Miracle-dz/UniFAR-FTUs huggingface dataset:
Expression and Methylation of Dickkopf-1 in the Pathogenesis and Malignant Transformation of Oral Submucous Fibrosis.

BACKGROUND Dickkopf-1 is an inhibitor of the Wnt/β-catenin pathway, but the role of Dickkopf-1 in oral submucous fibrosis remains unclear. We evaluated the protein expression and gene methylation levels of dickkopf-1 to determine the mechanism underlying abnormal Wnt/β-catenin pathway activation. METHODS Healthy mucosa, oral submucous fibrosis, oral squamous cell carcinoma, and cancer-adjacent tissues were collected. The expression and promoter methylation levels of dickkopf-1 were analyzed. RESULTS The expression levels of dickkopf-1 in oral submucous fibrosis and oral squamous cell carcinoma tissues were lower than those in healthy and cancer-adjacent tissues. The methylation levels of the dickkopf-1 gene in oral submucous fibrosis and oral squamous cell carcinoma tissues were higher than those in healthy and cancer-adjacent tissues. Dickkopf-1 expression was negatively correlated with dickkopf-1 gene methylation. CONCLUSIONS High dickkopf-1 methylation levels in oral submucous fibrosis and oral squamous cell carcinoma tissues may decrease dickkopf-1 expression, which may induce an abnormal activation of the Wnt/β-catenin pathway and oral submucous fibrosis pathogenesis.
Autonomous Navigation of a Center-Articulated and Hydrostatic Transmission Rover using a Modified Pure Pursuit Algorithm in a Cotton Field

This study proposes an algorithm that controls an autonomous, multi-purpose, center-articulated hydrostatic transmission rover to navigate along crop rows. This multi-purpose rover (MPR) is being developed to harvest undefoliated cotton to expand the harvest window to up to 50 days. The rover would harvest cotton in teams by performing several passes as the bolls become ready to harvest. We propose that a small robot could make cotton production more profitable for farmers and more accessible to owners of smaller plots of land who cannot afford large tractors and harvesting equipment. The rover was localized with a low-cost Real-Time Kinematic Global Navigation Satellite System (RTK-GNSS), encoders, and Inertial Measurement Unit (IMU)s for heading. Robot Operating System (ROS)-based software was developed to harness the sensor information, localize the rover, and execute path following controls. To test the localization and modified pure-pursuit path-following controls, first, GNSS waypoints were obtained by manually steering the rover over the rows followed by the rover autonomously driving over the rows. The results showed that the robot achieved a mean absolute error (MAE) of 0.04 m, 0.06 m, and 0.09 m for the first, second and third passes of the experiment, respectively. The robot achieved an MAE of 0.06 m. When turning at the end of the row, the MAE from the RTK-GNSS-generated path was 0.24 m. The turning errors were acceptable for the open field at the end of the row. Errors while driving down the row did damage the plants by moving close to the plants’ stems, and these errors likely would not impede operations designed for the MPR. Therefore, the designed rover and control algorithms are good and can be used for cotton harvesting operations.
Conserved layer 4 organization and respiration locking in the rodent nose somatosensory cortex.

Rodents and other mammals acquire sensory information by precisely orchestrated head, whisker and respiratory movements. We have, however, only limited information about integration of these signals. In the somatosensory domain the integration of somatosensory information with other modalities is particularly pertinent for body parts such as eyes, ears and the nose, which serve another modality. Here we analyzed the nose / nostril representation in the rodent somatosensory cortex. We identified the representation of the nose / nostril in the rat somatosensory cortex by receptive field mapping and subsequent histological reconstruction. In tangential somatosensory cortical sections, the rat nostril cortex was evident as a prominent stripe-like recess of layer 4 revealed by cytochrome-C-oxidase reactivity or by antibodies against the vesicular glutamate-transporter-2 (identifying thalamic afferents). We compared flattened somatosensory cortices of various rodents including rats, mice, gerbils, chinchillas and chipmunks. We found that such a nose / nostril module was evident as a region with thinned or absent layer 4 at the expected somatotopic position of the nostril. Extracellular spike activity was strongly modulated by respiration in the rat somatosensory cortex and field potential recordings revealed a stronger locking of nostril recording sites to respiration than for whisker / barrel cortex recoding sites. We conclude that the rodent nose / nostril representation has a conserved architecture and specifically interfaces with respiration signals.
Incidence and characteristics of paediatric abusive head trauma in Taiwan, 2006–2015: a nationwide population-based study

