bluuebunny/crossref_metadata_2025 huggingface dataset:
A deep network designed for segmentation and classification of leukemia using fusion of the transfer learning models
Authors: Saleem Saba , Amin Javeria , Sharif Muhammad , Anjum Muhammad Almas , Iqbal Muhammad , Wang Shui-Hua
Published: July 2021

White blood cells (WBCs) are a portion of the immune system which fights against germs. Leukemia is the most common blood cancer which may lead to death. It occurs due to the production of a large number of immature WBCs in the bone marrow that destroy healthy cells. To overcome the severity of this disease, it is necessary to diagnose the shapes of immature cells at an early stage that ultimately reduces the modality rate of the patients. Recently different types of segmentation and classification methods are presented based upon deep-learning (DL) models but still have some limitations. This research aims to propose a modified DL approach for the accurate segmentation of leukocytes and their classification. The proposed technique includes two core steps: preprocessing-based classification and segmentation. In preprocessing, synthetic images are generated using a generative adversarial network (GAN) and normalized by color transformation. The optimal deep features are extracted from each blood smear image using pretrained deep models i.e., DarkNet-53 and ShuffleNet. More informative features are selected by principal component analysis (PCA) and fused serially for classification. The morphological operations based on color thresholding with the deep semantic method are utilized for leukemia segmentation of classified cells. The classification accuracy achieved with ALL-IDB and LISC dataset is 100% and 99.70% for the classification of leukocytes i.e., blast, no blast, basophils, neutrophils, eosinophils, lymphocytes, and monocytes, respectively. Whereas semantic segmentation achieved 99.10% and 98.60% for average and global accuracy, respectively. The proposed method achieved outstanding outcomes as compared to the latest existing research works.
Molecular identification of Anoplophora glabripennis (Coleoptera: Cerambycidae) and detection from frass samples based on real-time quantitative PCR
Authors: Taddei Andrea , Becker Matthias , Berger Beatrice , Da Lio Daniele , Feltgen Stephanie , König Stephan , Hoppe Björn , Rizzo Domenico
Published: July 2021

Anoplophora glabripennis (Motschulsky 1853) (Coleoptera: Cerambycidae), the Asian Longhorned Beetle, is native to temperate and subtropical areas of China and the Korean peninsula. Due to its wide range of host plants, it is considered among the most economically important invasive plant pests. The morphological identification of A. glabripennis larvae can be confirmed by DNA barcoding, but obtaining the specimens from infested trees can be a demanding and challenging task. Therefore, non-invasive diagnostic tools based on DNA extracted from frass samples can be of key importance in phytosanitary surveys. In this study, an in silico generated real-time quantitative PCR test was developed for the detection of A. glabripennis DNA from frass material, which is naturally extruded from larval tunnels through cracks in the bark. Specificity was confirmed against a wide range of other wood-boring insect species frequently encountered during phytosanitary surveys and inclusivity was demonstrated for different populations of A. glabripennis from all main European outbreak areas. The test proved sensitive and reliable in detecting A. glabripennis DNA extracted from woody frass material of Acer saccharinum and Aesculus hippocastanum at least up to the 100-fold dilution. Furthermore, the test allowed the molecular identification of any life stage of the insect, including eggs and young larvae, whose morphological identification is impossible or very challenging. This study provides a reliable and sensitive molecular tool to detect A. glabripennis DNA in woody frass material, thus allowing a non-invasive sampling approach.
RapidXfer - data transfer framework for square kilometre array
Authors: Thavasimani Priyaa
Published: July 2021

Data Management of Astronomy Data is often a laborious task and it is even more challenging for the extraordinary amounts of data expected from the world’s largest radio telescope, Square Kilometre Array. There are overt issues in transferring the voluminous data and the traditional data transfer methods are fragile especially for the data transfer between two continents. To address this, a new data transfer framework is proposed and the data transfer is achieved using two steps: international and local transfers. The efficiency of different end-to-end data transfer tools used in is evaluated on different dataset sizes. Further, a comparative study of two IRIS grid data transfer methods is made to understand each methods’ advantages and disadvantages. This study can be used as a reference for the development of future SKA’s data transfer operations.
How is China’s energy security affected by exogenous shocks? Evidence of China–US trade dispute and COVID-19 pandemic
Authors: Liu Shi Qiang , Huang Xin , Li Xiangong , Masoud Mahmoud , Chung Sai-Ho , Yin Yong
Published: July 2021

The trade dispute between China and the United States (US) since 2018 and the global COVID-19 pandemic since 2020 has significantly impacted China’s economic development. As China’s energy sources heavily depend on imports, its economic viability is becoming more and more risky. This study proposes a novel conceptual framework, involving macroeconomic, industrial and geopolitical factors, to evaluate China’s energy security as a major player in the trade dispute. This study also provides a comprehensive strategy for policymakers to make better decisions on reforming renewable energy patterns to guarantee energy security and achieve geopolitical advantages. The PESTEL (political, economic, social, technical, environmental and legislative) and SWOT (strengths, weaknesses, opportunities and threats) analytical methods are applied to evaluate the factors and attributes of China’s energy development and energy security in the current background. The China-US bipartite game reciprocity model and the QSPM (Quantitative Strategic Planning Matrix) analysis are conducted to assess which energy security strategy and policy are more suitable to deal with China-US trade dispute. To enhance energy security, China should diversify its energy supply chain, develop new sources of energy supply, advance the shale gas technology, popularise cleaner power-generation plants, increase nuclear-energy safety, introduce energy-conservation measures, promote alternative-energy vehicles, engage in international energy diplomacy, and rebuild international energy transaction and settlement systems.
A Configuration Approach to Mindset Agency Theory
Authors: Yolles Maurice , Fink Gerhard
Published: July 2021

