Miracle-dz/UniFAR-FTUs huggingface dataset:
Predictive value of Alberta stroke program early CT score for perfusion weighted imaging - diffusion weighted imaging mismatch in stroke with middle cerebral artery occlusion

Abstract This study aimed to quantitatively assess the consistency and correlation between perfusion weighted imaging (PWI)/ diffusion weighted imaging (DWI) Alberta Stroke Program Early CT Score (ASPECTS) mismatch and PWI/DWI mismatch. Sixty-eight acute ischemic stroke with middle cerebral artery occlusion who underwent magnetic resonance imaging before thrombectomy were eligible. DWI volume, PWI volume and PWI-DWI mismatch were measured. DWI-, PWI-, PWI-DWI ASPECTS were evaluated. Statistical analysis was performed to compare the correlation between volume and ASPECTS of DWI-, PWI- and PWI-DWI mismatch. Receiver operating characteristic curve analysis was used to assess the predictive value of the PWI-DWI ASPECTS mismatch for the occurrence of PWI-DWI mismatch in acute ischemic stroke patients with middle cerebral artery occlusion. Of 68 patients, the DWI volume, PWI volume and PWI-DWI mismatch volume were (27.76 ± 17.53) mL, (167.09 ± 59.64) mL and (139.33 ± 58.18) mL respectively. DWI-ASPECTS was 6.75 ± 1.90 with the interobserver agreement was κ=0.98 (95% CI, 0.95–0.99); PWI-ASPECTS was 3.09 ± 2.11 with the interobserver agreement was κ=0.95 (95% CI, 0.91–0.99); PWI-DWI ASPECTS mismatch was 6.75 ± 1.90. Spearman's rank correlation analysis revealed that PWI-DWI mismatch volume was negatively correlated with PWI-DWI ASPECTS mismatch (r = −0.802; P = .000). Receiver operating characteristic analysis showed that when the PWI-DWI ASPECTS mismatch cut point was ≥ 2, the under curve of PWI-DWI ASPECTS mismatch for predicting PWI-DWI mismatch was 0.954 (95%CI, 0.911–0.998), with the sensitivity and specificity were 84.00% and 100% respectively. PWI-DWI ASPECTS mismatch may represent a convenient surrogate for penumbra in clinical trials.
Cortical neuronal activity determines the dynamics of local sleep homeostasis

The homeostatic regulation of sleep manifests as a relative constancy of its total daily amount, and the compensation of sleep loss by an increase in its subsequent duration and intensity. Theoretical descriptions of this phenomenon define “Process S”, a variable with dynamics dependent only on sleep-wake history and whose levels are reflected in EEG slow wave activity. While numerous hypotheses have been advanced regarding the substrate and role of Process S, such as synaptic or energy homeostasis, it remains unclear whether these dynamics are fundamentally driven by a need to homeostatically regulate specific variables, or by an unknown innate process which enforces that a certain daily sleep quota is obtained. Sleep is typically defined based on brain-derived criteria, such as behaviour or EEG power spectra, and variation in brain activity during wakefulness has been linked to variation in Process S accumulation. We therefore hypothesised that Process S dynamics might be related to the quantity and characteristics of spiking activity in cortical neurones. Specifically, we assumed that Process S changes as a function of the deviation of neuronal firing rate from a locally defined set point. To relate these dynamics explicitly to patterns of spiking activity, we incorporated the occurrence of network spiking off periods as both the defining measure of Process S and as the determinant of its rate of decay. This approach was able to describe the time course of Process S, crucially without explicit knowledge of the animal’s global sleep-wake state. This work provides a conceptual advance in our understanding of the substrate of sleep homeostasis and provides important links between local and global aspects of sleep regulation.
Polynucleotide phosphorylase and RNA helicase CshA cooperate in Bacillus subtilis mRNA decay

ABSTRACT Polynucleotide phosphorylase (PNPase), a 3ʹ exoribonuclease that degrades RNA in the 3ʹ-to-5ʹ direction, is the major mRNA decay activity in Bacillus subtilis. PNPase is known to be inhibited in vitro by strong RNA secondary structure, and rapid mRNA turnover in vivo is thought to require an RNA helicase activity working in conjunction with PNPase. The most abundant RNA helicase in B. subtilis is CshA. We found for three small, monocistronic mRNAs that, for some RNA sequences, PNPase processivity was unimpeded even without CshA, whereas others required CshA for efficient degradation. A novel colour screen for decay of mRNA in B. subtilis was created, using mRNA encoded by the slrA gene, which is degraded from its 3ʹ end by PNPase. A significant correlation between the predicted strength of a stem-loop structure, located in the body of the message, and PNPase processivity was observed. Northern blot analysis confirmed that PNPase processivity was greatly hindered by the internal RNA structure, and even more so in the absence of CshA. Three other B. subtilis RNA helicases did not appear to be involved in mRNA decay during vegetative growth. The results confirm the hypothesis that efficient 3ʹ exonucleolytic decay of B. subtilis RNA depends on the combined activity of PNPase and CshA.
Perlawanan Rakyat Aceh Terhadap Belanda Dalam Karya Sastra Aceh Hikayat Teungku Di Meukek: Tinjauan Poskolonial