Objectives To examine the incidence rate and characteristics of paediatric abusive head trauma (PAHT) among children under age 5 years in Taiwan. Methods The International Classification of Diseases, Ninth Revision, Clinical Modification (ICD-9-CM) was used to identify broad and narrow definitions of children aged under 5 years with PAHT from 2006 to 2015 in Taiwan using a representative national insurance research database. Medical resource utilisation was also analysed. Incidence rates per 100 000 person-years were calculated and presented with 95% CI. Joinpoint regression analysis was used to detect the changes in trends and calculate the annual percentage change in PAHT incidence over time. Results From 2006 to 2015, 479 (narrow definition) and 538 (broad definition) PAHT cases were identified. Incidence rates of PAHT by narrow and broad definitions among children under 1 year of age (18.7/100 000 and 20.0/100 000) were nearly 10-fold or 20-fold higher than for children aged 1–2 (1.7/100 000 and 2.1/100 000) and 3–5 (0.9/100 000 and 1.2/100 000) years. The PAHT incidence significantly increased since 2012, with trends varying by age and gender. Our results suggest that over 40% of the children with PAHT experienced serious injury and nearly 13% were fatal cases. For 87% (n=57) of fatal cases, this was their first ever hospitalisation. The number of fatal cases among infants was fourfold higher than that of children aged 1–5 years. Conclusions This study provides a robust national estimate of PAHT and identifies infants as the most vulnerable group for PAHT in Taiwan. Education to enhance healthcare profession’s sensitivity and competence for the early identification and diagnosis of PAHT is critical.
Valence Alignment of Mixed Ni-Fe Hydroxide Electrocatalysts through Preferential Templating on Graphene Edges for Enhanced Oxygen Evolution.

Engineering the metal-carbon hetero-interface has become an increasingly important route toward achieving cost effective and high performing electrocatalysts. The specific properties of graphene edge sites, such as the high available density of states and extended unpaired π-bonding, make it a promising candidate to tune the electronic properties of metal catalysts. Yet to date, understanding and leveraging graphene edge-metal catalysts for improved electrocatalytic performance remains largely elusive. Herein, edge-rich vertical graphene (er-VG) was synthesized and used as a catalyst support for Ni-Fe hydroxides for the oxygen evolution reaction (OER). The hybrid Ni-Fe/er-VG catalyst exhibits excellent OER performance with a mass current of 4051 A g-1 (at overpotential η = 300 mV) and turnover frequency (TOF) of 4.8 s-1 (η = 400 mV), outperforming Ni-Fe deposited on pristine VG and other metal foam supports. Angle-dependent X-ray absorption spectroscopy shows that the edge-rich VG support can preferentially template Fe-O units with a specific valence orbital alignment interacting with the unoccupied density of states on the graphene edges. This graphene edge-metal interaction was shown to facilitate the formation of undersaturated and strained Fe-sites with high valence states, while promoting the formation of redox-activated Ni species, thus improving OER performance. These findings demonstrate rational design of the graphene edge-metal interface in electrocatalysts which can be used for various energy conversion and chemical synthesis reactions.
Adjuvant radiotherapy treatment for soft tissue sarcoma of extremities and trunk. A retrospective mono-institutional analysis.