This book explains psychological, sociopolitical and organisational change in multidisciplinary settings. It shows how advanced techniques of contextual analysis can be applied to complex situations and offers a new cybernetic agency paradigm based on living systems theory. It models, diagnoses, and analyses complex, realworld situations to anticipate patterns of behaviour.
Design and performance quantification of VTOL systems for a canard aircraft
Authors: Pedro S. , Tomás D. , Lobo do Vale J. , Suleman A.
Published: July 2021

The design and performance quantification of four Vertical Take-Off and Landing (VTOL) architectures for a canard-type aircraft configuration are presented. The aero-structural sizing of the canard configuration and the sizing procedure for the proposed VTOL configurations are described and discussed. The proposed VTOL architectures are based on a range of rotor distances to the centre of gravity, quad- and tri-rotor configurations, retractable front rotors and tilt rear rotors. The aerodynamic performance, total installed power and VTOL system mass were modelled and experimentally validated. The results show that a fully exposed VTOL system penalises the Lift-over-Drag (L/D) ratio significantly relative to a clean configuration. The VTOL system mass can be reduced by up to 32% by using a tilt tri-rotor configuration when compared with an equidistant quad-rotor+pusher configuration. The fraction of installed power usable for forward flight can be increased by up to 80% with a tilt configuration. For the proposed mission, the range can be significantly increased if a tri-rotor tilt configuration is adopted in place of an equidistant quad-rotor+pusher configuration.
Global well-posedness and nonlinear stability of a chemotaxis system modelling multiple sclerosis
Authors: Desvillettes Laurent , Giunta Valeria , Morgan Jeff , Tang Bao Quoc
Published: July 2021

We consider a system of reaction–diffusion equations including chemotaxis terms and coming out of the modelling of multiple sclerosis. The global existence of strong solutions to this system in any dimension is proved, and it is also shown that the solution is bounded uniformly in time. Finally, a nonlinear stability result is obtained when the chemotaxis term is not too big. We also perform numerical simulations to show the appearance of Turing patterns when the chemotaxis term is large.
Effects of working memory on L2 linguistic knowledge and L2 listening comprehension
Authors: Satori Miki
Published: July 2021

This paper examined the relationship between working memory (WM) and L2 linguistic knowledge as well as L2 listening comprehension with 150 Japanese EFL learners. The study also investigated the extent to which these relationships vary across L2 proficiency levels. The results in the study were as follows: (a) WM capacity was more strongly associated with L2 listening comprehension, L2 perceptual processing, and L2 syntactic parsing processing in the lower-proficiency group than in the higher-proficiency group; (b) L1 WM capacity still accounted for the unique variance in L2 listening comprehension after adjusting for the L2 language-related variables in the lower-proficiency group. The results suggest that the relationship between WM capacity and L2 listening comprehension may be mediated by L2 proficiency and depend on the domain-general processing efficiency reflecting central executive attention when the listening comprehension task requires conscious attention for less proficient listeners. The findings provide suggestive evidence for variation in the role of WM in L2 listening comprehension across proficiency levels and the significant role of L1 WM capacity in L2 listening comprehension as the general cognitive factor independent of L2 linguistic knowledge for L2 learners with limited linguistic knowledge.
ELICITED IMITATION AS A MEASURE OF L2 PROFICIENCY
Authors: Wu Shu-Ling , Tio Yee Pin , Ortega Lourdes
Published: July 2021

Elicited imitation (EI), a short-cut measure of global proficiency in second language (L2) research, requires participants to listen to sentences and repeat them as closely as possible. To support instrument sharing and assessment of L2 proficiency for longitudinal and crosslinguistic research, we created a parallel form of an EI task (EIT) for L2 English originally developed by the third author and colleagues and investigated the reliability and validity of the original and new forms. Eighty-two participants completed the two EITs, an oral narrative task, and a self-diagnostic survey. Both forms exhibited high reliability and good alignment with external criterion measures. Both distinguished well among four proficiency levels in the sample. Further, participants’ perception of EI difficulty aligned well with their EI scores. We suggest some improvements to boost forms equivalence and discuss new insights about the nature of EI as reconstructive, integrative, modality independent, and with indirect links to communicative abilities. Our study seeks to make this English EIT instrument widely useful to the L2 research community.
Study of LEAP® 5000 Deadtime and Precision via Silicon Pre-Sharpened-Microtip™ Standard Specimens
Authors: Prosa Ty J , Oltman Edward
Published: July 2021

