bluuebunny/crossref_metadata_2025 huggingface dataset:
The Framework for Android Apps Testing using Mutation Technique
Authors: Arshad Javed Muhammad , Ibrahim Rosziati , Abdul Wahab Jahari
Published: September 2020

This paper presents the framework for Android apps testing using mutation technique. A systematic comparative analysis is done based on various approaches and techniques formutation testing. The analysis examines the development of research on this subject and its inspiring objectives and practices. Using comparative analysis, the framework exhibits that Android mutation testing can create assessment cases that are very efficient at distinguishing both naturally happening errors and crowd-sourced errors for Android apps. The framework can be used as a basis to test the Android apps using mutation technique.
Infrastructure and perceptions of democracy in Zambia: Democracy off the rails
Authors: Hern Erin Accampo
Published: September 2020

In Zambia, some people describe their political participation as a way to transmit ideas and hold politicians accountable, while others explain their participation as a bid for resources or personal assistance. These differences follow a geographic trend, with residents of remote areas more likely to focus on substantive material gain. What accounts for this geographic variation? I argue that the centre/periphery distinction within the country influences the way people understand democracy. People living centrally are more likely to hold a procedural understanding of democracy and value democratic rules and process, while people living peripherally are more likely to hold a substantive understanding of democracy and view periodic acts like voting as a bid for resources. I employ geocoded Afrobarometer data alongside 92 original semi-structured interviews to demonstrate that those living further from Zambia’s central rail line are less likely to hold procedural understandings of democracy. I explore several mechanisms that could drive this difference, including homogeneity of remote communities and increased reliance on traditional leaders in peripheral areas. Divergent understandings of democracy between more and less remote denizens have important implications for the future of democratic regimes.
Discharge after hip fracture surgery by mobilisation timing: secondary analysis of the UK National Hip Fracture Database
Authors: Sheehan Katie J , Goubar Aicha , Almilaji Orouba , Martin Finbarr C , Potter Chris , Jones Gareth D , Sackley Catherine , Ayis Salma
Published: September 2020

Objective

To determine whether mobilisation timing was associated with the cumulative incidence of hospital discharge by 30 days after hip fracture surgery, accounting for potential confounders and the competing risk of in-hospital death.

Method

We examined data for 135,105 patients 60 years or older who underwent surgery for nonpathological first hip fracture between 1 January 2014 and 31 December 2016 in any hospital in England or Wales. We tested whether the cumulative incidences of discharge differed between those mobilised early (within 36 h of surgery) and those mobilised late, accounting for potential confounders and the competing risk of in-hospital death.

Results

A total of 106,722 (79%) of patients first mobilised early. The average rate of discharge was 39.2 (95% CI 38.9–39.5) per 1,000 patient days, varying from 43.1 (95% CI 42.8–43.5) among those who mobilised early to 27.0 (95% CI 26.6–27.5) among those who mobilised late, accounting for the competing risk of death. By 30-day postoperatively, the crude and adjusted odds ratios of discharge were 2.36 (95% CI 2.29–2.43) and 2.08 (95% CI 2.00–2.16), respectively, among those who first mobilised early compared with those who mobilised late, accounting for the competing risk of death.

Conclusion

Early mobilisation led to a 2-fold increase in the adjusted odds of discharge by 30-day postoperatively. We recommend inclusion of mobilisation within 36 h of surgery as a new UK Best Practice Tariff to help reduce delays to mobilisation currently experienced by one-fifth of patients surgically treated for hip fracture.
What plant is that? Tests of automated image recognition apps for plant identification on plants from the British flora
Authors: Jones Hamlyn G
Published: September 2020

There has been a recent explosion in development of image recognition technology and its application to automated plant identification, so it is timely to consider its potential for field botany. Nine free apps or websites for automated plant identification and suitable for use on mobile phones or tablet computers in the field were tested on a disparate set of 38 images of plants or parts of plants chosen from the higher plant flora of Britain and Ireland. There were large differences in performance with the best apps identifying >50 % of samples tested to genus or better. Although the accuracy is good for some of the top-rated apps, for any quantitative biodiversity study or for ecological surveys, there remains a need for validation by experts or against conventional floras. Nevertheless, the better-performing apps should be of great value to beginners and amateurs and may usefully stimulate interest in plant identification and nature. Potential uses of automated image recognition plant identification apps are discussed and recommendations made for their future use.
IntAPT: integrated assembly of phenotype-specific transcripts from multiple RNA-seq profiles
Authors: Shi Xu , Neuwald Andrew F , Wang Xiao , Wang Tian-Li , Hilakivi-Clarke Leena , Clarke Robert , Xuan Jianhua
Published: September 2020

Motivation

High-throughput RNA sequencing has revolutionized the scope and depth of transcriptome analysis. Accurate reconstruction of a phenotype-specific transcriptome is challenging due to the noise and variability of RNA-seq data. This requires computational identification of transcripts from multiple samples of the same phenotype, given the underlying consensus transcript structure.

