Miracle-dz/UniFAR-FTUs huggingface dataset:
Circulation of Indigenous Bovine Respiratory Syncytial Virus Strains in Turkish Cattle: The First Isolation and Molecular Characterization

Simple Summary Bovine respiratory syncytial virus (BRSV) is an important pathogen of both dairy and beef cattle, and causes huge economic losses annually across the world. This study reports the identification, isolation, and molecular characterization of a new BRSV (subgroup III) strain collected from respiratory distressed cattle in Turkey. The three field isolates obtained showed 100% similarity to each other at the nucleotide (nt) level and were found to be 99.49% and 99.22% identical to another Turkish strain—KY499619—at both (nt) and amino acid (aa) levels, respectively. They were also 97.43% (nt) and 98.44% (aa) similar to the American reference strain KU159366. This important information will inform Turkish BRSV diagnostic and control strategies, as well as highlight the urgent need to better understand the burden that BRSV is placing on the Turkish agricultural sector. Abstract Bovine respiratory disease (BRD) is a huge economic burden on the livestock industries of countries worldwide. Bovine respiratory syncytial virus (BRSV) is one of the most important pathogens that contributes to BRD. In this study, we report the identification and first isolation, with molecular characterization, of a new BRSV strain from lung specimens of three beef cows in Turkey that died from respiratory distress. After the screening of lung tissues for BRD-associated viruses using a multiscreen antigen-ELISA, a BRSV antigen was detected. This was then confirmed by real-time RT-PCR specific for BRSV. Following confirmation, virus isolation was conducted in MDBK cell cultures and clear CPE, including syncytia compatible with BRSV, were detected. RT-nested PCR, using F gene-specific primers, was performed on the cultured isolates, and the products were sequenced and deposited to Genbank with accession numbers MT179304, MT024766, and MT0244767. Phylogenetic analysis of these sequences indicated that the cattle were infected with BRSV from subgroup III and were closely related to previously identified American and Turkish strains, but contained some amino acid and nucleotide differences. This research paves the way for further studies on the molecular characteristics of natural BRSV isolates, including full genome analysis and disease pathogenesis, and also contributes to the development of robust national strategies against this virus.
Clinical Efficacy and Safety of Injection of Stromal Vascular Fraction Derived from Autologous Adipose Tissues in Systemic Sclerosis Patients with Hand Disability: A Proof-Of-Concept Trial

Background: Stromal vascular fraction (SVF) has recently emerged as a potential therapeutic modality, due to its multipotent cellular components in tissue regeneration. Systemic sclerosis (SSc) is a progressive autoimmune disease that results in hand disability by skin fibrosis and microangiopathies. We performed an open-label study to investigate the efficacy and safety of SVF injection in SSc patients (Clinical Trial number: NCT03060551). Methods: We gathered 20 SSc patients with hand disability, planning for a 24-week follow-up period. SVF was extracted from autologous adipose tissues, processed by the closed system kit, and injected into each finger of SSc patients. We observed various efficacy and safety profiles at each follow-up visit. Results: Among the 20 initially enrolled patients, eighteen received SVF injection, and were completely followed-up for the whole study period. Patients received 3.61 × 106 mesenchymal stem cells into each finger on average. Skin fibrosis, hand edema, and quality of life were significantly improved, and 31.6% of active ulcers were healed at 24 weeks after injections. Semiquantitative results of nailfold capillary microscopy were ameliorated. There was no single serious adverse event related to the procedure. Conclusions: Injection of SVF derived from autologous adipose tissues is tolerable, and shows clinical efficacy in SSc patients.
Identification of novel testing matrices for African swine fever surveillance