Atom probe tomography (APT) is a technique that has expanded significantly in terms of adoption, dataset size, and quality during the past 15 years. The sophistication used to ensure ultimate analysis precision has not kept pace. The earliest APT datasets were small enough that deadtime and background considerations for processing mass spectrum peaks were secondary. Today, datasets can reach beyond a billion atoms so that high precision data processing procedures and corrections need to be considered to attain reliable accuracy at the parts-per-million level. This paper considers options for mass spectrum ranging, deadtime corrections, and error propagation as applied to an extrinsic-silicon standard specimen to attain agreement for silicon isotopic fraction measurements across multiple instruments, instrument types, and acquisition conditions. Precision consistent with those predicted by counting statistics is attained showing agreement in silicon isotope fraction measurements across multiple instruments, instrument platforms, and analysis conditions.
Microstructural Characterization of Nb/Inconel 601 Interface Obtained in the Explosive Welding Process
Authors: Bugajska Monika , Sypien Anna , Bobrowski Piotr , Korneva Anna , Morgiel Jerzy , Szulc Zygmunt , Wojewoda-Budka Joanna
Published: July 2021

This work presents the microstructure of the cross-section of a newly developed Nb/Inconel 601 weld with particular attention paid to the continuity, morphology of the interface, and the microstructural changes within its vicinity. Both scanning (SEM) and transmission (TEM) electron microscopy techniques are excellent tools to analyze the microstructure that affects both mechanical and corrosion resistance properties of the obtained product. Grain size examination and their orientation together with the character of grain boundaries by the electron backscattered diffraction (EBSD) technique were performed followed by chemical composition determination across the interface with energy-dispersive X-ray spectroscopy (EDS) in SEM. Then, the microstructure observations of the mixed region located at the Nb/Inconel 601 interface using the TEM technique allowed its chemical and phase composition to be revealed.
“They Proved to Be Very Good Sailors”: Slavery and Freedom in the South Sea
Authors: Walker Tamara J.
Published: July 2021

This article mines archival sources and published accounts from the late seventeenth and early eighteenth centuries to highlight the extent to which enslaved men, women, and children in the South Sea came into contact with British corsairs. It does so in ways that lend to three important observations: that people of African descent occupied a central role within the history of British corsair activity in the South Sea; that British corsair activity in the South Sea forms part of the history of the slave trade; and that there are important differences between British corsairs’ use of enslaved and free people of African descent in the South Sea as compared to the Atlantic World. The latter point, which rests on the recognition of the particular linguistic skills and geographic knowledge held by people of African descent in the South Sea and British corsairs' particular vulnerabilities, also provides a useful framework for future research on both the specificity of black life in the region and the meanings those skills and knowledge held for Africans and their descendants themselves.
A passive mechanism for decoupling energy storage and return in ankle–foot prostheses: A case study in recycling collision energy
Authors: Quraishi Hashim A. , Shepherd Max K. , McManus Leo , Harlaar Jaap , Plettenburg Dick H. , Rouse Elliott J.
Published: July 2021

Individuals with lower limb amputation experience reduced ankle push-off work in the absence of functional muscles spanning the joint, leading to decreased walking performance. Conventional energy storage and return (ESR) prostheses partially compensate by storing mechanical energy during midstance and returning this energy during the terminal stance phase of gait. These prostheses can provide approximately 30% of the push-off work performed by a healthy ankle–foot during walking. Novel prostheses that return more normative levels of mechanical energy may improve walking performance. In this work, we designed a Decoupled ESR (DESR) prosthesis which stores energy usually dissipated at heel-strike and loading response, and returns this energy during terminal stance, thus increasing the mechanical push-off work done by the prosthesis. This decoupling is achieved by switching between two different cam profiles that produce distinct, nonlinear torque–angle mechanics. The cams automatically interchange at key points in the gait cycle via a custom magnetic switching system. Benchtop characterization demonstrated the successful decoupling of energy storage and return. The DESR mechanism was able to capture energy at heel-strike and loading response, and return it later in the gait cycle, but this recycling was not sufficient to overcome mechanical losses. In addition to its potential for recycling energy, the DESR mechanism also enables unique mechanical customizability, such as dorsiflexion during swing phase for toe clearance, or increasing the rate of energy release at push-off.
Spelling Error Detection
Authors: Endlich Darius , Richter Tobias , Marx Peter , Lenhard Wolfgang , Moll Kristina , Witzel Björn , Schulte-Körne Gerd
Published: July 2021

Abstract. The ability to spell words correctly is a key competence for educational and professional achievement. Economical procedures are essential to identifying children with spelling problems as early as possible. Given the strong evidence showing that reading and spelling are based on the same orthographic knowledge, error-detection tasks (EDTs) could be considered such an economical procedure. Although EDTs are widely used in English-speaking countries, the few studies in German-speaking countries investigated only pupils in secondary school. The present study investigated N = 1,513 children in elementary school. We predicted spelling competencies (measured by dictation or gap-fill dictation) based on an EDT via linear regression. Error-detection abilities significantly predicted spelling competencies ( R² between .509 and .679), indicating a strong connection. Predictive values in identifying children with poor spelling abilities with an EDT proved to be sufficient. Error detection for the assessment of spelling skills is therefore a valid instrument for transparent languages as well.
Polarimetric Calibration and Spatio‐Temporal Polarimetric Distortion Analysis of UAVSAR PolSAR Data
Authors: Babu Arun , Kumar Shashi , Agrawal Shefali
Published: July 2021

