Miracle-dz/UniFAR-FTUs huggingface dataset:
Metabarcoding targeting the EF1 alpha region to assess Fusarium diversity on cereals

Fusarium head blight (FHB) is a major cereal disease caused by a complex of Fusarium species. These species vary in importance depending on climatic conditions, agronomic factors or host genotype. In addition, Fusarium species can release toxic secondary metabolites. These mycotoxins constitute a significant food safety concern as they have health implications in both humans and animals. The Fusarium species involved in FHB differ in their pathogenicity, ability to produce mycotoxins, and fungicide sensitivity. Accurate and exhaustive identification of Fusarium species in planta is therefore of great importance. In this study, using a new set of primers targeting the EF1α gene, the diversity of Fusarium species on cereals was evaluated using Illumina high-throughput sequencing. The PCR amplification parameters and bioinformatic pipeline were optimized with mock and artificially infected grain communities and further tested on 65 field samples. Fusarium species were retrieved from mock communities and good reproducibility between different runs or PCR cycle numbers was be observed. The method enabled the detection of as few as one single Fusarium-infected grain in 10,000. Up to 17 different Fusarium species were detected in field samples of barley, durum and soft wheat harvested in France. This new set of primers enables the assessment of Fusarium diversity by high-throughput sequencing on cereal samples. It provides a more exhaustive picture of the Fusarium community than the currently used techniques based on isolation or species-specific PCR detection. This new experimental approach may be used to show changes in the composition of the Fusarium complex or to detect the emergence of new Fusarium species as far as the EF1α sequence of these species show a sufficient amount of polymorphism in the portion of sequence analyzed. Information on the distribution and prevalence of the different Fusarium species in a given geographical area, and in response to various environmental factors, is of great interest for managing the disease and predicting mycotoxin contamination risks.
Game-Theoretic Distributed Algorithm for Virtual TDM-PON Formulation to Realize Adaptive Data Transmission in C-RANs

We study the problem of building virtual base stations (vBS') adaptively in the TWDM-PON-based C-RAN, and developed a distributed algorithm based on the game-theoretic approach to formulate virtual TDM-PONs. We prove the existence of Nash Equilibrium (NE) points in the game and verify that the proposed algorithm can converge to an NE point quickly.
A free boundary model of epithelial dynamics

In this work we analyse a one-dimensional, cell-based model of an epithelial sheet. In this model, cells interact with their nearest neighbouring cells and move deterministically. Cells also proliferate stochastically, with the rate of proliferation specified as a function of the cell length. This mechanical model of cell dynamics gives rise to a free boundary problem. We construct a corresponding continuum-limit description where the variables in the continuum limit description are expanded in powers of the small parameter 1/N, where N is the number of cells in the population. By carefully constructing the continuum limit description we obtain a free boundary partial differential equation description governing the density of the cells within the evolving domain, as well as a free boundary condition that governs the evolution of the domain. We show that care must be taken to arrive at a free boundary condition that conserves mass. By comparing averaged realisations of the cell-based model with the numerical solution of the free boundary partial differential equation, we show that the new mass-conserving boundary condition enables the coarsegrained partial differential equation model to provide very accurate predictions of the behaviour of the cell-based model, including both evolution of the cell density, and the position of the free boundary, across a range of interaction potentials and proliferation functions in the cell based model.
An Empirical and Mechanistic Explanation of Abundance-Occupancy Relationships for a Critically Endangered Nomadic Migrant

The positive abundance-occupancy relationship (AOR) is a pervasive pattern in macroecology. Similarly, the association between occupancy (or probability of occurrence) and abundance is also usually assumed to be positive and in most cases constant. Examples of AORs for nomadic species with variable distributions are extremely rare. Here we examined temporal and spatial trends in the AOR over 7 years for a critically endangered nomadic migrant that relies on dynamic pulses in food availability to breed. We predicted a negative temporal relationship, where local mean abundances increase when the number of occupied sites decreases, and a positive relationship between local abundances and the probability of occurrence. We also predicted that these patterns are largely attributable to spatiotemporal variation in food abundance. The temporal AOR was significantly negative, and annual food availability was significantly positively correlated with the number of occupied sites but negatively correlated with abundance. Thus, as food availability decreased, local densities of birds increased, and vice versa. The abundance–probability of occurrence relationship was positive and nonlinear but varied between years due to differing degrees of spatial aggregation caused by changing food availability. Importantly, high abundance (or occupancy) did not necessarily equate to high-quality habitat and may be indicative of resource bottlenecks or exposure to other processes affecting vital rates. Our results provide a rare empirical example that highlights the complexity of AORs for species that target aggregated food resources in dynamic environments.
Brown adipose tissue remodelling induced by corticosterone in male Wistar rats

