Miracle-dz/UniFAR-FTUs huggingface dataset:
Structural Determinants and Their Role in Cyanobacterial Morphogenesis

Cells have to erect and sustain an organized and dynamically adaptable structure for an efficient mode of operation that allows drastic morphological changes during cell growth and cell division. These manifold tasks are complied by the so-called cytoskeleton and its associated proteins. In bacteria, FtsZ and MreB, the bacterial homologs to tubulin and actin, respectively, as well as coiled-coil-rich proteins of intermediate filament (IF)-like function to fulfil these tasks. Despite generally being characterized as Gram-negative, cyanobacteria have a remarkably thick peptidoglycan layer and possess Gram-positive-specific cell division proteins such as SepF and DivIVA-like proteins, besides Gram-negative and cyanobacterial-specific cell division proteins like MinE, SepI, ZipN (Ftn2) and ZipS (Ftn6). The diversity of cellular morphologies and cell growth strategies in cyanobacteria could therefore be the result of additional unidentified structural determinants such as cytoskeletal proteins. In this article, we review the current advances in the understanding of the cyanobacterial cell shape, cell division and cell growth.
Molecular rationale for antibody-mediated targeting of the hantavirus fusion glycoprotein

The intricate lattice of Gn and Gc glycoprotein spike complexes on the hantavirus envelope facilitates host-cell entry and is the primary target of the neutralizing antibody-mediated immune response. Through study of a neutralizing monoclonal antibody termed mAb P-4G2, which neutralizes the zoonotic pathogen Puumala virus (PUUV), we provide a molecular-level basis for antibody-mediated targeting of the hantaviral glycoprotein lattice. Crystallographic analysis demonstrates that P-4G2 binds to a multi-domain site on PUUV Gc and may preclude fusogenic rearrangements of the glycoprotein that are required for host-cell entry. Furthermore, cryo-electron microscopy of PUUV-like particles in the presence of P-4G2 reveals a lattice-independent configuration of the Gc, demonstrating that P-4G2 perturbs the (Gn-Gc)4 lattice. This work provides a structure-based blueprint for rationalizing antibody-mediated targeting of hantaviruses.
The Regulation of Astrocytic Glutamate Transporters in Health and Neurodegenerative Diseases

The astrocytic glutamate transporters excitatory amino acid transporters 1 and 2 (EAAT1 and EAAT2) play a key role in nervous system function to maintain extracellular glutamate levels at low levels. In physiology, this is essential for the rapid uptake of synaptically released glutamate, maintaining the temporal fidelity of synaptic transmission. However, EAAT1/2 hypo-expression or hypo-function are implicated in several disorders, including epilepsy and neurodegenerative diseases, as well as being observed naturally with aging. This not only disrupts synaptic information transmission, but in extremis leads to extracellular glutamate accumulation and excitotoxicity. A key facet of EAAT1/2 expression in astrocytes is a requirement for signals from other brain cell types in order to maintain their expression. Recent evidence has shown a prominent role for contact-dependent neuron-to-astrocyte and/or endothelial cell-to-astrocyte Notch signalling for inducing and maintaining the expression of these astrocytic glutamate transporters. The relevance of this non-cell-autonomous dependence to age- and neurodegenerative disease-associated decline in astrocytic EAAT expression is discussed, plus the implications for disease progression and putative therapeutic strategies.
Regional differences in socioeconomic trends: The spatiotemporal evolution from individual cities to a megacity region over a long time series

Regional differences in socioeconomic factors are important for assessing the regional development of an area. While much research has focused on the overall patterns of regional differences within independent cities and areas, the hierarchical spatiotemporal structures of megacity regions have seldom been discussed. To fill this gap, this paper investigates the multilevel regional differences within megacity regions. Employing GDP, population and total retail sales as socioeconomic indicators, the spatiotemporal patterns of socioeconomic trends are identified. A hierarchical clustering approach that utilizes socioeconomic similarities is proposed for the identification of the spatiotemporal patterns of individual cities. At the megacity regional level, gravity centers and pathways are constructed to evaluate spatial imbalances and temporal change intensities. Taking the Guangdong-Hong Kong-Macao Greater Bay Area (GBA) as its study area, this research produces results that show diverse spatiotemporal patterns among the individual cities, revealing high/low starting point and high/low growth rate modes in terms of city interactions. From the perspective of the entire GBA, the spatial imbalance of GDP is the highest of the factors, followed by the spatial imbalance of the total retail sales of the region and, finally, by that of its population. Total retail sales exhibit the highest level of temporal change intensity, followed by GDP and population. In terms of the contribution of the various cities to the overall regional changes, Guangzhou, Shenzhen and Hong Kong dominate the spatiotemporal changes in the gravity centers, while Foshan and Dongguan show significant potential to contribute to these socioeconomic patterns. These results provide effective guidance for the sustainable development of megacity regions.
The Mechanochemical Reaction of Palladium(II) Chloride with a Bidentate Phosphine

