Miracle-dz/UniFAR-FTUs huggingface dataset:
O-mycoloylation : caractérisation d'une nouvelle modification post-traductionnelle de petites protéines d'enveloppe chez les Corynebacterineae

Les Corynebacterineae sont des bacteries caracterisees par la presence d'une paroi atypique pour des bacteries Gram+ avec notamment la presence d'une membrane externe appelee mycomembrane. Cette membrane est constituee majoritairement d'acides mycoliques, acide gras a longue chaine a-ramifies et beta-hydroxyles specifique des Corynebacterineae, que l'on retrouve soit lies a l'arabinogalactane formant le feuillet interne, soit au trehalose formant le feuillet externe. Dans la plupart des genres de ce sous-ordre, des proteines ont ete identifiees au niveau de la mycomembrane. C'est le cas en particulier, des mycoloyltransferases permettant le transfert des acides mycoliques sur leurs accepteurs finaux mais aussi des porines permettant le passage des solutes necessaires a la survie de la bacterie. Au cours de ce travail, nous avons etudie certaines proteines de la mycomembrane en particulier PorA et PorH chez la souche C. Glutamicum ATCC13032. Nous avons demontre, en combinant differentes techniques de biochimie des proteines et de spectrometrie de masse, que les proteines PorA et PorH ainsi qu'une troisieme proteine inconnue appelee proteine X sont O-acylees par un acide mycolique, modification jamais observee chez les bacteries. Nous avons montre que cette modification s'effectue sur la serine 15 de PorA et qu'elle est necessaire a l'activite porine cation-selective de l'heterooligomere PorA-PorH chez C. Glutamicum ATCC13032. Dans un deuxieme temps, nous avons identifie l'enzyme responsable de la mycoloylation par interruption du gene candidat. Il s'agit d'une mycoloyltransferase qui se differencie des autres mycoloyltransferases connues par une boucle d'insertion au niveau de sa structure responsable d'une specificite de substrat differente. L'identification de cette enzyme nous a permis de rechercher des proteines orthologues chez l'ensemble des Corynebacterineae. L'etude des candidats devrait permettre de savoir si ce type de modification post-traductionnelle est commun au sous-ordre des Corynebacterineae.
Graphdiyne formed a novel CuI-GD/g-C3N4 S-scheme heterojunction composite for efficient photocatalytic hydrogen evolution

Rational design of novel and efficient hybrid photocatalysts has great significance today, as fossil energy demands urgent need to be replaced by green energy, such as the hydrogen energy. For this reason, as the youngest member of the carbon family, graphdiyne (GD) has attracted extensive attention. Herein, a new type of GD–CuI material was synthesized via a one-pot reaction. After combining GD–CuI with g-C3N4 by a simple calcination method, a step-scheme (S-scheme) heterojunction was formed between CuI–GD and g-C3N4 that substantially improved the hydrogen evolution performance of successfully synthesized CuI–GD/g-C3N4 nanocomposites. The hydrogen evolution activity of the CuI–GD/g-C3N4 photocatalyst was 9.8 times that of the pure g-C3N4 under visible-light irradiation. The introduction of CuI–GD composites prolonged the lifetime of photogenerated carriers, enhanced the electron density, and reduced the overpotential of hydrogen production, which played a positive role in enhancing the photocatalytic performance of nanocomposites. Through the in-depth analysis of the band structure of the catalyst, it could be observed that in the g-C3N4-based composite catalyst, the new materials with CuI–GD built a dual S-scheme heterojunction composite. Thus, the reasonable CuI–GD/g-C3N4 S-scheme heterojunction composite can simultaneously have the advantages of high charge separation efficiency and strong redox capacity. This work provides a new approach for the synthesis of new type of composite photocatalysts for solar energy conversion.
Towards a better understanding of protein interaction specificities in cell signalling - PDZ domains in the spotlight of computational and experimental approaches