What is the central question of this study? Does glucocorticoid excess disrupt brown adipose tissue (BAT) phenotype and function? What is the main finding and its importance? Glucocorticoid excess induced an extensive remodelling of interscapular BAT, resulting in a white‐like phenotype in association with metabolic disturbances. Glucocorticoids might be an important modulator of BAT physiology and BAT may have a role in pathophysiology of metabolic disturbances induced by glucocorticoid excess.
Four Wellbeing Patterns and their Antecedents in Millennials at Work

Literature suggests that job satisfaction and health are related to each other in a synergic way. However, this might not always be the case, and they may present misaligned relationships. Considering job satisfaction and mental health as indicators of wellbeing at work, we aim to identify four patterns (i.e., satisfied-healthy, unsatisfied-unhealthy, satisfied-unhealthy, and unsatisfied-healthy) and some of their antecedents. In a sample of 783 young Spanish employees, a two-step cluster analysis procedure showed that the unsatisfied-unhealthy pattern was the most frequent (33%), followed by unsatisfied-healthy (26.6%), satisfied-unhealthy (24.8%) and, finally, the satisfied-healthy pattern (14.3%). Moreover, as hypothesized, discriminant analysis suggests that higher levels of job importance and lower levels of role ambiguity mainly differentiate the satisfied-healthy pattern, whereas overqualification and role overload differentiate, respectively, the unsatisfied-healthy and satisfied-unhealthy patterns. Contrary to our expectations, role conflict also characterizes the satisfied-unhealthy pattern. We discuss the practical and theoretical implications of these findings.
Modulation of broiler gut microbiota and gene expression of Toll‐like receptors and tight junction proteins by diet type and inclusion of phytogenics

ABSTRACT This study evaluated the effect of reduced dietary energy (ME) and crude protein (CP) levels along with inclusion of a phytogenic feed additive (PFA) on gut microbiota composition and gene expression of Toll‐like receptor(s) (TLR), tight junction proteins, and inflammatory cytokines expressed in secondary lymphoid organs. Depending on dietary ME and CP level down regulation and the inclusion or not of PFA at 125 mg/kg diet, 450 one‐day‐old male broilers were allocated in the following 6 treatments for 42 D according to a 3 × 2 factorial design: A: diet formulated optimally to meet broiler nutrient requirements; APh: A+PFA; B: suboptimal in ME and CP levels by 3%; BPh: B+PFA; C: suboptimal in ME and CP levels by 6%; CPh: C+PFA. Diet type and PFA supplementation were shown to affect mostly the mucosa‐associated microbiota compared to the luminal ones. Ileal mucosa‐associated total bacteria (PD= 0.005), Lactobacillus spp. (PD= 0.003), and Clostridium cluster XIVa (PD= 0.009) were affected by diet type with broilers fed diet B having lower levels compared to broilers fed diets A or C. Moreover, diet type affected cecal mucosa‐associated Lactobacillus spp. (PD= 0.002) with broilers fed diet C having lower levels compared to broilers fed diets A or B. Supplementation with PFA resulted in higher levels of cecal mucosa‐associated Bacteroides (PP= 0.031), Clostridium cluster IV (PP= 0.007), and Clostridium cluster XIVa (PP= 0.039). Diet type affected TLR2 (PD= 0.046) and claudin 5 (PD= 0.027) in cecal epithelium. Lower TLR2 (PP= 0.021) and higher zonula occludens 2 (PP= 0.031) relative gene expressions were seen in ileal epithelium following PFA supplementation. Moreover, in cecal epithelium, PFA supplementation resulted in lower TLR2 (PP < 0.001) and higher zonula occludens 2 (PP= 0.009), claudin 5 (PP= 0.005) and occludin (PP= 0.039) relative gene expressions. There were no significant diet type and PFA effects on cytokines in secondary lymphoid organs, except for a dietary effect on transforming growth factor beta 4 (PD= 0.023) in cecal tonsils. In conclusion, PFA inclusion beneficially modulated elements of gut microbiota, Toll‐like signaling molecules and gut tight junction genes.
Developmental Requirement of Homeoprotein Otx2 for Specific Habenulo-Interpeduncular Subcircuits

