Miracle-dz/UniFAR-FTUs huggingface dataset:
Cloning and characterization of a cDNA encoding gibberellin 20‐oxidase from rice (Oryza sativa) seedlings

Degenerate oligonucleotide primers based on the amino acid sequences of gibberellin (GA) 20-oxidases from pumpkin and Arabidopsis were used in nested polymerase chain reactions to generate an internal cDNA fragment from rice (Oryza sativa L.) seedlings. Using this fragment as a probe, a full-length cDNA (pOs20ox) was isolated from a cDNA library constructed from rice seedlings. The deduced amino acid sequence of Os200x showed good identity (42-55%) with the GA 20-oxidases from pumpkin and Arabidopsis. Recombinant Os200x protein, produced in Escherichia coli, catalyzed the conversion of GA,2 and GA 53 to GA 9 and GA 20 , respectively. In contrast to the enzyme from immature pumpkin seeds, the recombinant rice GA 20-oxidase did not produce the tricarboxylic acids GA 25 and GA 17 from GA 12 and GA 53, respectively. The conversion rate of GA 53 was higher than that of GA,2, which is consistent with the relatively high abundance of 13-hydroxylated GAs in rice seedlings. Os20ox mRNA accumulated at higher levels in seedlings of two GA-deficient dwarf mutants than in normal plants. Treatment with uniconazole-P, an inhibitor of GA biosynthesis, increased abundance of the mRNA, while exogenously applied GA3 decreased it. These results suggest that the expression of the Os20ox gene is regulated by the level of physiologically active GA.
Rhinologic Practice Special Considerations During COVID-19: Visit Planning, Personal Protective Equipment, Testing, and Environmental Controls

As rhinologists return to practice amid SARS-CoV-2, special considerations are warranted given the unique features of their subspecialty. Rhinologist manipulation of nasal tissue, proximity, and frequent aerosol-generating procedures (AGPs) create high risk for infection transmission. There are 4 areas of special consideration to mitigate risk: (1) previsit planning for risk stratification/mitigation, (2) appropriate personal protective equipment, (3) preprocedural testing, and (4) environmental controls. During previsit planning, risk factors of the patient and procedures are considered. High-risk AGPs are identified by duration, proximity, manipulation of high–viral load tissue, and use of powered instrumentation. Appropriate personal protective equipment includes selection of respiratory and eye protection. COVID-19 testing can screen for asymptomatic carriers prior to high-risk procedures; however, alternative testing methods are required in rhinologic patients not eligible for nasopharyngeal testing due to nasal obstruction or skull base defects. Last, AGPs in rhinologic practices require considerations of room air handling and environmental controls.
Depletion interactions modulate the binding between disordered proteins in crowded environments

Significance The molecular environment in a biological cell is much more crowded than the conditions commonly used in biochemical and biophysical experiments in vitro. It is therefore important to understand how the conformations and interactions of biological macromolecules are affected by such crowding. Addressing these questions quantitatively, however, has been challenging owing to a lack of sufficiently detailed experimental information and theoretical concepts suitable for describing crowding, especially when polymeric crowding agents and biomolecules are involved. Here, we use the combination of extensive single-molecule experiments with established and recent theoretical concepts to investigate the interaction between two intrinsically disordered proteins. We observe pronounced effects of crowding on their interactions and provide a quantitative framework for rationalizing these effects. Intrinsically disordered proteins (IDPs) abound in cellular regulation. Their interactions are often transitory and highly sensitive to salt concentration and posttranslational modifications. However, little is known about the effect of macromolecular crowding on the interactions of IDPs with their cellular targets. Here, we investigate the influence of crowding on the interaction between two IDPs that fold upon binding, with polyethylene glycol as a crowding agent. Single-molecule spectroscopy allows us to quantify the effects of crowding on a comprehensive set of observables simultaneously: the equilibrium stability of the complex, the association and dissociation kinetics, and the microviscosity, which governs translational diffusion. We show that a quantitative and coherent explanation of all observables is possible within the framework of depletion interactions if the polymeric nature of IDPs and crowders is incorporated based on recent theoretical developments. The resulting integrated framework can also rationalize important functional consequences, for example, that the interaction between the two IDPs is less enhanced by crowding than expected for folded proteins of the same size.
Effects of novel solid-stemmed wheat genotype on Cephus cinctus norton and its parasitoid Bracon cephi