Results

We present a Bayesian method, integrated assembly of phenotype-specific transcripts (IntAPT), that identifies phenotype-specific isoforms from multiple RNA-seq profiles. IntAPT features a novel two-layer Bayesian model to capture the presence of isoforms at the group layer and to quantify the abundance of isoforms at the sample layer. A spike-and-slab prior is used to model the isoform expression and to enforce the sparsity of expressed isoforms. Dependencies between the existence of isoforms and their expression are modeled explicitly to facilitate parameter estimation. Model parameters are estimated iteratively using Gibbs sampling to infer the joint posterior distribution, from which the presence and abundance of isoforms can reliably be determined. Studies using both simulations and real datasets show that IntAPT consistently outperforms existing methods for the IntAPT. Experimental results demonstrate that, despite sequencing errors, IntAPT exhibits a robust performance among multiple samples, resulting in notably improved identification of expressed isoforms of low abundance.

Availability and implementation

The IntAPT package is available at http://github.com/henryxushi/IntAPT.

Supplementary information

Supplementary data are available at Bioinformatics online.
Sister species, different histories: comparative phylogeography of two bird species associated with Amazonian open vegetation
Authors: Ritter Camila D , Coelho Laís A , Capurucho João Mg , Borges Sergio H , Cornelius Cíntia , Ribas Camila C
Published: September 2020

Although the expansion of open vegetation within Amazonia was the basis for the Forest Refugia hypothesis, studies of Amazonian biota diversification have focussed mostly on forest taxa. Here we compare the phylogeographic patterns and population history of two sister species associated with Amazonian open-vegetation patches, Elaenia cristata and Elaenia ruficeps (Aves: Tyrannidae). We sampled individuals across Amazonia for both species, and in the central Brazilian savannas (Cerrado) for E. cristata. We sequenced one mitochondrial (ND2) and two nuclear (BFib7 and ACO) markers. We tested for population structure, estimated migration rates and elucidated the historical demography of each species. The Amazon River is the strongest barrier for E. ruficeps and the Branco River is a secondary barrier. For the more broadly distributed E. cristata, there was no discernible population structure. Both species attained their current genetic diversity recently and E. cristata has undergone demographic expansion since the Last Glacial Maximum, The results suggest distinct effects of recent landscape change on population history for the two species. E. ruficeps, which only occurs in Amazonian white sand habitats, has been more isolated in open-vegetation patches than E. cristata, which occupies Amazonian savannas, and extends into the Central Brazilian Cerrado.
Actinomycin D causes oocyte maturation failure by inhibiting chromosome separation and spindle assembly†
Authors: Li Tianjie , Liu Changyu , Zhen Xiumei , Yu Yang , Qiao Jie
Published: September 2020

Actinomycin D (ActD) has been considered as one of the most effective and safe chemotherapeutic medications for treating a number of cancers. Although ActD has been used in the treatment of gynecological tumors and pediatric tumors for more than 50 years, the toxic effects of ActD on mammalian oocytes remain unknown. In this study, the influence of ActD on mouse and human oocyte maturation and the possible mechanisms were investigated. Notably, ActD inhibited oocyte maturation and arrested oocytes at the metaphase I (MI) stage in a dose-dependent manner. In addition, ActD arrested oocyte maturation when the oocytes were treated at different successive stages, including the germinal vesicle (GV), germinal vesicle breakdown, and MI stages. In ActD-treated oocytes, disordered chromosome condensation and irregular spindle assembly occurred, resulting in incomplete chromosome segregation and oocytes arresting at the MI phase; these results possibly occurred because ActD triggered the formation of reactive oxygen species, resulting in DNA damage and decreased ATP in mouse GV oocytes. Besides, in vivo treatment with ActD also inhibited mouse oocyte maturation. Similar effects were seen in human oocytes. Collectively, our results indicated that ActD exposure disrupted oocyte maturation by increasing DNA damage, which is a finding that might help with optimizing future methods for female fertility preservation before undergoing chemotherapy.
Cytoplasmic maturation in human oocytes: an ultrastructural study †
Authors: Trebichalská Z , Kyjovská D , Kloudová S , Otevřel P , Hampl A , Holubcová Z
Published: September 2020

Female fertility relies on successful egg development. Besides chromosome segregation, complex structural and biochemical changes in the cytoplasmic compartment are necessary to confer the female gamete the capacity to undergo normal fertilization and sustain embryonic development. Despite the profound impact on egg quality, morphological bases of cytoplasmic maturation remain largely unknown. Here, we report our findings from the ultrastructural analysis of 69 unfertilized human oocytes from 34 young and healthy egg donors. By comparison of samples fixed at three consecutive developmental stages, we explored how ooplasmic architecture changes during meiotic maturation in vitro. The morphometric image analysis supported observation that the major reorganization of cytoplasm occurs before polar body extrusion. The organelles initially concentrated around prophase nucleus were repositioned toward the periphery and evenly distributed throughout the ooplasm. As maturation progressed, distinct secretory apparatus appeared to transform into cortical granules that clustered underneath the oocyte's surface. The most prominent feature was the gradual formation of heterologous complexes composed of variable elements of endoplasmic reticulum and multiple mitochondria with primitive morphology. Based on the generated image dataset, we proposed a morphological map of cytoplasmic maturation, which may serve as a reference for future comparative studies. In conclusion, this work improves our understanding of human oocyte morphology, cytoplasmic maturation, and intracellular factors defining human egg quality. Although this analysis involved spare oocytes completing development in vitro, it provides essential insight into the enigmatic process by which human egg progenitors prepare for fertilization.
Variants in the SK2 channel gene (KCNN2) lead to dominant neurodevelopmental movement disorders
Authors: Mochel Fanny , Rastetter Agnès , Ceulemans Berten , Platzer Konrad , Yang Sandra , Shinde Deepali N , Helbig Katherine L , Lopergolo Diego , Mari Francesca , Renieri Alessandra , Benetti Elisa , Canitano Roberto , Waisfisz Quinten , Plomp Astrid S , Huisman Sylvia A , Wilson Golder N , Cathey Sara S , Louie Raymond J , Del Gaudio Daniela , Waggoner Darrel , Kacker Shawn , Nugent Kimberly M , Roeder Elizabeth R , Bruel Ange-Line , Thevenon Julien , Ehmke Nadja , Horn Denise , Holtgrewe Manuel , Kaiser Frank J , Kamphausen Susanne B , Abou Jamra Rami , Weckhuysen Sarah , Dalle Carine , Depienne Christel
Published: September 2020