African swine fever (ASF) is a devastating viral disease of pigs and wild boar, and it threatens global food security. We aimed to identify suitable sample matrices for use in ASF surveillance programs. Six pigs inoculated with ASFV were sampled at postmortem. Blood, bone marrow, ear biopsies, and oral, nasal, and rectal swabs were taken from all pigs. All samples were analyzed using 3 real-time PCR (rtPCR) assays and a LAMP assay. ASFV was detected at > 107 genome copies/mL in blood; bone marrow was found to provide the highest viral load. Ct values provided by the rtPCR assays were correlated, and ASFV was detected in all oral, nasal, and rectal swabs and in all ear biopsy samples irrespective of the location from which they were taken. The LAMP assay had lower sensitivity, and detected ASFV in 54 of 66 positive samples, but delivered positive results within 17 min. We identified additional sample matrices that can be considered depending on the sampling situation: bone marrow had a high probability of detection, which could be useful for decomposed carcasses. However, ear biopsies provide an appropriate, high-throughput sample matrix to detect ASFV and may be useful during surveillance programs.
Dynamic functional network reconfiguration underlying the pathophysiology of schizophrenia and autism spectrum disorder

The dynamics of the human brain span multiple spatial scales, from connectivity associated with a specific region/network to the global organization, each representing different brain mechanisms. Yet brain reconfigurations at different spatial scales are seldom explored and whether they are associated with the neural aspects of brain disorders is far from understood. In this study, we introduced a dynamic measure called step‐wise functional network reconfiguration (sFNR) to characterize how brain configuration rewires at different spatial scales. We applied sFNR to two independent datasets, one includes 160 healthy controls (HCs) and 151 patients with schizophrenia (SZ) and the other one includes 314 HCs and 255 individuals with autism spectrum disorder (ASD). We found that both SZ and ASD have increased whole‐brain sFNR and sFNR between cerebellar and subcortical/sensorimotor domains. At the ICN level, the abnormalities in SZ are mainly located in ICNs within subcortical, sensory, and cerebellar domains, while the abnormalities in ASD are more widespread across domains. Interestingly, the overlap SZ‐ASD abnormality in sFNR between cerebellar and sensorimotor domains was correlated with the reasoning‐problem‐solving performance in SZ (r = −.1652, p = .0058) as well as the Autism Diagnostic Observation Schedule in ASD (r = .1853, p = .0077). Our findings suggest that dynamic reconfiguration deficits may represent a key intersecting point for SZ and ASD. The investigation of brain dynamics at different spatial scales can provide comprehensive insights into the functional reconfiguration, which might advance our knowledge of cognitive decline and other pathophysiology in brain disorders.
Ray-Space Epipolar Geometry for Light Field Cameras

Light field essentially represents rays in space. The epipolar geometry between two light fields is an important relationship that captures ray-ray correspondences and relative configuration of two views. Unfortunately, so far little work has been done in deriving a formal epipolar geometry model that is specifically tailored for light field cameras. This is primarily due to the high-dimensional nature of the ray sampling process with a light field camera. This paper fills in this gap by developing a novel <italic>ray-space epipolar geometry</italic> which intrinsically encapsulates the complete projective relationship between two light fields, while the generalized epipolar geometry which describes relationship of normalized light fields is the specialization of the proposed model to calibrated cameras. With Plücker parameterization, we propose the ray-space projection model involving a <inline-formula><tex-math notation="LaTeX">$6\! \times \! 6$</tex-math><alternatives><mml:math><mml:mrow><mml:mn>6</mml:mn><mml:mspace width="-0.166667em"/><mml:mo>×</mml:mo><mml:mspace width="-0.166667em"/><mml:mn>6</mml:mn></mml:mrow></mml:math><inline-graphic xlink:href="wang-ieq1-3025949.gif"/></alternatives></inline-formula> <italic>ray-space intrinsic matrix</italic> for ray sampling of light field camera. Ray-space fundamental matrix and its properties are then derived to constrain ray-ray correspondences for general and special motions. Finally, based on ray-space epipolar geometry, we present two novel algorithms, one for fundamental matrix estimation, and the other for calibration. Experiments on synthetic and real data have validated the effectiveness of ray-space epipolar geometry in solving 3D computer vision tasks with light field cameras.
One‐year clinical outcomes in patients with chronic kidney disease treated with COMBO stents: From the COMBO collaboration

