bluuebunny/crossref_metadata_2025_split huggingface dataset:
Impact of the June 2018 Saddleworth Moor wildfires on air quality in northern England
Authors: Graham A M , Pope R J , McQuaid J B , Pringle K P , Arnold S R , Bruno A G , Moore D P , Harrison J J , Chipperfield M P , Rigby R , Sanchez-Marroquin A , Lee J , Wilde S , Siddans R , Kerridge B J , Ventress L J , Latter B G 
Published: March 2020

Abstract
The June 2018 Saddleworth Moor fires were some of the largest UK wildfires on record and lasted for approximately three weeks. They emitted large quantities of smoke, trace gases and aerosols which were transported downwind over the highly populated regions of Manchester and Liverpool. Surface observations of PM2.5 indicate that concentrations were 4–5.5 times higher than the recent seasonal average. State-of-the-art satellite measurements of total column carbon monoxide (TCCO) from the TROPOMI instrument on the Sentinel 5—Precursor (S5P) platform, coupled with measurements from a flight of the UK BAe-146–301 research aircraft, are used to quantify the substantial enhancement in emitted trace gases. The aircraft measured plume enhancements with near-fire CO and PM2.5 concentrations >1500 ppbv and >125 μg m−3 (compared to ∼100 ppbv and ∼5 μg m−3 background concentrations). Downwind fire-plume ozone (O3) values were larger than the near-fire location, indicating O3 production with distance from source. The near-fire O3:CO ratio was (ΔO3/ΔCO) 0.001 ppbv/ppbv, increasing downwind to 0.060–0.105 ppbv/ppbv, suggestive of O3 production enhancement downwind of the fires. Emission rates of CO and CO2 ranged between 1.07 (0.07–4.69) kg s−1 and 13.7 (1.73–50.1) kg s−1, respectively, similar to values expected from a medium sized power station.
What is the prevalence of loneliness amongst older people living in residential and nursing care homes? A systematic review and meta-analysis
Authors: Gardiner Clare , Laud Pete , Heaton Tim , Gott Merryn 
Published: March 2020

Abstract

Background
the number of older people living in residential and nursing care homes is rising. Loneliness is a major problem for older people, but little is known about the prevalence of loneliness amongst older people living in care homes.

Aim
to undertake a systematic review of literature on the prevalence of moderate and severe loneliness amongst older people living in residential and nursing care homes.

Design
we systematically reviewed the databases Cumulative Index to Nursing and Allied Health Literature (CINAHL), MEDLINE, PsycINFO, Embase, Scopus, Cochrane and Allied and Complementary Medicine Database (AMED) from inception to January 2019. We included all studies reporting data on the prevalence of loneliness amongst older people living in care homes. A random-effects meta-analysis was conducted on all eligible data.

Results
a total of 13 articles were included, representing 5,115 participants (age range of 55–102 years, mean age 83.5 years, 68% female). There was a significant variation between studies in estimates of prevalence. The prevalence of moderate loneliness ranged from 31 to 100%, and the prevalence of severe loneliness ranged from 9 to 81%. The estimated mean prevalence of ‘moderate loneliness’ was 61% (95% confidence interval (CI): 0.41, 0.80). The estimated mean prevalence of ‘severe loneliness’ was 35% (95% CI: 0.14, 0.60).

Conclusion
the prevalence of both moderate loneliness and severe loneliness amongst care home residents is high enough to warrant concern. However, the significant variation in prevalence estimates warrants further research. Future studies should identify which interventions can address loneliness and promote meaningful social engagement to enhance quality of life in care homes.
Local recruitment in Northern Flickers is related to environmental factors at multiple scales and provides reproductive benefits to yearling breeders settling close to home
Authors: Wiebe Karen L 
Published: March 2020