The polarimetric distortions present in the polarimetric SAR (PolSAR) data sets leads to unexpected results from the polarimetric decomposition and classification models, which in turn result in the ground target misinterpretation. The most important polarimetric distortions in airborne PolSAR data sets are the channel imbalance and crosstalk. The minimization of these polarimetric distortions using polarimetric calibration techniques is very important to carry out the quantitative analysis using PolSAR data and time series analysis and to compare results between different sensors. In the current state of the art, the spatial variability of the polarimetric distortions at different slant‐range positions in the data set was not completely analyzed and also the temporal variability of the polarimetric distortions using multiple data sets needs to be more investigated. Therefore, the main objectives of this study were to develop an operational processor to perform the external polarimetric calibration of the L‐band Uninhibited Aerial Vehicle Synthetic Aperture Radar system and to analyze the spatio‐temporal behavior of the polarimetric distortions. The polarimetric distortion matrix (PDM) was formulated after considering the crosstalk and channel imbalance polarimetric distortions to derive the scattering matrix free from all kinds of polarimetric distortions from the observed scattering matrix. The Quegan, improved Quegan, and Ainsworth methods for polarimetric calibration were implemented to solve the PDM. The residual channel imbalance and crosstalk after polarimetric calibration were estimated to compare the calibration efficiency of these methods. After that, a spatio‐temporal analysis was carried out with several data sets to assess the spatio‐temporal behavior of these polarimetric distortions. The polarimetric signatures and the coherency matrix behavior of the trihedral corner reflectors were used to analyze the ground target characterization improvement after polarimetric calibration. The results obtained from this study revealed that the crosstalk is the major cause for the polarimetric distortions and the channel imbalance and phase bias present in the data sets were not high. From the spatio‐temporal analysis, it was found that the variability of these polarimetric distortions both in spatial and temporal domains was minimum and can be discarded without causing any considerable error in the polarimetric calibration process.
The 2019 Autumn Hot Drought Over the Middle‐Lower Reaches of the Yangtze River in China: Early Propagation, Process Evolution, and Concurrence
Authors: Liu Zhenchen , Zhou Wen
Published: July 2021

Hot droughts (i.e., concurrent droughts and hot anomalies) have drawn much attention recently, but current knowledge about early propagation and concurrence remains limited. The 2019 autumn severe hot drought (2019AHD) over the middle‐lower reaches of the Yangtze River (MLYR) is employed for process‐based analysis, while water vapor transport, heating budgets, and atmospheric dynamics are comprehensively investigated. The main achievements are as follows: (a) The 2019AHD over MLYR is not isolated and is related to early propagation from adjacent North China (NC) two months earlier. (b) Direct physical causes are explored. Drought evolution is related to anomalous water vapor transport dominated by low‐level cyclonic anomalies over the East China Sea. Concurrently, local low‐level hot anomalies over MLYR are related to amplified horizontal advection heating, while near‐surface warming is favored by decreased low cloud cover and enhanced downward shortwave radiation. (c) Regional‐scale concurrence of droughts and hot extremes might be understood by the combined effects of amplified subsidence (suppressing precipitation formation) and intensified low‐level divergence (reducing low cloud cover). (d) From a large‐scale dynamic perspective, early propagation and development of the 2019AHD are related to the southward shift and enhancement of the subsidence branch of meridional circulations. Meanwhile, intensity variation in 200 hPa cyclonic anomalies over MLYR corresponds well with local drought development, and the enhanced intensity at the time of drought occurrence is probably related to Silk Road Pattern–like wave train propagation over Eurasia. These insights can help us understand the mechanisms and detect early signals of hot droughts.
Mathematical Modeling and Numerical Simulation of Water‐Rock Interaction in Shale Under Fracturing‐Fluid Flowback Conditions
Authors: Chen Qiaoyun , Wang Fei
Published: July 2021

Water‐rock interaction cannot be ignored for shale reservoirs with high‐salinity formation brine and complex rock composition, and stimulated by massive slick‐water fracturing treatment. However, there have been few studies on the flowback model fully coupled with different effects of water‐rock interaction. This paper presents the development of a coupled hydro‐chemical‐mechanical model for modeling water‐rock interaction in fractured shale during the post‐fracturing flowback period. The model considers distinguishing water‐rock interaction phenomena, that is, mineral dissolution, clay swelling and chemical osmosis, and accounts for multi‐phase flow in a fractured shale reservoir. The coupling and solution method and a numerical simulator were developed. Numerical simulation indicates that the swelling volume of clay minerals occupies the pores and leads to a decline in matrix porosity, while mineral dissolution increases both the matrix porosity and the solute concentration in the aqueous phase in matrix pores. Clay swelling mainly affects the shape of the porosity ratio profiles. The effect of mineral dissolution becomes increasingly stronger as flowback progresses. Mineral dissolution mainly affects the relative positions of the porosity ratio curves with the progress of flowback. The water‐rock interaction coupled flowback modeling and the numerical simulation results in this study quantify the effects of chemical osmosis, clay swelling and mineral dissolution. Results from this study provide new insights into the mechanisms of fracturing‐fluid flowback and value to flowback transient analysis.
The Consumption‐Based Carbon Emissions in the Jing‐Jin‐Ji Urban Agglomeration Over China's Economic Transition
Authors: Bai Yangchun , Zheng Heran , Shan Yuli , Meng Jing , Li Yuan
Published: July 2021