Chronic kidney disease (CKD) patients undergoing percutaneous coronary intervention (PCI) experience greater ischemic events including clinically driven target lesion revascularization (CD‐TLR). Whether the COMBO biodegradable‐polymer sirolimus‐eluting stent promotes better outcomes in these patients by virtue of endothelial progenitor cell capture technology is unknown.
Effect of Eriocalyxin B on prostatic inflammation and pelvic pain in a mouse model of experimental autoimmune prostatitis

Chronic prostatitis/chronic pelvic pain syndrome (CP/CPPS) is a common disease in males. Eriocalyxin B (EriB), a natural diterpenoid purified from Isodon eriocalyx var. laxiflora, was previously reported to have antitumor effects via multiple immune‐related pathways. In this study, we investigated the effect of EriB on CP/CPPS using a mouse model of experimental autoimmune prostatitis (EAP) and explored its potential mechanisms.
A blade for all seasons? Making and using Amudian blades at Qesem Cave, Israel

The Qesem Cave prehistoric sequence consists of one dominant lithic industry - the Amudian, a part of the Acheulo-Yabrudian (late Lower Paleolithic) cultural complex. The Acheulo-Yabrudian complex comprises three major lithic industries -Acheulo-Yabrudian, Yabrudian and Pre-Aurignacian/Amudian. While the first two industries are dominated by typical Lower Paleolithic lithic traditions, namely flake production technologies, hand-axes and scrapers, the Amudian presents an innovative blade industry. This relatively poorly known industry is of importance being stratigraphically situated between the Lower Paleolithic Acheulian and the Middle Paleolithic Mousterian. The available radiometric dates for this entity indicate a range from ca. 400 to about 200 kyr. The Amudian in the Levant is characterized by systematic blade production and a major component of shaped blades. At Qesem Cave the majority of the lithic artefacts belong to the Amudian industry with distinctive blade-dominated assemblages throughout a stratigraphic sequence of 7.5 meters. During the 2006 excavation season a scraper-dominated Yabrudian assemblage was discovered, indicating variability and more complex human behaviour at the cave rather than specialized blade-related activities only. The Amudian at Qesem Cave is a very early blade production industry and it reflects technological choices of the artisans as well as specific modes of resource exploitation and subsistence activities. This paper will summarize the current state of research on the Qesem cave lithic assemblages, focusing on the composition of the rich Amudian assemblages, the reconstruction of Amudian blade production and the functional interpretation of Amudian blades. A short survey of the new Yabrudian assemblage will be provided as well. We finally discuss interpretations of Acheulo-Yabrudian lithic variability and the meaning of late Lower Paleolithic blade production as a technological, functional and cultural phenomenon.
Urinary Biomarkers for Diagnosis and Prediction of Acute Kidney Allograft Rejection: A Systematic Review

Noninvasive tools for diagnosis or prediction of acute kidney allograft rejection have been extensively investigated in recent years. Biochemical and molecular analyses of blood and urine provide a liquid biopsy that could offer new possibilities for rejection prevention, monitoring, and therefore, treatment. Nevertheless, these tools are not yet available for routine use in clinical practice. In this systematic review, MEDLINE was searched for articles assessing urinary biomarkers for diagnosis or prediction of kidney allograft acute rejection published in the last five years (from 1 January 2015 to 31 May 2020). This review follows the Preferred Reporting Items for Systematic Reviews and Meta-analysis (PRISMA) guidelines. Articles providing targeted or unbiased urine sample analysis for the diagnosis or prediction of both acute cellular and antibody-mediated kidney allograft rejection were included, analyzed, and graded for methodological quality with a particular focus on study design and diagnostic test accuracy measures. Urinary C-X-C motif chemokine ligands were the most promising and frequently studied biomarkers. The combination of precise diagnostic reference in training sets with accurate validation in real-life cohorts provided the most relevant results and exciting groundwork for future studies.
Parental Attitudes toward Artificial Intelligence-Driven Precision Medicine Technologies in Pediatric Healthcare