This experiment describes the reaction of palladium(II) chloride with 1,5-bis(diphenylphosphino)pentane by grinding the two powders together in the solid state. The product is the precursor for the metalation reaction at one of the methylene carbon atoms of the ligand’s backbone. The final product is known to be a catalyst for Suzuki−Miyaura coupling. Interesting NMR spectra combine with the example of a mechanical synthesis and a reflux under nitrogen to make this a useful upper-level undergraduate inorganic experiment.
Optical Absorption and Scattering Properties at 900–1650 nm and Their Relationships with Soluble Solid Content and Soluble Sugars in Apple Flesh during Storage

Soluble solid content (SSC) is regarded as the most significant internal quality associated with the taste and maturity in fruits. Evaluating the relationship between the optical properties and soluble sugars facilitates exploration of the mechanism of optical techniques in SSC assessment. In this research, absorption coefficient (μa) and reduced scattering coefficient (μ′s) of Fuji apple during storage were obtained using automatic integrating sphere (AIS) at 905–1650 nm. Relationships between μa, μ′s and SSC, and soluble sugars contents, were investigated. The result showed that SSC, the content of total soluble sugars (TSS), fructose, glucose and sucrose were all decreasing after storage, and the same trend appeared in the change of μa and μ′s. In the whole wavelength range, both μa and μ′s were positively related to SSC and soluble sugars contents. The correlations between μa and SSC, and soluble sugars contents, showed increasing tendencies with increasing wavelengths, while for μ′s, correlations had the opposite trend. The strongest correlations between μa and SSC, and soluble sugars contents, were observed in the correlation of μa with sucrose, with an r of 0.934. Furthermore, a partial least square (PLS) model for sucrose based on μa was built with the coefficient of determination of prediction (Rp2) and the root mean square error of prediction (RMSEP) of 0.851 and 1.047, respectively. The overall results demonstrate that optical properties at the range of 905–1650 nm could be used to evaluate SSC of apples and this may due to the strong correlation between sucrose content and μa.
Severe Human Bocavirus–Associated Pneumonia in Adults at a Referral Hospital, Seoul, South Korea

We report a case series of severe human bocavirus–associated pneumonia in adults in Seoul, South Korea. The virus accounted for 0.5% of all severe pneumonia cases. Structural lung disease and hematologic malignancy were common underlying diseases. Overall death rate was 54.5%. Higher death rates were associated with co-infection (83.3%) and immunocompromise (80.0%).
Metabolomic study of marine Streptomyces sp.: Secondary metabolites and the production of potential anticancer compounds

Resorting to a One Strain Many Compounds (OSMAC) approach, the marine Streptomyces sp. BRB081 strain was grown in six different media settings over 1, 2, 3 or 7 days. Extractions of mycelium and broth were conducted separately for each media and cultivation period by sonication using methanol/acetone 1:1 and agitation with ethyl acetate, respectively. All methanol/acetone and ethyl acetate crude extracts were analysed by HPLC-MS/MS and data treatment was performed through GNPS platform using MZmine 2 software. In parallel, the genome was sequenced, assembled and mined to search for biosynthetic gene clusters (BGC) of secondary metabolites using the AntiSMASH 5.0 software. Spectral library search tool allowed the annotation of desferrioxamines, fatty acid amides, diketopiperazines, xanthurenic acid and, remarkably, the cyclic octapeptides surugamides. Molecular network analysis allowed the observation of the surugamides cluster, where surugamide A and the protonated molecule corresponding to the B-E isomers, as well as two potentially new analogues, were detected. Data treatment through MZmine 2 software allowed to distinguish that the largest amount of surugamides was obtained by cultivating BRB081 in SCB medium during 7 days and extraction of culture broth. Using the same data treatment, a chemical barcode was created for easy visualization and comparison of the metabolites produced overtime in all media. By genome mining of BRB081 four regions of biosynthetic gene clusters of secondary metabolites were detected supporting the metabolic data. Cytotoxic evaluation of all crude extracts using MTT assay revealed the highest bioactivity was also observed for extracts obtained in the optimal conditions as those for surugamides production, suggesting these to be the main active compounds herein. This method allowed the identification of compounds in the crude extracts and guided the selection of best conditions for production of bioactive compounds.
Phenanthro[9,10-d]imidazole as a new building block for blue light emitting materials

