Miracle-dz/UniFAR-FTUs huggingface dataset:
Melanogenic Properties and Expression Profiles of Melanogenic Paracrine Molecules in Riehl’s Melanosis

Riehl’s melanosis is a hyperpigmentary disorder that occurs predominantly on the face and neck. To date, the pathogenesis of Riehl’s melanosis with regards to the melanogenic properties and paracrine melanogenic molecules has not well been studied. This study was aimed to provide a novel perspective on the pathogenesis of Riehl’s melanosis by identifying the relevant paracrine melanogenic molecules in Riehl’s melanosis. Skin biopsies were performed on lesional and normal-appearing perilesional skin of 12 patients with Riehl’s melanosis and 12 age- and sex-matched healthy controls. Histopathological and immunohistochemical staining for paracrine melanogenic molecules was analyzed. The major histopathological findings of Riehl’s melanosis were basal hyperpigmentation, melanocyte proliferation, interface change, dermal pigmentary incontinence, vascular proliferation, and dermal inflammation. Dermal expression intensities of stem cell factor (SCF) and c-kit were increased in the lesional skin of Riehl’s melanosis. In addition, increased expression of epidermal and dermal ET-1 was also observed in the lesional skin of Riehl’s melanosis. Increased tissue expressions of SCF, c-kit, and ET-1 in Riehl’s melanosis support the role of these paracrine melanogenic molecules in the pathogenesis of Riehl’s melanosis. The findings from this study might present useful information on the pathogenetic mechanism of Riehl’s melanosis.
RNA-Sequencing Analyses of Small Bacterial RNAs and their Emergence as Virulence Factors in Host-Pathogen Interactions

Proteins have long been considered to be the most prominent factors regulating so-called invasive genes involved in host-pathogen interactions. The possible role of small non-coding RNAs (sRNAs), either intracellular, secreted or packaged in outer membrane vesicles (OMVs), remained unclear until recently. The advent of high-throughput RNA-sequencing (RNA-seq) techniques has accelerated sRNA discovery. RNA-seq radically changed the paradigm on bacterial virulence and pathogenicity to the point that sRNAs are emerging as an important, distinct class of virulence factors in both gram-positive and gram-negative bacteria. The potential of OMVs, as protectors and carriers of these functional, gene regulatory sRNAs between cells, has also provided an additional layer of complexity to the dynamic host-pathogen relationship. Using a non-exhaustive approach and through examples, this review aims to discuss the involvement of sRNAs, either free or loaded in OMVs, in the mechanisms of virulence and pathogenicity during bacterial infection. We provide a brief overview of sRNA origin and importance and describe the classical and more recent methods of identification that have enabled their discovery, with an emphasis on the theoretical lower limit of RNA sizes considered for RNA sequencing and bioinformatics analyses.
A Flexible Film Bulk Acoustic Resonator Based on β-Phase Polyvinylidene Fluoride Polymer

This paper reports a novel flexible film bulk acoustic resonator (FBAR) based on β-phase polyvinylidene fluoride (PVDF) piezoelectric polymer. The proposed device was simulated and evaluated; then, a low-temperature photolithography process with a double exposure method was developed to pattern the electrodes for the device, which enabled the device to retain the piezoelectric properties of the β-phase PVDF film. Results showed that the β-phase PVDF FBARs had a resonant frequency round 9.212 MHz with a high electromechanical coupling coefficient (k2) of 12.76% ± 0.56%. The device performed well over a wide bending-strain range up to 2400 με owing to its excellent flexibility. It showed good stability as a strain sensor with a sensitivity of 80 Hz/με, and no visible deterioration was observed after cyclic bending tests. The PVDF FBAR also exhibited an exceptionally large temperature coefficient of frequency (TCF) of −4630 ppm/K, two orders of magnitude larger than those of other FBARs based on common inorganic piezoelectric materials, extraordinarily high sensitivity for temperature sensing. All results showed that β-phase PVDF FBARs have the potential to expand the application scope for future flexible electronics.
Biphasic chemotaxis of Escherichia coli to the microbiota metabolite indole

