bluuebunny/crossref_metadata_2025 huggingface dataset:
Cardiac Tissue Engineering: Inclusion of Non-cardiomyocytes for Enhanced Features
Authors: Munawar Sadek , Turnbull Irene C.
Published: May 2021

Engineered cardiac tissues (ECTs) are 3D physiological models of the heart that are created and studied for their potential role in developing therapies of cardiovascular diseases and testing cardio toxicity of drugs. Recreating the microenvironment of the native myocardium in vitro mainly involves the use of cardiomyocytes. However, ECTs with only cardiomyocytes (CM-only) often perform poorly and are less similar to the native myocardium compared to ECTs constructed from co-culture of cardiomyocytes and nonmyocytes. One important goal of co-culture tissues is to mimic the native heart’s cellular composition, which can result in better tissue function and maturity. In this review, we investigate the role of nonmyocytes in ECTs and discuss the mechanisms behind the contributions of nonmyocytes in enhancement of ECT features.
Development in a Dish—In Vitro Models of Mammalian Embryonic Development
Authors: el Azhar Yasmine , Sonnen Katharina F.
Published: May 2021

Despite decades of research, the complex processes of embryonic development are not fully understood. The study of mammalian development poses particular challenges such as low numbers of embryos, difficulties in culturing embryos in vitro, and the time to generate mutant lines. With new approaches we can now address questions that had to remain unanswered in the past. One big contribution to studying the molecular mechanisms of development are two- and three-dimensional in vitro model systems derived from pluripotent stem cells. These models, such as blastoids, gastruloids, and organoids, enable high-throughput screens and straightforward gene editing for functional testing without the need to generate mutant model organisms. Furthermore, their use reduces the number of animals needed for research and allows the study of human development. Here, we outline and discuss recent advances in such in vitro model systems to investigate pre-implantation and post-implantation development.
Quantification of Osteoclasts in Culture, Powered by Machine Learning
Authors: Cohen-Karlik Edo , Awida Zamzam , Bergman Ayelet , Eshed Shahar , Nestor Omer , Kadashev Michelle , Yosef Sapir Ben , Saed Hussam , Mansour Yishay , Globerson Amir , Neumann Drorit , Gabet Yankel
Published: May 2021

In vitro osteoclastogenesis is a central assay in bone biology to study the effect of genetic and pharmacologic cues on the differentiation of bone resorbing osteoclasts. To date, identification of TRAP+ multinucleated cells and measurements of osteoclast number and surface rely on a manual tracing requiring specially trained lab personnel. This task is tedious, time-consuming, and prone to operator bias. Here, we propose to replace this laborious manual task with a completely automatic process using algorithms developed for computer vision. To this end, we manually annotated full cultures by contouring each cell, and trained a machine learning algorithm to detect and classify cells into preosteoclast (TRAP+ cells with 1–2 nuclei), osteoclast type I (cells with more than 3 nuclei and less than 15 nuclei), and osteoclast type II (cells with more than 15 nuclei). The training usually requires thousands of annotated samples and we developed an approach to minimize this requirement. Our novel strategy was to train the algorithm by working at “patch-level” instead of on the full culture, thus amplifying by >20-fold the number of patches to train on. To assess the accuracy of our algorithm, we asked whether our model measures osteoclast number and area at least as well as any two trained human annotators. The results indicated that for osteoclast type I cells, our new model achieves a Pearson correlation (r) of 0.916 to 0.951 with human annotators in the estimation of osteoclast number, and 0.773 to 0.879 for estimating the osteoclast area. Because the correlation between 3 different trained annotators ranged between 0.948 and 0.958 for the cell count and between 0.915 and 0.936 for the area, we can conclude that our trained model is in good agreement with trained lab personnel, with a correlation that is similar to inter-annotator correlation. Automation of osteoclast culture quantification is a useful labor-saving and unbiased technique, and we suggest that a similar machine-learning approach may prove beneficial for other morphometrical analyses.
Assembly and Covalent Cross-Linking of an Amine-Functionalised Metal-Organic Cage
Authors: Schneider Matthew L. , Markwell-Heys Adrian W. , Linder-Patton Oliver M. , Bloch Witold M.
Published: May 2021

The incorporation of reactive functional groups onto the exterior of metal-organic cages (MOCs) opens up new opportunities to link their well-defined scaffolds into functional porous solids. Amine moieties offer access to a rich catalogue of covalent chemistry; however, they also tend to coordinate undesirably and interfere with MOC formation, particular in the case of Cu2 paddlewheel-based MOCs. We demonstrate that tuning the basicity of an aniline-functionalized ligand enables the self-assembly of a soluble, amine-functionalized Cu4L4 lantern cage (1). Importantly, we show control over the coordinative propensity of the exterior amine of the ligand, which enables us to isolate a crystalline, two-dimensional metal-organic framework composed entirely of MOC units (2). Furthermore, we show that the nucleophilicity of the exterior amine of 1 can be accessed in solution to generate a cross-linked cage polymer (3) via imine condensation.
Insights Into the Effects of Mucosal Epithelial and Innate Immune Dysfunction in Older People on Host Interactions With Streptococcus pneumoniae
Authors: Weight Caroline M. , Jochems Simon P. , Adler Hugh , Ferreira Daniela M. , Brown Jeremy S. , Heyderman Robert S.
Published: May 2021