KCNN2 encodes the small conductance calcium-activated potassium channel 2 (SK2). Rodent models with spontaneous Kcnn2 mutations show abnormal gait and locomotor activity, tremor and memory deficits, but human disorders related to KCNN2 variants are largely unknown. Using exome sequencing, we identified a de novo KCNN2 frameshift deletion in a patient with learning disabilities, cerebellar ataxia and white matter abnormalities on brain MRI. This discovery prompted us to collect data from nine additional patients with de novo KCNN2 variants (one nonsense, one splice site, six missense variants and one in-frame deletion) and one family with a missense variant inherited from the affected mother. We investigated the functional impact of six selected variants on SK2 channel function using the patch-clamp technique. All variants tested but one, which was reclassified to uncertain significance, led to a loss-of-function of SK2 channels. Patients with KCNN2 variants had motor and language developmental delay, intellectual disability often associated with early-onset movement disorders comprising cerebellar ataxia and/or extrapyramidal symptoms. Altogether, our findings provide evidence that heterozygous variants, likely causing a haploinsufficiency of the KCNN2 gene, lead to novel autosomal dominant neurodevelopmental movement disorders mirroring phenotypes previously described in rodents.
Decreased Mortality in Coronavirus Disease 2019 Patients Treated With Tocilizumab: A Rapid Systematic Review and Meta-analysis of Observational Studies
Authors: Malgie Jishnu , Schoones Jan W , Pijls Bart G
Published: September 2020

Background

We systematically reviewed the literature to answer the following research questions: (1) Does interleukin 6 (IL-6) (receptor) antagonist therapy reduce mortality in coronavirus disease 2019 (COVID-19) patients compared to patients not treated with IL-6 (receptor) antagonists; and (2) is there an increased risk of side effects in COVID-19 patients treated with IL-6 (receptor) antagonists compared to patients not treated with IL-6 (receptor) antagonists?

Methods

We systematically searched PubMed, PMC PubMed Central, Medline, World Health Organization COVID-19 Database, Embase, Web of Science, Cochrane Library, Emcare, and Academic Search Premier (through 30 June 2020). Random effects meta-analysis was used to pool the risk ratios and risk differences of individual studies. Risk of bias was appraised using the Methodological Index for Non-randomized Studies (MINORS) checklist.

Results

The search strategy retrieved 743 unique titles, of which 10 studies (all on tocilizumab [TCZ]) comprising 1358 patients were included. Nine of 10 studies were considered to be of high quality. Meta-analysis showed that the TCZ group had lower mortality than the control group. The risk ratio was 0.27 (95% confidence interval [CI], .12–.59) and the risk difference was 12% (95% CI, 4.6%–20%) in favor of the TCZ group. With only a few studies available, there were no differences observed regarding side effects.

Conclusions

Our results showed that mortality was 12% lower for COVID-19 patients treated with TCZ compared with those not treated with TCZ. The number needed to treat was 11, suggesting that for every 11 (severe) COVID-19 patients treated with TCZ, 1 death is prevented. These results require confirmation by randomized controlled trials.
Chronic kidney disease progression among patients with type 2 diabetes identified in US administrative claims: a population cohort study
Authors: Kovesdy Csaba P , Isaman Danielle , Petruski-Ivleva Natalia , Fried Linda , Blankenburg Michael , Gay Alain , Velentgas Priscilla , Folkerts Kerstin
Published: September 2020

Background

Chronic kidney disease (CKD), one of the most common complications of type 2 diabetes (T2D), is associated with poor health outcomes and high healthcare expenditures. As the CKD population increases, a better understanding of the prevalence and progression of CKD is critical. However, few contemporary studies have explored the progression of CKD relative to its onset in T2D patients using established markers derived from real-world care settings.

Methods

This retrospective, population-based cohort study assessed CKD progression among adults with T2D and with newly recognized CKD identified from US administrative claims data between 1 January 2008 and 30 September 2018. Included were patients with T2D and laboratory evidence of CKD as indicated by the established estimated glomerular filtration rate (eGFR) and urine albumin:creatinine ratio (UACR) criteria. Disease progression was described as transitions across the eGFR- and UACR-based stages.

Results

A total of 65 731 and 23 035 patients with T2D contributed to the analysis of eGFR- and UACR-based CKD stage progression, respectively. CKD worsening was observed in approximately 10–17% of patients over a median follow-up of 2 years. Approximately one-third of patients experienced an increase in eGFR values or a decrease in UACR values during follow-up.