PDZ domains recognize C-terminal PDZ-binding motifs (PBMs) thereby mediating protein interactions that are often involved in cell polarity regulation. In this thesis, we studied under various aspects the specificity of PDZ-PBM interactions. We identified weak performances of two published predictors for interactions between core PDZ domains and short PBMs. Next, we developed protocols based on BIAcore and HoldUp to experimentally validate on a large scale predicted PDZ-PBM interactions and to study the influence of sequence context (e.g. flanking regions or neighbouring domains) of PDZs and PBMs on their interaction affinity and specificity. We identified new potential interactions involving the human PDZ proteins MAGI1 and SCRIB underpinning their implication in G protein signalling pathways. A literature survey combined with our own findings reveal structural mechanisms, by which sequence context influences PDZ interaction affinities and specificities. We have discussed those in a published review. Insights gained from this thesis may positively impact future studies on PDZ-PBM interactions in particular and on domain-linear motif interactions in general.
Relationship between Willingness to Communicate in English and Foreign Language Enjoyment

This research sets out to investigate the relationship between WTC (willingness to communicate) in English and FLE (Foreign Language Enjoyment) among Chinese EFL (English as a foreign language) learners in normal universities in Shandong Province, China. This is a quantitative research through survey technique via a questionnaire on students’ demographic variables, WTC, and FLE. The data collected from 128 recruited students have been addressed by SPSS (Statistical Package for Social Science) and AMOS (Analysis of Moment Structures). The outcomes of this research show that the tertiary EFL students in Shandong normal universities evaluated themselves as taking a high level of FLE and L2 WTC. Besides, data exhibited there was a significant positive relationship that is moderately strong between FLE and L2 WTC. Furthermore, the multiple regression analysis showed that FLE-teacher is the FLE dimension that significantly impacts on L2 WTC. Through the achievement of the fitness indexes required for GFI (Goodness of Fit Index), Ratio Chisq/df (Chi-square/ Degrees of Freedom), and RMR (Root Mean Square) at an acceptable level, the proposed structural model does fit with the data gathered. Thereby, the structural model proposed based on the conceptual framework was established for this study.
Statistical Analysis of Turkish Speaking Students’ Phubbing Behaviors

As spending considerable time on Smart Phones has nearly become a norm, people ignoring other people around them in social environments, increased remarkably over the past decade. People being exposed to phubbing behaviors by their companions, looking at their phones repeatedly in social settings are feeling ignored. In this study, after an extensive literature review, data were collected from 352 participants via SurveyMonkey software regarding their perceptions about phubbing and being phubbed. The aim of this study is to find differences between Turkish Speaking Students’ Phubbing Behaviors according to education, job status, working status and gender. Statistical analysis showed that, all participants stated “they get rid of their stress by interacting with their phones”, though they do not mean to irritate others by focusing on their phones. Results also revealed that, Working participants are phubbed more compared to the Not Working and Retired participants.
Numerical Solution of Quasilinear Singularly Perturbed Problems by the Principle of Equidistribution

In this paper, the numerical solution and its error analysis of quasilinear singular perturbation two-point boundary value problems based on the principle of equidistribution are given. On the non-uniform grid of the uniformly distributed arc-length monitor function, the solution of the simple upwind scheme is obtained. It is proved that the adaptive simple upwind scheme based on the principle of equidistribution has uniform convergence for small perturbation parameters. Numerical experiments are carried out and the error analysis are confirmed.
Current Progress and Future Prospects for the Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) Genome Editing Technology in Fruit Tree Breeding

Abstract Difficulties in generating woody perennial fruit trees and a lack of molecular markers have impeded functional analysis of agronomically important genes and genetic engineering for improved fruit cultivars. The clustered regularly interspaced short palindromic repeats (CRISPR) technology has been applied in editing fruit tree genomes, providing timely opportunities for studying the functions of the genes in fruit development and stress tolerance. It also leads to the new era of genetic engineering of fruit trees. In this review, we intend to present recent progress in the application of CRISPR to genome editing of fruit trees. We reviewed the most widely used CRISPR systems developed in other plant species that may be adopted for fruit trees and describe three genetic transformation methods used for fruit trees that have potential application value for different CRISPR systems. We also discuss the potential of the CRISPR system to study basic fruit tree biology and for precision fruit tree breeding.
Pushing the resolution of infrared imaging by mid infrared photothermal microscopy