In humans, nasopharyngeal carriage of Streptococcus pneumoniae is common and although primarily asymptomatic, is a pre-requisite for pneumonia and invasive pneumococcal disease (IPD). Together, these kill over 500,000 people over the age of 70 years worldwide every year. Pneumococcal conjugate vaccines have been largely successful in reducing IPD in young children and have had considerable indirect impact in protection of older people in industrialized country settings (herd immunity). However, serotype replacement continues to threaten vulnerable populations, particularly older people in whom direct vaccine efficacy is reduced. The early control of pneumococcal colonization at the mucosal surface is mediated through a complex array of epithelial and innate immune cell interactions. Older people often display a state of chronic inflammation, which is associated with an increased mortality risk and has been termed ‘Inflammageing’. In this review, we discuss the contribution of an altered microbiome, the impact of inflammageing on human epithelial and innate immunity to S. pneumoniae, and how the resulting dysregulation may affect the outcome of pneumococcal infection in older individuals. We describe the impact of the pneumococcal vaccine and highlight potential research approaches which may improve our understanding of respiratory mucosal immunity during pneumococcal colonization in older individuals.
The Mucosal Innate Immune Response to Cryptosporidium parvum, a Global One Health Issue
Authors: Crawford Charles K. , Kol Amir
Published: May 2021

Cryptosporidium parvumis an apicomplexan parasite that infects the intestinal epithelium of humans and livestock animals worldwide. Cryptosporidiosis is a leading cause of diarrheal-related deaths in young children and a major cause of economic loss in cattle operations. The disease is especially dangerous to infants and immunocompromised individuals, for which there is no effective treatment or vaccination. As human-to-human, animal-to-animal and animal-to-human transmission play a role in cryptosporidiosis disease ecology, a holistic ‘One Health’ approach is required for disease control. Upon infection, the host’s innate immune response restricts parasite growth and initiates the adaptive immune response, which is necessary for parasite clearance and recovery. The innate immune response involves a complex communicative interplay between epithelial and specialized innate immune cells. Traditional models have been used to study innate immune responses toC. parvumbut cannot fully recapitulate natural host-pathogen interactions. Recent shifts to human and bovine organoid cultures are enabling deeper understanding of host-specific innate immunity response to infection. This review examines recent advances and highlights research gaps in our understanding of the host-specific innate immune response toC. parvum. Furthermore, we discuss evolving research models used in the field and potential developments on the horizon.
Classroom Culture When Students are Reluctant to Learn Online: Student Dissent Behaviors Explained by Their Self-Efficacy, Control of Learning, and Intrinsic Motivation
Authors: Goke Ryan , Berndt Maranda , Rocker Kenneth
Published: May 2021

Student beliefs about classroom culture, instructor behaviors, and their own abilities to learn significantly influence their academic engagement. COVID-19 has drastically altered the classroom environment, forcing many students into a virtual learning platform they may not have preferred or felt comfortable with. Whether it is the fault of the instructor or the environment, students who are dissatisfied engage in instructional dissent. This study examined the influence of instructor clarity, instructor relevance, self-efficacy, intrinsic motivation, distributive justice, procedural justice, and interactional justice on student dissent. The data supported six modified models, indicating a significant difference between students’ expressive, rhetorical, and vengeful dissent behaviors based on whether or not they were enrolled in their preferred learning platform.
Stable Isotope Analysis of Specimens of Opportunity Reveals Ocean-Scale Site Fidelity in an Elusive Whale Species
Authors: Smith Kerri J. , Trueman Clive N. , France Christine A. M. , Sparks Jed P. , Brownlow Andrew C. , Dähne Michael , Davison Nicholas J. , Guðmundsson Guðmundur , Khidas Kamal , Kitchener Andrew C. , Langeveld Bram W. , Lesage Véronique , Meijer Hanneke J. M. , Ososky John J. , Sabin Richard C. , Timmons Zena L. , Víkingsson Gísli A. , Wenzel Frederick W. , Peterson Markus J.
Published: May 2021

Elusive wildlife are challenging to study, manage, or conserve, as the difficulty of obtaining specimens or conducting direct observations leads to major data deficiencies. Specimens of opportunity, such as salvaged carcasses or museum specimens, are a valuable source of fundamental biological and ecological information on data-deficient, elusive species, increasing knowledge of biodiversity, habitat and range, and population structure. Stable isotope analysis is a powerful indirect tool that can be used to infer foraging behavior and habitat use retrospectively from archived specimens. Beaked whales are a speciose group of cetaceans that are challenging to studyin situ, and although Sowerby's beaked whale (Mesoplodon bidens) was discovered >200 years ago, little is known about its biology. We measured δ13C and δ15N stable isotope composition in bone, muscle, and skin tissue from 102 Sowerby's beaked whale specimens of opportunity collected throughout the North Atlantic Ocean to infer movement ecology and spatial population structure. Median δ13C and δ15N values in Sowerby's beaked whale bone, muscle, and skin tissues significantly differed between whales sampled from the east and west North Atlantic Ocean. Quadratic discriminant analysis that simultaneously considered δ13C and δ15N values correctly assigned >85% of the specimens to their collection region for all tissue types. These findings demonstrate Sowerby's beaked whale exhibits both short- and long-term site fidelity to the region from which the specimens were collected, suggest that this species is composed of two or more populations or exhibits a metapopulation structure, and have implications for conservation and management policy. Stable isotope analysis of specimens of opportunity proved a highly successful means of generating new spatial ecology data for this elusive species and is a method that can be effectively applied to other elusive species.
Lung Ultrasound Score as a Predictor of Mortality in Patients With COVID-19
Authors: Sun Zhenxing , Zhang Ziming , Liu Jie , Song Yue , Qiao Shi , Duan Yilian , Cao Haiyan , Xie Yuji , Wang Rui , Zhang Wen , You Manjie , Yu Cheng , Ji Li , Cao Chunyan , Wang Jing , Yang Yali , Lv Qing , Wang Hongbo , Gu Haotian , Xie Mingxing
Published: May 2021