Host plant resistance in the form of wheat with the stem lumen filled with pith has been the main strategy to manage the wheat stem sawfly, Cephus cinctus Norton (Hymenoptera: Cephidae) - a major pest of wheat in the northern Great Plains of North America. Recently a new source of resistance has been made available combining a single dominant solid pith gene from durum wheat (Triticum turgidum L. var. durum) with spring bread wheat cultivars. Our study had two objectives: (i) assess levels of C. cinctus damage and larval C. cinctus mortality in wheat with the novel solid germplasm, conventional solid-stems and susceptible cultivars; and (ii) determine plant genotype effects on populations of C. cinctus parasitoid Bracon cephi (Gahan) (Hymenoptera: Braconidae). The study was conducted in plots near Lethbridge, Alberta, Canada from 2003–2005. The novel solid-stemmed hexaploid G9608B1-L12J11BF02, solid-stemmed AC Eatonia and hollow-stemmed durum AC Navigator reduced the infestation level and girdling damage .
Abaristophora sachalinensis Michailovskaya (Diptera: Phoridae) representing genitalic affinities with the genus Borophaga Enderlein

Abaristophora sachalinensis Michailovskaya is reviewed based on Japanese materials. Its male genitalia are compared with those of the genus Borophaga, which is a genus in a group of the related genera, the Borophaga subgroup. A synapomorphic character of the Borophaga subgroup including Abaristophora, the left flattened arm derived from the posterodorsal margin of the hypandrium being broadened at the base, is confirmed in A. sachalinensis. Morphology of the aedeagus in A. sachalinensis is complex and extremely asymmetric, and very similar to that of species of the genus Borophaga, but the characters observed in this study are not regarded as synapomorphic for the Borophaga subgroup.
A Review on SARS-CoV-2 Virology, Pathophysiology, Animal Models, and Anti-Viral Interventions

Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the causative agent of CoV disease 2019 (COVID-19) is a highly pathogenic and transmissible CoV that is presently plaguing the global human population and economy. No proven effective antiviral therapy or vaccine currently exists, and supportive care remains to be the cornerstone treatment. Through previous lessons learned from SARS-CoV-1 and MERS-CoV studies, scientific groups worldwide have rapidly expanded the knowledge pertaining to SARS-CoV-2 virology that includes in vitro and in vivo models for testing of antiviral therapies and randomized clinical trials. In the present narrative, we review SARS-CoV-2 virology, clinical features, pathophysiology, and animal models with a specific focus on the antiviral and adjunctive therapies currently being tested or that require testing in animal models and randomized clinical trials.
Structural Evolution of Ferroelectric and Ferroelastic Barium Sodium Niobate Tungsten Bronze

The crystal structure of the ferroelastic and ferroelectric tungsten bronze Ba2NaNb5O15 (BNN) has been debated. Here, we re-examine the crystal structure of BNN by ambient powder X-ray diffraction combined with density functional theory calculations. We demonstrate that the room temperature space group is Cmm2 with significant cation disorder on the Ba and Na cation sublattices. Density functional theory calculations reveal a relatively flat energy landscape between structures of different symmetries, including the energetics of cation disorder. We also study the structural evolution and the ferroelectric and ferroelastic phase transitions by high-temperature X-ray diffraction and dilatometry. The ferroelectric phase transition at 570 °C is of first order and cause the cell to expand in the c direction, while the ferroelastic distortion starting at 270 °C takes place in the ab plane and does not affect the polarization. The phase transitions are not coupled, which means that BNN is a ferroic material with two primary and uncoupled order parameters.
Adenovirus 14p1 Immunopathogenesis during Lung Infection in the Syrian Hamster