Infrared (IR) spectroscopy depicts molecular structure and dynamics based on vibrational absorption of chemical bonds. Spatially resolved IR spectroscopy, i.e. IR imaging, further enabled label-free in situ chemical imaging for dynamics in complex systems. However, IR imaging suffers from low spatial resolution at a few micrometers due to diffraction limit, thus having difficulty in applications such as sub-cellular imaging. Recently, by visible light probing of the photothermal effect of vibrational absorption, mid-infrared photothermal imaging (MIP) overcomes the limitations of conventional IR microscopy and has achieved sub-micron resolution. In this work, we built an optimized MIP system to boost the spatial resolution and sensitivity, and demonstrated MIP imaging of nanometer-sized polymeric microspheres and living cells with a high spatial resolution of 200 nm.
NMDA Receptors Enhance the Fidelity of Synaptic Integration

Abstract Excitatory synaptic transmission in many neurons is mediated by two coexpressed ionotropic glutamate receptor subtypes, AMPA and NMDA receptors, that differ in kinetics, ion selectivity, and voltage-sensitivity. AMPA receptors have fast kinetics and are voltage-insensitive, while NMDA receptors have slower kinetics and increased conductance at depolarized membrane potentials. Here, we report that the voltage dependency and kinetics of NMDA receptors act synergistically to stabilize synaptic integration of EPSPs across spatial and voltage domains. Simulations of synaptic integration in simplified and morphologically realistic dendritic trees revealed that the combined presence of AMPA and NMDA conductances reduce the variability of somatic responses to spatiotemporal patterns of excitatory synaptic input presented at different initial membrane potentials and/or in different dendritic domains. This moderating effect of the NMDA conductance on synaptic integration was robust across a wide range of AMPA-to-NMDA ratios, and results from synergistic interaction of NMDA kinetics (which reduces variability across membrane potential) and voltage dependence (which favors stabilization across dendritic location). When combined with AMPA conductance, the NMDA conductance compensates for voltage-dependent and impedance-dependent changes in synaptic driving force, and distance-dependent attenuation of synaptic potentials arriving at the axon, to increase the fidelity of synaptic integration and EPSP-spike coupling across both neuron state (i.e., initial membrane potential) and dendritic location of synaptic input. Thus, synaptic NMDA receptors convey advantages for synaptic integration that are independent of, but fully compatible with, their importance for coincidence detection and synaptic plasticity.
The complete mitochondrial genome of Plagiodera versicolora (Laicharting)(Coleoptera: Chrysomelidae)

Abstract Plagiodera versicolora (Laicharting) is a leaf-eating pest widely distributed in the world. In this study, the first complete mitochondrial genome of P. Versicolora (Laicharting) was assembled and analyzed. The complete mitochondrial genome of P. Versicolora (Laicharting) is 16,857 bp with 22.39% GC containing, 13 protein-coding genes, 22 transfer RNA (tRNA), 2 ribosomal RNA (rRNA), as well as an AT-rich region. Phylogenomic analysis indicated that P. Versicolora (Laicharting) is sister to Chrysomela populiThis study provides useful information for the identification of this species and the study of genetic evolution with other species of Chrysomelidae.
Knowledge Compilation for Action Languages

We study different languages for representing nondeterministic actions in automated planning from the point of view of knowledge compilation. Precisely, we consider succintness issues (how succinct is the description of an action in each language? ) and complexity issues (how hard is it to decide whether a state is a successor of another one through some action described in one of these languages? ). We study an abstract, nondeterministic version of PDDL, the language of NNF action theories, and DL-PPA, the dynamic logic of parallel propositional assignments. We show that these languages have different succinctness and different complexity of queries: DL-PPA is the most succinct one and NNF is the least succinct, and deciding successorship is already NP-complete for nondeterministic PDDL.
DNA barcoding of selected short-horned grasshoppers (Orthoptera: Acrididae) from Indian Himalayan region