Hikayat Teungku di Meukek adalah sebuah teks sastra Aceh yang menukilkan berbagai peristiwa sejarah dan penuh dengan pesan sosial dan politik. Wacana yang diungkapkan cukup relevan kepada para pembaca kolonial yang berpegang kepada perspektif orientalisme, dan juga pada pembaca pribumi kini yang berpegang pada perspektif poskolonialisme. Tulisan ini menjelaskan tentang pengaruh kolonial dalam hikayat tersebut. Naskah Hikayat Teungku di Meukek ini merupakan salah satu naskah lama yang isinya menggambarkan perlawanan rakyat yang digerakkan oleh seorang pemimpin agama terhadap Uleebalang di daerah Meulaboh yang didukung oleh Belanda. Hikayat ini ditulis untuk mengabadikan persengkataan antara kedua belah pihak tersebut, dan untuk melihat bagaimana perlawanan masyarakat terhadap pihak kolonial. Dari karya sastra tersebut bisa kita lihat adanya pengaruh kekuasaan dalam hikayat ini pada masyarakat Aceh dulu. Dalam tulisan ini dapat dilihat adanya pendekatan poskolonial dalam pengkajian sastra, karena kritik poskolonial menganalisis karya-karya yang diproduksi oleh masyarakat dan budaya sebagai respon terhadap dominasi kolonial dari masa kolonialisme sampai sekarang.
Membrane synthesis in Escherichia coli is coordinated with growth via post-translational regulation

Abstract Every growing cell must produce enough membrane to contain itself. However, the mechanisms by which cells couple the rate of membrane synthesis with the rate of growth remain unresolved. By measuring precursors, intermediates, and enzymes of the fatty acid and phospholipid synthesis pathways of Escherichia coli during steady-state growth, we find that while transcriptional regulation maintains membrane synthesis capacity at a stable level, the actual rate of phospholipid synthesis is mediated by allosteric control of a single enzyme (PlsB). PlsB activity also strongly influences flux into the synthesis pathway of lipopolysaccharide, the second-most abundant membrane component in Gram negative bacteria. Furthermore, we find that membrane synthesis rates are highly sensitive to changes in fatty acid precursor concentrations, enabling rapid responses to environmental perturbations. Such responses are modulated by the global regulator ppGpp, which we hypothesize acts as an emergency brake on PlsB activity to prevent imbalances between membrane synthesis and synthesis of lipoproteins that tether the outer membrane to the cell. The combination of dynamic post-translational regulation with maintenance of stable synthesis capacity ensures both robustness and responsiveness of bacterial membrane synthesis during growth.
Allergic reactions to the first COVID‐19 vaccine: A potential role of polyethylene glycol?

The COVID-19 vaccine developed by Pfizer and BioNTech was approved by the Medicines and Healthcare Products Regulatory Agency (MHRA) in the United Kingdom (UK) on December 2nd 2020.1 MHRA is therefore the first regulator agency in the world to approve a vaccine to prevent coronavirus disease (COVID-19), which is caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), a virus that is responsible for a global pandemic.
Improvement of Unsaturated Fatty Acid Production from Porphyridium cruentum Using a Two-Phase Culture System in a Photobioreactor with Light-Emitting Diodes (LEDs)

In this study, the culture conditions for Porphyridium cruentum were optimized to obtain the maximum biomass and lipid productions. The eicosapentaenoic acid content was increased by pH optimization. P. cruentum was cultured with modified F/2 medium in 14-L photobioreactors using a two-phase culture system, in which the green (520 nm) and red (625 nm) light-emitting diodes (LEDs) were used during the first and second phases for biomass production and lipid production, respectively. Various parameters, including aeration rate, light intensity, photoperiod, and pH were optimized. The maximum biomass concentration of 0.91 g dcw/l was obtained with an aeration rate of 0.75 vvm, a light intensity of 300 μmol m-2s-1, and a photoperiod of 24:0 h. The maximum lipid production of 51.8% (w/w) was obtained with a light intensity of 400 μmol m-2s-1 and a photoperiod of 18:6 h. Additionally, the eicosapentaenoic acid and unsaturated fatty acid contents reached 30.6% to 56.2% at pH 6.0.
Porous Film Coating Enabled by Polyvinyl Pyrrolidone (PVP) for Enhanced Air Permeability of Fabrics: The Effect of PVP Molecule Weight and Dosage