Conclusions

A relatively high proportion of patients were observed with disease progression over a short period of time, highlighting the need for better identification of patients at risk of rapidly progressive CKD. Future studies are needed to determine the clinical characteristics of these patients to inform earlier diagnostic and therapeutic interventions aimed at slowing disease progression.
Simulator-based hemodialysis cannulation skills training: a new horizon?
Authors: Singapogu Ravikiran , Chowdhury Aniqa , Roy-Chaudhury Prabir , Brouwer-Maier Deborah
Published: September 2020

In accordance with the recently released Kidney Disease Outcomes Quality Initiative  (KDOQI) guidelines, there is a significant need for focused efforts on improving hemodialysis cannulation outcomes. Toward this, structured and meaningful training of our clinical personnel who cannulate in dialysis clinics is a priority. With the availability of advanced sensors and computing methods, simulators could be indispensable tools for standardized skills assessment and training. In this article we present ways in which sensor data could be used to quantify cannulation skill. As with many other medical specialties, implementation of simulator-based training holds the promise of much-needed improvement in end-stage kidney disease patient outcomes.
Targeted RNA-Sequencing Enables Detection of Relevant Translocations and Single Nucleotide Variants and Provides a Method for Classification of Hematological Malignancies–RANKING
Authors: de Lange Kim , de Boer Eddy N , Bosga Anneke , Alimohamed Mohamed Z , Johansson Lennart F , Mulder André B , Vellenga Edo , van Diemen Cleo C , Deelen Patrick , van den Berg Eva , Sikkema-Raddatz Birgit
Published: September 2020

Background

Patients with hematological malignancies (HMs) carry a wide range of chromosomal and molecular abnormalities that impact their prognosis and treatment. Since no current technique can detect all relevant abnormalities, technique(s) are chosen depending on the reason for referral, and abnormalities can be missed. We tested targeted transcriptome sequencing as a single platform to detect all relevant abnormalities and compared it to current techniques.

Material and Methods

We performed RNA-sequencing of 1385 genes (TruSight RNA Pan-Cancer, Illumina) in bone marrow from 136 patients with a primary diagnosis of HM. We then applied machine learning to expression profile data to perform leukemia classification, a method we named RANKING. Gene fusions for all the genes in the panel were detected, and overexpression of the genes EVI1, CCND1, and BCL2 was quantified. Single nucleotide variants/indels were analyzed in acute myeloid leukemia (AML), myelodysplastic syndrome and patients with acute lymphoblastic leukemia (ALL) using a virtual myeloid (54 genes) or lymphoid panel (72 genes).

Results

RANKING correctly predicted the leukemia classification of all AML and ALL samples and improved classification in 3 patients. Compared to current methods, only one variant was missed, c.2447A>T in KIT (RT-PCR at 10−4), and BCL2 overexpression was not seen due to a t(14; 18)(q32; q21) in 2% of the cells. Our RNA-sequencing method also identified 6 additional fusion genes and overexpression of CCND1 due to a t(11; 14)(q13; q32) in 2 samples.

Conclusions

Our combination of targeted RNA-sequencing and data analysis workflow can improve the detection of relevant variants, and expression patterns can assist in establishing HM classification.
Electrical characteristics of pacing different portions of the His bundle in bradycardia patients
Authors: Hu Yiran , Gu Min , Hua Wei , Niu Hongxia , Li Hui , Chen Xuhua , Zhang Nixiao , Liu Xi , Zhang Shu
Published: September 2020

Aims

His-bundle pacing (HBP) can be achieved in either atrial-side HBP (aHBP) or ventricular-side HBP (vHBP). The study compared the pacing parameters and electrophysiological characteristics between aHBP and vHBP in bradycardia patients.

Methods and results

Fifty patients undergoing HBP implantation assisted by visualization of the tricuspid valvular annulus (TVA) were enrolled. The HBP lead position was identified by TVA angiography. Twenty-five patients were assigned to undergo aHBP and compared with 25 patients who underwent vHBP primarily in a prospective and randomized fashion. Pacing parameters and echocardiography were routinely assessed at implant and 3-month follow-up. His-bundle pacing was successfully performed in 45 patients (90% success rate with 44.4% aHBP and 55.6% vHBP). The capture threshold was lower in vHBP than aHBP at implant (vHBP: 1.1 ± 0.5 vs. aHBP: 1.4 ± 0.4 V/1.0 ms, P = 0.014) and 3-month follow-up (vHBP: 0.8 ± 0.4 vs. aHBP: 1.7 ± 0.8 V/0.4 ms, P < 0.001). The R-wave amplitude was higher in vHBP than in aHBP at implant (vHBP: 4.5 ± 1.4 vs. aHBP: 2.0 ± 0.8 mV, P < 0.001) and at 3-month follow-up (vHBP: 4.4 ± 1.5 vs. aHBP: 1.8 ± 0.7 mV, P < 0.001). No procedure-related complications and aggravation of tricuspid valve regurgitation were observed in most patients and echocardiographic assessment of cardiac function remained in the normal range in all patients during the follow-up.