Abstract In the context of Indian zoogeography, the DNA barcode data of short-horned grasshoppers (family Acrididae) are limited in global databases. Hence, the present study was aimed to collect selected Acridid species from the Indian Himalayan regions and generate DNA barcode data to enrich the global database. The estimated K2P genetic distances, Bayesian analysis (BA) topology and multiple species delimitation methods (ABGD, bPTP, and GMYC) clearly discriminate all the studied species. Based on high genetic distance (7.5%), multiple clades, and more than one molecular operational taxonomic unit, the present study elucidates the allopatric speciation and presence of possible cryptic diversity of Oxya japonica within India, China, and Russia. The present study suggests the collection of multiple specimens from different geographical locations and the generation of more DNA barcode data would facilitate the actual diversity of this insect group.
Postprocessing of static analysis alarms

• A submitted manuscript is the version of the article upon submission and before peer-review. There can be important differences between the submitted version and the official published version of record. People interested in the research are advised to contact the author for the final version of the publication, or visit the DOI to the publisher's website. • The final author version and the galley proof are versions of the publication after peer review. • The final published version features the final layout of the paper including the volume, issue and page numbers.
Report on First Inflight Data of BepiColombo's Mercury Orbiter Radio Science Experiment

BepiColombo's Mercury orbiter radio science experiment (MORE) was conceived to enable extremely accurate radio tracking measurements of the Mercury Planetary Orbiter to precisely determine the gravity field and the rotational state of Mercury, and to test theories of gravitation (e.g., Einstein's theory of general relativity). The design accuracy of the radio tracking data was 0.004 mm/s (at 1000 s integration time) for the range-rate measurements and 20 cm for the range (at a few seconds of the integration time). These accuracies are attained due to a combination of simultaneous two-way microwave links at X (7.2–8.4 GHz) and Ka-band (32–34 GHz) to calibrate the dispersive plasma noise component. In this letter, we present the first analysis of the range and range-rate data collected by ESA's deep-space antenna (DSA) during the initial cruise phase of BepiColombo. The novel 24 Mcps pseudonoise (PN) modulation of the Ka-band carrier, enabled by MORE's Ka-band transponder, built by Thales Alenia Space Italy, Rome, Italy, provided two-way range measurements to the centimeter-level accuracy, with an integration time of 4.2 s at 0.29 astronomical units. In tracking passes with favorable weather conditions, the range-rate measurements attained an average accuracy of 0.01 mm/s at 60 s integration time. Data from May 20–24, 2019 were combined in a multi-pass analysis to test the link stability on a longer timescale. The results confirm the noise level observed with the single-pass analysis and provide a preliminary indication that the MORE PN ranging system at 24 Mcps is compatible with the realization of an absolute measurement, where the need to introduce the range biases in the orbital fit is much more limited than in the past. We show that in the initial cruise test the BepiColombo radio link provided the range measurements of unprecedented accuracy for a planetary mission, and that, in general, all target accuracies for radio-metric measurements were exceeded.
Gene expression profiles and pathway enrichment analysis to identification of differentially expressed gene and signaling pathways in epithelial ovarian cancer based on high-throughput RNA-seq data

Epithelial ovarian cancer (EOC) can be considered as a stressful and challenging disease among all women in the world, which has been associated with a poor prognosis and its molecular pathogenesis has remained unclear. In recent years, RNA Sequencing (RNA-seq) has become a functional and amazing technology for profiling gene expression. In the present study, RNA-seq raw data from Sequence Read Archive (SRA) of six tumor and normal ovarian sample was extracted, and then analysis and statistical interpretation was done with Linux and R Packages from the open-source Bioconductor. Gene Ontology (GO) term enrichment and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis were applied for the identification of key genes and pathways involved in EOC. We identified 1091 Differential Expression Genes (DEGs) which have been reported in various studies of ovarian cancer as well as other types of cancer. Among them, 333 genes were up-regulated and 273 genes were down-regulated. In addition, Differentially Expressed Genes (DEGs) including RPL41, ALDH3A2, ERBB2, MIEN1, RBM25, ATF4, UPF2, DDIT3, HOXB8 and IL17D as well as Ribosome and Glycolysis/Gluconeogenesis pathway have had the potentiality to be used as targets for EOC diagnosis and treatment. In this study, unlike that of any other studies on various cancers, ALDH3A2 was most down-regulated gene in most KEGG pathways, and ATF4 was most up-regulated gene in leucine zipper domain binding term. In the other hand, RPL41 as a regulatory of cellular ATF4 level was up-regulated in many term and pathways and augmentation of ATF4 could justify the increase of RPL41 in the EOC. Pivotal pathways and significant genes, which were identified in the present study, can be used for adaptation of different EOC study. However, further molecular biological experiments and computational processes are required to confirm the function of the identified genes associated with EOC.
Online Pelvic Floor Group Education Program for Women With Persistent Genital Arousal Disorder/Genito-Pelvic Dysesthesia: Descriptive Feasibility Study