Adenovirus (Ad) infections are usually mild and self-limited, with minimal inflammatory responses. During worldwide outbreaks, Ad14p1, an emerging Ad14 variant, has caused severe pulmonary disease, including acute respiratory distress syndrome (ARDS). This increased pathogenicity of Ad14p1 is not completely understood. In initial studies, we observed that infection of Syrian hamsters with Ad14p1 can cause a patchy bronchopneumonia, with an increased intensity of inflammation, compared to wild type Ad14 infection. The current study compared the dynamics of the immunopathogenesis of Ad14 and Ad14p1 infection of hamster lungs through the first two weeks after infection. Little difference was seen in infection-induced inflammation at day 1. Beginning at day 3, Ad14p1-infected hamsters showed marked inflammation that continued through to day 7. The inflammation began to resolve by day 10 but was still detectable at day 14. In contrast, Ad14-infected hamsters showed little inflammation during the 14-day period of observation. Inflammatory cell type analysis revealed that, at day 1, hamsters infected with either virus had predominantly neutrophil infiltration that began to resolve by day 3. However, at day 5, Ad14p1-infected hamsters had a second wave of neutrophil infiltration that was accompanied by edema which persisted to a variable extent through to day 10. These differences were not explained by an increased Ad14p1 replication rate, compared with Ad14 in vitro, but there was prolonged persistence of Ad14p1 in hamster lungs. There were differences in lung tissue cytokine and chemokine responses to Ad14p1 vs. Ad14 infection that might account for the increased leukocyte infiltrates in Ad14p1-infected hamsters. This animal model characterization provides the basis for future translational studies of the viral genetic mechanisms that control the increased immunopathogenesis of the emergent, Ad14p1 strain.
Human Nasal Epithelial Organoids for Therapeutic Development in Cystic Fibrosis

We describe a human nasal epithelial (HNE) organoid model derived directly from patient samples that is well-differentiated and recapitulates the airway epithelium, including the expression of cilia, mucins, tight junctions, the cystic fibrosis transmembrane conductance regulator (CFTR), and ionocytes. This model requires few cells compared to airway epithelial monolayer cultures, with multiple outcome measurements depending on the application. A novel feature of the model is the predictive capacity of lumen formation, a marker of baseline CFTR function that correlates with short-circuit current activation of CFTR in monolayers and discriminates the cystic fibrosis (CF) phenotype from non-CF. Our HNE organoid model is amenable to automated measurements of forskolin-induced swelling (FIS), which distinguishes levels of CFTR activity. While the apical side is not easily accessible, RNA- and DNA-based therapies intended for systemic administration could be evaluated in vitro, or it could be used as an ex vivo biomarker of successful repair of a mutant gene. In conclusion, this highly differentiated airway epithelial model could serve as a surrogate biomarker to assess correction of the mutant gene in CF or other diseases, recapitulating the phenotypic and genotypic diversity of the population.
The use of larval chaetotaxy in butterfly systematics, with special reference to the Danaini (Lepidoptera: Nymphalidae)

Abstract. The chaetotaxy of the first instar larva of Danaus gilippus is described in detail. Comparisons are made with several other danaine species and with the heliconiine Heliconius melpomene. A new nomenclature for the setae of abdominal segment 10 is proposed and a comparison made with that of Singh (1951). The potential use of chaetotaxy in butterfly systematics is discussed.
The Richards-Campbell Sleep Questionnaire and Sleep in the Intensive Care Unit Questionnaire: translation to Portuguese and cross-cultural adaptation for use in Brazil