Since the 2008 financial crisis, China has been undergoing an economic transition consisting of prioritizing green economic and sustainable development instead of rapid growth driven by large‐scale investment. However, there is still a lack of fine print on how subregional effort can contribute to national or full supply chain mitigation plans, especially downscaling to the city level. To bridge this knowledge gap, we selected Jing‐Jin‐Ji urban agglomeration, one of the economic centers but also featured by intensive emission for decades, to analyze the emission variance and driving forces from 2012 to 2015 as a case study. Based on the consumption accounting framework, the carbon emissions of Jing‐Jin‐Ji have decreased by 11.7 Mt CO2 in total over the study period, and most cities showed the similar descending trend. The driving forces show that the emission intensity and production structure have largely reduced Jing‐Jin‐Ji's total due to measurements of economic transition. For instance, Beijing has decreased by 28.7 Mt of emission reduction which led by declined emission intensity. By contrast, per capita demands and growth of its population were the primary forces to increase emissions. To conclude, although the mitigation achievement is undeniable, we should also note that the economic transition has not changed the uneven pattern of selected urban agglomeration so far.
Coral Ba/Ca Analysis Using ICP‐OES With an Ultrasonic Nebulizer
Authors: Watanabe Takaaki K. , Watanabe Tsuyoshi , Ohmori Kazuto , Yamazaki Atsuko
Published: July 2021

The barium/calcium ratio (Ba/Ca) in coral skeletons has been used as a proxy to understand river floods and oceanic upwelling in the tropics and subtropics for the past centuries. Here, we establish a new method for Ba/Ca analysis using inductively coupled plasma optical emission spectrometry (ICP‐OES), which has been widely used for coral proxy analyses and can save analysis time compared to other methods. We analyze Ba/Ca by combining an ultrasonic nebulizer with the intensity ratio calibration method to improve the signal intensity of Ba. Our method can determine Ba/Ca in samples with a Ca concentration of 9 mg/L with excellent analytical precision (<0.17 μmol/mol) using ICP‐OES.
Cycling of CO2 and N2 Along the Hikurangi Subduction Margin, New Zealand: An Integrated Geological, Theoretical, and Isotopic Approach
Authors: Epstein Gabe S. , Bebout Gray E. , Christenson Bruce W. , Sumino Hirochika , Wada Ikuko , Werner Cynthia , Hilton David R.
Published: July 2021

We present a quantitative assessment of the input and output of CO2 and N2 along the Hikurangi margin based on the chemical and stable isotope composition of sediments and basalts (from IODP 375), previously accreted metasedimentary rocks, and volcanic/hydrothermal gases (together with noble gas data for the latter). We compare these results with 3‐D thermo‐petrologic models for four lithologic structures, representing different plateau inputs. The model results indicate that 59%–85% of initially subducted C and 5%–12% of N is lost from the slab during metamorphism, with both volatiles being dominantly sourced from altered oceanic crust with some contribution from subducted sediment at the forearc‐arc transition (75–90 km depth). The δ13CVPDB and CO2/3He values for the arc gases range from −8.3 to −1.4‰ and 2 × 109 to 2.7 × 1011, indicating contributions from slab carbonate, organic C, and mantle C of 67%, 30%, and 3%, respectively. The δ15Nair and N2/36Ar values of arc gases are −1.0 to +2.3‰ and 1.54 × 104 to 1.9 × 105, indicating slab and mantle contributions of 74% and 26%. The δ13C signature of gases requires addition of organic C by tectonic erosion and/or shallow crustal assimilation. These calculations yield whole‐margin fluxes of 5.4–7.0 Tg/yr for CO2 and 0.0022–0.0057 Tg/yr for N2, corresponding to ∼2.2% and 1%–30% of the global CO2 and N2 flux from subaerial volcanoes worldwide (assuming no loss during transit). This unique assessment of volatile cycling could prove useful in refining regional and global estimates of volatile recycling efficiency.
Global Wave Hindcasts Using the Observation‐Based Source Terms: Description and Validation
Authors: Liu Qingxiang , Babanin Alexander V. , Rogers W. Erick , Zieger Stefan , Young Ian R. , Bidlot Jean‐Raymond , Durrant Tom , Ewans Kevin , Guan Changlong , Kirezci Cagil , Lemos Gil , MacHutchon Keith , Moon Il‐Ju , Rapizo Henrique , Ribal Agustinus , Semedo Alvaro , Wang Juanjuan
Published: July 2021

Global wave hindcasts are developed using the third generation spectral wave model WAVEWATCH III with the observation‐based source terms (ST6) and a hybrid rectilinear‐curvilinear, irregular‐regular‐irregular grid system (approximately at ). Three distinct global hindcasts are produced: (a) a long‐term hindcast (1979–2019) forced by the ERA5 conventional winds and (b) two short‐term hindcasts (2011–2019) driven by the NCEP climate forecast system (CFS)v2 and the ERA5 neutral winds , respectively. The input field for ice is sourced from the Ocean and Sea Ice Satellite Application Facility (OSI SAF) sea‐ice concentration climate data records. These wave simulations, together with the driving wind forcing, are validated against extensive in‐situ observations and satellite altimeter records. The performance of the ST6 wave hindcasts shows promising results across multiple wave parameters, including the conventional wave characteristics (e.g., wave height and wave period) and high‐order spectral moments (e.g., the surface Stokes drift and mean square slope). The ERA5‐based simulations generally present lower random errors, but the CFS‐based run represents extreme sea states (e.g.,  m) considerably better. Novel wave parameters available in our hindcasts, namely the dominant wave breaking probability, wave‐induced mixed layer depth, freak wave indexes and wave‐spreading factor, are further described and briefly discussed. Inter‐comparisons of from the long‐term (41 years) wave hindcast, buoy measurements and two different calibrated altimeter data sets highlight the inconsistency in these altimeter records arising from different calibration methodology. Significant errors in the low‐frequency bins (period  s) for both wave energy and directionality call for further model development.
Proof of concept study to develop a novel connectivity-based electric-field modelling approach for individualized targeting of transcranial magnetic stimulation treatment
Authors: Balderston Nicholas L. , Beer Joanne C. , Seok Darsol , Makhoul Walid , Deng Zhi-De , Girelli Tommaso , Teferi Marta , Smyk Nathan , Jaskir Marc , Oathes Desmond J. , Sheline Yvette I.
Published: July 2021