Conclusion

This study demonstrates that vHBP features a low and stable pacing capture threshold and high R-wave amplitude, suggesting better pacing mode management and battery longevity can be achieved by HBP in the ventricular side.
The greater wax mothGalleria mellonella: biology and use in immune studies
Authors: Wojda Iwona , Staniec Bernard , Sułek Michał , Kordaczuk Jakub
Published: September 2020

The greater wax moth Galleria mellonella is an invertebrate that is increasingly being used in scientific research. Its ease of reproduction, numerous offspring, short development cycle, and finally, its known genome and immune-related transcriptome provide a convenient research model for investigation of insect immunity at biochemical and molecular levels. Galleria immunity, consisting of only innate mechanisms, shows adaptive plasticity, which has recently become the subject of intensive scientific research. This insect serves as a mini host in studies of the pathogenicity of microorganisms and in vivo tests of the effectiveness of single virulence factors as well as new antimicrobial compounds. Certainly, the Galleria mellonella species deserves our attention and appreciation for its contribution to the development of research on innate immune mechanisms. In this review article, we describe the biology of the greater wax moth, summarise the main advantages of using it as a model organism and present some of the main techniques facilitating work with this insect
Fault interactions in a complex fault system: insight from the 1936–1997 NE Lut earthquake sequence
Authors: Marchandon M , Vergnolle M , Cavalié O
Published: September 2020

Calculations of Coulomb stress changes have shown that moderate to large earthquakes may increase stress at the location of future earthquakes. Coulomb stress transfers have thus been widely accepted to explain earthquake sequences, especially for sequences occurring within parallel or collinear fault systems. Relating, under this framework, successive earthquakes occurring within more complex fault systems (i.e. conjugate fault system) is more challenging. In this study, we assess which ingredients of the Coulomb stress change theory are decisive for explaining the succession of three large (Mw 7+) earthquakes that occurred on a conjugate fault system in the NE Lut, East Iran, during a 30-yr period. These earthquakes belong to a larger seismic sequence made up of 11 earthquakes (Mw 5.9+) from 1936 to 1997. To reach our goal, we calculate, at each earthquake date, the stress changes generated by the static deformation of the preceding earthquakes, the following post-seismic deformation due to the viscoelastic relaxation of the lithosphere, and the interseismic deformation since 1936. We first show that accurately modelling the source and receiver fault geometry is crucial to precisely estimating Coulomb stress changes. Then we show that 7 out of 10 earthquakes of the NE Lut sequence, considering the uncertainties, are favoured by the previous earthquakes. Furthermore, the last two M7+ earthquakes of the sequence (1979 and 1997) have mainly been favoured by the moderate Mw ∼ 6 earthquakes. Finally, we investigate the link between the Coulomb stress changes due to previous earthquakes and the rupture extension of the next earthquake and show that a correlation does exist for some earthquakes but is not systematic.
An excess radio signal in the Abell 4038 cluster
Authors: Chan Man Ho , Lee Chak Man
Published: September 2020

In the past decade, various instruments, such as the Large Area Telescope (LAT) on the Fermi Gamma Ray Space Telescope, the Alpha Magnetic Spectrometer (AMS) and the Dark Matter Particle Explorer(DAMPE), have been used to detect the signals of annihilating dark matter in our Galaxy. Although some excesses of gamma rays, antiprotons and electrons/positrons have been reported and are claimed to be dark matter signals, the uncertainties of the contributions of Galactic pulsars are still too large to confirm the claims. In this paper, we report on a possible radio signal of annihilating dark matter manifested in the archival radio continuum spectral data of the Abell 4038 cluster. By assuming a thermal annihilation cross-section and comparing the dark matter annihilation model with the null hypothesis (cosmic ray emission without dark matter annihilation), we obtain very large test statistic (TS) values, TS > 45, for four popular annihilation channels, which correspond to more than 6σ statistical preference. This reveals a possible potential signal of annihilating dark matter. In particular, our results are also consistent with the recent claims of dark matter mass, m ≈ 30–50 GeV, annihilating via the $\rm b\bar{b}$ quark channel with the thermal annihilation cross-section. However, at this time, we cannot exclude the possibility that a better background cosmic ray model could explain the spectral data without recourse to dark matter annihilations.
On the partial eruption of a bifurcated solar filament structure
Authors: Monga Aabha , Sharma Rahul , Liu Jiajia , Cid Consuelo , Uddin Wahab , Chandra Ramesh , Erdélyi Robertus
Published: September 2020

The partial eruption of a filament channel with bifurcated substructures is investigated using data sets obtained from both ground-based and space-borne facilities. Small-scale flux reconnection/cancellation events in the region triggered the pile-up of ambient magnetic field, observed as bright extreme ultraviolet (EUV) loops in close proximity to the filament channel. This led to the formation of a V-shaped cusp structure at the site of interaction between the coalesced EUV loops and the filament channel, with the presence of distinct plasmoid structures and associated bidirectional flows. Analysis of imaging data from SDO/AIA further suggests vertical splitting of the filament structure into two substructures. The perturbed upper branch of the filament structure rose up and erupted with the onset of an energetic GOES M1.4 flare at 04:30 ut on 2015 January 28. The estimated twist number and squashing factor obtained from non-linear force free-field extrapolation of the magnetic field data support the vertical split in the filament structure with high twist in the upper substructure. The loss in equilibrium of the upper branch due to torus instability implies that this is a potential triggering mechanism for the observed partial eruption.
A quantitative demonstration that stellar feedback locally regulates galaxy growth
Authors: Zaragoza-Cardiel Javier , Fritz Jacopo , Aretxaga Itziar , Mayya Yalia D , Rosa-González Daniel , Beckman John E , Bruzual Gustavo , Charlot Stephane
Published: September 2020