Background Persistent genital arousal disorder/genito-pelvic dysesthesia (PGAD/GPD) is a highly distressing yet poorly understood condition characterized by persistent genito-pelvic sensations, often described as “genital arousal,” which occur in the absence of sexual desire. PGAD/GPD is associated with significant impairment in psychosocial and daily functioning; however, there are currently no empirically validated treatment algorithms for PGAD/GPD. Pelvic floor physical therapy exercises have been found to be effective at reducing other forms of genito-pelvic discomfort, such as vulvodynia, and may also be beneficial to those experiencing PGAD/GPD. Many individuals with PGAD/GPD report difficulty finding a health care provider who is knowledgeable about PGAD/GPD; therefore, pelvic floor education and exercises in an online format may have the potential to reach more individuals in need. Objective This study examined the feasibility of an online pelvic floor group education program; descriptively assessed outcomes related to distress, discomfort, catastrophizing, and mood; and obtained feedback from participants in order to inform the development of improved online group programs. Methods Fourteen women with current symptoms of PGAD/GPD attended an online, 8-session pelvic floor group education program. Participants completed questionnaires of symptoms (ie, symptom distress, discomfort) and psychosocial well-being (ie, depression, anxiety, symptom catastrophizing) prior to the group sessions (Time 1), immediately after the final group session (Time 2), and 6 months following the final group session (Time 3). Participants also completed an anonymous feedback questionnaire immediately following the group program. Results Overall, participants who attended a larger number of the group sessions (>5 sessions, n=7) appeared to report lower baseline (Time 1) symptoms and psychosocial impairment than those who attended fewer sessions (<5 sessions, n=7). A pattern of small improvements was seen following the group sessions on symptom and psychosocial outcomes. In the feedback questionnaire, breathing and relaxation exercises were described to be the most helpful home practice exercises, and participants rated sessions on (1) the relationship between emotions and PGAD/GPD symptoms and (2) relaxation exercises to be the most helpful. A number of barriers to participation in the group program were also identified, including comorbid health concerns and lack of personal time to complete the program/exercises. Conclusions Online interventions provide an opportunity to reach international participants who may otherwise struggle to access a knowledgeable provider for their PGAD/GPD symptoms. Addressing barriers may help to increase participants’ abilities to engage in the program. Future programs may seek to integrate a greater focus on relaxation strategies and cognitive-affective strategies for managing PGAD/GPD symptoms.
Molecular differentiation and determination of multi-drug resistant isolates of Pseudomonas species collected from burn patients in Kurdistan Region, Iraq

Background and objective: Pseudomonas aeruginosa is very a well-documented nosocomial and opportunistic microorganism, a little challenge is being present with the identiﬁcation of such pathogen. This study aimed to identify Pseudomonas on genus and species levels by conventional PCR and determine multi-drug resistant isolates. Methods: A total of 180 clinical isolates of Pseudomonas species were recovered from in and outpatients who attended Azadi and Rezgari Teaching hospitals in Duhok and Erbil city from October 2015 to May 2016. These isolates were phenotypically identified using standard microbiological procedures. A total of 100 isolates were randomly selected and confirmed at a molecular level as Pseudomonas spp. Results: By applying genus-specific gyr B2 primer which produced1130bp amplification band and sixty-eight isolates were identified by PCR as P. aueroginosa using species-specific primer for 16S rRNA region which showed 956bpamplicon. Forty-six isolates out of the sixty-eight resembling Pseudomonas aeruginosa were diagnosed as being multi-drug resistant isolates by the disc diffusion method. Conclusion: It can be concluded that multi-drug resistant isolates can pose a serious threat for the hospital-resident patients as increasing numbers of these isolates are being recorded in local settings.