This study developed a versatile and facile method for creating pores and tuning the porous structure in the polymer latex films by selectively etching the added functional polyvinyl pyrrolidone (PVP) molecules. The pore formed in the latex films had a similar morphology to that of PVP aggregation before etching. This observation promotes us to regulate the pore morphology that determines the film’s property, such as air permeability through varying the PVP molecule weight and dosage. To this end, the effects of PVP molecule weight and dosage on the pore formation were systematically studied. The results showed that the average pore size of porous film decreased from >10 μm to sub-micron (about 0.4 μm) as the molecular weight or the dosage of PVP increased. This was ascribed to the strong adsorption affinity of PVP molecule onto the latex particle surface, which further hindered the diffusion and self-assembly of PVP molecule. In addition, this interaction became much stronger when the higher molecule weight of PVP or the higher dosage of PVP was employed, leading to the decreased size of PVP aggregation, as well as the formed pores in the latex films. Furthermore, the addition of PVP had little effect on the color of coated fabric based on the results of CIE L*a*b* measurement. The proposed facile method can be used to improve the air permeability of coated fabrics.
Spent Coffee Grounds Alter Bacterial Communities in Latxa Dairy Ewes

Antimicrobial and antioxidant properties of spent coffee grounds (SCG) make them a potential ingredient in a diet for ruminants. This study investigated the effects of SCG on rumen microbiota. For 51 days, 36 dairy ewes were assigned to the experimental treatments (0, 30, 50, and 100 g SCG/kg). Ruminal samples were collected on day 50. DNA was extracted and subjected to paired-end Illumina sequencing of the V3-V4 hypervariable region of the 16S rRNA genes. Bioinformatic analyses were performed using QIIME (v.1.9.0). SCG increased dose-dependently bacterial diversity and altered bacterial structure. Further, 60, 78, and 449 operational taxonomic unit (OUT) were different between control and 30, 50 and 100 g/kg SCG groups, respectively. Higher differences were observed between the control and 100 g/kg SCG group, where OTU of the genera Treponema, CF231, Butyrivibrio, BF331, Anaeroplasma, Blautia, Fibrobacter, and Clostridium were enriched with SCG. Correlations between volatile fatty acids (VFA) and bacterial taxa were sparser in the SCG groups and had little overlap. Certain bacterial taxa presented different signs of the correlation with VFA in SCG and control groups, but Butyrivibrio and Blautia consistently correlated with branched-chain VFA in all groups. SCG induced shifts in the ruminal bacterial community and altered the correlation networks among bacterial taxa and ruminal VFA.
Short-Term Effects of Different Types of Anti-Glaucoma Eyedrop on the Sclero-Conjunctival Vasculature Assessed Using Anterior Segment OCTA in Normal Human Eyes: A Pilot Study

Background: To investigate the short-term effects of different types of anti-glaucoma eyedrop on sclero-conjunctival vasculatures and their associations with intraocular pressure (IOP) reduction. Methods: This was a prospective study including 20 healthy subjects. A single instillation of ripasudil or bimatoprost was introduced into the right eyes of the participants. The superficial (conjunctival) and deep (intrascleral) vasculatures of the corneal limbus using anterior-segment optical coherence tomography angiography (OCTA) and IOP were examined in both eyes at baseline and 15 min and 2 h after instillation. Results: In the ripasudil group, the vessel density (VD) (median) at baseline (deep, 13.1%; superficial, 28.5%) significantly increased in both layers at 15 min (deep, 19.9%; superficial, 37.3%) and the deep layer at 2 h (deep, 14.8%; superficial, 31.6%). In the bimatoprost group, the superficial VD significantly changed over time, but the deep VD did not. The greater effect of ripasudil on IOP reduction was significantly associated with a lower baseline VD in the deep layer (at 15 min, p = 0.004; at 2 h, p = 0.018). Conclusions: Differences in the timing, depth, and extent of the effects on vasculature after instillations, could be detected using OCTA. The IOP-lowering effects of ripasudil might be associated with the deep vasculature.
Nano-Based Theranostic Tools for the Detection and Elimination of Senescent Cells