Soft tissue sarcomas (STS) are uncommon, heterogeneous malignant tumors of mesodermal origin. Other than conservative surgery (CS), neoadjuvant or adjuvant radiotherapy (RT) is recommended when the risk of local recurrence is high. The aim of this study is to present our Institutional experience in adjuvant RT for treatment of STS of extremities and trunk (with either brachytherapy (BRT), external beam RT (EBRT), or both) and to provide an insight of toxicity and oncological outcomes for each RT modality. According to the RT treatment approach, patients were divided into three categories: 1) BRT alone; 2) EBRT alone; 3) combined BRT+EBRT. Differences among the three groups were assessed by the Chi-squared test. Patients' follow-up was performed every 6 months for the first two years after the end of RT and then once a year. Data from 90 patients were analyzed. The overall 3-year distant relapse-free survival (DRFS), progression-free survival (PFS) and overall survival (OS) were 84%, 80%, and 97%, respectively. Acute erythema was the most frequent side effect, although severe grade 3 toxicity was present in 5 patients. Chronic toxicity of any grade was reported in 14 patients. The incidence of chronic toxicity did not show any association with treatment modality. Multivariate analysis suggested a significant correlation between acute toxicity and tumor size, RT modality, and RT dose. In conclusion, good local control and toxicity profile were observed, despite negative patients' selection at baseline. Further investigation on wider series is warranted in order to define the optimal combination with systemic therapy.
Application of advanced molecular spectroscopy and modern evaluation techniques in canola molecular structure and nutrition property research

Abstract This review aims to provide research update and progress on applications of advanced molecular spectroscopy to current research on canola related bio-processing technology, molecular structure, and nutrient utilization and availability. The studies focused on how inherent molecular structure changes affect nutritional quality of canola and its co-products from bio-processing. The molecular spectroscopic techniques (SR-IMS, DRIFT, ATR-FTIR) used for molecular structure and nutrition association were reviewed, including the synchrotron radiation with infrared microspectroscopy, the synchrotron radiation with soft x-ray microspectroscopy, the diffuse reflectance infrared Fourier transform spectroscopy, the grading near infrared reflectance spectroscopy, and the Fourier transform infrared vibrational spectroscopy. Nutritional evaluation with other techniques in association with molecular structure was also reviewed. This study provides updated research progress on application of molecular spectroscopy in combination with various nutrition evaluation techniques to current research in the canola-related bio-oil/bio-energy processing and nutrition sciences.
Fingolimod inhibits multiple stages of the HIV-1 life cycle

Antiretroviral drugs that target various stages of the Human Immunodeficiency Virus (HIV) life cycle have been effective in curbing the AIDS epidemic. However, drug resistance, off-target effects of antiretroviral therapy (ART), and varying efficacy in prevention underscore the need to develop novel and alternative therapeutics. In this study, we investigated whether targeting the signaling molecule Sphingosine-1-phosphate (S1P) would inhibit HIV-1 infection and generation of the latent reservoir in primary CD4 T cells. We show that FTY720 (Fingolimod), an FDA-approved functional antagonist of S1P receptors, blocks cell-free and cell-to-cell transmission of HIV and consequently reduces detectable latent virus. Mechanistically, FTY720 impacts the HIV-1 life cycle at two levels. Firstly, FTY720 reduces the surface density of CD4, thereby inhibiting viral binding and fusion. Secondly, FTY720 decreases the phosphorylation of the innate HIV restriction factor SAMHD1 which is associated with reduced levels of total and integrated HIV, while reducing the expression of Cyclin D3. In conclusion, targeting the S1P pathway with FTY720 could be a novel strategy to inhibit HIV replication and reduce the seeding of the latent reservoir.
Carcass yields and meat cholesterol as influenced by stocking density and system of rearing in commercial broilers

An experiment was conducted with straight-run commercial hybrid broiler chicks to study the effect of different stocking densities under deep litter (10, 11, 12 and 13 birds/m2) and cage system (16, 17, 18 and 19 birds/m2) of management on the carcass yields and meat quality characteristics. There were no significant differences observed in slaughter yields and serum and meat cholesterol level either due to stocking density or system of management at 40, 43, 46 and 49 days of age in commercial broilers. The total serum and meat cholesterol level was directly proportional to the age of broilers irrespective of system of management or stocking densities. Further, when compared to deep litter reared broilers, the cage reared broilers recorded slightly higher serum cholesterol level throughout the period. Irrespective of the stocking densities and age, the deep litter reared birds had higher breast and thigh meat cholesterol level than the cage reared broilers. Similarly irrespective of age, stocking density and systems of management, the thigh meat cholesterol was 55–65 per cent higher than the breast meat cholesterol level. The broiler meat qualities such as appearance, flavour, juiciness, tenderness and overall acceptability were not significantly influenced by system of management. However the overall acceptability was slightly favourable for cage reared broilers.
Emerging Role of Mucosal Vaccine in Preventing Infection with Avian Influenza A Viruses