Abstract
Natal dispersal and local recruitment are affected by factors both intrinsic and extrinsic to juveniles and may affect fitness. Understanding the relationship between dispersal and population density in birds has been hindered by a lack of long-term studies and a focus on resident species has neglected the role of weather operating at large spatial scales. I studied local recruitment and the reproductive consequences of natal dispersal distance within a population of Northern Flickers (Colaptes auratus), a migratory woodpecker. During a field study spanning 16 yr in British Columbia, 8,272 fledglings were banded and 138 males and 105 females recruited locally. The average annual local recruitment rate for males (3.36%) was greater than that for females (2.55%) and the propensity to recruit locally was positively correlated with an early hatch date and high body condition. Annual local recruitment was not associated with population density in the year of hatch but was positively correlated with population density in the year of settlement. Local recruitment was also positively correlated with warmer springs during migration, consistent with the phenology hypothesis that the location of settlement is affected by weather along the route. Among local recruits, natal dispersal distance was independent of the presence of parents and so dispersal was not a behavior to prevent inbreeding. However, settling closer to the natal site led to reproductive benefits in terms of earlier laying dates and better nest success. Therefore, juveniles may gain useful information about the location of nesting substrates, predation risk, and patchy food resources by exploring the landscape around their natal site during the post-fledging period and then settling in the familiar area after returning from migration.
SCLpred-EMS: subcellular localization prediction of endomembrane system and secretory pathway proteins by Deep N-to-1 Convolutional Neural Networks
Authors: Kaleel Manaz , Zheng Yandan , Chen Jialiang , Feng Xuanming , Simpson Jeremy C , Pollastri Gianluca , Mooney Catherine 
Published: March 2020

Abstract

Motivation
The subcellular location of a protein can provide useful information for protein function prediction and drug design. Experimentally determining the subcellular location of a protein is an expensive and time-consuming task. Therefore, various computer-based tools have been developed, mostly using machine learning algorithms, to predict the subcellular location of proteins.

Results
Here, we present a neural network-based algorithm for protein subcellular location prediction. We introduce SCLpred-EMS a subcellular localization predictor powered by an ensemble of Deep N-to-1 Convolutional Neural Networks. SCLpred-EMS predicts the subcellular location of a protein into two classes, the endomembrane system and secretory pathway versus all others, with a Matthews correlation coefficient of 0.75–0.86 outperforming the other state-of-the-art web servers we tested.

Availability and implementation
SCLpred-EMS is freely available for academic users at http://distilldeep.ucd.ie/SCLpred2/.

Contact
catherine.mooney@ucd.ie
Reflections on ‘community organizing for social action’, CDJ Thinkery, July 2019
Authors: Taylor Marilyn 
Published: March 2020

Abstract
In July 2019, the CDJ held a Thinkery which was attended by 57 people from 11 countries. It was an opportunity for people from a range of backgrounds to reflect on community organizing for social action, its achievements and challenges. The discussions that took place were rich and varied, highlighting both similarities and differences across the different countries. This article summarises the themes that concerned participants, wherever they were studying and practising, and considers the role the CDJ can play in continuing these valuable and challenging conversations.
Invasive Saltcedar and Drought Impact Ant Communities and Isopods in South-Central Nebraska
Authors: Hoback W Wyatt , Jurzenski Jessica , Farnsworth-Hoback Kerri M , Roeder Karl A 
Published: March 2020

AbstractThe establishment and spread of non-native species often results in negative impacts on biodiversity and ecosystem function. Several species of saltcedar, Tamarix spp. L., have been recently naturalized in large portions of the United States where they have altered plant and animal communities. To test the prediction that saltcedar negatively affects invertebrates, we measured ant genera diversity and the activity density of the exotic isopod Armadillidium vulgare Latrielle (Isopoda: Oniscoidea) for 2 yr using pitfall traps located within 30 5-m2 plots with or without saltcedar at a south-central Nebraska reservoir. From 2005 to 2006, we collected 10,837 ants representing 17 genera and 4,953 A. vulgare. Per plot, the average number of ant genera was not different between saltcedar (x̅ = 3.9) and non-saltcedar areas ( x̅ = 3.9); however, saltcedar plots were compositionally different and more similar from plot to plot (i.e., they had lower beta diversity than control plots) in 2005, but not in 2006. Isopods were likewise temporally affected with higher activity density (+89%) in control plots in 2005, but higher activity density (+27%) in saltcedar plots in 2006. The observed temporal differences occurred as the drought that initially enabled the saltcedar invasion became less severe in 2006. Combined, our results suggest that invertebrate groups like ants, which are generally omnivorous, may be better equipped than more specialized taxa like detritivores to withstand habitat changes due to invasions by non-native species, especially during extreme weather events such as prolonged droughts.
Spondylolysis and spinal adaptations for bipedalism
Authors: Plomp Kimberly A , Dobney Keith , Collard Mark 
Published: March 2020