The progressive accumulation of apoptosis-resistant and secretory active senescent cells (SCs) in animal and human aged tissues may limit lifespan and healthspan and lead to age-related diseases such as cancer, neurodegenerative disorders, and metabolic syndrome. Thus, SCs are suggested targets in anti-aging therapy. In the last two decades, a number of nanomaterials have gained much attention as innovative tools in theranostic applications due to their unique properties improving target visualization, drug and gene delivery, controlled drug release, effective diagnosis, and successful therapy. Although the healthcare industry has focused on a plethora of applications of nanomaterials, it remains elusive how nanomaterials may modulate cellular senescence, a hallmark of aging. In this review paper, we consider novel nanotechnology-based strategies for healthspan promotion and the prevention of age-related dysfunctions that are based on the delivery of therapeutic compounds capable to preferentially killing SCs (nano-senolytics) and/or modulating a proinflammatory secretome (nano-senomorphics/nano-senostatics). Recent examples of SC-targeted nanomaterials and the mechanisms underlying different aspects of the nanomaterial-mediated senolysis are presented and discussed.
Function and Molecular Ecology Significance of Two Catechol-Degrading Gene Clusters in Pseudomonas putida ND6

Many bacteria metabolize aromatic compounds via catechol as a catabolic intermediate, and possess multiple genes or clusters encoding catechol-cleavage enzymes. The presence of multiple isozyme-encoding genes is a widespread phenomenon that seems to give the carrying strains a selective advantage in the natural environment over those with only a single copy. In the naphthalene-degrading strain Pseudomonas putida ND6, catechol can be converted into intermediates of the tricarboxylic acid cycle via either the ortho- or meta-cleavage pathways. In this study, we demonstrated that the catechol ortho-cleavage pathway genes (catBICIAI and catBIICIIAII) on the chromosome play an important role. The catI and catII operons are co-transcribed, whereas catAI and catAII are under independent transcriptional regulation. We examined the binding of regulatory proteins to promoters. In the presence of cis-cis-muconate, a well-studied inducer of the cat gene cluster, CatRI and CatRII occupy an additional downstream site, designated as the activation binding site. Notably, CatRI binds to both the catI and catII promoters with high affinity, while CatRII binds weakly. This is likely caused by a T to G mutation in the G/T-N11-A motif. Specifically, we found that CatRI and CatRII regulate catBICIAI and catBIICIIAII in a cooperative manner, which provides new insights into naphthalene degradation.
Combined proteomic and lipidomic studies in Pompe disease allow a better disease mechanism understanding

Pompe disease (PD) is caused by deficiency of the enzyme acid α‐glucosidase resulting in glycogen accumulation in lysosomes. Clinical symptoms include skeletal myopathy, respiratory failure, and cardiac hypertrophy. We studied plasma proteomic and lipidomic profiles in 12 PD patients compared to age‐matched controls. The proteomic profiles were analyzed by nLC‐MS/MS SWATH method. Wide‐targeted lipidomic analysis was performed by LC‐IMS/MS, allowing to quantify >1100 lipid species, spanning 13 classes. Significant differences were found for 16 proteins, with four showing the most relevant changes (GPLD1, PON1, LDHB, PKM). Lipidomic analysis showed elevated levels of three phosphatidylcholines and of the free fatty acid 22:4, and reduced levels of six lysophosphatidylcholines. Up‐regulated glycolytic enzymes (LDHB and PKM) are involved in autophagy and glycogen metabolism, while down‐regulated PON1 and GPLD1 combined with lipidomic data indicate an abnormal phospholipid metabolism. Reduced GPLD1 and dysregulation of lipids with acyl‐chains characteristic of GPI‐anchor structure suggest the potential involvement of GPI‐anchor system in PD. Results of proteomic analysis displayed the involvement of multiple cellular functions affecting inflammatory, immune and antioxidant responses, autophagy, Ca2+‐homeostasis, and cell adhesion. The combined multi‐omic approach revealed new biosignatures in PD, providing novel insights in disease pathophysiology with potential future clinical application.
Feasibility and Validity of a Framework for Antimicrobial Stewardship in General Practice: Key Stakeholder Interviews