Background: Lung injury is a common condition among hospitalized patients with coronavirus disease 2019 (COVID-19). However, whether lung ultrasound (LUS) score predicts all-cause mortality in patients with COVID-19 is unknown. The aim of the present study was to explore the predictive value of lung ultrasound score for mortality in patients with COVID-19.

Methods: Patients with COVID-19 who underwent lung ultrasound were prospectively enrolled from three hospitals in Wuhan, China between February 2020 and March 2020. Demographic, clinical, and laboratory data were collected from digital patient records. Lung ultrasound scores were analyzed offline by two observers. Primary outcome was in-hospital mortality.

Results: Of the 402 patients, 318 (79.1%) had abnormal lung ultrasound. Compared with survivors (n = 360), non-survivors (n = 42) presented with more B2 lines, pleural line abnormalities, pulmonary consolidation, and pleural effusion (all p < 0.05). Moreover, non-survivors had higher global and anterolateral lung ultrasound score than survivors. In the receiver operating characteristic analysis, areas under the curve were 0.936 and 0.913 for global and anterolateral lung ultrasound score, respectively. A cutoff value of 15 for global lung ultrasound score had a sensitivity of 92.9% and specificity of 85.3%, and 9 for anterolateral score had a sensitivity of 88.1% and specificity of 83.3% for prediction of death. Kaplan–Meier analysis showed that both global and anterolateral scores were strong predictors of death (both p < 0.001). Multivariate Cox regression analysis showed that global lung ultrasound score was an independent predictor (hazard ratio, 1.08; 95% confidence interval, 1.01–1.16; p = 0.03) of death together with age, male sex, C-reactive protein, and creatine kinase-myocardial band.

Conclusion: Lung ultrasound score as a semiquantitative tool can be easily measured by bedside lung ultrasound. It is a powerful predictor of in-hospital mortality and may play a crucial role in risk stratification of patients with COVID-19.
MELD-XI Score Is Associated With Short-Term Adverse Events in Patients With Heart Failure With Preserved Ejection
Authors: Wang Sunying , Wang Yuwei , Luo Manqing , Lin Kaiyang , Xie Xiaoxu , Lin Na , Yang Qingyong , Zou Tian , Chen Xinan , Xie Xianwei , Guo Yansong
Published: May 2021

Aim: Accumulating evidence suggests that MELD-XI score holds the ability to predict the prognosis of congestive heart failure. However, most of the evidence is based on the end-stage heart failure population; thus, we aim to explore the association between the MELD-XI score and the prognosis in heart failure with preserved ejection fraction (HFpEF).

Methods: A total of 30,096 patients hospitalized for HFpEF in Fujian Provincial Hospital between January 1, 2014 and July 17, 2020 with available measures of creatinine and liver function were enrolled. The primary endpoint was 60-day in-hospital all-cause mortality. Secondary endpoints were 60-day in-hospital cardiovascular mortality and 30-day rehospitalization for heart failure.

Results: A total of 222 patients died within 60 days after admission, among which 75 deaths were considered cardiogenic. And 73 patients were readmitted for heart failure within 30 days after discharge. Generally, patients with an elevated MELD-XI score tended to have more comorbidities, higher NYHA class, and higher inflammatory biomarkers levels. Meanwhile, the MELD-XI score was positively correlated with NT-pro BNP, left atrial diameter, E/e' and negatively correlated with LVEF. After adjusting for conventional risk factors, the MELD-XI score was independently associated with 60-day in-hospital all-cause mortality [hazard ratio(HR) = 1.052, 95% confidential interval (CI) 1.022–1.083, P = 0.001], 60-day in-hospital cardiovascular mortality (HR = 1.064, 95% CI 1.013–1.118, P = 0.014), and 30-day readmission for heart failure (HR = 1.061, 95% CI 1.015–1.108, P = 0.009). Furthermore, the MELD-XI score added an incremental discriminatory capacity to risk stratification models developed based on this cohort.