ABSTRACT Objective: To translate the Richards-Campbell Sleep Questionnaire (RCSQ) and Sleep in the Intensive Care Unit Questionnaire (SICUQ) to Portuguese, making the appropriate cross-cultural adaptations for their use in Brazil, as well as to determine the interobserver reliability of the instruments. Methods: In this study, we evaluated medical and surgical patients admitted to the adult ICU of the Federal University of Paraná Hospital de Clínicas, in the city of Curitiba, Brazil, between June of 2017 and January of 2018. The translation and cross-cultural adaptation of the questionnaires involved the following steps: translation, synthesis, back-translation, revision by an expert panel, approval of the back-translation by the original authors, pretesting, and creation of the final versions. Two researchers applied the Portuguese-language versions in the evaluation of critically ill patients. Interobserver reliability was assessed by calculating the intraclass correlation coefficient (ICC) and 95% CI. Results: The sample comprised 50 patients, of whom 27 (54%) were women. The mean age was 47.7 ± 17.5 years. The main reason for ICU admission, in 10 patients (20%), was cancer. The interobserver reliability of the questionnaires ranged from good to excellent. For the RCSQ, the ICC was 0.84 (95% CI: 0.71-0.90). For SICUQ domains 1-5 (sleep quality and daytime sleepiness), the ICC was 0.75 (95% CI: 0.55-0.86), whereas it was 0.86 (95% CI: 0.76-0.92) for SICUQ domains 6 and 7 (causes of sleep disruption). Conclusions: The cross-culturally adapted, Portuguese-language versions of the RCSQ and SICUQ appear to have good interobserver reliability.
Sex Differences in Proatherogenic Cytokine Levels

Background: It has been shown that sex affects immunity, including cytokine production. Given that atherosclerosis is an inflammatory disease promoted by specific cytokines, such as interleukin (IL)-1β, IL-6, and tumor necrosis factor (TNF)-α, we aimed at evaluating whether sex could affect the levels of these proatherogenic cytokines in a group of healthy adults. In this analysis, we also included other cytokines and peptides that have been implicated in atherosclerosis development and progression. Methods: A total of 104 healthy adults were recruited; we measured circulating levels of IL-1β, IL-6, TNF-α, angiotensins and angiotensin-converting enzyme-2 (ACE2), as well as osteoprotegerin and receptor activator of nuclear factor κB ligand (RANKL). Results: IL-1β, IL-6, and TNF-α were significantly higher in men as compared to women. They were all associated with testosterone and the testosterone/estradiol ratio. They remained significantly associated with sex (but not with hormones) after being tested for potential confounders. Conclusions: Sex seems to influence the levels of proatherogenic cytokines. This is consistent not only with sex differences in vulnerability to infections but also with the higher cardiovascular risk exhibited by the male gender as compared to the female gender. Nevertheless, this association is only partly explained by hormone levels.
Altered phagocytic capacity due to acute exposure and long-term post-exposure to pesticides used for vector-borne disease as dengue

ABSTRACT Spinosad and temefos are widely used pesticides for chemical control of dengue vector-borne disease (Aedes aegypti). The aim of this study was to compare the effect of acute exposure (7 days) to spinosad (0.5 mg A.I. L−1) and temefos (10 mg A.I. L−1), concentrations used by the Mexican Ministry of Health, on phagocytic capacity (PC) of mononuclear cells of guppies fish (Poecilia reticulata), as well as to assess PC in fish, at 96 days after exposure to those pesticides. Obtained results indicated that spinosad did not alter PC, while an acute exposure to temefos significantly affected phagocytosis and this parameter was maintained downed even 96 days after the acute exposure, suggesting that the immunotoxic effects of temefos may be chronic.
Deep Multiscale Detail Networks for Multiband Spectral Image Sharpening

We introduce a new deep detail network architecture with grouped multiscale dilated convolutions to sharpen images contain multiband spectral information. Specifically, our end-to-end network directly fuses low-resolution multispectral and panchromatic inputs to produce high-resolution multispectral results, which is the same goal of the pansharpening in remote sensing. The proposed network architecture is designed by utilizing our domain knowledge and considering the two aims of the pansharpening: spectral and spatial preservations. For spectral preservation, the up-sampled multispectral images are directly added to the output for lossless spectral information propagation. For spatial preservation, we train the proposed network in the high-frequency domain instead of the commonly used image domain. Different from conventional network structures, we remove pooling and batch normalization layers to preserve spatial information and improve generalization to new satellites, respectively. To effectively and efficiently obtain multiscale contextual features at a fine-grained level, we propose a grouped multiscale dilated network structure to enlarge the receptive fields for each network layer. This structure allows the network to capture multiscale representations without increasing the parameter burden and network complexity. These representations are finally utilized to reconstruct the residual images which contain spatial details of PAN. Our trained network is able to generalize different satellite images without the need for parameter tuning. Moreover, our model is a general framework, which can be directly used for other kinds of multiband spectral image sharpening, e.g., hyperspectral image sharpening. Experiments show that our model performs favorably against compared methods in terms of both qualitative and quantitative qualities.
Nucleotide depletion reveals the impaired ribosome biogenesis checkpoint as a barrier against DNA damage