We have applied stellar population synthesis to 500-pc-sized regions in a sample of 102 galaxy discs observed with the MUSE spectrograph. We derived the star formation history and analyse specifically the ‘recent’ ($20\,\rm {Myr}$) and ‘past’ ($570\,\rm {Myr}$) age bins. Using a star formation self-regulator model, we can derive local mass-loading factors, η for specific regions, and find that this factor depends on the local stellar mass surface density, Σ*, in agreement with the predictions form hydrodynamical simulations including supernova feedback. We integrate the local η–Σ* relation using the stellar mass surface density profiles from the Spitzer Survey of Stellar Structure in Galaxies (S4G) to derive global mass-loading factors, ηG, as a function of stellar mass, M*. The ηG–M* relation found is in very good agreement with hydrodynamical cosmological zoom-in galaxy simulations. The method developed here offers a powerful way of testing different implementations of stellar feedback, to check on how realistic are their predictions.
A Truncated Singleton NLR Causes Hybrid Necrosis inArabidopsis thaliana
Authors: Barragan Ana Cristina , Collenberg Maximilian , Wang Jinge , Lee Rachelle R Q , Cher Wei Yuan , Rabanal Fernando A , Ashkenazy Haim , Weigel Detlef , Chae Eunyoung
Published: September 2020

Hybrid necrosis in plants arises from conflict between divergent alleles of immunity genes contributed by different parents, resulting in autoimmunity. We investigate a severe hybrid necrosis case in Arabidopsis thaliana, where the hybrid does not develop past the cotyledon stage and dies 3 weeks after sowing. Massive transcriptional changes take place in the hybrid, including the upregulation of most NLR (nucleotide-binding site leucine-rich repeat) disease-resistance genes. This is due to an incompatible interaction between the singleton TIR-NLR gene DANGEROUS MIX 10 (DM10), which was recently relocated from a larger NLR cluster, and an unlinked locus, DANGEROUS MIX 11 (DM11). There are multiple DM10 allelic variants in the global A. thaliana population, several of which have premature stop codons. One of these, which has a truncated LRR–PL (leucine-rich repeat [LRR]–post-LRR) region, corresponds to the DM10 risk allele. The DM10 locus and the adjacent genomic region in the risk allele carriers are highly differentiated from those in the nonrisk carriers in the global A. thaliana population, suggesting that this allele became geographically widespread only relatively recently. The DM11 risk allele is much rarer and found only in two accessions from southwestern Spain—a region from which the DM10 risk haplotype is absent—indicating that the ranges of DM10 and DM11 risk alleles may be nonoverlapping.
Chromosome-Scale Genome Assemblies of Aphids Reveal Extensively Rearranged Autosomes and Long-Term Conservation of the X Chromosome
Authors: Mathers Thomas C , Wouters Roland H M , Mugford Sam T , Swarbreck David , van Oosterhout Cock , Hogenhout Saskia A
Published: September 2020

Chromosome rearrangements are arguably the most dramatic type of mutations, often leading to rapid evolution and speciation. However, chromosome dynamics have only been studied at the sequence level in a small number of model systems. In insects, Diptera and Lepidoptera have conserved genome structure at the scale of whole chromosomes or chromosome arms. Whether this reflects the diversity of insect genome evolution is questionable given that many species exhibit rapid karyotype evolution. Here, we investigate chromosome evolution in aphids—an important group of hemipteran plant pests—using newly generated chromosome-scale genome assemblies of the green peach aphid (Myzus persicae) and the pea aphid (Acyrthosiphon pisum), and a previously published assembly of the corn-leaf aphid (Rhopalosiphum maidis). We find that aphid autosomes have undergone dramatic reorganization over the last 30 My, to the extent that chromosome homology cannot be determined between aphids from the tribes Macrosiphini (Myzus persicae and Acyrthosiphon pisum) and Aphidini (Rhopalosiphum maidis). In contrast, gene content of the aphid sex (X) chromosome remained unchanged despite rapid sequence evolution, low gene expression, and high transposable element load. To test whether rapid evolution of genome structure is a hallmark of Hemiptera, we compared our aphid assemblies with chromosome-scale assemblies of two blood-feeding Hemiptera (Rhodnius prolixus and Triatoma rubrofasciata). Despite being more diverged, the blood-feeding hemipterans have conserved synteny. The exceptional rate of structural evolution of aphid autosomes renders them an important emerging model system for studying the role of large-scale genome rearrangements in evolution.
Unscrambling the oocyte and the egg: clarifying terminology of the female gamete in mammals
Authors: Duncan Francesca E , Schindler Karen , Schultz Richard M , Blengini Cecilia S , Stein Paula , Stricker Stephen A , Wessel Gary M , Williams Carmen J
Published: September 2020