Resting state functional connectivity (rsFC) offers promise for individualizing stimulation targets for transcranial magnetic stimulation (TMS) treatments. However, current targeting approaches do not account for non-focal TMS effects or large-scale connectivity patterns. To overcome these limitations, we propose a novel targeting optimization approach that combines whole-brain rsFC and electric-field (e-field) modelling to identify single-subject, symptom-specific TMS targets. In this proof of concept study, we recruited 91 anxious misery (AM) patients and 25 controls. We measured depression symptoms (MADRS/HAMD) and recorded rsFC. We used a PCA regression to predict symptoms from rsFC and estimate the parameter vector, for input into our e-field augmented model. We modeled 17 left dlPFC and 7 M1 sites using 24 equally spaced coil orientations. We computed single-subject predicted ΔMADRS/HAMD scores for each site/orientation using the e-field augmented model, which comprises a linear combination of the following elementwise products (1) the estimated connectivity/symptom coefficients, (2) a vectorized e-field model for site/orientation, (3) rsFC matrix, scaled by a proportionality constant. In AM patients, our connectivity-based model predicted a significant decrease depression for sites near BA9, but not M1 for coil orientations perpendicular to the cortical gyrus. In control subjects, no site/orientation combination showed a significant predicted change. These results corroborate previous work suggesting the efficacy of left dlPFC stimulation for depression treatment, and predict better outcomes with individualized targeting. They also suggest that our novel connectivity-based e-field modelling approach may effectively identify potential TMS treatment responders and individualize TMS targeting to maximize the therapeutic impact.
Microbial drivers of methane emissions from unrestored industrial salt ponds
Authors: Zhou Jinglie , Theroux Susanna M , Bueno de Mesquita Clifton P , Hartman Wyatt H , Tian Ye , Tringe Susannah G
Published: July 2021

Wetlands are important carbon (C) sinks, yet many have been destroyed and converted to other uses over the past few centuries, including industrial salt making. A renewed focus on wetland ecosystem services (e.g., flood control, and habitat) has resulted in numerous restoration efforts whose effect on microbial communities is largely unexplored. We investigated the impact of restoration on microbial community composition, metabolic functional potential, and methane flux by analyzing sediment cores from two unrestored former industrial salt ponds, a restored former industrial salt pond, and a reference wetland. We observed elevated methane emissions from unrestored salt ponds compared to the restored and reference wetlands, which was positively correlated with salinity and sulfate across all samples. 16S rRNA gene amplicon and shotgun metagenomic data revealed that the restored salt pond harbored communities more phylogenetically and functionally similar to the reference wetland than to unrestored ponds. Archaeal methanogenesis genes were positively correlated with methane flux, as were genes encoding enzymes for bacterial methylphosphonate degradation, suggesting methane is generated both from bacterial methylphosphonate degradation and archaeal methanogenesis in these sites. These observations demonstrate that restoration effectively converted industrial salt pond microbial communities back to compositions more similar to reference wetlands and lowered salinities, sulfate concentrations, and methane emissions.
Anillin propels myosin-independent constriction of actin rings
Authors: Kučera Ondřej , Siahaan Valerie , Janda Daniel , Dijkstra Sietske H. , Pilátová Eliška , Zatecka Eva , Diez Stefan , Braun Marcus , Lansky Zdenek
Published: July 2021

Constriction of the cytokinetic ring, a circular structure of actin filaments, is an essential step during cell division. Mechanical forces driving the constriction are attributed to myosin motor proteins, which slide actin filaments along each other. However, in multiple organisms, ring constriction has been reported to be myosin independent. How actin rings constrict in the absence of motor activity remains unclear. Here, we demonstrate that anillin, a non­motor actin crosslinker, indispensable during cytokinesis, autonomously propels the contractility of actin bundles. Anillin generates contractile forces of tens of pico-Newtons to maximise the lengths of overlaps between bundled actin filaments. The contractility is enhanced by actin disassembly. When multiple actin filaments are arranged into a ring, this contractility leads to ring constriction. Our results indicate that passive actin crosslinkers can substitute for the activity of molecular motors to generate contractile forces in a variety of actin networks, including the cytokinetic ring.
Mechanistic insights into the three steps of poly(ADP-ribosylation) reversal
Authors: Rack Johannes Gregor Matthias , Liu Qiang , Zorzini Valentina , Voorneveld Jim , Ariza Antonio , Honarmand Ebrahimi Kourosh , Reber Julia M. , Krassnig Sarah C. , Ahel Dragana , van der Marel Gijsbert A. , Mangerich Aswin , McCullagh James S. O. , Filippov Dmitri V. , Ahel Ivan
Published: July 2021