AbstractBackground and objectivesThe study reported here focused on the aetiology of spondylolysis, a vertebral pathology usually caused by a fatigue fracture. The goal was to test the Overshoot Hypothesis, which proposes that people develop spondylolysis because their vertebral shape is at the highly derived end of the range of variation within Homo sapiens.MethodologyWe recorded 3D data on the final lumbar vertebrae of H. sapiens and three great ape species, and performed three analyses. First, we compared H. sapiens vertebrae with and without spondylolysis. Second, we compared H. sapiens vertebrae with and without spondylolysis to great ape vertebrae. Lastly, we compared H. sapiens vertebrae with and without spondylolysis to great ape vertebrae and to vertebrae of H. sapiens with Schmorl’s nodes, which previous studies have shown tend to be located at the ancestral end of the range of H. sapiens shape variation.ResultsWe found that H. sapiens vertebrae with spondylolysis are significantly different in shape from healthy H. sapiens vertebrae. We also found that H. sapiens vertebrae with spondylolysis are more distant from great ape vertebrae than are healthy H. sapiens vertebrae. Lastly, we found that H. sapiens vertebrae with spondylolysis are at the opposite end of the range of shape variation than vertebrae with Schmorl’s nodes.ConclusionsOur findings indicate that H. sapiens vertebrae with spondylolysis tend to exhibit highly derived traits and therefore support the Overshoot Hypothesis. Spondylolysis, it appears, is linked to our lineage’s evolutionary history, especially its shift from quadrupedalism to bipedalism.Lay summary: Spondylolysis is a relatively common vertebral pathology usually caused by a fatigue fracture. There is reason to think that it might be connected with our lineage’s evolutionary shift from walking on all fours to walking on two legs. We tested this idea by comparing human vertebrae with and without spondylolysis to the vertebrae of great apes. Our results support the hypothesis. They suggest that people who experience spondylolysis have vertebrae with what are effectively exaggerated adaptations for bipedalism.
Networks, incentives and technology adoption: evidence from a randomised experiment in Uganda
Authors: Shikuku Kelvin Mashisia , Melesse Mequanint B 
Published: March 2020

Abstract
We use data from a randomised experiment in Uganda to examine effects of incentives on the decision to adopt drought-tolerant maize varieties (DTMVs) and mechanisms through which effects occur. We find that social recognition (SR) incentives to a random subset of trained farmers – disseminating farmers (DFs) – increase knowledge transmission from DFs to their co-villagers and change information networks of both DFs and their neighbours. SR also increases DFs’ likelihood of adopting DTMVs. However, the corresponding results for private material rewards are not conclusively strong. We find no evidence that incentives for knowledge diffusion increase the likelihood of co-villagers adopting DTMVs.
Bacterial Genes Outnumber Archaeal Genes in Eukaryotic Genomes
Authors: Brueckner Julia , Martin William F 
Published: March 2020

Abstract
Eukaryotes are typically depicted as descendants of archaea, but their genomes are evolutionary chimeras with genes stemming from archaea and bacteria. Which prokaryotic heritage predominates? Here, we have clustered 19,050,992 protein sequences from 5,443 bacteria and 212 archaea with 3,420,731 protein sequences from 150 eukaryotes spanning six eukaryotic supergroups. By downsampling, we obtain estimates for the bacterial and archaeal proportions. Eukaryotic genomes possess a bacterial majority of genes. On average, the majority of bacterial genes is 56% overall, 53% in eukaryotes that never possessed plastids, and 61% in photosynthetic eukaryotic lineages, where the cyanobacterial ancestor of plastids contributed additional genes to the eukaryotic lineage. Intracellular parasites, which undergo reductive evolution in adaptation to the nutrient rich environment of the cells that they infect, relinquish bacterial genes for metabolic processes. Such adaptive gene loss is most pronounced in the human parasite Encephalitozoon intestinalis with 86% archaeal and 14% bacterial derived genes. The most bacterial eukaryote genome sampled is rice, with 67% bacterial and 33% archaeal genes. The functional dichotomy, initially described for yeast, of archaeal genes being involved in genetic information processing and bacterial genes being involved in metabolic processes is conserved across all eukaryotic supergroups.
The U-Shaped Relationship Between Levels of Bouted Activity and Fall Incidence in Community-Dwelling Older Adults: A Prospective Cohort Study
Authors: Lu Zhihui , Lam Freddy M H , Leung Jason C S , Kwok Timothy C Y 
Published: March 2020

