bluuebunny/crossref_metadata_2025_split huggingface dataset:
SARS-CoV-2 Among Military and Civilian Patients, Metro Manila, Philippines
Authors: Velasco John Mark , Navarro Fatima Claire , Diones Paula Corazon , Villa Vicente , Valderama Maria Theresa , Tabinas Henry , Chua Domingo , Rosa Romulo Dela , Turao-Agoncillo Melissa Monica , Timbol John Carlo , Leonardia Susie , Timbol Maria Leanor , Klungthong Chonticha , Chinnawirotpisan Piyawan , Joonlasak Khajohn , Manasatienkij Wudtichai , Huang Angkana , Jones Anthony , Fernandez Stefan 
Published: December 2020

ABSTRACT

Introduction
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) belonging to the family Coronaviridae and genus Betacoronavirus is the causative agent of COVID-19 disease and was first identified in Wuhan, China. SARS-CoV-2 spread globally with &gt;28 million cases and 911,000 deaths recorded worldwide as of September 12, 2020. The Philippines reported the first case of community transmission on March 5, 2020, and despite the government imposing one of the longest and strictest lockdowns in Southeast Asia, the number of confirmed COVID-19 cases still surged with &gt;250,000 cases and 4,000 deaths reported as of September 12, 2020. It is important to estimate the burden and impact of SARS-CoV-2 on the military population since this can affect the military readiness.

Materials and Methods
Nasopharyngeal and oropharyngeal swabs were collected and SARS-CoV-2 real-time RT-PCR testing was performed on the samples. Phylogenetic analysis was performed using sequences from 23 SARS-CoV-2-positive specimens from this study and sequences retrieved from GenBank and GISAID databases.

Results
From April 14 to August 15, 2020, a total of 12,432 specimens were tested with 763 (6%) unique individuals testing positive for SARS-CoV-2 by rRT-PCR. In the military population, majority of the patients who were tested (80%) and those who tested positive for SARS-CoV-2 (86%) were male. Military and civilian status was available for 7,672 patients with 515/5,042 (10%) positive among military patients and 248/2,630 (9%) positive among civilian patients. Both military and civilian populations had the highest case counts of SARS-CoV-2-positive cases in the 21- to 30- and 31- to 40-year-old age groups, while the 71- to 80-year-old age group had the highest proportion (18%) of SARS-CoV-2-positive cases. Sequencing analysis showed 19 different variants in the 23 genomes. Twenty of the 23 genomes were classified under clade GR/B1.1, 2 genomes were classified under clade GR/B1.1.28, and 1 genome was classified under Clade O/B.6. Twenty-two of the 23 sequences collected after June 25, 2020, contained the D614G mutation.

Conclusion
We describe here the results of SARS-CoV-2 testing for military and civilian patients and personnel. The 21- to 30- and 31- to 40-year-old age groups had the highest case counts of SARS-CoV-2-positive cases. Sequencing results showed the presence of the D614G mutation in the spike protein in a majority of specimens collected from the end of June to July 2020.
Solo dwarfs – III. Exploring the orbital origins of isolated Local Group galaxies with Gaia Data Release 2
Authors: McConnachie Alan W , Higgs Clare R , Thomas Guillaume F , Venn Kim A , Côté Patrick , Battaglia Giuseppina , Lewis Geraint F 
Published: December 2020

ABSTRACT
We measure systemic proper motions for distant dwarf galaxies in the Local Group and investigate if these isolated galaxies have ever had an interaction with the Milky Way or M31. We cross-match photometry of isolated, star-forming, dwarf galaxies in the Local Group, taken as part of the Solo survey, with astrometric measurements from Gaia Data Release 2. We find that NGC 6822, Leo A, IC 1613, and WLM have sufficient supergiants with reliable astrometry to derive proper motions. An additional three galaxies (Leo T, Eridanus 2, and Phoenix) are close enough that their proper motions have already been derived using red giant branch stars. Systematic errors in Gaia DR2 are significant for NGC 6822, IC 1613, and WLM. We explore the orbits for these galaxies, and conclude that Phoenix, Leo A, and WLM are unlikely to have interacted with the Milky Way or M31, unless these large galaxies are very massive (${\gtrsim}1.6 \times 10^{12}\, \mathrm{M}_\odot$). We rule out a past interaction of NGC 6822 with M31 at ${\sim}99.99{{\ \rm per\ cent}}$ confidence, and find there is a &lt;10 per cent chance that NGC 6822 has had an interaction with the Milky Way. We examine the likely origins of NGC 6822 in the periphery of the young Local Group, and note that a future interaction of NGC 6822 with the Milky Way or M31 in the next 4 Gyr is essentially ruled out. Our measurements indicate that future Gaia data releases will provide good constraints on the interaction history for the majority of these galaxies.
RoboPol: AGN polarimetric monitoring data
Authors: Blinov D , Kiehlmann S , Pavlidou V , Panopoulou G V , Skalidis R , Angelakis E , Casadio C , Einoder E N , Hovatta T , Kokolakis K , Kougentakis A , Kus A , Kylafis N , Kyritsis E , Lalakos A , Liodakis I , Maharana S , Makrydopoulou E , Mandarakas N , Maragkakis G M , Myserlis I , Papadakis I , Paterakis G , Pearson T J , Ramaprakash A N , Readhead A C S , Reig P , Słowikowska A , Tassis K , Xexakis K , Żejmo M , Zensus J A 
Published: December 2020