Many oncogenes enhance nucleotide usage to increase ribosome content, DNA replication, and cell proliferation, but in parallel trigger p53 activation. Both the impaired ribosome biogenesis checkpoint (IRBC) and the DNA damage response (DDR) have been implicated in p53 activation following nucleotide depletion. However, it is difficult to reconcile the two checkpoints operating together, as the IRBC induces p21‐mediated G1 arrest, whereas the DDR requires that cells enter S phase. Gradual inhibition of inosine monophosphate dehydrogenase (IMPDH), an enzyme required for de novo GMP synthesis, reveals a hierarchical organization of these two checkpoints. We find that the IRBC is the primary nucleotide sensor, but increased IMPDH inhibition leads to p21 degradation, compromising IRBC‐mediated G1 arrest and allowing S phase entry and DDR activation. Disruption of the IRBC alone is sufficient to elicit the DDR, which is strongly enhanced by IMPDH inhibition, suggesting that the IRBC acts as a barrier against genomic instability.
Bacterial adhesion inhibitor prevents infection in a rodent surgical incision model

ABSTRACT Surgical site infection risk continues to increase due to lack of efficacy in current standard of care drugs. New methods to treat or prevent antibiotic-resistant bacterial infections are needed. Multivalent Adhesion Molecules (MAM) are bacterial adhesins required for virulence. We developed a bacterial adhesion inhibitor using recombinant MAM fragment bound to polymer scaffold, mimicking MAM7 display on the bacterial surface. Here, we test MAM7 inhibitor efficacy to prevent Gram-positive and Gram-negative infections. Using a rodent model of surgical infection, incision sites were infected with antibiotic-resistant bioluminescent strains of Staphylococcus aureus or Pseudomonas aeruginosa. Infections were treated with MAM7 inhibitor or control suspension. Bacterial abundance was quantified for nine days post infection. Inflammatory responses and histology were characterized using fixed tissue sections. MAM7 inhibitor treatment decreased burden of S. aureus and P. aeruginosa below detection threshold. Bacterial load of groups treated with control were significantly higher than MAM7 inhibitor-treated groups. Treatment with inhibitor reduced colonization of clinically-relevant pathogens in an in vivo model of surgical infection. Use of MAM7 inhibitor to block initial adhesion of bacteria to tissue in surgical incisions may reduce infection rates, presenting a strategy to mitigate overuse of antibiotics to prevent surgical site infections.
Changes in total hemolymph and ovarian proteins during oogenesis in Argas (Argas) hermanni (Acari: Argasidae)

Changes in the total protein concentrations in the hemolymph and ovaries of fed, mated female Argas (Argas) hermanni Audouin during oogenesis and in the hemolymph of males were studied. There was a decline in the total protein level in hemolymph of mated ticks for 2 d after feeding. This decrease was followed by an increase, reaching a maximum on day 6 in males and days 5 and 6 in females. Protein levels in the hemolymph of female ticks were higher than that of the male during the period of vitellogenesis and onset of oviposition (3–6 d after feeding). At the end of the oviposition period (day 20), the protein level in the hemolymph decreased, approaching that of the male. These data suggest an increase in the demand and use of proteins in the hemolymph of females by the developing oocytes. The increase of the hemolymph proteins in the females coincided with an increase of the ovarian protein level, ovarian weight, and the number of mature oocytes inside.