Conclusion: The MELD-XI score was associated with short-term adverse events and provided additional discriminatory capacity to risk stratification models in patients hospitalized for HFpEF.
Cardiac 18F-FDG Positron Emission Tomography: An Accurate Tool to Monitor In vivo Metabolic and Functional Alterations in Murine Myocardial Infarction
Authors: Fischer Maximilian , Zacherl Mathias J. , Weckbach Ludwig , Paintmayer Lisa , Weinberger Tobias , Stark Konstantin , Massberg Steffen , Bartenstein Peter , Lehner Sebastian , Schulz Christian , Todica Andrei
Published: May 2021

Cardiac monitoring after murine myocardial infarction, using serial non-invasive cardiac 18F-FDG positron emissions tomography (PET) represents a suitable and accurate tool for in vivo studies. Cardiac PET imaging enables tracking metabolic alterations, heart function parameters and provides correlations of the infarct size to histology. ECG-gated 18F-FDG PET scans using a dedicated small-animal PET scanner were performed in mice at baseline, 3, 14, and 30 days after myocardial infarct (MI) by permanent ligation of the left anterior descending (LAD) artery. The percentage of the injected dose per gram (%ID/g) in the heart, left ventricular metabolic volume (LVMV), myocardial defect, and left ventricular function parameters: end-diastolic volume (EDV), end-systolic volume (ESV), stroke volume (SV), and the ejection fraction (EF%) were estimated. PET assessment of the defect positively correlates with post-infarct histology at 3 and 30 days. Infarcted murine hearts show an immediate decrease in LVMV and an increase in %ID/g early after infarction, diminishing in the remodeling process. This study of serial cardiac PET scans provides insight for murine myocardial infarction models by novel infarct surrogate parameters. It depicts that serial PET imaging is a valid, accurate, and multimodal non-invasive assessment.
Etiology-Discriminative Multimodal Imaging of Left Ventricular Hypertrophy and Synchrotron-Based Assessment of Microstructural Tissue Remodeling
Authors: Loncaric Filip , Garcia-Canadilla Patricia , Garcia-Alvarez Ana , Sanchis Laura , Prat Susana , Doltra Adelina , Quintana Eduard , Pereda Daniel , Dejea Hector , Bonnin Anne , Sitges Marta , Bijnens Bart
Published: May 2021

Background: Distinguishing the etiology of left ventricular hypertrophy (LVH) is clinically relevant due to patient outcomes and management. Easily obtained, echocardiography-based myocardial deformation patterns may improve standard non-invasive phenotyping, however, the relationship between deformation phenotypes and etiology-related, microstructural cardiac remodeling has not been reported. Synchrotron radiation-based X-ray phase-contrast imaging (X-PCI) can provide high resolution, three-dimensional (3D) information on myocardial microstructure. The aim of this pilot study is to apply a multiscale, multimodality protocol in LVH patients undergoing septal myectomy to visualize in vivo and ex vivo myocardial tissue and relate non-invasive LVH imaging phenotypes to the underlying synchrotron-assessed microstructure.

Methods and findings: Three patients (P1-3) undergoing septal myectomy were comprehensively studied. Medical history was collected, and patients were imaged with echocardiography/cardiac magnetic resonance prior to the procedure. Myocardial tissue samples obtained during the myectomy were imaged with X-PCI generating high spatial resolution images (0.65 μm) to assess myocyte organization, 3D connective tissue distribution and vasculature remodeling. Etiology-centered non-invasive imaging phenotypes, based on findings of hypertrophy and late gadolinium enhancement (LGE) distribution, and enriched by speckle-tracking and tissue Doppler echocardiography deformation patterns, identified a clear phenotype of hypertensive heart disease (HTN) in P1, and hypertrophic cardiomyopathy (HCM) in P2/P3. X-PCI showed extensive interstitial fibrosis with normal 3D myocyte and collagen organization in P1. In comparison, in P2/P3, X-PCI showed 3D myocyte and collagen disarray, as well as arterial wall hypertrophy with increased perivascular collagen, compatible with sarcomere-mutation HCM in both patients. The results of this pilot study suggest the association of non-invasive deformation phenotypes with etiology-related myocyte and connective tissue matrix disorganization. A larger patient cohort could enable statistical analysis of group characteristics and the assessment of deformation pattern reproducibility.

Conclusion: High-resolution, 3D X-PCI provides novel ways to visualize myocardial remodeling in LVH, and illustrates the correspondence of macrostructural and functional non-invasive phenotypes with invasive microstructural phenotypes, suggesting the potential clinical utility of non-invasive myocardial deformation patterns in phenotyping LVH in everyday clinical practice.
Surface Mass Balance Models Vs. Stake Observations: A Comparison in the Lake Vostok Region, Central East Antarctica
Authors: Richter Andreas , Ekaykin Alexey A. , Willen Matthias O. , Lipenkov Vladimir Ya. , Groh Andreas , Popov Sergey V. , Scheinert Mirko , Horwath Martin , Dietrich Reinhard
Published: May 2021

The surface mass balance (SMB) is very low over the vast East Antarctic Plateau, for example in the Vostok region, where the mean SMB is on the order of 20–35 kg m-2 a-1. The observation and modeling of spatio-temporal SMB variations are equally challenging in this environment. Stake measurements carried out in the Vostok region provide SMB observations over half a century (1970–2019). This unique data set is compared with SMB estimations of the regional climate models RACMO2.3p2 (RACMO) and MAR3.11 (MAR). We focus on the SMB variations over time scales from months to decades. The comparison requires a rigorous assessment of the uncertainty in the stake observations and the spatial scale dependence of the temporal SMB variations. Our results show that RACMO estimates of annual and multi-year SMB agree well with the observations. The regression slope between modelled and observed temporal variations is close to 1.0 for this model. SMB simulations by MAR are affected by a positive bias which amounts to 6 kg m-2 a-1 at Vostok station and 2 kg m-2 a-1 along two stake profiles between Lake Vostok and Ridge B. None of the models is capable to reproduce the seasonal distributions of SMB and precipitation. Model SMB estimates are used in assessing the ice-mass balance and sea-level contribution of the Antarctic Ice Sheet by the input-output method. Our results provide insights into the uncertainty contribution of the SMB models to such assessments.
Isotopic Compositions of Plagioclase From Plutonic Xenoliths Reveal Crustal Assimilation Below Martinique, Lesser Antilles Arc
Authors: Brown J. R. , Cooper G. F. , Nowell G. M. , Macpherson C. G. , Neill I. , Prytulak J.
Published: May 2021