ABSTRACT
We present uniformly reprocessed and re-calibrated data from the RoboPol programme of optopolarimetric monitoring of active galactic nuclei (AGNs), covering observations between 2013, when the instrument was commissioned, and 2017. In total, the data set presented in this paper includes 5068 observations of 222 AGN with Dec. &gt; −25○. We describe the current version of the RoboPol pipeline that was used to process and calibrate the entire data set, and we make the data publicly available for use by the astronomical community. Average quantities summarizing optopolarimetric behaviour (average degree of polarization, polarization variability index) are also provided for each source we have observed and for the time interval we have followed it.
Playing With Chaos: Broadening Possibilities for How Music Therapist’s Consider Chaos in Group Work With Young People
Authors: Oosthuizen Helen , McFerran Katrina 
Published: December 2020

Abstract
Many music therapists have alluded to challenges in their work with groups of young people. However, chaos, incorporating experiences of disintegration and destruction, is a construct often overlooked in music therapy literature. Some music therapy authors have related experiences of chaos to the struggles faced by young people referred for therapy. These experiences require management, modification, or resolution. The authors of this article synthesized broader understandings and approaches towards chaos described in literature from fields including music therapy group work, drama therapy, the arts, psychoanalysis, organizational studies, and philosophy. Chaos is positioned as an inherent and necessary aspect of music therapy groups with young people, situated within a mutually potentiating relationship with more ordered features of a group process. From this paradoxical perspective, therapeutic transformation is enabled through creativity that holds the tension between order and the destructiveness of chaos. When chaos is welcomed in music therapy groups and framed within appropriate boundaries, the authors argue that experiences of chaos can be harnessed to support engagement with the paradoxes of creativity and destructiveness. The provision of a space to play with chaos supports young people who are required to flourish within adverse, chaotic life circumstances. The significance of this position for a group of young people who have committed offences in the South African context is highlighted.
Ultrashort Echo Time Magnetic Resonance Angiography in Follow-up of Intracranial Aneurysms Treated With Endovascular Coiling: Comparison of Time-of-Flight, Pointwise Encoding Time Reduction With Radial Acquisition, and Contrast-Enhanced Magnetic Resonance Angiography
Authors: You Sung-Hye , Kim Byungjun , Yang Kyung-Sook , Kim Bo Kyu , Ryu Jaeil 
Published: December 2020

Abstract

BACKGROUND
The optimal magnetic resonance angiography (MRA) sequence for assessing the aneurysm occlusion state or in-stent flow after endovascular coiling is not well established.

OBJECTIVE
To evaluate the diagnostic performance of pointwise encoding time reduction with radial acquisition (PETRA)-MRA in patients who underwent endovascular coiling relative to that of time-of-flight (TOF)-MRA and contrast-enhanced (CE)-MRA.

METHODS
We evaluated the aneurysm occlusion state using digital subtraction angiography (DSA) and MRA. In patients who underwent stent-assisted coiling, we estimated the visibility of in-stent flow.

RESULTS
We enrolled 189 patients with assessable TOF, PETRA, and CE-MRAs after coiling. In patients who underwent simple coiling (128 patients), PETRA showed a higher sensitivity in the detection of residual flow than TOF and CE (PETRA, 100%; CE, 83%; TOF, 80%). There were no significant differences in the height of residual flow between DSA (0.68 ± 1.45 mm) and PETRA (0.70 ± 1.50 mm; P = 1.000). In patients who underwent stent-assisted coiling (61 patients), PETRA showed the highest sensitivity (88%) in detecting residual flow (CE, 56%; TOF, 31%). Regarding in-stent flow, PETRA, CE, and TOF showed visual scores of ≥3 with frequencies of 96.7%, 85.2%, and 37.7%, respectively. Relative signal-to-noise ratio of PETRA (0.62 ± 0.18) was significantly higher than that of CE (0.56 ± 0.12) and TOF (0.39 ± 0.12; P < .001 for both).

