachael , Short Charlotte , Rosa Annachiara , Roustan Chloe , Moshe Maya , Taylor Graham P. , Elliott Paul , Cooke Graham S. , Cherepanov Peter , Parker Eleanor , McClure Myra O. , Tedder Richard S.
Published: February 2022

At-home sampling is key to large scale seroprevalence studies. Dried blood spot (DBS) self-sampling removes the need for medical personnel for specimen collection but facilitates specimen referral to an appropriately accredited laboratory for accurate sample analysis. To establish a highly sensitive and specific antibody assay that would facilitate self-sampling for prevalence and vaccine-response studies. Paired sera and DBS eluates collected from 439 sero-positive, 382 sero-negative individuals and DBS from 34 vaccine recipients were assayed by capture ELISAs for IgG and IgM antibody to SARS-CoV-2. IgG and IgM combined on DBS eluates achieved a diagnostic sensitivity of 97.9% (95%CI 96.6 to 99.3) and a specificity of 99.2% (95% CI 98.4 to 100) compared to serum, displaying limits of detection equivalent to 23 and 10 WHO IU/ml, respectively. A strong correlation (r = 0.81) was observed between serum and DBS reactivities. Reactivity remained stable with samples deliberately rendered inadequate, (p = 0.234) and when samples were accidentally damaged or ‘invalid’. All vaccine recipients were sero-positive. This assay provides a secure method for self-sampling by DBS with a sensitivity comparable to serum. The feasibility of DBS testing in sero-prevalence studies and in monitoring post-vaccine responses was confirmed, offering a robust and reliable tool for serological monitoring at a population level.
Influence of spatial-intensity contrast in ultraintense laser–plasma interactions
Authors: Wilson R. , King M. , Butler N. M. H. , Carroll D. C. , Frazer T. P. , Duff M. J. , Higginson A. , Dance R. J. , Jarrett J. , Davidson Z. E. , Armstrong C. D. , Liu H. , Hawkes S. J. , Clarke R. J. , Neely D. , Gray R. J. , McKenna P.
Published: February 2022

Increasing the intensity to which high power laser pulses are focused has opened up new research possibilities, including promising new approaches to particle acceleration and phenomena such as high field quantum electrodynamics. Whilst the intensity achievable with a laser pulse of a given power can be increased via tighter focusing, the focal spot profile also plays an important role in the interaction physics. Here we show that the spatial-intensity distribution, and specifically the ratio of the intensity in the peak of the laser focal spot to the halo surrounding it, is important in the interaction of ultraintense laser pulses with solid targets. By comparing proton acceleration measurements from foil targets irradiated with by a near-diffraction-limited wavelength scale focal spot and larger F-number focusing, we find that this spatial-intensity contrast parameter strongly influences laser energy coupling to fast electrons. We find that for multi-petawatt pulses, spatial-intensity contrast is potentially as important as temporal-intensity contrast.
Investigation of the prognostic predictive value of serum lipid profiles in amyotrophic lateral sclerosis: roles of sex and hypermetabolism
Authors: Nakamura Ryutaro , Kurihara Mika , Ogawa Nobuhiro , Kitamura Akihiro , Yamakawa Isamu , Bamba Shigeki , Sanada Mitsuru , Sasaki Masaya , Urushitani Makoto
Published: February 2022

The prognostic predictive value of lipid profiling in amyotrophic lateral sclerosis (ALS) remains unclear. Here, we aimed to clarify the value of the levels of serum lipids, including high-density lipoprotein cholesterol (HDL), low-density lipoprotein cholesterol (LDL), and triglycerides (TG), for predicting the prognosis in ALS. This was a single-center retrospective study of 78 patients with ALS. The serum lipid profiles at the first hospital visit after symptom onset were analyzed to determine the correlations of lipids with survival and physical parameters, including nutritional, respiratory, and metabolic conditions. The cutoff level for high HDL was defined as the third quartile, while that of low LDL and TG, as the first quartile. Hypermetabolism was defined as the ratio of resting energy expenditure to lean soft tissue mass ≥ 38 kcal/kg. High HDL was an independent factor for poor prognosis in all patients (hazards ratio [HR]: 9.87, p < 0.001) in the Cox proportional hazard model, including %vital capacity and the monthly decline rate in body mass index and the Revised Amyotrophic Lateral Functional Rating Scale score from symptom onset to diagnosis. Low LDL was a factor for poor prognosis (HR: 6.59, p = 0.017) only in women. Moreover, subgroup analyses with log-rank tests revealed that the prognostic predictive value of high HDL was evident only in the presence of hypermetabolism (p = 0.005). High HDL predicts poor prognosis in all patients, whereas low LDL, only in women. Hypermetabolism and high HDL synergistically augment the negative effect on prognosis.
An exploratory method to determine the plant characteristics affecting the final yield of Echium amoenum Fisch. & C.A. Mey. under fertilizers application and plant densities
Authors: Amiri Mohammad B. , Jahan Mohsen , Moghaddam Parviz Rezvani
Published: February 2022