The chemical and isotopic compositions of volcanic arc lavas often show evidence for involvement of a sedimentary component during magma genesis. Determining where this sedimentary component is added to arc magmas is of vital importance for constraining the extent to which sediments and volatiles are recycled at subduction zones. Lavas from Martinique in the Lesser Antilles arc have wide ranging isotopic compositions extending to highly radiogenic values (e.g. 87/Sr/86Sr up to ∼0.710) that could, in principle, be explained by sediment addition to the mantle source or by crustal assimilation in the upper plate. We use Sr isotopic compositions of plagioclase from Martinique plutonic xenoliths to provide evidence supporting the crustal assimilation hypothesis. Plagioclase from plutonic xenoliths formed in the mid-crust (∼12 km) show a restricted range of unradiogenic Sr isotope ratios (87Sr/86Sr = 0.7041–0.7042) whereas plagioclase from upper crustal plutonic xenoliths (∼6 km) show greater intra-sample variation and more radiogenic Sr isotopic compositions up to 87Sr/86Sr = 0.7047. This trend is also observed in plutonic xenolith whole rock 87Sr/86Sr. Combined, these results indicate that the range of Sr isotope compositions becomes larger and more radiogenic in Martinique magmas as a result of sediment assimilation at shallow crustal levels. This is supported by Assimilation-Fractional Crystallization modeling, which shows that assimilation of chemically and isotopically heterogenous crustal sediments can produce the isotopic variation in Martinique plutonic xenoliths and lavas. Our results highlight the importance of constraining crustal contributions from the upper plate before using arc lava geochemistry to quantify sediment and volatile recycling at subduction zones and assessing potential heterogeneity of arc mantle sources.
Vulnerable and Forgotten: The Impact of the COVID-19 Pandemic on Autism Special Schools in England
Authors: Crane Laura , Adu Freddie , Arocas Francesca , Carli Rachel , Eccles Simon , Harris Stewart , Jardine Jayne , Phillips Chloe , Piper Sue , Santi Lucia , Sartin Matthew , Shepherd Claire , Sternstein Kerry , Taylor Gilly , Wright Adrienne
Published: May 2021

The COVID-19 pandemic has caused, and continues to cause, unprecedented disruption in England. The impact of the pandemic on the English education system has been significant, especially for children and young people with special educational needs and disabilities (SEND). While it was encouraging that the educational rights of children and young people with SEND were highlighted during the COVID-19 pandemic, Government decision-making appeared to be centered around the needs of pupils in mainstream schools. In this article, co-authored by an academic researcher and senior leaders from the Pan London Autism Schools Network (PLASN; a collective of special schools in London and the South East of England, catering for pupils on the autistic spectrum), we reflect on the impact of the COVID-19 pandemic on special schools in England. We document and discuss a range of challenges experienced by PLASN schools, including the educational inequalities that were exposed and perpetuated by the COVID-19 pandemic, as well as the manner in which the needs and realities of special schools were overlooked by the Government. We also detail the creative and innovative solutions implemented by PLASN schools to overcome barriers that they encountered. These solutions centered on facilitating holistic approaches to support, ensuring clear and regular communication with families, providing effective support for home learning, and promoting collaborative ways of working; all of which align with good practice principles in autism education more generally, and are essential elements of practice to maintain post-pandemic. We additionally reflect on how the COVID-19 pandemic could be a catalyst for much-needed change to the SEND system: leading to better educational provision, and therefore better outcomes, for pupils with SEND.
Cost-Sensitive Extremely Randomized Trees Algorithm for Online Fault Detection of Wind Turbine Generators
Authors: Tang Mingzhu , Chen Yutao , Wu Huawei , Zhao Qi , Long Wen , Sheng Victor S. , Yi Jiabiao
Published: May 2021

The number of normal samples of wind turbine generators is much larger than the number of fault samples. To solve the problem of imbalanced classification in wind turbine generator fault detection, a cost-sensitive extremely randomized trees (CS-ERT) algorithm is proposed in this paper, in which the cost-sensitive learning method is introduced into an extremely randomized trees (ERT) algorithm. Based on the classification misclassification cost and class distribution, the misclassification cost gain (MCG) is proposed as the score measure of the CS-ERT model growth process to improve the classification accuracy of minority classes. The Hilbert-Schmidt independence criterion lasso (HSICLasso) feature selection method is used to select strongly correlated non-redundant features of doubly-fed wind turbine generators. The effectiveness of the method was verified by experiments on four different failure datasets of wind turbine generators. The experiment results show that average missing detection rate, average misclassification cost and gMean of the improved algorithm better than those of the ERT algorithm. In addition, compared with the CSForest, AdaCost and MetaCost methods, the proposed method has better real-time fault detection performance.
Article Title Variations in Growing Season NDVI and Its Sensitivity to Climate Change Responses to Green Development in Mountainous Areas
Authors: Zhu Ming , Zhang Jingjing , Zhu Lianqi
Published: May 2021