Significance Chemotaxis to microbial metabolites in the GI tract plays a key role in regulating bacterial colonization and pathogenesis. Chemotaxis to indole, one of the prominent GI-tract metabolites, remains poorly understood. In this work, we describe how two major chemoreceptors, Tar and Tsr, mediate opposite responses to indole. The difference in the kinetics of these responses causes an inversion from a repellent to an attractant response over time. Cells migrated toward regions of high indole concentration only if they had previously adapted to indole. Otherwise, they were repelled. Thus, indole has the potential to segregate cells based on their state of adaptation. This bipartite response to indole may shape the development of microbial communities in the GI tract. Bacterial chemotaxis to prominent microbiota metabolites such as indole is important in the formation of microbial communities in the gastrointestinal (GI) tract. However, the basis of chemotaxis to indole is poorly understood. Here, we exposed Escherichia coli to a range of indole concentrations and measured the dynamic responses of individual flagellar motors to determine the chemotaxis response. Below 1 mM indole, a repellent-only response was observed. At 1 mM indole and higher, a time-dependent inversion from a repellent to an attractant response was observed. The repellent and attractant responses were mediated by the Tsr and Tar chemoreceptors, respectively. Also, the flagellar motor itself mediated a repellent response independent of the receptors. Chemotaxis assays revealed that receptor-mediated adaptation to indole caused a bipartite response—wild-type cells were attracted to regions of high indole concentration if they had previously adapted to indole but were otherwise repelled. We propose that indole spatially segregates cells based on their state of adaptation to repel invaders while recruiting beneficial resident bacteria to growing microbial communities within the GI tract.
Using a Convolutional Siamese Network for Image-Based Plant Species Identification with Small Datasets

The application of deep learning techniques may prove difficult when datasets are small. Recently, techniques such as one-shot learning, few-shot learning, and Siamese networks have been proposed to address this problem. In this paper, we propose the use a convolutional Siamese network (CSN) that learns a similarity metric that discriminates between plant species based on images of leaves. Once the CSN has learned the similarity function, its discriminatory power is generalized to classify not just new pictures of the species used during training but also entirely new species for which only a few images are available. This is achieved by exposing the network to pairs of similar and dissimilar observations and minimizing the Euclidean distance between similar pairs while simultaneously maximizing it between dissimilar pairs. We conducted experiments to study two different scenarios. In the first one, the CSN was trained and validated with datasets that comprise 5, 10, 15, 20, 25, and 30 pictures per species, extracted from the well-known Flavia dataset. Then, the trained model was tested with another dataset composed of 320 images (10 images per species) also from Flavia. The obtained accuracy was compared with the results of feeding the same training, validation, and testing datasets to a convolutional neural network (CNN) in order to determine if there is a threshold value t for dataset size that defines the intervals for which either the CSN or the CNN has better accuracy. In the second studied scenario, the accuracy of both the CSN and the CNN—both trained and validated with the same datasets extracted from Flavia—were compared when tested on a set of images of leaves of 20 Costa Rican tree species that are not represented in Flavia.
Adult Osteosclerotic Metaphyseal Dysplasia With Progressive Osteonecrosis of the Jaws and Abnormal Bone Resorption Pattern Due to a LRRK1 Splice Site Mutation

Osteosclerotic metaphyseal dysplasia (OSMD) is a rare autosomal recessive sclerosing skeletal dysplasia. We report on a 34‐year‐old patient with sandwich vertebrae, platyspondyly, osteosclerosis of the tubular bones, pathologic fractures, and anemia. In the third decade, he developed osteonecrosis of the jaws, which was progressive in spite of repeated surgical treatment over a period of 11 years. An iliac crest bone biopsy revealed the presence of hypermineralized cartilage remnants, large multinucleated osteoclasts with abnormal morphology, and inadequate bone resorption typical for osteoclast‐rich osteopetrosis. After exclusion of mutations in TCIRG1 and CLCN7 we performed trio‐based exome sequencing. The novel homozygous splice‐site mutation c.261G>A in the gene LRRK1 was found and co‐segregated with the phenotype in the family. cDNA sequencing showed nearly complete skipping of exon 3 leading to a frameshift (p.Ala34Profs*33). Osteoclasts differentiated from the patient's peripheral blood monocytes were extremely large. Instead of resorption pits these cells were only capable of superficial erosion. Phosphorylation of L‐plastin at position Ser5 was strongly reduced in patient‐derived osteoclasts showing a loss of function of the mutated LRRK1 kinase protein. Our analysis indicates a strong overlap of LRRK1‐related OSMD with other forms of intermediate osteopetrosis, but an exceptional abnormality of osteoclast resorption. Like in other osteoclast pathologies an increased risk for progressive osteonecrosis of the jaws should be considered in OSMD, an intermediate form of osteopetrosis. © 2020 The Authors. Journal of Bone and Mineral Research published by American Society for Bone and Mineral Research.
Immunotoxin SS1P is rapidly removed by proximal tubule cells of kidney, whose damage contributes to albumin loss in urine