The habenulo-interpeduncular system (HIPS) is now recognized as a critical circuit modulating aversion, reward, and social behavior. There is evidence that dysfunction of this circuit leads to psychiatric disorders. Because psychiatric diseases may originate in developmental abnormalities, it is crucial to investigate the developmental mechanisms controlling the formation of the HIPS. Thus far, this issue has been the focus of limited studies. Here, we explored the developmental processes underlying the formation of the medial habenula (MHb) and its unique output, the interpeduncular nucleus (IPN), in mice independently of their gender. We report that the Otx2 homeobox gene is essential for the proper development of both structures. We show that MHb and IPN neurons require Otx2 at different developmental stages and, in both cases, Otx2 deletion leads to disruption of HIPS subcircuits. Finally, we show that Otx2+ neurons tend to be preferentially interconnected. This study reveals that synaptically connected components of the HIPS, despite radically different developmental strategies, share high sensitivity to Otx2 expression. SIGNIFICANCE STATEMENT Brain reward circuits are highly complex and still poorly understood. In particular, it is important to understand how these circuits form as many psychiatric diseases may arise from their abnormal development. This work shows that Otx2, a critical evolutionary conserved gene implicated in brain development and a predisposing factor for psychiatric diseases, is required for the formation of the habenulo-interpeduncular system (HIPS), an important component of the reward circuit. Otx2 deletion affects multiple processes such as proliferation and migration of HIPS neurons. Furthermore, neurons expressing Otx2 are preferentially interconnected. Therefore, Otx2 expression may represent a code that specifies the connectivity of functional subunits of the HIPS. Importantly, the Otx2 conditional knock-out animals used in this study might represent a new genetic model of psychiatric diseases.
A Group D MAPK Protects Plants from Autotoxicity by Suppressing Herbivore-Induced Defense Signaling1

A group D MAPK suppresses herbivore oviposition-induced ethylene and nitric oxide, thereby protecting rice plants from autotoxicity but reducing resistance to herbivory. The mechanisms by which plants activate and enhance defense responses have been well studied; however, the regulatory mechanisms that allow plants to avoid excessive defense responses are poorly understood. Here, we identified a group D mitogen-activated protein kinase (MAPK) gene from rice (Oryza sativa), OsMAPK20-5, whose expression was rapidly induced by infestation of gravid female adults of a destructive rice pest, brown planthopper (BPH, Nilaparvata lugens), but not by BPH nymphs. Expression silencing of OsMAPK20-5 (irMAPK) increased the accumulation of ethylene and nitric oxide (NO) after gravid female BPH infestation, and thereby increased rice plant resistance to BPH adults and oviposited eggs. However, when exposed to high densities of gravid BPH females, irMAPK plants wilted earlier than wild-type plants, which could be attributed to the hyperaccumulation of ethylene and NO in irMAPK plants. Interestingly, when released into the field, irMAPK plants displayed broad resistance to BPH and white-backed planthopper (Sogatella furcifera), the two most destructive pests of rice, and produced higher yield. Taken together, our study shows that although OsMAPK20-5 can reduce the resistance of rice plants to planthoppers, it also enables rice plants to control excessive defense responses and thereby prevents defense-response–related autotoxicity.
Geographical distribution of Aedes aegypti and Aedes albopictus (Diptera: Culicidae) and genetic diversity of invading population of Ae. albopictus in the Republic of the Congo