The Normalized Difference Vegetation Index (NDVI) is sensitive to changes in surface vegetation cover. Research into how climate change impacts surface vegetation cover is essential to manage ecological systems and promote green development. The Western Henan Mountains, located in the transitional zone between the northern subtropical and warm temperate zones of China, is an ideal location to study the impacts of climate change on surface vegetation cover. Combining a digital elevation model (DEM) with temperature and precipitation data; and MODIS-NDVI imagery (2000∼2017) for the Western Henan Mountains, this study explores variations in the growing season NDVI and its response to climate change. Results show that there are significant changes with fluctuations in NDVI values from 2000 to 2017. NDVI increased at a growth rate of 0.027 per decade (p < 0.05) overall, indicating vegetation conditions have gradually improved. Although the NDVI value showed an overall increasing trend, 19.12% of the areas showed a decreasing trend, interspersing and intersecting spatially, showing significant spatial differences. NDVI increased initially, but then decreased as a function of elevation, which was shown to be proportional to slope and independent of aspect. Variables including elevation and slope gradient are shown to provide high explanation of NDVI variability, whilst temperature is shown to have a more significant impact on NDVI than precipitation. However, vegetation responses to temperature and precipitation covaried with both slope and aspect. Positive NDVI trends were strongest at low elevations (i.e., <1,100 masl), which we attribute to vegetation restoration activities. Lower NDVI values characterized gentle slopes (<5°), whilst higher values were, in contrast, associated with steeper slopes (5∼10°). This study highlights the complex mechanisms and their relations governing vegetation response to climate change and should form an instructive basis for both future modeling studies investigating the response of vegetation to future global warming.
Successful Long-Distance Breeding Range Expansion of a Top Marine Predator
Authors: Henry Robert William , Shaffer Scott A. , Antolos Michelle , Félix-Lizárraga María , Foley David G. , Hazen Elliott L. , Tremblay Yann , Costa Daniel P. , Tershy Bernie R. , Croll Donald A.
Published: May 2021

Little is known about the effects of large-scale breeding range expansions on the ecology of top marine predators. We examined the effects of a recent range expansion on the breeding and foraging ecology of Laysan albatrosses (Phoebastria immutabilis). Laysan albatrosses expanded from historical breeding colonies in the Central Pacific Ocean to the Eastern Pacific Ocean around central Baja California, Mexico, leading to a 4,000-km shift from colonies located adjacent to the productive transition zone in the Central Pacific to colonies embedded within the eastern boundary current upwelling system of the Eastern Pacific California Current. We use electronic tagging and remote sensing data to examine the consequences of this range expansion on at-sea distribution, habitat use, foraging habitat characteristics, and foraging behavior at sea by comparing birds from historic and nascent colonies. We found the expansion resulted in distinct at-sea segregation and differential access to novel oceanographic habitats. Birds from the new Eastern Pacific colony on Guadalupe Island, Mexico have reduced ranges, foraging trip lengths and durations, and spend more time on the water compared to birds breeding in the Central Pacific on Tern Island, United States. Impacts of the range expansion to the post-breeding season were less pronounced where birds maintained some at-sea segregation but utilized similar habitat and environmental variables. These differences have likely benefited the Eastern Pacific colony which has significantly greater reproductive output and population growth rates. Laysan albatrosses have the plasticity to adapt to distinctly different oceanographic habitats and also provide insight on the potential consequences of range shifts to marine organisms.
Artificial Wetlands as Breeding Habitats for Shorebirds: A Case Study on Pied Avocets in China’s Largest Saltpan Complex
Authors: Lei Weipan , Wu Yang , Wu Fuxing , Piersma Theunis , Zhang Zhengwang , Masero José A.
Published: May 2021

Artificial wetlands such as coastal saltpans have replaced a number of coastal natural habitats worldwide and may have accommodated specific waterbird populations in the East Asian–Australasian Flyway (EAAF). The role of saltpans in the EAAF as foraging grounds for shorebirds is widely recognized, although their role as breeding grounds for waterbirds is very limited and contradictory. The Nanpu saltpans in northern Bohai Bay, China, are one of the largest saltpan complexes in the world. In this study, we monitored the nesting success (852 nests) of pied avocets (Recurvirostra avosetta) during three breeding seasons (2015, 2016, and 2018) in the Nanpu saltpans. The nest daily survival rate (DSR) was 0.970; hence, nest survival over the 27 exposure days was 44%. The apparent nest success was 51%. Surprisingly, 55% of nests failed during the laying period. Flooding and nest abandonment were the main causes of nest failure during both the laying and incubation periods. We found a strong positive relationship between the DSR and nest age, with nests that approached hatching having a greater probability of survival than freshly started nests. We also found a strong negative relationship between the DSR and precipitation, with the highest DSR observed for nests that experienced no precipitation. The DSR decreased over the course of the 71-days nesting season and followed a linear trend. The DSR was also density dependent and decreased slightly when nests were denser. A literature review showed that nest survival in the Nanpu saltpans was average compared with that of other studies and that nest success in artificial wetlands was significantly higher than that in natural wetlands or both habitats. Nevertheless, nest success decreased with the study date, suggesting that that breeding conditions for the pied avocet are worsening with time. The loss of saltpans could negatively affect the population of avocets and other ground-nesting waterbird species; therefore, conservation actions and research efforts should be strengthened to understand and conserve these functional wetlands for waterbirds.
Fire and Its Interactions With Other Drivers Shape a Distinctive, Semi-Arid ‘Mallee’ Ecosystem
Authors: Clarke Michael F. , Kelly Luke T. , Avitabile Sarah C. , Benshemesh Joe , Callister Kate E. , Driscoll Don A. , Ewin Peter , Giljohann Katherine , Haslem Angie , Kenny Sally A. , Leonard Steve , Ritchie Euan G. , Nimmo Dale G. , Schedvin Natasha , Schneider Kathryn , Watson Simon J. , Westbrooke Martin , White Matt , Wouters Michael A. , Bennett Andrew F.
Published: May 2021