Abstract

Background
It remains uncertain whether the association between physical activity (PA) and falls is U-shaped, and few studies have explored the potential mediation of PA accumulation pattern.

Methods
We measured PA in 671 community-dwelling older adults (82.7 ± 3.8 years) using wrist-worn accelerometer for 7 days. PA was further classified to bouted PA (≥10 minutes bout length) and sporadic PA (&lt;10 minutes bout length) for subanalysis. Fall incidence in the following 12-month was recorded through tri-monthly telephone interviews. Classification and Regression Tree analysis was used to identify two optimal cutoff values of each PA measurement to predict falls. Participants were then divided into “inactive,” “moderately active,” and “highly active” groups accordingly. Negative binomial regression models were used to estimate the association between the PA measures and fall incidence.

Results
Six hundred and thirty-nine participants completed 12-month follow-up. Ninety-three (14.6%) experienced a total of 118 falls. Inactive and highly active older adults had higher falls per person month relative to the moderately active group (inactive: incidence rate ratios [IRR] = 2.372, 95% confidence interval [CI] = 1.317–4.271; highly active: IRR = 2.731, 95% CI = 1.196–6.232). Subanalyses found similar significant finding with bouted PA (p &lt; .001) but not sporadic PA (p ≥ .221). The association between bouted PA and falls remained significant even after adjusting fall incidence for bouted activity time (inactive: IRR = 3.636, 95% CI = 2.238–5.907; highly active: IRR = 1.823, 95% CI = 1.072–3.1). Further adjustments for fall-related risk factors did not meaningfully change the results.

Conclusion
A U-shaped relationship was identified between bouted but not sporadic PA and fall incidence. There is an approximately twofold increase in fall rate in highly active older adults even after adjusting for activity time.
Estimating perturbed stress from 3-D borehole displacements induced by fluid injection in fractured or faulted shales
Authors: Guglielmi Yves , Nussbaum Christophe , Rutqvist Jonny , Cappa Frédéric , Jeanne Pierre , Birkholzer Jens 
Published: March 2020

SUMMARY
Hydrofracturing stress measurements in fractured and anisotropic shales are notoriously difficult, because opening of existing geological features tends to prevent the creation of a pure hydraulic fracture perpendicular to the least compressive principal stress. Here we show how adding 3-D borehole-displacement measurements while conducting the hydraulic injection test helps to better constrain the principal stress orientations and magnitudes. We developed a 3-D fully coupled hydromechanical numerical model to analyse the displacement, fluid pressure and injection flow-rate data measured during an injection pressure-step-rate test conducted to activate a faulted borehole interval in the Mont Terri Opalinus Clay (Switzerland). We find that injected fluids can only penetrate the fault when it is at or above the Coulomb failure pressure. Borehole displacement orientations are sensitive to a ∼15° variation in the stress–tensor orientation and a 1 MPa stress magnitude variation. Although some dispersion occurs while rupture is propagating along the fault plane ∼4 m away from the borehole, the maximum density of displacement orientations consistently informs about the stress orientation. Thus, an extended injection step-rate approach coupled with an accurate in situ measurement of the borehole wall displacements can be used to better constrain the local stress field perturbations in fractured shales and in heterogeneous rock in general.
Oligodendrocyte dysfunction due to Chd8 mutation gives rise to behavioral deficits in mice
Authors: Kawamura Atsuki , Katayama Yuta , Nishiyama Masaaki , Shoji Hirotaka , Tokuoka Kota , Ueta Yoshifumi , Miyata Mariko , Isa Tadashi , Miyakawa Tsuyoshi , Hayashi-Takagi Akiko , Nakayama Keiichi I 
Published: March 2020