Employing of advanced statistical methods to quantify agricultural information has helped to carry out targeted planning to alleviate the problems of farmers, researchers and policy section. One of these exploratory methods, is multivariate statistical analysis that examines and models the relationship between variables. Considering the importance of Echium amoenum and its use growing trend in traditional medicine and the pharmaceutical industry, also the lack of information on the correlations between its yield and morpho physiological traits, the objective of this study was to determine the causality path in which the Echium amoenum characteristics affects the yield of Echium amoenum as regards of application of organic and chemical fertilizers under different plant densities. The employed method revealed that organic fertilizers increased flower yield compared with the control. The flower yield as a result of application of compost, vermicompost and cattle manure were increased by 25, 28, and 27% compared with the control, respectively. The results of multiple regression showed that variables of plant height, shoot dry weight, flower number per plant were the main factors affected the flower yield. The relative contribution of shoot dry weight was 16 and 25% more than plant height and flower number per plant, respectively. Causality analysis identified that shoot dry weight per plant had indirect effect on flower yield in different paths, as mainly was imposed through plant height considering the path coefficients. This study suggests that optimum production of Echium amoenum with application of ecological inputs along with effective agronomical managements of the causal paths of flower yield forming, including increase in shoot yield and plant height could be achieved through an ecological cropping system with reduced costs and no health concerning due to agrochemicals residual.
Accuracy of core needle biopsy for histologic diagnosis of soft tissue sarcoma
Authors: Kiefer J. , Mutschler M. , Kurz Ph. , Stark G. B. , Bannasch H. , Simunovic F.
Published: February 2022

The biopsy technique of choice in soft tissue sarcoma (STS) diagnosis is controversial. We examined the diagnostic accuracy of percutaneous core needle biopsy (CNB) and compared it to open incisional biopsy. A retrospective study included 91 incisional biopsies and 102 CNBs. A pair-match investigation was conducted on 19 patient pairs, comparing sensitivity, specificity, and diagnostic accuracy. Furthermore, we investigated the role of molecular pathology in sarcoma diagnostics. In 81/91 (89%) patients with incisional biopsy, the entity was confirmed by definitive pathology, whereas this was the case in 89/102 (87%) CNB patients (p = 0.52). Grading remained unchanged in 46/55 (84%) of incisional and 54/62 (87%) of CNBs (p = 0.61). The pair matched analysis showed that the correct entity was determined in 96% of incisional and 97.6% of core needle biopsies. The time between the initial consultation and the interdisciplinary tumor board's treatment recommendation was shorter in core needle biopsies (8.37 vs. 15.63 days; p < 0.002). Incisional biopsies led to two wound infections and one hematoma, whereas wound infection occurred in one patient after CNB. CNB leads to faster diagnosis while reaching the same histological accuracy and is less burdensome for patients. Still, surgeons need to remain aware of the possibility of biopsy failure.
AKR1C1/2 inhibition by MPA sensitizes platinum resistant ovarian cancer towards carboplatin
Authors: Badmann Susann , Mayr Doris , Schmoeckel Elisa , Hester Anna , Buschmann Christina , Beyer Susanne , Kolben Thomas , Kraus Fabian , Chelariu-Raicu Anca , Burges Alexander , Mahner Sven , Jeschke Udo , Trillsch Fabian , Czogalla Bastian
Published: February 2022

In recurrent epithelial ovarian cancer (EOC) most patients develop platinum-resistance. On molecular level the NRF2 pathway, a cellular defense mechanism against reactive oxygen species, is induced. In this study, we investigate AKR1C1/2, target of NRF2, in a well-established EOC collective by immunohistochemistry and in a panel of ovarian cancer cell lines including platinum-resistant clones. The therapeutic effect of carboplatin and MPA as monotherapy or in combination was assessed by functional assays, using OV90 and OV90cp cells. Molecular mechanisms of action of MPA were investigated by NRF2 silencing and AKR activity measurements. Immunohistochemical analysis revealed that AKR1C1/2 is a key player in the development of chemoresistance and an independent indicator for short PFS (23.5 vs. 49.6 months, p = 0.013). Inhibition of AKR1C1/2 by MPA led to a concentration- and time-dependent decline of OV90 viability and to an increased response to CP in vitro. By NRF2 silencing, however, the effects of MPA treatment were reduced. Concludingly, our data suggest that a combination therapy of carboplatin and MPA might be a promising therapeutic approach to increase response rates of EOC patients, which should be explored in clinical context.
Associations between capillary glucose during pregnancy and childhood growth to the age of five: a cohort study
Authors: Österroos Anna , Lindström Linda , Wikman Per , Wikström Anna-Karin , Sundström Poromaa Inger , Ahlsson Fredrik
Published: February 2022