Fire shapes ecosystems globally, including semi-arid ecosystems. In Australia, semi-arid ‘mallee’ ecosystems occur primarily across the southern part of the continent, forming an interface between the arid interior and temperate south. Mallee vegetation is characterized by short, multi-stemmed eucalypts that grow from a basal lignotuber. Fire shapes the structure and functioning of mallee ecosystems. Using the Murray Mallee region in south-eastern Australia as a case study, we examine the characteristics and role of fire, the consequences for biota, and the interaction of fire with other drivers. Wildfires in mallee ecosystems typically are large (1000s ha), burn with high severity, commonly cause top-kill of eucalypts, and create coarse-grained mosaics at a regional scale. Wildfires can occur in late spring and summer in both dry and wet years. Recovery of plant and animal communities is predictable and slow, with regeneration of eucalypts and many habitat components extending over decades. Time since the last fire strongly influences the distribution and abundance of many species and the structure of plant and animal communities. Animal species display a discrete set of generalized responses to time since fire. Systematic field studies and modeling are beginning to reveal how spatial variation in fire regimes (‘pyrodiversity’) at different scales shapes biodiversity. Pyrodiversity includes variation in the extent of post-fire habitats, the diversity of post-fire age-classes and their configuration. At regional scales, a desirable mix of fire histories for biodiversity conservation includes a combination of early, mid and late post-fire age-classes, weighted toward later seral stages that provide critical habitat for threatened species. Biodiversity is also influenced by interactions between fire and other drivers, including land clearing, rainfall, herbivory and predation. Extensive clearing for agriculture has altered the nature and impact of fire, and facilitated invasion by pest species that modify fuels, fire regimes and post-fire recovery. Given the natural and anthropogenic drivers of fire and the consequences of their interactions, we highlight opportunities for conserving mallee ecosystems. These include learning from and fostering Indigenous knowledge of fire, implementing actions that consider synergies between fire and other processes, and strategic monitoring of fire, biodiversity and other drivers to guide place-based, adaptive management under climate change.
Avoidance of Contaminated Food Correlates With Low Protozoan Infection in Bonobos
Authors: Sarabian Cécile , Belais Raphaël , MacIntosh Andrew J. J.
Published: May 2021

Intense selection pressure from parasites on free-living animals has resulted in behavioral adaptations that help potential hosts avoid sources of infection. In primates, such “behavioral immunity” is expressed in different contexts and may vary according to the ecology of the host, the nature of the infectious agent, and the individual itself. In this study, we investigated whether avoidance of contaminated food was associated with reduced parasite infection in sanctuary-housed bonobos. To do this, we used bonobos’ responses to soil- and fecally-contaminated food in behavioral experiments, and then compared the results with an estimate of protozoan infection across individuals. We found that avoidance of contaminated food correlated negatively withBalantioides coliinfection, a potentially pathogenic protozoan transmitted through the fecal-oral route. The association between avoidance responses and parasitism were most evident in experiments in which subjects were offered a choice of food items falling along a gradient of fecal contamination. In the case of experiments with more limited options and a high degree of contamination, most subjects were averse to the presented food item and this may have mitigated any relationship between feeding decisions and infection. In experiments with low perceived levels of contamination, most subjects consumed previously contaminated food items, which may also have obscured such a relationship. The behavioral immunity observed may be a consequence of the direct effects of parasites (infection), reflecting the first scale of a landscape of disgust: individual responses. Indirect effects of parasites, such as modulation of feeding decisions and reduced social interactions—and their potential trade-offs with physiological immunity—are also discussed in light of individual fitness and primate evolution. This study builds on previous work by showing that avoidance behaviors may be effective in limiting exposure to a wide diversity of oro-fecally transmitted parasites.
An Improved Method for Extracting, Sorting, and AMS Dating of Pollen Concentrates From Lake Sediment
Authors: Tunno Irene , Zimmerman Susan R. H. , Brown Thomas A. , Hassel Christiane A.
Published: May 2021