Poly(ADP-ribosyl)ation (PAR) is a versatile and complex posttranslational modification composed of repeating units of ADP-ribose arranged into linear or branched polymers. This scaffold is linked to the regulation of many of cellular processes including the DNA damage response, alteration of chromatin structure and Wnt signalling. Despite decades of research, the principles and mechanisms underlying all steps of PAR removal remain actively studied. In this work, we synthesise well-defined PAR branch point molecules and demonstrate that PARG, but not ARH3, can resolve this distinct PAR architecture. Structural analysis of ARH3 in complex with dimeric ADP-ribose as well as an ADP-ribosylated peptide reveal the molecular basis for the hydrolysis of linear and terminal ADP-ribose linkages. We find that ARH3-dependent hydrolysis requires both rearrangement of a catalytic glutamate and induction of an unusual, square-pyramidal magnesium coordination geometry.
Multifocal imaging for precise, label-free tracking of fast biological processes in 3D
Authors: Hansen Jan N. , Gong An , Wachten Dagmar , Pascal René , Turpin Alex , Jikeli Jan F. , Kaupp U. Benjamin , Alvarez Luis
Published: July 2021

Many biological processes happen on a nano- to millimeter scale and within milliseconds. Established methods such as confocal microscopy are suitable for precise 3D recordings but lack the temporal or spatial resolution to resolve fast 3D processes and require labeled samples. Multifocal imaging (MFI) allows high-speed 3D imaging but is limited by the compromise between high spatial resolution and large field-of-view (FOV), and the requirement for bright fluorescent labels. Here, we provide an open-source 3D reconstruction algorithm for multi-focal images that allows using MFI for fast, precise, label-free tracking spherical and filamentous structures in a large FOV and across a high depth. We characterize fluid flow and flagellar beating of human and sea urchin sperm with a z-precision of 0.15 µm, in a volume of 240 × 260 × 21 µm, and at high speed (500 Hz). The sampling volume allowed to follow sperm trajectories while simultaneously recording their flagellar beat. Our MFI concept is cost-effective, can be easily implemented, and does not rely on object labeling, which renders it broadly applicable.
Investigating the role of group-based morality in extreme behavioral expressions of prejudice
Authors: Hoover Joe , Atari Mohammad , Mostafazadeh Davani Aida , Kennedy Brendan , Portillo-Wightman Gwenyth , Yeh Leigh , Dehghani Morteza
Published: July 2021

Understanding motivations underlying acts of hatred are essential for developing strategies to prevent such extreme behavioral expressions of prejudice (EBEPs) against marginalized groups. In this work, we investigate the motivations underlying EBEPs as a function of moral values. Specifically, we propose EBEPs may often be best understood as morally motivated behaviors grounded in people’s moral values and perceptions of moral violations. As evidence, we report five studies that integrate spatial modeling and experimental methods to investigate the relationship between moral values and EBEPs. Our results, from these U.S. based studies, suggest that moral values oriented around group preservation are predictive of the county-level prevalence of hate groups and associated with the belief that extreme behavioral expressions of prejudice against marginalized groups are justified. Additional analyses suggest that the association between group-based moral values and EBEPs against outgroups can be partly explained by the belief that these groups have done something morally wrong.
IFITM proteins promote SARS-CoV-2 infection and are targets for virus inhibition in vitro
Authors: Prelli Bozzo Caterina , Nchioua Rayhane , Volcic Meta , Koepke Lennart , Krüger Jana , Schütz Desiree , Heller Sandra , Stürzel Christina M. , Kmiec Dorota , Conzelmann Carina , Müller Janis , Zech Fabian , Braun Elisabeth , Groß Rüdiger , Wettstein Lukas , Weil Tatjana , Weiß Johanna , Diofano Federica , Rodríguez Alfonso Armando A. , Wiese Sebastian , Sauter Daniel , Münch Jan , Goffinet Christine , Catanese Alberto , Schön Michael , Boeckers Tobias M. , Stenger Steffen , Sato Kei , Just Steffen , Kleger Alexander , Sparrer Konstantin M. J. , Kirchhoff Frank
Published: July 2021

Interferon-induced transmembrane proteins (IFITMs 1, 2 and 3) can restrict viral pathogens, but pro- and anti-viral activities have been reported for coronaviruses. Here, we show that artificial overexpression of IFITMs blocks SARS-CoV-2 infection. However, endogenous IFITM expression supports efficient infection of SARS-CoV-2 in human lung cells. Our results indicate that the SARS-CoV-2 Spike protein interacts with IFITMs and hijacks them for efficient viral infection. IFITM proteins were expressed and further induced by interferons in human lung, gut, heart and brain cells. IFITM-derived peptides and targeting antibodies inhibit SARS-CoV-2 entry and replication in human lung cells, cardiomyocytes and gut organoids. Our results show that IFITM proteins are cofactors for efficient SARS-CoV-2 infection of human cell types representing in vivo targets for viral transmission, dissemination and pathogenesis and are potential targets for therapeutic approaches.
Engineering single-atomic ruthenium catalytic sites on defective nickel-iron layered double hydroxide for overall water splitting
Authors: Zhai Panlong , Xia Mingyue , Wu Yunzhen , Zhang Guanghui , Gao Junfeng , Zhang Bo , Cao Shuyan , Zhang Yanting , Li Zhuwei , Fan Zhaozhong , Wang Chen , Zhang Xiaomeng , Miller Jeffrey T. , Sun Licheng , Hou Jungang
Published: July 2021