The blue light emitting compound, BPPI, based on a phenanthro[9,10-d]imidazole group, is prepared by a facial synthetic process and exhibits excellent thermal stability, highly efficient fluorescence and balanced carrier injection. The double-layered device based on BPPI shows a higher maximum luminance and a lower turn-on voltage than the multi-layered one with an independent electron injection layer. The results suggest that the phenanthroimidazole unit is an excellent building block for tuning the carrier injection properties as well as blue emission.
Simulation-Based Ultrasound Training in Obstetrics and Gynecology: A Systematic Review and Meta-Analysis

Abstract Objective The purpose of this systematic review and meta-analysis was to examine the effects of simulation-based ultrasound training (SIM-UT) in obstetrics and gynecology compared to non-SIM-UT on trainee learning, clinical performance, patient-relevant outcomes, and cost of training. Methods A systematic search was performed in June 2019 in PubMed, Embase, and Scopus using search terms for the topic and the intervention as well as certain MESH terms. Inclusion criteria were defined in accordance with the PICO question. Studies published in any language involving SIM-UT in obstetrics and gynecology compared to non-SIM-UT or no training were included. The outcomes included effects on health care provider learning and clinical performance, patient-relevant outcomes, and cost of training. Two authors evaluated the study quality with the MERSQI instrument and the Oxford Quality Scoring System. A meta-analysis was planned for the included randomized controlled trials. Results 15 studies were included, and 11 studies were eligible for meta-analysis. SIM-UT was significantly superior to clinical training only and theoretical teaching with standard mean differences (SMD) of 0.84 (0.08–1.61) and 1.20 (0.37–2.04), respectively. However, SIM-UT was not superior to live model training; SMD of 0.65 (–3.25–4.55). Of all studies included in the meta-analysis, 91 % favored SIM-UT over clinical training alone, theoretical teaching, or in some cases live model training. Conclusion In the field of obstetrics and gynecology, SIM-UT in addition to clinical training markedly improves trainee learning, clinical performance, as well as patient-perceived quality of care.
Fatty Acid Composition and Volatile Profile of M. longissimus thoracis from Commercial Lambs Reared in Different Forage Systems

Animal production factors can affect the fatty acid and volatile profile of lamb meat. The fatty acid and volatile composition of the M. longissimus thoracis was evaluated from 150 lambs from 10 groups of commercial lambs that differed in age, sex, diet and breed, from three farms, which represent typical forage lamb production systems in New Zealand. The meat from 4-month-old composite lambs slaughtered at weaning had a similar polyunsaturated to saturated fatty acid ratio compared to 6- to 8-month-old composite lambs, but a greater ratio than that of 12-month-old Merino lambs (p < 0.05), with all ratios being lower than the recommended ≥0.45. All lamb production systems produced meat with an omega-6 to omega-3 ratio below 1.5, well below the recommended ratio ≤ 4.0. Meat from 4-month-old lambs had higher C12:0, C14:0 and C16:0 and lower C18:0, reflecting the composition of the milk diet, resulting in higher atherogenic index than meat from other animal groups, while meat from 12-month-old Merino lambs, with lower content of polyunsaturated fatty acids, showed higher thrombogenic index. Meat from lambs processed at weaning contained the greatest concentration of eicosapentaenoic and docosahexaenoic acids, which would qualify as a ‘source’ or ‘good source’ of these target fatty acids based on the Commission of Regulation of the European Union or the Food Standards Australia New Zealand guidelines, respectively. Volatiles were extracted from the headspace of raw lean meat and 36 volatile compounds were identified. The abundance of carbon disulphide, isododecane, heptanal, 2,5-hexanediol and 3-octanone and pentanoic, octanoic, nonanoic and heptanoic acids was similar between all groups of lambs. Meat from 12-month-old Merino lambs had low abundance of acetic, propanoic, butanoic and hexanoic acids, and hexanal, octanal and dimethyl sulphide. For 6- to 8-month-old composite lambs, hexanal, octanal and nonanal were present at higher relative abundance in meat from lambs that grazed on chicory than perennial ryegrass. The significant differences in the fatty acid and volatile profiles in meat from 12-month-old Merino lambs compared with lambs slaughtered at weaning or further grazed on red clover, chicory or mixed pasture may result in distinctive nutritional value and lamb flavour.
Modified Serum ALP Values and Timing of Apparition of Knee Epiphyseal Ossification Centers in Preterm Infants with Cholestasis and Risk of Concomitant Metabolic Bone Disease of Prematurity