The objective of this study was to evaluate the relationship between random capillary glucose levels in healthy pregnant women and infant size at birth and childhood growth to the age of five years. This population-based cohort study comprised 10,937 healthy mother–child dyads. Data on highest maternal random capillary glucose level during pregnancy and sequential anthropometric data on their children during the first five years of life were gathered from the Uppsala County Mother and Child Cohort. Statistical analyses were performed with linear regression and linear mixed effect regression models. We found that higher glucose level during pregnancy was associated with higher weight z-score (β 0.10, 95% confidence interval (CI) 0.08–0.11), length z-score (β 0.05, 95% CI 0.03–0.07) and BMI z-score (β 0.09, 95% CI 0.07–0.12) at birth, adjusted for maternal BMI and country of birth, smoking during pregnancy and parity. The association did not remain at 1½, 3, 4 and 5 years of age. There was a positive relationship between higher glucose level during pregnancy and a decrease in weight z-score, height z-score and BMI z-score from birth to 5 years of age. In conclusion, higher random capillary glucose levels in pregnant healthy women were associated with greater infant size at birth, as well as decreased growth velocity in early childhood.
Cardiac dyspnea risk zones in the South of France identified by geo-pollution trends study
Authors: Simões Fanny , Bouveyron Charles , Piga Damien , Borel Damien , Descombes Stéphane , Paquis-Flucklinger Véronique , Levraut Jaques , Gibelin Pierre , Bottini Silvia
Published: February 2022

The incidence of cardiac dyspnea (CD) and the distribution of pollution in the south of France suggests that environmental pollution may have a role in disease triggering. CD is a hallmark symptom of heart failure leading to reduced ability to function and engage in activities of daily living. To show the impact of short-term pollution exposure on the increment of CD emergency room visits, we collected pollutants and climate measurements on a daily basis and 43,400 events of CD in the Région Sud from 2013 to 2018. We used a distributed lag non-linear model (DLNM) to assess the association between air pollution and CD events. We divided the region in 357 zones to reconciliate environmental and emergency room visits data. We applied the DLNM on the entire region, on zones grouped by pollution trends and on singular zones. Each pollutant has a significant effect on triggering CD. Depending on the pollutant, we identified four shapes of exposure curves to describe the impact of pollution on CD events: early and late effect for NO2; U-shape and rainbow-shape (or inverted U) for O3; all the four shapes for PM10. In the biggest cities, O3 has the most significant association along with the PM10. In the west side, a delayed effect triggered by PM10 was found. Zones along the main highway are mostly affected by NO2 pollution with an increase of the association for a period up to 9 days after the pollution peak. Our results can be used by local authorities to set up specific prevention policies, public alerts that adapt to the different zones and support public health prediction-making. We developed a user-friendly web application called Health, Environment in PACA Region Tool (HEART) to collect our results. HEART will allow citizens, researchers and local authorities to monitor the impact of pollution trends on local public health.
A polarization-based image restoration method for both haze and underwater scattering environment
Authors: Dong Zhenming , Zheng Daifu , Huang Yantang , Zeng Zhiping , Xu Canhua , Liao Tingdi
Published: February 2022

Existing polarization-based defogging algorithms rely on the polarization degree or polarization angle and are not effective enough in scenes with little polarized light. In this article, a method of image restoration for both haze and underwater scattering environment is proposed. It bases on the general assumption that gray variance and average gradient of a clear image are larger than those of an image in a scattering medium. Firstly, based on the assumption, polarimetric images with the maximum variance (Ibest) and minimum variance (Iworst) are calculated from the captured four polarization images. Secondly, the transmittance is estimated and used to remove the scattering light from background medium ofIbestandIworst. Thirdly, two images are fused to form a clear image and the color is also restored. Experimental results show that the proposed method obtains clear restored images both in haze and underwater scattering media. Because it does not rely on the polarization degree or polarization angle, it is more universal and suitable for scenes with little polarized light.
Hard polymeric porous microneedles on stretchable substrate for transdermal drug delivery
Authors: Sadeqi Aydin , Kiaee Gita , Zeng Wenxin , Rezaei Nejad Hojatollah , Sonkusale Sameer
Published: February 2022

Microneedles offer a convenient transdermal delivery route with potential for long term sustained release of drugs. However current microneedle technologies may not have the mechanical properties for reliable and stable penetration (e.g. hydrogel microneedles). Moreover, it is also challenging to realize microneedle arrays with large size and high flexibility. There is also an inherent upper limit to the amount and kind of drugs that can be loaded in the microneedles. In this paper, we present a new class of polymeric porous microneedles made from biocompatible and photo-curable resin that address these challenges. The microneedles are unique in their ability to load solid drug formulation in concentrated form. We demonstrate the loading and release of solid formulation of anesthetic and non-steroidal anti-inflammatory drugs, namely Lidocaine and Ibuprofen. Paper also demonstrates realization of large area (6 × 20 cm2) flexible and stretchable microneedle patches capable of drug delivery on any body part. Penetration studies were performed in an ex vivo porcine model supplemented through rigorous compression tests to ensure the robustness and rigidity of the microneedles. Detailed release profiles of the microneedle patches were shown in an in vitro skin model. Results show promise for large area transdermal delivery of solid drug formulations using these porous microneedles.