Significance This paper shows that the major pathway of degradation of immunotoxins in mice is rapid filtration through the glomerulus of the kidney and degradation by proximal tubular cells. It also shows that SS1P treatment damages proximal tubular cells and enhances loss of albumin in the urine, which can contribute to capillary leak syndrome, a major side effect of immunotoxin therapy. Because lysine administration diminishes kidney uptake of SS1P, it could also protect against SS1P-induced capillary leak syndrome. Recombinant immunotoxins (RITs) are chimeric proteins composed of an Fv and a protein toxin being developed for cancer treatment. The Fv brings the toxin to the cancer cell, but most of the RITs do not reach the tumor and are removed by other organs. To identify cells responsible for RIT removal, and the pathway by which RITs reach these cells, we studied SS1P, a 63-kDa RIT that targets mesothelin-expressing tumors and has a short serum half-life. The major organs that remove RIT were identified by live mouse imaging of RIT labeled with FNIR-Z-759. Cells responsible for SS1P removal were identified by immunohistochemistry and intravital two-photon microscopy of kidneys of rats. The primary organ of SS1P removal is kidney followed by liver. In the kidney, SS1P passes through the glomerulus, is taken up by proximal tubular cells, and transferred to lysosomes. In the liver, macrophages are involved in removal. The short half-life of SS1P is due to its very rapid filtration by the kidney followed by degradation in proximal tubular cells of the kidney. In mice treated with SS1P, proximal tubular cells are damaged and albumin in the urine is increased. SS1P uptake by kidney is reduced by coadministration of l-lysine. Our data suggests that l-lysine administration to humans might prevent SS1P-mediated kidney damage, reduce albumin loss in urine, and alleviate capillary leak syndrome.
Hb Rush (HBB: c.304G>C): A Rare Variant Hemoglobin Mimicking the Hb S (HBB: c.20A>T) Variant on High Performance Liquid Chromatography

Abstract High performance liquid chromatography (HPLC) is a useful and rapid tool in the evaluation of hemoglobin (Hb) disorders that include thalassemia and various hemoglobinopathies. Most of the techniques or programs used in automated testing platforms are customized to identify the common variants seen in that particular region. At times, variant Hbs may be identified which are not commonly seen in the local population. This may cause diagnostic dilemma and may require further studies for definitive characterization. We present a patient with Hb Rush (HBB: c.304G>C), a rare unstable Hb variant eluting in the Hb S (HBB: c.20A>T) window on HPLC.
Proteomics Computational Analyses Suggest That the Envelope Glycoproteins of Segmented Jingmen Flavi-Like Viruses are Class II Viral Fusion Proteins (β-Penetrenes) with Mucin-Like Domains

Jingmen viruses are newly described segmented flavi-like viruses that have a worldwide distribution in ticks and have been associated with febrile illnesses in humans. Computational analyses were used to predict that Jingmen flavi-like virus glycoproteins have structural features of class II viral fusion proteins, including an ectodomain consisting of beta-sheets and short alpha-helices, a fusion peptide with interfacial hydrophobicity and a three-domain architecture. Jingmen flavi-like virus glycoproteins have a sequence enriched in serine, threonine, and proline at the amino terminus, which is a feature of mucin-like domains. Several of the serines and threonines are predicted be modified by the addition of O-linked glycans. Some of the glycoproteins are predicted to have an additional mucin-like domain located prior to the transmembrane anchor, whereas others are predicted to have a stem consisting of two alpha-helices. The flavivirus envelope protein and Jingmen flavi-virus glycoproteins may have diverged from a common class II precursor glycoprotein with a mucin-like domain or domains acquired after divergence.
Stress Responses of Shade-Treated Tea Leaves to High Light Exposure after Removal of Shading