The usefulness of serum alkaline phosphatase (ALP) and phosphorous in screening and monitoring of metabolic bone disease of prematurity (MBDP) still has some limitations, especially in preterm infants with concomitant conditions such as cholestasis. We aimed to assess a modification of serum ALP (M-ALP) as a biomarker for MBDP in preterm infants, and the use of ultrasound monitoring for the apparition of knee ossification centers as marker of bone mineralization. Biochemical and clinical registers were taken from 94 preterm newborns <32 weeks. A significant correlation existed between serum ALP and direct bilirubin (DB), expressed by the regression equation: M-ALP (IU/L) = 302.1 + 96.9 (DB (mg/dL)). The ratio ALP/M-ALP > 1 was demonstrated to be more specific (87.5%) in the diagnosis of MBDP than the cut-off value of serum ALP > 500 IU/L (62.5%). ALP/M-ALP > 1 showed 100% sensitivity and specificity for the diagnosis of MBDP, and a good correlation with specific bone ALP (B-ALP). Patients with the knee nucleus by post-menstrual week 37 had lower B-ALP compared to patients with no nucleus, and no patients with MBDP presented the nucleus by the 40th week. In the absence of reliable specific B-ALP, reinterpreting serum ALP values by M-ALP plus monitoring of knee ossification centers contribute to better management of MBDP in preterm infants with cholestasis.
Marked point process representation of oscillatory dynamics underlying working memory

Objective. Computational models of neural activity at the meso-scale suggest the involvement of discrete oscillatory bursts as constructs of cognitive processing during behavioral tasks. Classical signal processing techniques that attempt to infer neural correlates of behavior from meso-scale activity employ spectral representations of the signal, exploiting power spectral density techniques and time–frequency (T–F) energy distributions to capture band power features. However, such analyses demand more specialized methods that incorporate explicitly the concepts of neurophysiological signal generation and time resolution in the tens of milliseconds. This paper focuses on working memory (WM), a complex cognitive process involved in encoding, storing and retrieving sensory information, which has been shown to be characterized by oscillatory bursts in the beta and gamma band. Employing a generative model for oscillatory dynamics, we present a marked point process (MPP) representation of bursts during memory creation and readout. We show that the markers of the point process quantify specific neural correlates of WM. Approach. We demonstrate our results on field potentials recorded from the prelimbic and secondary motor cortices of three rats while performing a WM task. The generative model for single channel, band-passed traces of field potentials characterizes with high-resolution, the timings and amplitudes of transient neuromodulations in the high gamma (80–150 Hz, γ) and beta (10–30 Hz, β) bands as an MPP. We use standard hypothesis testing methods on the MPP features to check for significance in encoding of task variables, sensory stimulus and executive control while comparing encoding capabilities of our model with other T–F methods. Main Results. Firstly, the advantages of an MPP approach in deciphering encoding mechanisms at the meso-scale is demonstrated. Secondly, the nature of state encoding by neuromodulatory events is determined. Third, we demonstrate the necessity of a higher time resolution alternative to conventionally employed T–F methods. Finally, our results underscore the novelty in interpreting oscillatory dynamics encompassed by the marked features of the point process. Significance. An MPP representation of meso-scale activity not just enables a rich, high-resolution parameter space for analysis but also presents a novel tool for diverse neural applications.
Application of Safirinium N-Hydroxysuccinimide Esters to Derivatization of Peptides for High-Resolution Mass Spectrometry, Tandem Mass Spectrometry, and Fluorescent Labeling of Bacterial Cells