There is little guidance about developing systems for antimicrobial stewardship (AMS) for general practice. A literature review identified six key components: governance, monitoring of antibiotic prescribing and resistance with feedback to prescribers, consultation support, education of the public and general practitioners, pharmacist and nurse involvement, and research, which were incorporated into a potential framework for the general practice context. Objectives: to determine the feasibility and validity of the proposed AMS framework. A secondary objective was to identify likely bodies responsible for implementation in Australia. We undertook interviews with 12 key stakeholders from government, research, and professional groups. Data were analysed with a thematic approach. The framework was considered valid and feasible. No clear organisation was identified to lead AMS implementation in general practice. The current volume-based antibiotic prescription monitoring system was considered insufficient. AMS education for the public, further development of GP education, and improved consultation support were strongly recommended. The role of community-based pharmacists and nurses is largely unexplored, but their involvement was recommended. A clear leader to drive AMS in general practice is essential for an action framework to gain traction. Monitoring and feedback of antibiotic prescribing require urgent development to include monitoring of prescribing appropriateness and patient outcomes.
In Vitro Evaluation of Pro- and Antioxidant Effects of Flavonoid Tricetin in Comparison to Myricetin

Flavonoids are rather common plant phenolic constituents that are known for potent antioxidant effects and can be beneficial for human health. Flavonoids with a pyrogallol moiety are highly efficient reducing agents with possible pro- and antioxidant effects, depending on the reaction milieu. Therefore, the redox properties of myricetin and tricetin were investigated by differential pulse voltammetry and deoxyribose degradation assay. Tricetin proved to be a good antioxidant but only showed negligible pro-oxidant activity in one of the deoxyribose degradation assay variants. Compared to tricetin, myricetin showed pro- and antioxidant effects. The more efficient reducing properties of myricetin are probably caused by the positive mesomeric effect of the enolic 3-hydroxy group on ring C. It is evident that the antioxidant properties of structurally similar flavonoids can be converted to apparent pro-oxidant effects by relatively small structural changes, such as hydroxylation. Since reactive oxygen species (ROS) often serve as secondary messengers in pathological and physiological processes in animal and plant cells, the pro- and antioxidant properties of flavonoids are an important part of controlling mechanisms of tissue signal cascades.
Overexpression of a Poplar RING-H2 Zinc Finger, Ptxerico, Confers Enhanced Drought Tolerance via Reduced Water Loss and Ion Leakage in Populus

Drought stress is one of the major environmental problems in the growth of crops and woody perennials, but it is getting worse due to the global climate crisis. XERICO, a RING (Really Interesting New Gene) zinc-finger E3 ubiquitin ligase, has been shown to be a positive regulator of drought tolerance in plants through the control of abscisic acid (ABA) homeostasis. We characterized a poplar (Populus trichocarpa) RING protein family and identified the closest homolog of XERICO called PtXERICO. Expression of PtXERICO is induced by both salt and drought stress, and by ABA treatment in poplars. Overexpression of PtXERICO in Arabidopsis confers salt and ABA hypersensitivity in young seedlings, and enhances drought tolerance by decreasing transpirational water loss. Consistently, transgenic hybrid poplars overexpressing PtXERICO demonstrate enhanced drought tolerance with reduced transpirational water loss and ion leakage. Subsequent upregulation of genes involved in the ABA homeostasis and drought response was confirmed in both transgenic Arabidopsis and poplars. Taken together, our results suggest that PtXERICO will serve as a focal point to improve drought tolerance of woody perennials.
Asparagine Endopeptidase (δ Secretase), an Enzyme Implicated in Alzheimer’s Disease Pathology, Is an Inhibitor of Axon Regeneration in Peripheral Nerves

Abstract Asparagine endopeptidase (AEP) is a lysosomal protease implicated in the pathology of Alzheimer’s disease (AD). It is known to cleave the axonal microtubule associated protein, Tau, and amyloid precursor protein (APP), both of which might impede axon regeneration following peripheral nerve injury (PNI). Active AEP, AEP-cleaved fragments of Tau (Tau N368), and APP (APP N585) were found in injured peripheral nerves. In AEP null mice, elongation of regenerating axons after sciatic nerve transection and repair was increased relative to wild-type (WT) controls. Compound muscle action potentials (M responses) were restored in reinnervated muscles twice as fast after injury in AEP knock-out (KO) mice as WT controls. Neurite elongation in cultures of adult dorsal root ganglion (DRG) neurons derived from AEP KO mice was increased significantly relative to cultures from WT controls. In AEP KO mice exposed to 1 h of 20-Hz electrical stimulation (ES) at the time of nerve injury, no further enhancement of axon regeneration was observed. These findings support inhibition of AEP as a therapeutic target to enhance axon regeneration after PNI.