High-quality green tea is produced from buds and young leaves grown by the covering-culture method, which employs shading treatment for tea plants (Camellia sinensis L.). Shading treatment improves the quality of tea, but shaded tea plants undergo sudden exposures to high light (HL) at the end of the treatment by shade removal. In this study, the stress response of shaded tea plants to HL illumination was examined in field condition. Chl a/b ratio was lower in shaded plants than nonshaded control, but it increased due to exposure to HL after 14 days. Rapid decline in Fv/Fm values and increases in carbonylated protein level were induced by HL illumination in the shaded leaves on the first day, and they recovered thereafter between a period of one and two weeks. These results revealed that shaded tea plants temporarily suffered from oxidative damages caused by HL exposure, but they could also recover from these damages in 2 weeks. The activities of antioxidant enzymes, total ascorbate level, and ascorbate/dehydroascorbate ratio were decreased and increased in response to low light and HL conditions, respectively, suggesting that the upregulation of antioxidant defense systems plays a role in the protection of the shaded tea plants from HL stress.
Estimation of Incidence of Typhoid and Paratyphoid Fever in Vientiane, Lao People’s Democratic Republic

Abstract. Typhoid conjugate vaccines represent a new tool for typhoid control. However, incidence data are needed to inform decisions about introduction. We sought to estimate typhoid and paratyphoid fever incidence in Vientiane, the capital and largest city of the Lao People’s Democratic Republic (Lao PDR). We did a representative cluster survey of health-seeking behavior for fever in Vientiane from January 15, 2019 through January 26, 2019. Multipliers derived from the survey were applied to data from Salmonella Typhi and Salmonella Paratyphi A bloodstream infection surveillance from Mahosot Hospital, Vientiane, for the period of January 1, 2015 through December 31, 2017, to estimate enteric fever incidence. A total of 336 households representing 1,740 persons were enrolled in the healthcare utilization survey, and multipliers were derived based on responses to questions about healthcare seeking in the event of febrile illness. Of 7,997 Vientiane residents receiving blood cultures over the 2-year surveillance period at Mahosot Hospital, we identified 16 (0.2%) with Salmonella Typhi and six (< 0.1%) with Salmonella Paratyphi A bloodstream infection. After applying multipliers, we estimated that the annual incidence of typhoid was 4.7 per 100,000 persons and paratyphoid was 0.5 per 100,000 persons. During the study period, the incidence of typhoid and paratyphoid fever was low in Vientiane. Ongoing surveillance is warranted to identify increases in future years. Similar studies elsewhere in the Lao PDR would be useful to understand the wider enteric fever situation in the country.
[Nutritional status in older adults admitted to an acute geriatric unit].

OBJECTIVE to describe the nutritional status of older adults hospitalized in an acute geriatric unit (AGU) and its association with mortality and days of hospitalization. MATERIAL AND METHODS a retrospective study in 1,084 adults older than 65 years, hospitalized in an AGU. The Mini Nutritional Assessment®-Short Form (MNA®-SF) and subjective global assessment (SGA) were used. The association between nutritional status, mortality, and long hospital stay (> 7 days) was analyzed using regression models and Cox hazard models. RESULTS mean age was 86.5 years: 58.7% were women. Mean MNA®-SF score was 8.9 (20.0%, well nourished; 48.2%, at nutritional risk, and 31.7% with malnutrition). Using the SGA, 22.1% were well nourished, 54.7% had moderate malnutrition, and 23.2% had severe malnutrition. Agreement between SGA and MNA®-SF was good (kappa, 0.654; p < 0.001), and correctly classified 78.5% of participants. Malnutrition was associated with poorer cognitive status, greater disability, worse ambulation, and lower levels of total protein, albumin, cholesterol, and transferrin. Patients with malnutrition in the MNA®-SF assessment had a higher adjusted mortality risk than those who were well nourished (HR, 1.80; 95% CI, 1.01-3.20), same as those with SGA C versus A (HR, 1.66; 95% CI, 0.96-2.86). Patients with SGA B and C presented a higher adjusted risk of long hospitalization as compared to well nourished subjects (OR, 1.42; 95% CI, 1.04-1.96 and OR, 1.73; 95% CI, 1.18-2.54, respectively. Patients with malnutrition per the MNA-SF® presented a higher adjusted risk of long hospitalization as compared to well nourished subjects (OR, 1.59; 95% CI, 1.09-2.33). CONCLUSIONS nutritional risk and malnutrition are very common in older adults in AGUs, and are associated with higher mortality and longer hospital stay.
Effectiveness of Milieu Therapy in reducing conflicts and containment rates among schizophrenia patients