Mass spectrometry methods are commonly used in the identification of peptides and biomarkers. Due to a relatively low abundance of proteins in biological samples, there is a need for the development of novel derivatization methods that would improve MS detection limits. Hence, novel fluorescent N–hydroxysuccinimide esters of dihydro-[1,2,4]triazolo[4,3-a]pyridin-2-ium carboxylates (Safirinium P dyes) have been synthesized. The obtained compounds, which incorporate quaternary ammonium salt moieties, easily react with aliphatic amine groups of peptides, both in solution and on the solid support; thus, they can be applied for derivatization as ionization enhancers. Safirinium tagging experiments with ubiquitin hydrolysate revealed that the sequence coverage level was high (ca. 80%), and intensities of signals were enhanced up to 8-fold, which proves the applicability of the proposed tags in the bottom–up approach. The obtained results confirmed that the novel compounds enable the detection of trace amounts of peptides, and fixed positive charge within the tags results in high ionization efficiency. Moreover, Safirinium NHS esters have been utilized as imaging agents for fluorescent labeling and the microscopic visualization of living cells such as E. coli Top10 bacterial strain.
Nocturia and electrocardiographic abnormalities among patients at an inner‐city cardiology clinic

Nocturia has been increasingly recognized as a potential manifestation of cardiovascular disease. However, the relationship between nocturia and electrocardiographic (ECG) abnormalities has not been studied. This study aims to characterize the diagnostic utility of nocturia in identifying left ventricular hypertrophy (LVH), left atrial enlargement (LAE), and prolonged QTc on ECG.
On the bismuth composition dependent concentration of arsenic atoms during LPE growth of GaAs layers from Ga-As-Bi solution

The concentration of arsenic atoms from Ga + Bi mixed solvent has been calculated in the range of 0.4 to 100 at% of bismuth for different saturation temperatures corresponding to the cooling rates of 0.32, 1 and l0 K min -1 at a constant equilibrium temperature of 1023 K using appropriate boundary conditions. It has been observed that the thickness of the epitaxial layer for 0 to 20% of bismuth has been found to be very high due to the immiscible region. The change in arsenic concentration in the mixed Ga-Bi-As solution has been observed to be dependent on the bismuth composition and compared with our theoretical values. The simulated layer thickness value agrees well with the experimental results obtained by the authors.
Inhibition of BRD4 Reduces Neutrophil Activation and Adhesion to the Vascular Endothelium Following Ischemia Reperfusion Injury

Renal ischemia reperfusion injury (IRI) is associated with inflammation, including neutrophil infiltration that exacerbates the initial ischemic insult. The molecular pathways involved are poorly characterized and there is currently no treatment. We performed an in silico analysis demonstrating changes in NFκB-mediated gene expression in early renal IRI. We then evaluated NFκB-blockade with a BRD4 inhibitor on neutrophil adhesion to endothelial cells in vitro, and tested BRD4 inhibition in an in vivo IRI model. BRD4 inhibition attenuated neutrophil adhesion to activated endothelial cells. In vivo, IRI led to increased expression of cytokines and adhesion molecules at 6 h post-IRI with sustained up-regulated expression to 48 h post-IRI. These effects were attenuated, in part, with BRD4 inhibition. Absolute neutrophil counts increased significantly in the bone marrow, blood, and kidney 24 h post-IRI. Activated neutrophils increased in the blood and kidney at 6 h post-IRI and remained elevated in the kidney until 48 h post-IRI. BRD4 inhibition reduced both total and activated neutrophil counts in the kidney. IRI-induced tubular injury correlated with neutrophil accumulation and was reduced by BRD4 inhibition. In summary, BRD4 inhibition has important systemic and renal effects on neutrophils, and these effects are associated with reduced renal injury.