Background: The arbovirus vector, Aedes albopictus, originating from Asia, has recently invaded African countries, including the Republic of the Congo, where it was associated with a chikungunya outbreak. Up until now, little was known about its distribution in relation to the native Aedes aegypti and how the invasion will modify the epidemiology of arboviral diseases. Here, we assessed the current distribution of Ae. albopictus and Ae. aegypti in the Republic of the Congo and explored the genetic diversity of the invading species, Ae. albopictus. Methods: Immature stages of Aedes were collected in nine locations in the Republic of the Congo in 2017 following a north-south transect and reared to adult stage. Adults were morphologically identified, counted and grouped according to species and location. Genetic diversity of Ae. albopictus was assessed by analyzing the cytochrome oxidase I ( COI) gene. Results: Ae. albopictus and Ae. aegypti were found together across the country in all the locations investigated. The invasive species is predominant over the native species in all locations except Brazzaville, suggesting that Ae. albopictus is displacing Ae. aegypti across Congo. When comparing the species distributions across the two largest cities, Brazzaville and Pointe Noire, Ae. albopictus was more prevalent than Ae. aegypti in the suburbs whereas the opposite situation was reported in the city centre. Mitochondrial DNA analysis revealed very low genetic diversity of Ae. albopictus with only three haplotypes recorded across the country supporting the recent introduction of this species in the Republic of the Congo. Phylogenetic tree analysis revealed that Ae. albopictus from Congo originated from other tropical Asian countries such as China, likely as a result of increasing trade links. Conclusion: These findings are important for the implementation of vector control strategies and can serve as a foundation for further research on these vectors in the country.
Potencial agronómico y enológico de diez variedades blancas de vid como materia prima en la obtención de aguardientes para Brandy de Jerez. Estudio comparativo de las holandas producidas.

Estudio del potencial agronomico y enologico de diez variedades blancas de vid como materia prima en la elaboracion de aguardientes ("holandas") para Brandy de Jerez. Estudio de la influencia de factores como la variedad de vid, la adicion de anhidrido sulfuroso al vino de partida, la presencia de lias en el vino durante la destilacion y la cepa de levadura utilizada en la fermentacion del vino, sobre la calidad de las holandas obtenidas.
Denoising of iodine-131 images using a median filter

Objective An iodine-131 (131I) image visually appears to be contaminated with impulse noise. The two-dimensional median filter removes noise without sacrificing the edge information. Its performance depends on the shape and size of the mask. In this study, we have compared the performance of a plus-shape and a square-shape median filter for 131I whole-body images and found the filter with optimum parameter that improves 131I image quality acceptable to nuclear medicine physicians. Materials and methods A total of 150 whole-body 131I images were exported in DICOM format. These images were converted into PNG format and processed with a plus-shape and a square-shape median filter, with each shape mask having sizes of 3, 5, 7, and 9 pixels. The quality of the processed images was assessed by visual assessment by two nuclear medicine physicians and also quantitatively by evaluating metrics: mutual information, mean square error, peak signal-to-noise ratio, and difference entropy. Nuclear medicine physicians assigned a score to each image on the scale 1 (lowest) to 5 (highest) for image quality on the basis of the noise removal, smoothness, and edge information available in the image. Student’s t-test was carried out to find the significant difference in the image quality (&agr;=0.05) between the processed images with square-shape and cross-shape mask with the same pixel size. All experiments including statistical analysis were conducted using R installed on a personal computer. Results Both median filters improved the image quality of 131I images. The plus-shape median filter was found to show better performance in comparison with the square-shape median filter (P<0.001). The plus-shape median filter with a mask size of 7 pixels was found to be optimum for the processing of whole-body 131I images. Conclusion The plus-shape median filter with a mask size of 7 pixels can be used to process whole-body 131I scintigraphic images without loss of clinical information.
Evaluation of OnabotulinumtoxinA Treatment in Patients with Concomitant Chronic Migraine and Temporomandibular Disorders.