Rational design of single atom catalyst is critical for efficient sustainable energy conversion. However, the atomic-level control of active sites is essential for electrocatalytic materials in alkaline electrolyte. Moreover, well-defined surface structures lead to in-depth understanding of catalytic mechanisms. Herein, we report a single-atomic-site ruthenium stabilized on defective nickel-iron layered double hydroxide nanosheets (Ru1/D-NiFe LDH). Under precise regulation of local coordination environments of catalytically active sites and the existence of the defects, Ru1/D-NiFe LDH delivers an ultralow overpotential of 18 mV at 10 mA cm−2 for hydrogen evolution reaction, surpassing the commercial Pt/C catalyst. Density functional theory calculations reveal that Ru1/D-NiFe LDH optimizes the adsorption energies of intermediates for hydrogen evolution reaction and promotes the O–O coupling at a Ru–O active site for oxygen evolution reaction. The Ru1/D-NiFe LDH as an ideal model reveals superior water splitting performance with potential for the development of promising water-alkali electrocatalysts.
Mitochondrial adaptor TRAK2 activates and functionally links opposing kinesin and dynein motors
Authors: Fenton Adam R. , Jongens Thomas A. , Holzbaur Erika L. F.
Published: July 2021

Mitochondria are transported along microtubules by opposing kinesin and dynein motors. Kinesin-1 and dynein-dynactin are linked to mitochondria by TRAK proteins, but it is unclear how TRAKs coordinate these motors. We used single-molecule imaging of cell lysates to show that TRAK2 robustly activates kinesin-1 for transport toward the microtubule plus-end. TRAK2 is also a novel dynein activating adaptor that utilizes a conserved coiled-coil motif to interact with dynein to promote motility toward the microtubule minus-end. However, dynein-mediated TRAK2 transport is minimal unless the dynein-binding protein LIS1 is present at a sufficient level. Using co-immunoprecipitation and co-localization experiments, we demonstrate that TRAK2 forms a complex containing both kinesin-1 and dynein-dynactin. These motors are functionally linked by TRAK2 as knockdown of either kinesin-1 or dynein-dynactin reduces the initiation of TRAK2 transport toward either microtubule end. We propose that TRAK2 coordinates kinesin-1 and dynein-dynactin as an interdependent motor complex, providing integrated control of opposing motors for the proper transport of mitochondria.
PALI1 facilitates DNA and nucleosome binding by PRC2 and triggers an allosteric activation of catalysis
Authors: Zhang Qi , Agius Samuel C. , Flanigan Sarena F. , Uckelmann Michael , Levina Vitalina , Owen Brady M. , Davidovich Chen
Published: July 2021

The polycomb repressive complex 2 (PRC2) is a histone methyltransferase that maintains cell identities. JARID2 is the only accessory subunit of PRC2 that known to trigger an allosteric activation of methyltransferase. Yet, this mechanism cannot be generalised to all PRC2 variants as, in vertebrates, JARID2 is mutually exclusive with most of the accessory subunits of PRC2. Here we provide functional and structural evidence that the vertebrate-specific PRC2 accessory subunit PALI1 emerged through a convergent evolution to mimic JARID2 at the molecular level. Mechanistically, PRC2 methylates PALI1 K1241, which then binds to the PRC2-regulatory subunit EED to allosterically activate PRC2. PALI1 K1241 is methylated in mouse and human cell lines and is essential for PALI1-induced allosteric activation of PRC2. High-resolution crystal structures revealed that PALI1 mimics the regulatory interactions formed between JARID2 and EED. Independently, PALI1 also facilitates DNA and nucleosome binding by PRC2. In acute myelogenous leukemia cells, overexpression of PALI1 leads to cell differentiation, with the phenotype altered by a separation-of-function PALI1 mutation, defective in allosteric activation and active in DNA binding. Collectively, we show that PALI1 facilitates catalysis and substrate binding by PRC2 and provide evidence that subunit-induced allosteric activation is a general property of holo-PRC2 complexes.
Label-free imaging for quality control of cardiomyocyte differentiation
Authors: Qian Tongcheng , Heaster Tiffany M. , Houghtaling Angela R. , Sun Kexin , Samimi Kayvan , Skala Melissa C.
Published: July 2021

Human pluripotent stem cell (hPSC)-derived cardiomyocytes provide a promising regenerative cell therapy for cardiovascular patients and an important model system to accelerate drug discovery. However, cost-effective and time-efficient platforms must be developed to evaluate the quality of hPSC-derived cardiomyocytes during biomanufacturing. Here, we develop a non-invasive label-free live cell imaging platform to predict the efficiency of hPSC differentiation into cardiomyocytes. Autofluorescence imaging of metabolic co-enzymes is performed under varying differentiation conditions (cell density, concentration of Wnt signaling activator) across five hPSC lines. Live cell autofluorescence imaging and multivariate classification models provide high accuracy to separate low (< 50%) and high (≥ 50%) differentiation efficiency groups (quantified by cTnT expression on day 12) within 1 day after initiating differentiation (area under the receiver operating characteristic curve, 0.91). This non-invasive and label-free method could be used to avoid batch-to-batch and line-to-line variability in cell manufacturing from hPSCs.