AbstractMutations in the gene encoding the chromatin remodeler CHD8 are strongly associated with autism spectrum disorder (ASD). CHD8 haploinsufficiency also results in autistic phenotypes in humans and mice. Although myelination defects have been observed in individuals with ASD, whether oligodendrocyte dysfunction is responsible for autistic phenotypes has remained unknown. Here we show that reduced expression of CHD8 in oligodendrocytes gives rise to abnormal behavioral phenotypes in mice. CHD8 was found to regulate the expression of many myelination-related genes and to be required for oligodendrocyte maturation and myelination. Ablation of Chd8 specifically in oligodendrocytes of mice impaired myelination, slowed action potential propagation and resulted in behavioral deficits including increased social interaction and anxiety-like behavior, with similar effects being apparent in Chd8 heterozygous mutant mice. Our results thus indicate that CHD8 is essential for myelination and that dysfunction of oligodendrocytes as a result of CHD8 haploinsufficiency gives rise to several neuropsychiatric phenotypes.
Association of previous cardiac surgery with outcomes in left ventricular assist device patients
Authors: Ayers Brian C , Wood Katherine , McNitt Scott , Goldenberg Ilan , Chen Leway , Alexis Jeffrey , Vidula Himabindu , Thomas Sabu , Storozynsky Eugene , Barrus Bryan , Prasad Sunil , Gosev Igor 
Published: March 2020

Abstract

OBJECTIVES
History of prior cardiac surgery has traditionally been considered a risk factor for subsequent cardiac procedures. The aim of this study was to investigate the outcomes of patients implanted with a left ventricular assist device via redo sternotomy.

METHODS
Prospectively collected data were reviewed for all patients implanted with a continuous-flow left ventricular assist device at a single institution from December 2006 through June 2018. Patients were separated into 2 cohorts: those with a history of prior cardiac surgery (redo sternotomy) and those undergoing primary sternotomy at the time of left ventricular assist device implantation. The primary outcome was overall survival.

RESULTS
Of the 321 patients included in the study, 77 (24%) were implanted via redo sternotomy and 244 (76%) via primary sternotomy. The redo sternotomy cohort was generally older (59 ± 10 vs 57 ± 12 years, P = 0.050) and had a higher incidence of ischaemic disease (70% vs 49%, P = 0.002). The Kaplan–Meier survival analysis demonstrated that overall survival was not significantly different between the redo sternotomy and primary sternotomy groups (6-month survival: 86% vs 92%; 5-year survival: 53% vs 51%; log-rank P = 0.590 for overall difference during follow-up). The propensity score analysis consistently showed that redo sternotomy was not significantly associated with mortality risk (hazard ratio 1.19, 95% confidence interval 0.73–1.93; P = 0.488). Redo sternotomy patients were more likely to require rehospitalization during their first year postoperatively (P = 0.020) and spent less time out of the hospital during the first year (P = 0.046).

CONCLUSIONS
The redo sternotomy cohort represents a more technically challenging patient population, but overall survival similar to that of primary sternotomy patients can be achieved.
Modeling chemical effects on breast cancer: the importance of the microenvironment in vitro
Authors: Morgan Molly M , Schuler Linda A , Ciciliano Jordan C , Johnson Brian P , Alarid Elaine T , Beebe David J 
Published: March 2020

AbstractAccumulating evidence suggests that our ability to predict chemical effects on breast cancer is limited by a lack of physiologically relevant in vitro models; the typical in vitro breast cancer model consists of the cancer cell and excludes the mammary microenvironment. As the effects of the microenvironment on cancer cell behavior becomes more understood, researchers have called for the integration of the microenvironment into in vitro chemical testing systems. However, given the complexity of the microenvironment and the variety of platforms to choose from, identifying the essential parameters to include in a chemical testing platform is challenging. This review discusses the need for more complex in vitro breast cancer models and outlines different approaches used to model breast cancer in vitro. We provide examples of the microenvironment modulating breast cancer cell responses to chemicals and discuss strategies to help pinpoint what components should be included in a model.