CONCLUSION
PETRA-MRA showed excellent diagnostic performance in terms of residual flow detection and in-stent flow assessment. PETRA could be a versatile alternative sequence for following up patients with coiled aneurysm.
Presentation of spinal cord and column tumors
Authors: Fridley Jared S , Syed Sohail , Niu Tianyi , Leary Owen P , Gokaslan Ziya L 
Published: December 2020

Abstract
Metastatic spine disease occurs in more than 10% of all cancer patients. Advances in systemic treatment for cancer has led to improved overall survival for many types of cancer, which has increased the overall incidence of spinal metastases. The most common presenting complaint of patients with spinal metastases is pain. Pain originating from spinal metastases can be oncological, mechanical, and/or neurological in nature. Early recognition of these symptoms is helpful to guide treatment and accurately gauge patient prognosis. Unfortunately, the prevalence of degenerative back pain in the general population can complicate early clinical recognition of patients with metastatic spine disease. Therefore, back pain in any patient with a history of malignancy should prompt clinicians to perform an expedited workup for metastatic disease of the spine. Diagnostic imaging and laboratory studies are part of the initial work up. Obtaining pathology via biopsy to establish tumor histology is essential to determine the appropriate treatment.
Tobacco Smoking and Associated Factors Among People Living With HIV in Uganda
Authors: Mdege Noreen Dadirai , Makumbi Fredrick Edward , Ssenyonga Ronald , Thirlway Frances , Matovu Joseph K B , Ratschen Elena , Siddiqi Kamran , Nyamurungi Namusisi Kellen 
Published: December 2020

Abstract

Introduction
The prevalence of smoking among people living with HIV (PLWH) in Uganda is high.

Aims and Methods
We assessed the smoking patterns, behaviors, and associated factors among PLWH in Uganda through a cross-sectional survey. Descriptive statistics were used to describe smoking patterns and behaviors. Logistic regression was used to identify factors associated with current smoking status.

Results
We recruited 777 participants between October and November 2019: 387 (49.8%) current smokers and 390 (50.2%) nonsmokers. 60.9% were males, and the mean age was 40.5 (SD 10.7) years. In multivariate logistic regression, the following increased the odds of being a current smoker: being male (odds ratio [OR] 6.60 [95% confidence interval, CI = 4.34–10.04]), having at least two smokers among five closest friends (OR 3.97 [95% CI = 2.08–7.59]), living in smoking-permitted households (OR 5.83 [95% CI = 3.32–10.23]), alcohol use (OR 3.96 [95% CI = 2.34–6.71]), a higher perceived stress score (OR 2.23 [95% CI = 1.50–3.34]), and higher health-related quality of life (OR 5.25 [95% CI = 1.18–23.35]). Among smokers, the mean Fagerström Test for Nicotine Dependence score was 3.0 (SD 1.9), and 52.5% were making plans to quit. Self-efficacy to resist smoking and knowledge of the impact of smoking on PLWH’s health were low.

Conclusions
Being male, having at least two smokers among five closest friends, living in smoking-permitted households, alcohol use, higher perceived stress scores, and higher health-related quality of life were associated with being a current smoker. Smokers had low to moderate nicotine dependence, high willingness to quit, and low self-efficacy.

Implications
Future behavioral smoking cessation interventions for PLWH should address co-consumption with alcohol and comorbid mental health conditions that are common among PLWH such as stress. In addition, they should take into account the lack of knowledge among this population of the impact of smoking on their health, and low self-efficacy. Given the relatively low levels of nicotine dependency and high levels of willingness to quit in our sample, smoking cessation interventions, if offered, are likely to support this population in achieving long-term smoking abstinence.
Multi-Approach Analysis Reveals Local Adaptation in a Widespread Forest Tree of Reunion Island
Authors: Garot Edith , Dussert Stephane , Domergue Fr�d�ric , Jo�t Thierry , Fock-Bastide Isabelle , Combes Marie-Christine , Lashermes Philippe 
Published: December 2020