Avian influenza A viruses (AIVs), as a zoonotic agent, dramatically impacts public health and the poultry industry. Although low pathogenic avian influenza virus (LPAIV) incidence and mortality are relatively low, the infected hosts can act as a virus carrier and provide a resource pool for reassortant influenza viruses. At present, vaccination is the most effective way to eradicate AIVs from commercial poultry. The inactivated vaccines can only stimulate humoral immunity, rather than cellular and mucosal immune responses, while failing to effectively inhibit the replication and spread of AIVs in the flock. In recent years, significant progresses have been made in the understanding of the mechanisms underlying the vaccine antigen activities at the mucosal surfaces and the development of safe and efficacious mucosal vaccines that mimic the natural infection route and cut off the AIVs infection route. Here, we discussed the current status and advancement on mucosal immunity, the means of establishing mucosal immunity, and finally a perspective for design of AIVs mucosal vaccines. Hopefully, this review will help to not only understand and predict AIVs infection characteristics in birds but also extrapolate them for distinction or applicability in mammals, including humans.
Time Course-Dependent Study on Equine Herpes Virus 9-Induced Abortion in Syrian Hamsters

Simple Summary Equine herpesvirus 9 (EHV-9) is a virus belonging to the family of equine herpesviruses. EHV-9 has been isolated from natural infections of different wild and zoo animals. In addition, it has been associated with encephalitis and abortion in several animal species. However, the host range and pathogenesis of this virus are still unknown. Herein, we investigated the underlying pathogenesis of EHV-9-induced abortion in relation to the gestation period in either early or late trimester infection. We noticed that the late trimester infection of EHV-9 was associated with more severe death and both placental and fetal tissue localization of the virus. Also, early stage infection was accompanied by band necrotic changes within the placenta, which usually led to abortion. Abstract This study aimed to follow the time-course pathogenesis of EHV-9 abortion in early and late trimesters. Twenty-seven pregnant hamster dams were divided into three groups: (G1) control, (G2) EHV-9-inoculated on the 5th day (early trimester), and (G3) EHV-9-inoculated on the 10th day of gestation (late trimester). Dams were sacrificed at different time points during gestation and examined for viremia and viral DNA in different fetal and maternal tissues and pathological changes in fetal tissue, placenta, and cytokines. Animals in G3 showed a marked increase in the number of dead fetuses than those in G2. Histopathological findings of G2 showed early band coagulative necrosis of maternal spaces and stromal decidual cells. Necrotic changes were observed within the decidua basalis, spongiotrophoblast layer, and labyrinth. First, the virus was localized within mononuclear leukocytes in the decidua capsularis and basalis, and within the necrotic chorionic villi and cervical epithelium. G3 demonstrated degenerative changes within the chorionic villi and trophospongium. The virus antigen was observed within the chorionic villi, trophoblasts, mononuclear cells, and fetal tissues. In conclusion, EHV-9 induced abortion mostly occurs through necrosis of the chorionic villi and cannot cross through the capsular placenta in the early trimester but can through the developed decidual placentation.
Downregulation of Smad1/2/3, p-Smad2/3 and Smad4 in seborrheic keratosis, basal cell carcinoma and squamous cell carcinoma

Objective: To investigate the expression and significance of Smad1, Smad2, Smad3, phosphorylated-Smad2/3(p-Smad 2/3)and Smad4 in seborrheic keratosis(SK), basal cell carcinoma(BCC)and squamous cell carcinoma(SCC). Methods: EliVisionTMplus immunohistochemical technique was used to detect the distribution and expression of Smad1/2/3, p-Smad2/3 and Smad4 in SK, BCC and SCC. Results: the expressions of Smad1/2/3, p-Smad2/3 and Smad4 in SK, BCC and SCC were significantly down-regulated in comparison with those of normal control skin. Conclusion: Reduction in quantities of Smad1/2/3, p-Smad2/3 and Smad4 might contribute to formation and progression of the epidermal tumors mentioned above via blocking TGF-β signaling pathway.
Incorporating putatively neutral and adaptive genomic data into marine conservation planning