Most reproductive biologists who study female gametes will agree with the 16th century anatomist William Harvey’s doctrine: ‘Ex Ovo Omnia’. This phrase, which literally translates to ‘everything from the egg’, recognizes the centrality of the egg in animal development. Eggs are most impressive cells, capable of supporting development of an entirely new organism following fertilization or parthenogenetic activation. Not so uniformly embraced in the field of reproductive biology is the nomenclature used to refer to the female germ cell. What is an oocyte? What is an egg? Are these terms the same, different, interchangeable? Here we provide functional definitions of the oocyte and egg, and how they can be used in the context of mammalian gamete biology and beyond.
Cheiro-oral-pedal syndrome as the presenting symptom of brainstem cavernous malformation: a case report
Authors: Anamnart Chumpol , Piyapittayanan Siriwan
Published: September 2020

The rare cheiro-oral-pedal syndrome (COPS) is characterized by sensory disturbances around the corner of the mouth, and in the hand and foot of the same side. The causative lesion is located in the thalamocortical projections, thalamus or brainstem and is usually due to ischemic or hemorrhagic stroke. We report a case of a patient with brain stem cavernous malformations presented as pure COPS with additional sensory disturbance in the thorax. We report this case to raise awareness of these very rare syndromes and demonstrate that mildly presenting symptoms can be caused by an underlying devastating condition.
High Thoracic Erector Spinae Plane Block for Arthroscopic Shoulder Surgery: A Randomized Prospective Double-Blind Study
Authors: Ciftci Bahadir , Ekinci Mursel , Gölboyu Birzat Emre , Kapukaya Furkan , Atalay Yunus Oktay , Kuyucu Ersin , Demiraran Yavuz
Published: September 2020

Objective

Moderate to severe pain may occur following arthroscopic shoulder surgery. An erector spinae plane block (ESPB) may be used for painful conditions of the shoulder. The primary hypothesis of this trial is that ultrasound-guided ESPB would provide effective analgesia by reducing opioid consumption. The secondary hypothesis is that ESPB would result in low pain scores and reduce the use of rescue analgesia.

Design

Randomized prospective double-blind study.

Setting

Academic university hospital.

Subjects

Sixty patients aged between 18 and 65 years designated as American Society of Anesthesiologists (ASA) class I or II who underwent unilateral arthroscopic shoulder surgery under general anesthesia were included in the study.

Methods

Patients were equally divided into two groups—either the ESPB group (n=30) or the sham block group (n=30). ESPB was performed with 30 mL 0.25% bupivacaine at the T2 level in the ESPB group and sham block with 30 mL saline at the T2 level in the sham block group. Twenty minutes before the end of the operation, 100 mg tramadol was administered intravenously to the patients. Intravenous ibuprofen 400 mg 3 × 1 was ordered for the patients during the postoperative period. A patient control analgesia device including a dose of 10 µg/mL fentanyl was connected to the patients.

Results

There were no statistical differences between groups in terms of demographical data. Postoperative fentanyl consumption was significantly lower in the ESPB group than in the sham block group (96.66 µg ±105.57 µg and 230 µg ±247.17 µg, respectively) (P=0.009). The need for rescue analgesia was significantly lower in the ESPB group than in the sham block group (26.66 mg ±35.43 mg and 48.5 mg ±35.45 mg, respectively) (P=0.020). Overall, the visual analog scale scores were significantly lower in the ESPB group than in the sham block group.

Conclusions

ESPB may provide effective analgesia treatment following arthroscopic shoulder surgery.
ACTsmart: Guided Smartphone-Delivered Acceptance and Commitment Therapy for Chronic Pain—A Pilot Trial
Authors: Gentili Charlotte , Zetterqvist Vendela , Rickardsson Jenny , Holmström Linda , Simons Laura E , Wicksell Rikard K
Published: September 2020

Background

Acceptance and commitment therapy (ACT) is a behavioral health intervention with strong empirical support for chronic pain but, to date, widespread dissemination is limited. Digital solutions improve access to care and can be integrated into patients’ everyday lives.

Objective

ACTsmart, a guided smartphone-delivered ACT intervention, was developed to improve the accessibility of an evidence-based behavioral treatment for chronic pain. In the present study, we evaluated the preliminary efficacy of ACTsmart in adults with chronic pain.

Methods

The study was an open-label pilot trial. The treatment lasted for 8 weeks, and participants completed all outcome measures at pretreatment and posttreatment and at 3-, 6-, and 12-month follow-ups, with weekly assessments of selected measures during treatment. The primary outcome was pain interference. The secondary outcomes were psychological flexibility, values, insomnia, anxiety, depressive symptoms, health-related quality of life, and pain intensity. All outcomes were analyzed using linear mixed-effects models.

Results

The sample consisted of 34 adults (88% women) with long-standing chronic pain (M=20.4 years, SD=11.7). Compliance to treatment was high, and at the end of treatment, we observed a significant improvement in the primary outcome of pain interference (d = –1.01). All secondary outcomes significantly improved from pretreatment to posttreatment with small to large effect sizes. Improvements were maintained throughout 12 months of follow-up.