Abstract
Detecting processes of local adaptation in forest trees and identifying environmental selective drivers are of primary importance for forest management and conservation. Transplant experiments, functional genomics and population genomics are complementary tools to efficiently characterize heritable phenotypic traits and to decipher the genetic bases of adaptive traits. Using an integrative approach combining phenotypic assessment in common garden, transcriptomics and landscape genomics, we investigated leaf adaptive traits in Coffea mauritiana, a forest tree endemic to Reunion Island. Eight populations of C. mauritiana originating from sites with contrasted environmental conditions were sampled in common garden to assess several leaf morphological traits, to analyze the leaf transcriptome and leaf cuticular wax composition. The relative alkane content of cuticular waxes was significantly correlated with major climatic gradients, paving the way for further transcriptome-based analyses. The expression pattern of cuticle biosynthetic genes was consistent with a modulation of alkane accumulation across the population studied, supporting the hypothesis that the composition of cuticular wax is involved in the local adaptation of C. mauritiana. Association tests in landscape genomics performed using RNA-seq-derived single-nucleotide polymorphisms revealed that genes associated with cell wall remodeling also likely play an adaptive role. By combining these different approaches, this study efficiently identified local adaptation processes in a non-model species. Our results provide the first evidence for local adaptation in trees endemic to Reunion Island and highlight the importance of cuticle composition for the adaptation of trees to the high evaporative demand in warm climates.
Nuclear-Encoded Maturase Protein 3 Is Required for the Splicing of Various Group II Introns in Mitochondria during Maize (Zea maysL.) Seed Development
Authors: Chen Weiwei , Cui Yu , Wang Zheyuan , Chen Rongrong , He Cheng , Liu Yan , Du Xuemei , Liu Yunjun , Fu Junjie , Wang Guoying , Wang Jianhua , Gu Riliang 
Published: December 2020

AbstractSplicing of plant organellar group II introns from precursor-RNA transcripts requires the assistance of nuclear-encoded splicing factors. Maturase (nMAT) is one such factor, as its three homologs (nMAT1, 2 and 4) have been identified as being required for the splicing of various mitochondrial introns in Arabidopsis. However, the function of nMAT in maize (Zea mays L.) is unknown. In this study, we identified a seed development mutant, empty pericarp 2441 (emp2441) from maize, which showed severely arrested embryogenesis and endosperm development. Positional cloning and transgenic complementation assays revealed that Emp2441 encodes a maturase-related protein, ZmnMAT3. ZmnMAT3 is highly expressed during seed development and its protein locates to the mitochondria. The loss of function of ZmnMAT3 resulted in the reduced splicing efficiency of various mitochondrial group II introns, particularly of the trans-splicing of nad1 introns 1, 3 and 4, which consequently abolished the transcript of nad1 and severely impaired the assembly and activity of mitochondrial complex I. Moreover, the Zmnmat3 mutant showed defective mitochondrial structure and exhibited expression and activity of alternative oxidases. These results indicate that ZmnMAT3 is essential for mitochondrial complex I assembly during kernel development in maize.
Autophagy Contributes to the Quality Control of Leaf Mitochondria
Authors: Nakamura Sakuya , Hagihara Shinya , Otomo Kohei , Ishida Hiroyuki , Hidema Jun , Nemoto Tomomi , Izumi Masanori 
Published: December 2020

Abstract
In autophagy, cytoplasmic components of eukaryotic cells are transported to lysosomes or the vacuole for degradation. Autophagy is involved in plant tolerance to the photooxidative stress caused by ultraviolet B (UVB) radiation, but its roles in plant adaptation to UVB damage have not been fully elucidated. Here, we characterized organellar behavior in UVB-damaged Arabidopsis (Arabidopsis thaliana) leaves and observed the occurrence of autophagic elimination of dysfunctional mitochondria, a process termed mitophagy. Notably, Arabidopsis plants blocked in autophagy displayed increased leaf chlorosis after a 1-h UVB exposure compared to wild-type plants. We visualized autophagosomes by labeling with a fluorescent protein-tagged autophagosome marker, AUTOPHAGY8 (ATG8), and found that a 1-h UVB treatment led to increased formation of autophagosomes and the active transport of mitochondria into the central vacuole. In atg mutant plants, the mitochondrial population increased in UVB-damaged leaves due to the cytoplasmic accumulation of fragmented, depolarized mitochondria. Furthermore, we observed that autophagy was involved in the removal of depolarized mitochondria when mitochondrial function was disrupted by mutation of the FRIENDLY gene, which is required for proper mitochondrial distribution. Therefore, autophagy of mitochondria functions in response to mitochondrion-specific dysfunction as well as UVB damage. Together, these results indicate that autophagy is centrally involved in mitochondrial quality control in Arabidopsis leaves.
What’s new in ocular and oral aspects of Sjögren’s syndrome and do new treatments work?
Authors: Sutcliffe Nurhan , Recchioni Alberto , Hilmi Shireen , Rauz Saaeha , Tappuni Anwar R 
Published: December 2020