Introduction Migraine and temporomandibular disorders (TMD) are both common diseases and TMD are reported as a risk factor in migraine progression. OnabotulinumtoxinA is used in the treatment of chronic migraine (CM), and also has a potential role in TMD treatment. In this study, it is aimed to compare the efficacy of onabotulinumtoxinA treatment in CM patients with and without TMD. Methods In this retrospective study, 30 CM patients (age range: 18-65 years), satisfying the inclusion and follow-up criteria in their medical records were investigated. The PREEMPT injection protocol was taken as reference and onabotulinumtoxinA 155-195 U with fixed-dose has been administered into 31 specific sites within the head/neck muscles in included subjects. Two cycles of treatment were assessed in all patients at the baseline and 12 weeks later. The headache diaries, which were completed routinely one month before, and during 6 months follow-up after the treatment, were assessed. The effect of onabotulinumtoxinA treatment was compared between CM patients with and without TMD/bruxism. Results Of 30 female patients, 17 had concomitant TMD. In week 24, there were significant improvement in the groups with and without TMD regarding to the mean change of frequencies in the days with migraine compared to the initial findings (p<0.001). However, there was no significant difference between the two groups. Conclusions OnabotulinumtoxinA is an effective and safe treatment for CM. Its efficacy appears to be similar in CM patients with and without TM, speculating that the comorbidity of TMD did not play a role for the treatment response.
A comparative assessment of static muscular strength among female operative’s working in different handicraft occupations in India

Abstract An ergonomic assessment of static muscular strength like hand grip-and pinch strength in handicraft occupation was made. In total, 170 female participants were selected for the case-control study, out of which 120 handicraft and 50 office workers were examined as exposed and control groups. Their maximum static handgrip- and pinch strength were measured using hand and pinch dynamometers. We analyze our findings to indicate static muscular strength varies significantly due to repetitive use of hand tools. The decrement in pinch grip strength was evident due to long cycle repetitive pinching movements of distal phalanx during hand knotting and pearl drilling. Based on our results we propose the need for ergonomically designed hand tool interventions that may reduce the accumulation of loss in static muscle strength.
AP19-00815 Abstract View

Methods : About 151 AF patients were prospectively enrolled and divided into paroxysmal AF group (n = 102) and persistent AF group (n = 49). Circumferential pulmonary vein antrum isolation (CPVI) was performed in all patients. Linear ablation at the left atrial roof and mitral isthmus was performed in patients with persistent AF in addition to CPVI. The procedural time, X-ray exposure time, acute and long-term success rates of CPVI, and procedure-related complications were analyzed. The AF recurrence rates in the two groups were compared during 1 year, and Cox regression was used to analyze the recurrence risk factors.
NKL homeobox gene NKX2-2 is aberrantly expressed in Hodgkin lymphoma

NKL homeobox genes encode basic transcriptional regulators of cell and tissue differentiation. Recently, we described a hematopoietic NKL-code comprising nine specific NKL homeobox genes expressed in normal hematopoietic stem cells, lymphoid progenitors and during lymphopoiesis, highlighting their physiological role in the development of T-, B- and NK-cells. Here, we identified aberrant expression of the non-hematopoietic neural NKL homeobox gene NKX2-2 in about 12% of both, classical Hodgkin lymphoma (HL) and nodular lymphocyte predominant (NLP) HL patients. The NKX2-2 expressing NLPHL-derived cell line DEV served as a model by analysing chromosomal configurations and expression profiling data to reveal activating mechanisms and downstream targets of this developmental regulator. While excluding chromosomal rearrangements at the locus of NKX2-2 we identified t(3;14)(p21;q32) resulting in overexpression of the IL17 receptor gene IL17RB via juxtaposition with the IGH-locus. SiRNA-mediated knockdown experiments demonstrated that IL17RB activated NKX2-2 transcription. Overexpression of IL17RB-cofactor DAZAP2 via chromosomal gain of 12q13 and deletion of its proteasomal inhibitor SMURF2 at 17q24 supported expression of NKX2-2. IL17RB activated transcription factors FLI1 and FOXG1 which in turn mediated NKX2-2 expression. In addition, overexpressed chromatin-modulator AUTS2 contributed to NKX2-2 activation as well. Downstream analyses indicated that NKX2-2 inhibits transcription of lymphoid NKL homeobox gene MSX1 and activates expression of basic helix-loop-helix factor NEUROD1 which may disturb B-cell differentiation processes via reported interaction with TCF3/E2A. Taken together, our data reveal ectopic activation of a neural gene network in HL placing NKX2-2 at its hub, highlighting a novel oncogenic impact of NKL homeobox genes in B-cell malignancies.