Precision medicine relies upon artificial intelligence (AI)-driven technologies that raise ethical and practical concerns. In this study, we developed and validated a measure of parental openness and concerns with AI-driven technologies in their child’s healthcare. In this cross-sectional survey, we enrolled parents of children <18 years in 2 rounds for exploratory (n = 418) and confirmatory (n = 386) factor analysis. We developed a 12-item measure of parental openness to AI-driven technologies, and a 33-item measure identifying concerns that parents found important when considering these technologies. We also evaluated associations between openness and attitudes, beliefs, personality traits, and demographics. Parents (N = 804) reported mean openness to AI-driven technologies of M = 3.4/5, SD = 0.9. We identified seven concerns that parents considered important when evaluating these technologies: quality/accuracy, privacy, shared decision making, convenience, cost, human element of care, and social justice. In multivariable linear regression, parental openness was positively associated with quality (beta = 0.23), convenience (beta = 0.16), and cost (beta = 0.11), as well as faith in technology (beta = 0.23) and trust in health information systems (beta = 0.12). Parental openness was negatively associated with the perceived importance of shared decision making (beta = −0.16) and being female (beta = −0.12). Developers might support parental openness by addressing these concerns during the development and implementation of novel AI-driven technologies.
Transcriptional enhancers: from prediction to functional assessment on a genome-wide scale.

Enhancers are cis-regulatory sequences located distally to target genes. These sequences consolidate developmental and environmental cues to coordinate gene expression in a tissue-specific manner. Enhancer function and tissue specificity depend on the expressed set of transcription factors, which recognize binding sites and recruit cofactors that regulate local chromatin organization and gene transcription. Unlike other genomic elements, enhancers are challenging to identify because they function independently of orientation, are often distant from their promoters, have poorly defined boundaries and display no reading frame. In addition, there are no defined genetic or epigenetic features that are unambiguously associated with enhancer activity. Over recent years there have been developments in both empirical assays and computational methods for enhancer prediction. We review genome-wide tools, CRISPR advancements and high-throughput screening approaches that have improved our ability to both observe and manipulate enhancers in vitro at the level of primary genetic sequences, chromatin states and spatial interactions. We also highlight contemporary animal models and their importance to enhancer validation. Together, these experimental systems and techniques complement one another and broaden our understanding of enhancer function in development, evolution, and disease.
NOX2 deficiency prevents angiotensin II‐induced hypertrophy and inward remodeling in cerebral arterioles

We examined the role of NAD(P)H oxidase subunit NOX2 on structural alterations in cerebral arterioles induced by angiotensin II (Ang II). NOX2‐deficient (NOX2‐/‐) and wild‐type (WT) mice were infused with a pressor or a sub‐pressor dose of Ang II (1000 or 200 ng/kg/day) or saline via osmotic minipumps for 4 weeks. Systolic arterial pressure (SAP) was measured by a tail‐cuff method. Pressure and diameter of cerebral arterioles were measured via an open cranial window in anesthetized mice. In WT and NOX2‐/‐ mice, the pressor, but not the sub‐pressor, dose of Ang II increased SAP (135±5 vs 106±3 mmHg). Superoxide levels in cerebral arterioles (hydroethidine staining) were increased by both doses of Ang II in WT (staining density: 41±5 and 32±2 vs 18±5 %), but not in NOX2‐/‐ mice. The sub‐pressor, as well as the pressor, dose of Ang II significantly reduced external diameter of maximally dilated cerebral arterioles in WT mice (51±3 and 52±3 vs 58±2 μm at 30 mmHg), but not in NOX2‐/‐ mice. Cross‐sectional area (CSA) of the arteriolar wall was significantly increased in WT mice (497±58 vs 388±50 μm2) by the pressor, but not the sub‐pressor, dose of Ang II. In contrast, the pressor dose of Ang II did not increase CSA in NOX2‐/‐ mice. These findings suggest that generation of superoxide may play an important role in Ang II‐induced hypertrophy and inward remodeling in cerebral arterioles.
Amphibian Conservation Action Plan