High-resolution chronologies are crucial for paleoenvironmental reconstructions, and are particularly challenging for lacustrine records of terrestrial paleoclimate. Accelerator Mass Spectrometry (AMS) radiocarbon measurement of terrestrial macrofossils is the most common technique for building age models for lake sediment cores, but relies on the presence of terrestrial macrofossils in sediments. In the absence of sufficient macrofossils, pollen concentrates represent a valuable source of dates for building high-resolution chronologies. However, pollen isolation and dating may present several challenges, as has been reported by different authors in previous work over the last few decades. Here we present an improved method for extracting, purifying and radiocarbon-dating pollen concentrates using flow cytometry to improve the extraction efficiency and the purity of the pollen concentrates. Overall, the nature of the sediments and the abundance of the pollen represent major considerations in obtaining enough pollen grains and, consequently, enough carbon to be dated. Further, the complete separation of pollen from other forms of organic matter is required to ensure the accuracy of the dates. We apply the method to surface samples and sediment cores recovered from two contrasting lake basins on the eastern side of the Sierra Nevada (California), and describe the variations that may be used to optimize pollen preparation from a variety of sediments.
Pedogenic Threshold in Acidity Explains Context-Dependent Tree Species Effects on Soil Carbon
Authors: Desie Ellen , Muys Bart , Jansen Boris , Vesterdal Lars , Vancampenhout Karen
Published: May 2021

Despite the general agreement that maximizing carbon storage and its persistence in forest soils are top priorities in the context of climate change mitigation, our knowledge on how to steer soil organic carbon (SOC) through forest management remains limited. For some soils, tree species selection based on litter quality has been shown a powerful measure to boost SOC stocks and stability, whereas on other locations similar efforts result in insignificant or even opposite effects. A better understanding of which mechanisms underpin such context-dependency is needed in order to focus and prioritize management efforts for carbon sequestration. Here we discuss the key role of acid buffering mechanisms in belowground ecosystem functioning and how threshold behavior in soil pH mediates tree species effects on carbon cycling. For most forests around the world, the threshold between the exchange buffer and the aluminum buffer around a pH-H2O of 4.5 is of particular relevance. When a shift between these buffer domains occurs, it triggers changes in multiple compartments in the soil, ultimately altering the way carbon is incorporated and transformed. Moreover, the impact of such a shift can be amplified by feedback loops between tree species, soil biota and cation exchange capacity (CEC). Hence, taking into account non-linearities related to acidity will allow more accurate predictions on the size and direction of the effect of litter quality changes on the way soil organic carbon is stored in forest soils. Consequently, this will allow developing more efficient, context-explicit management strategies to optimize SOC stocks and their stability.
High Resolution Haplotype Analyses of Classical HLA Genes in Families With Multiple Sclerosis Highlights the Role of HLA-DP Alleles in Disease Susceptibility
Authors: Osoegawa Kazutoyo , Creary Lisa E. , Montero-Martín Gonzalo , Mallempati Kalyan C. , Gangavarapu Sridevi , Caillier Stacy J. , Santaniello Adam , Isobe Noriko , Hollenbach Jill A. , Hauser Stephen L. , Oksenberg Jorge R. , Fernández-Viňa Marcelo A.
Published: May 2021

Multiple sclerosis (MS) susceptibility shows strong genetic associations with HLA alleles and haplotypes. We genotyped 11 HLA genes in 477 non-Hispanic European MS patients and their 954 unaffected parents using a validated next-generation sequencing (NGS) methodology. HLA haplotypes were assigned unequivocally by tracing HLA allele transmissions. We explored HLA haplotype/allele associations with MS using the genotypic transmission disequilibrium test (gTDT) and multiallelic TDT (mTDT). We also conducted a case-control (CC) study with all patients and 2029 healthy unrelated ethnically matched controls. We performed separate analyses of 54 extended multi-case families by reviewing transmission of haplotype blocks. The haplotype fragment including DRB5*01:01:01~DRB1*15:01:01:01 was significantly associated with predisposition (gTDT: p < 2.20e-16; mTDT: p =1.61e-07; CC: p < 2.22e-16) as reported previously. A second risk allele, DPB1*104:01 (gTDT: p = 3.69e-03; mTDT: p = 2.99e-03; CC: p = 1.00e-02), independent from the haplotype bearing DRB1*15:01 was newly identified. The allele DRB1*01:01:01 showed significant protection (gTDT: p = 8.68e-06; mTDT: p = 4.50e-03; CC: p = 1.96e-06). Two DQB1 alleles, DQB1*03:01 (gTDT: p = 2.86e-03; mTDT: p = 5.56e-02; CC: p = 4.08e-05) and DQB1*03:03 (gTDT: p = 1.17e-02; mTDT: p = 1.16e-02; CC: p = 1.21e-02), defined at two-field level also showed protective effects. The HLA class I block, A*02:01:01:01~C*03:04:01:01~B*40:01:02 (gTDT: p = 5.86e-03; mTDT: p = 3.65e-02; CC: p = 9.69e-03) and the alleles B*27:05 (gTDT: p = 6.28e-04; mTDT: p = 2.15e-03; CC: p = 1.47e-02) and B*38:01 (gTDT: p = 3.20e-03; mTDT: p = 6.14e-03; CC: p = 1.70e-02) showed moderately protective effects independently from each other and from the class II associated factors. By comparing statistical significance of 11 HLA loci and 19 haplotype segments with both untruncated and two-field allele names, we precisely mapped MS candidate alleles/haplotypes while eliminating false signals resulting from ‘hitchhiking’ alleles. We assessed genetic burden for the HLA allele/haplotype identified in this study. This family-based study including the highest-resolution of HLA alleles proved to be powerful and efficient for precise identification of HLA genotypes associated with both, susceptibility and protection to development of MS.