Conclusion

The results of this pilot study provide preliminary support for ACTsmart as an accessible and effective behavioral health treatment for adults with chronic pain and warrant a randomized controlled trial to further evaluate the efficacy of the intervention.
Dialectical Pain Management: Feasibility of a Hybrid Third-Wave Cognitive Behavioral Therapy Approach for Adults Receiving Opioids for Chronic Pain
Authors: Barrett Deborah , Brintz Carrie E , Zaski Amanda M , Edlund Mark J
Published: September 2020

Objectives

This study evaluated the feasibility, acceptability, and potential effectiveness of a hybrid skills-based group intervention, dialectical pain management (DPM), for adults with chronic pain who are receiving long-term opioid therapy. DPM adapts dialectical behavior therapy, a rigorous psychotherapeutic approach to emotion dysregulation, to treat disorders of physiological dysregulation.

Methods

Individuals with chronic pain (N = 17) participated in one of two 8-week DPM intervention cohorts. At pre-test and post-test, participants completed quantitative self-report assessments measuring pain intensity and interference, depressive symptoms, pain acceptance, beliefs about pain medications, and global rating of change. Within 2 weeks after the intervention, participants completed qualitative interviews to assess participant satisfaction and obtain feedback about specific intervention components.

Results

Of the 17 enrolled, 15 participants completed the group with 12 (70%) attending six or more sessions. Participants reported high satisfaction with the intervention. Preliminary findings suggested a significant increase in pain acceptance and a significant reduction in depressive symptoms. Participants also reported an improved relationship with their pain conditions and increased flexibility in responding to pain and applying coping skills. Several participants showed a reduction in opioid dosage over the course of the intervention.

Discussion

Findings support that DPM is a feasible and well-received intervention for individuals with chronic pain. Additional research with a control group is needed to further determine the intervention’s efficacy and impact.
Towards developing diagnostic criteria for early knee osteoarthritis: data from the CHECK study
Authors: Runhaar J , Kloppenburg M , Boers M , Bijlsma J W J , Bierma-Zeinstra S M A ,   and the CREDO expert group
Published: September 2020

Objectives

There is a general consensus that a shift in focus towards early diagnosis and treatment of knee OA is warranted. However, there are no validated and widely accepted diagnostic criteria for early knee OA available. The current study aimed to take the first steps towards developing diagnostic criteria for early knee OA.

Methods

Data of 761 individuals with 1185 symptomatic knees at baseline were selected from the CHECK study. For CHECK, individuals with pain/stiffness of the knee, aged 45–65 years, who had no prior consultation or a first consultation with the general practitioner for these symptoms in the past 6 months were recruited and followed for 10 years. A group of 36 experts (17 general practitioners and 19 secondary care physicians) evaluated the medical records in pairs to diagnose the presence of clinically relevant knee OA 5–10 years after enrolment. A backward selection methods was used to create predictive models based on pre-defined baseline factors from history taking, physical examination, radiography and blood testing, using the experts’ diagnoses as gold standard outcome.

Results

Prevalence of clinically relevant knee OA during follow-up was 37%. Created models contained 7–11 baseline factors and obtained an area under the curve between 0.746 (0.002) and 0.764 (0.002).

Conclusion

The obtained diagnostic models for early knee OA had ‘fair’ predictive ability in individuals presenting with knee pain in primary care. Further modelling and validation of the identified predictive factors is required to obtain clinically feasible and relevant diagnostic criteria for early knee OA.
INDOOR RADON MEASUREMENTS FOR THE SOUTH AFRICAN WEST COAST PENINSULA
Authors: le Roux Rikus , Bezuidenhout Jacques , Smit Hennie
Published: September 2020

Granite commonly contains high concentrations of uranium, with consequent high exhalation of radon. The geology of the West Coast peninsula of South Africa is dominated by granite, and a recent article predicted potentially high indoor radon concentrations in this region’s two largest towns, Vredenburg and Saldanha. This research aimed to measure indoor radon levels in these towns. Measurements were first done for a minimum of 3 d during warmer months, with houses typically being more ventilated. Thirty-four homes in Vredenburg and 27 in Saldanha were measured, and the average indoor radon determined to be 40 and 58 Bq m−3, respectively. The measurements were then repeated during the colder months, and an increase in average radon concentration of 173 Bq m−3 for Saldanha and 153 Bq m−3 for Vredenburg was found. The granite geology and lifestyle of occupants during the colder months seem to contribute towards elevated levels of indoor radon concentrations.
ESTABLISHING LOCAL AND NATIONAL DIAGNOSTIC AND INTERVENTIONAL CARDIOLOGY AND RADIOLOGY REFERENCE LEVELS IN A SMALL EUROPEAN STATE: THE CASE OF MALTA
Authors: Pace Eric , Cortis Kelvin , Debono Joseph , Grech Marvin , Caruana Carmel J
Published: September 2020

European Directive 2013/59/EURATOM requires the establishment and use of diagnostic reference levels (DRLs) for diagnostic and interventional procedures. The purpose of this study was to establish local DRLs for a major tertiary public hospital. As the hospital is the only such hospital in Malta, the same data collected for setting local DRLs can also be used for setting national DRLs, making local DRLs de facto national DRLs. A retrospective survey of cumulative kerma-area product (KAP) and fluoroscopy time data from the cardiac catheterisation laboratory and interventional radiology suites was carried out. The effect of system upgrades on cumulative KAP was also assessed. Local DRLs were set for common cardiology and interventional radiology procedures. All DRLs compare favourably with those in European literature. A Philips Allura Clarity upgrade to the cardiac catheterisation laboratories led to significant reductions in cumulative KAP (p ≪  0.05) for most procedures.