Founded in 1948, The World Conservation Union brings together States, government agencies and a diverse range of non-governmental organizations in a unique world partnership: over 1,000 members in all, spread across some 140 countries. As a Union, IUCN seeks to influence, encourage and assist societies throughout the world to conserve the integrity and diversity of nature and to ensure that any use of natural resources is equitable and ecologically sustainable. The World Conservation Union builds on the strengths of its members, networks and partners to enhance their capacity and to support global alliances to safeguard natural resources at local, regional and global levels. The Species Survival Commission (SSC) is the largest of IUCN's six volunteer commissions with a global membership of 8,000 experts. SSC advises IUCN and its members on the wide range of technical and scientific aspects of species conservation and is dedicated to securing a future for biodiversity. SSC has significant input into the international agreements dealing with biodiversity conservation. The designation of geographical entities in this report, and the presentation of the material, do not imply the expression of any opinion whatsoever on the part of IUCN concerning the legal status of any country, territory, or area, or of its authorities, or concerning the delimitation of its frontiers or boundaries. The views expressed in this publication do not necessarily reflect those of IUCN. Reproduction of this publication for educational or other non-commercial purposes is authorized without prior written permission from the copyright holder provided the source is fully acknowledged. Reproduction of this publication for resale or other commercial purposes is prohibited without prior written permission of the copyright holder. Cover photo: Male Mallorcan midwife toad, Alytes muletensis, with eggs. As a result of a successful recovery program, this species was downlisted two categories from Critically Endangered to Vulnerable in 2005. The cover of this book is printed on ChorusArt silk, 80# cover, 50% recycled paper (15% post-consumer waste), FSC ™, and Elemental Chlorine Free. The text of this book is printed on Rolland Enviro™100, 70# text, 100% recycled paper (100% post-consumer waste), certified Ecologo, Processed Chlorine Free, FSC-Recycled ™, and manufactured using biogas energy. Extinction is inevitable—more than 99.9% of Earth's species are extinct (Raup 1991). David Raup went on to observe that " Extinction is a difficult research topic. No critical experiment can be performed, and inferences are all too often influenced by preconceptions based on …
Dibenzoylthiamine Has Powerful Antioxidant and Anti-Inflammatory Properties in Cultured Cells and in Mouse Models of Stress and Neurodegeneration

Thiamine precursors, the most studied being benfotiamine (BFT), have protective effects in mouse models of neurodegenerative diseases. BFT decreased oxidative stress and inflammation, two major characteristics of neurodegenerative diseases, in a neuroblastoma cell line (Neuro2a) and an immortalized brain microglial cell line (BV2). Here, we tested the potential antioxidant and anti-inflammatory effects of the hitherto unexplored derivative O,S-dibenzoylthiamine (DBT) in these two cell lines. We show that DBT protects Neuro2a cells against paraquat (PQ) toxicity by counteracting oxidative stress at low concentrations and increases the synthesis of reduced glutathione and NADPH in a Nrf2-independent manner. In BV2 cells activated by lipopolysaccharides (LPS), DBT significantly decreased inflammation by suppressing translocation of NF-κB to the nucleus. Our results also demonstrate the superiority of DBT over thiamine and other thiamine precursors, including BFT, in all of the in vitro models. Finally, we show that the chronic administration of DBT arrested motor dysfunction in FUS transgenic mice, a model of amyotrophic lateral sclerosis, and it reduced depressive-like behavior in a mouse model of ultrasound-induced stress in which it normalized oxidative stress marker levels in the brain. Together, our data suggest that DBT may have therapeutic potential for brain pathology associated with oxidative stress and inflammation by novel, coenzyme-independent mechanisms.