The availability of genomic data for an increasing number of species makes it possible to incorporate evolutionary processes into conservation plans. Recent studies show how genetic data can inform spatial conservation prioritization (SCP), but they focus on metrics of diversity and distinctness derived primarily from neutral genetic data sets. Identifying adaptive genetic markers can provide important information regarding the capacity for populations to adapt to environmental change. Yet, the effect of including metrics based on adaptive genomic data into SCP in comparison to more widely used neutral genetic metrics has not been explored. We used existing genomic data on a commercially exploited species, the giant California sea cucumber (Parastichopus californicus), to perform SCP for the coastal region of British Columbia (BC), Canada. Using a RAD‐seq data set for 717 P. californicus individuals across 24 sampling locations, we identified putatively adaptive (i.e., candidate) single nucleotide polymorphisms (SNPs) based on genotype–environment associations with seafloor temperature. We calculated various metrics for both neutral and candidate SNPs and compared SCP outcomes with independent metrics and combinations of metrics. Priority areas varied depending on whether neutral or candidate SNPs were used and on the specific metric used. For example, targeting sites with a high frequency of warm‐temperature‐associated alleles to support persistence under future warming prioritized areas in the southern coastal region. In contrast, targeting sites with high expected heterozygosity at candidate loci to support persistence under future environmental uncertainty prioritized areas in the north. When combining metrics, all scenarios generated intermediate solutions, protecting sites that span latitudinal and thermal gradients. Our results demonstrate that distinguishing between neutral and adaptive markers can affect conservation solutions and emphasize the importance of defining objectives when choosing among various genomic metrics for SCP.
Comparative Quantitative Gene Expression analysis Between Salinity Tolerant and Susceptible Varieties of Chickpea

Comparative Quantitative Gene Expression analysis Between Salinity Tolerant and Susceptible Varieties of Chickpea Salinity is one of the greatest limiting factors in agriculture. Therefore, the ability of plants to adapt saline conditions is crucial to sustain worldwide crop production. Present study is meant to identify gene specific markers for salt tolerance in Chickpea. Selected chickpea genotypes were already characterized for salt tolerance and susceptibility. Sixteen gene specific primers were designed from already identified abiotic stress resistant genes from database among which five were used for semiquantitative reverse transcription polymerase chain reaction. The expression levels of two of them allow discrimination between tolerant and susceptible genotypes. In tolerant genotypes (JG-62 and Pusa 1053) the expression level of these genes was higher as compared to susceptible genotypes (BG-256 and ICCV2). For primer 13 the relative fold increase in gene expression was 10 times as compared to 2 times in susceptible plants. For primer 6 the relative fold increase in gene expression was 5 folds in Pusa 1053 (tolerant) as compared to 4 folds in other genotypes. Gene expression was observed to be maximum at 200mM concentration in almost all genotypes for above two gene specific primers. So, primer 13 is a potent gene for gene pyramiding in susceptible varieties for salt stress.
New Insights into Inflammatory Bowel Diseases from Proteomic and Lipidomic Studies

Ulcerative colitis (UC) and Crohn’s disease (CD) represent the two main forms of chronic inflammatory bowel diseases (IBD). The exact IBD etiology is not yet revealed but CD and UC are likely induced by an excessive immune response against normal constituents of the intestinal microbial flora. IBD diagnosis is based on clinical symptoms often combined with invasive and costly procedures. Thus, the need for more non-invasive markers is urgent. Several routine laboratory investigations have been explored as indicators of intestinal inflammation in IBD, including blood testing for C-reactive protein, erythrocyte sedimentation rate, and specific antibodies, in addition to stool testing for calprotectin and lactoferrin. However, none has been universally adopted, some have been well-characterized, and others hold great promise. In recent years, the technological developments within the field of mass spectrometry (MS) and bioinformatics have greatly enhanced the ability to retrieve, characterize, and analyze large amounts of data. High-throughput research allowed enhancing the understanding of the biology of IBD permitting a more accurate biomarker discovery than ever before. In this review, we summarize currently used IBD serological and stool biomarkers and how proteomics and lipidomics are contributing to the identification of IBD biomarkers.