Abstract
Primary SS (pSS) is a systemic autoimmune disease characterized by lymphocytic infiltration of the exocrine glands leading to glandular dysfunction, resulting in dryness of the eyes, mouth and other mucosal surfaces. Systemic manifestations also occur in the majority of patients. There has been increasing interest in recent years, with a number of publications regarding the classification criteria, diagnostic tools, disease activity, damage, impact and potential treatments. This article reviews recent advances in the diagnosis and treatment of ocular and oral involvement in pSS. Recent stand-out developments include measurement of tear osmolarity as a marker in dry eye disease diagnosis, new devices measuring tear constituents and meibomian gland structure and treatment of its dysfunction. Lip biopsy is still valuable despite emerging evidence of non-invasive diagnostic techniques, notably salivary gland ultrasound.
Stronger Top-Down and Weaker Bottom-Up Frontotemporal Connections During Sensory Learning Are Associated With Severity of Psychotic Phenomena
Authors: Dzafic Ilvana , Larsen Kit M , Darke Hayley , Pertile Holly , Carter Olivia , Sundram Suresh , Garrido Marta I 
Published: December 2020

Abstract
Recent theories in computational psychiatry propose that unusual perceptual experiences and delusional beliefs may emerge as a consequence of aberrant inference and disruptions in sensory learning. The current study investigates these theories and examines the alterations that are specific to schizophrenia spectrum disorders vs those that occur as psychotic phenomena intensify, regardless of diagnosis. We recruited 66 participants: 22 schizophrenia spectrum inpatients, 22 nonpsychotic inpatients, and 22 nonclinical controls. Participants completed the reversal oddball task with volatility manipulated. We recorded neural responses with electroencephalography and measured behavioral errors to inferences on sound probabilities. Furthermore, we explored neural dynamics using dynamic causal modeling (DCM). Attenuated prediction errors (PEs) were specifically observed in the schizophrenia spectrum, with reductions in mismatch negativity in stable, and P300 in volatile, contexts. Conversely, aberrations in connectivity were observed across all participants as psychotic phenomena increased. DCM revealed that impaired sensory learning behavior was associated with decreased intrinsic connectivity in the left primary auditory cortex and right inferior frontal gyrus (IFG); connectivity in the latter was also reduced with greater severity of psychotic experiences. Moreover, people who experienced more hallucinations and psychotic-like symptoms had decreased bottom-up and increased top-down frontotemporal connectivity, respectively. The findings provide evidence that reduced PEs are specific to the schizophrenia spectrum, but deficits in brain connectivity are aligned on the psychosis continuum. Along the continuum, psychotic experiences were related to an aberrant interplay between top-down, bottom-up, and intrinsic connectivity in the IFG during sensory uncertainty. These findings provide novel insights into psychosis neurocomputational pathophysiology.
Epithelial-to-mesenchymal transition in neutrophilic chronic rhinosinusitis
Authors: Ryu Gwanghui , Mo Ji-Hun , Shin Hyun-Woo 
Published: December 2020

Purpose of review
Barrier dysfunction, tissue fibrosis, and remodeling are essential processes of the pathophysiology of chronic rhinosinusitis (CRS). The role of epithelial-to-mesenchymal transition (EMT) has been assessed in various studies in CRS. In this review, we summarized the pathophysiologic mechanisms of EMT related to CRS, particularly neutrophilic CRS.

Recent findings
Loss of epithelial characteristics due to EMT makes leaky epithelium, and transformed mesenchymal cells cause fibrosis and remodeling. Hypoxia, allergens (house dust mites), infections, and air pollutants were related to the pathogenesis of neutrophilic CRS, and these factors are known to induce barrier dysfunction and EMT in sinonasal epithelia. Some molecular pathways related to EMT have been recognized in CRS, including interferon-γ/p38/extracellular signal-regulated kinase, high-mobility group box 1/receptor of advanced glycosylation end-products, TGF-β1/SMAD, and Wnt/β-catenin-signaling pathways. Apart from, several microRNAs (miR-21, miR-761, and miR-30a-5p) have been identified to regulate EMT in CRS.

Summary
EMT is considered to be an important pathogenesis mechanism for CRS. The factors cause EMT in CRS, and the associated molecular mechanisms are related to neutrophilic inflammation. Further studies on CRS endotype and/or phenotype are needed to clarify the implication of EMT on CRS pathogenesis.