Abstract Objective. To evaluate effectiveness of Milieu Therapy in reduction of conflict and containment rates among schizophrenia patients. Methods. This study utilized quasi experimental non-equivalent control group pre-post design. One hundred schizophrenia patients admitted in acute psychiatric wards were non-randomly assigned to either of the experimental (n=50) or control group (n=50). The experimental group received both milieu therapy and routine hospital treatment. The Milieu Therapy intervention Included environmental modification and structuring ward activities, establishing effective interaction with patient, and teaching caregivers on managing conflict behavior of patient. The control group received only routine treatment in the hospital. Outcome measures on conflict and containment rates were evaluated for both the groups at baseline and at 2nd, 3rd and 15th day. The Patient-Staff Conflict Checklist Shift Report (PCC-SR) was used to collect information about rates of conflict and containment. Results. Compared with control group, the experimental group participants showed decrease in aggressive behavior, self-harm behavior and general rule breaking behavior at baseline and 2nd, 3rd and 15th day (F=4.61, p<0.004, η 2=0.04; F=11.92, p<0.001, η 2=0.11; F=6.94, p<0.001, η 2=0.06) over seven days interval. Conclusion. The present study findings provided evidence for the effectiveness of integrating Milieu Therapy in psychiatric acute wards in reducing conflict behaviors among schizophrenia patients. Milieu therapy should be considered as an integral part of psychiatric care settings in these patients.
Evaluation of Dietary Organic and Inorganic Mercury Threshold Levels on Induced Mercury Toxicity in a Marine Fish Model

Simple Summary This investigation was executed to establish the threshold level of inorganic and organic mercury incorporated in the diet of juvenile olive flounder in relation to the broken-line regression model for the percentage of weight gain of fish. Organic mercury incorporated diet resulted in more toxic behavior than its counterpart inorganic mercury in olive flounder. Mercury was found to be more biomagnified in kidney tissue than liver and gill tissues of fish. The study has importance in terms of knowledge on mercury toxicity in marine fish. Abstract Mercury as one of the most toxic elements can be present in organic or inorganic form in marine fishes, which may cause a potential threat to public health. In this study, we investigated to determine the dietary organic (O-Hg) and inorganic (I-Hg) mercury threshold levels on induced mercury toxicity in juvenile olive flounder, Paralichthys olivaceus as a marine fish model. Twenty-eight fish averaging 3.1 ± 0.05 g (mean ± SD) were arbitrarily assigned to each of 27 tanks. Each tank was arbitrarily restricted to triplicates of nine experimental diets for eight weeks. The experimental diets were manufactured to contain 0 (Control), 10 (I-Hg10, O-Hg10), 20 (I-Hg20, O-Hg20), 40 (I-Hg40, O-Hg40) and 160 (I-Hg160, O-Hg160) mg/kg diet in organic form as methylmercury (MeHg) or in inorganic form as mercuric chloride (HgCl2). At the termination of the experimental trial, weight gains (WGs) of fish fed the control and 10 (I-Hg10, O-Hg10) diets were remarkably higher than those of fish fed the 20 (I-Hg20, O-Hg20), 40 (I-Hg40, O-Hg40) and 160 (I-Hg160, O-Hg160) (p < 0.05). Specific growth rate and feed efficiency of fish fed control and 10 (I-Hg10, O-Hg10) diets were significantly higher than those of fish fed 40 (I-Hg40, O-Hg40) and 160 (I-Hg160, O-Hg160) diets. In comparison to the dietary inorganic mercury, dietary MeHg bioaccumulation rates were significantly higher in the tissue levels according to the dietary inclusion levels. MeHg accumulated mostly in kidney, followed by liver and gill tissues. HgCl2 accumulated in tissues, in decreasing order, liver > kidney > gills. A broken-line regression model for percentage of WG indicated that the threshold toxicity level for an Hg-incorporated diet of juvenile olive flounder could be 13.5 mg Hg/kg in the form of HgCl2 and 8.7 mg Hg/kg in the form of MeHg.