Miracle-dz/UniFAR-FTUs huggingface dataset:
A genome-wide map of DNA replication at single-molecule resolution in the malaria parasite Plasmodium falciparum

Abstract The malaria parasite Plasmodium falciparum replicates via schizogony: an unusual type of cell cycle involving asynchronous replication of multiple nuclei within the same cytoplasm. Here, we present the first comprehensive study of DNA replication origin specification and activation during Plasmodium schizogony. Potential replication origins were abundant, with ORC1-binding sites detected every ∼800 bp. In this extremely A/T-biased genome, the sites were biased towards areas of higher G/C content, and contained no specific sequence motif. Origin activation was then measured at single-molecule resolution using newly developed DNAscent technology: a powerful method of detecting replication fork movement via base analogues in DNA sequenced on the Oxford Nanopore platform. Unusually, origins were preferentially activated in areas of low transcriptional activity, and replication forks also moved fastest through lowly transcribed genes. This contrasts with the way that origin activation is organised in other systems, such as human cells, and suggests that P. falciparum has evolved its S-phase specifically to minimise conflicts between transcription and origin firing. This may be particularly important to maximise the efficiency and accuracy of schizogony, with its multiple rounds of DNA replication and its absence of canonical cell-cycle checkpoints.
Students’ and Teachers’ Beliefs About Effective Teaching of English for Occupational Purposes

Effective teaching of English for Occupational Purposes (EOP) is considered to enhance workers’ performance, efficacy, and professional development. Thus, what students and teachers believe to lead to effective EOP teaching is worth exploring. This study set out to compare students’ and teachers’ beliefs about effective EOP teaching. It employed a sequential mixed-methods design with a questionnaire initially administered to 306 voluntary participants, including 108 teachers and 198 sophomore and junior students who participated in teaching and learning EOP. Subsequently, semi-structured interviews with 30 voluntary participants selected from the first stage sample were conducted. The findings showed that students and teachers generally indicated their high agreement with communicative language teaching strategies in EOP. However, discrepancies were found in most observed factors of EOP teaching, including language skills, communicative language teaching, content and language integrated learning, and assessment, except technology integration. From the findings, it is suggested that both EOP students and teachers should be informed of what constitutes effective EOP teaching.
On-the-fly Locata/inertial navigation system integration for precise maritime application

The application of Global Navigation Satellite System (GNSS) technology has meant that marine navigators have greater access to a more consistent and accurate positioning capability than ever before. However, GNSS may not be able to meet all emerging navigation performance requirements for maritime applications with respect to service robustness, accuracy, integrity and availability. In particular, applications in port areas (for example automated docking) and in constricted waterways, have very stringent performance requirements. Even when an integrated inertial navigation system (INS)/GNSS device is used there may still be performance gaps. GNSS signals are easily blocked or interfered with, and sometimes the satellite geometry may not be good enough for high accuracy and high reliability applications. Furthermore, the INS accuracy degrades rapidly during GNSS outages. This paper investigates the use of a portable ground-based positioning system, known as ‘Locata’, which was integrated with an INS, to provide accurate navigation in a marine environment without reliance on GNSS signals. An ‘on-the-fly’ Locata resolution algorithm that takes advantage of geometry change via an extended Kalman filter is proposed in this paper. Single-differenced Locata carrier phase measurements are utilized to achieve accurate and reliable solutions. A ‘loosely coupled’ decentralized Locata/INS integration architecture based on the Kalman filter is used for data processing. In order to evaluate the system performance, a field trial was conducted on Sydney Harbour. A Locata network consisting of eight Locata transmitters was set up near the Sydney Harbour Bridge. The experiment demonstrated that the Locata on-the-fly (OTF) algorithm is effective and can improve the system accuracy in comparison with the conventional ‘known point initialization’ (KPI) method. After the OTF and KPI comparison, the OTF Locata/INS integration is then assessed further and its performance improvement on both stand-alone OTF Locata and INS is shown. The Locata/INS integration can achieve centimetre-level accuracy for position solutions, and centimetre-per-second accuracy for velocity determination.
Interaction of Amphipathic Peptide from Influenza Virus M1 Protein with Mitochondrial Cytochrome Oxidase

The Bile Acid Binding Site (BABS) of cytochrome oxidase (CcO) binds numerous amphipathic ligands. To determine which of the BABS-lining residues are critical for interaction, we used the peptide P4 and its derivatives A1-A4. P4 is composed of two flexibly bound modified α-helices from the M1 protein of the influenza virus, each containing a cholesterol-recognizing CRAC motif. The effect of the peptides on the activity of CcO was studied in solution and in membranes. The secondary structure of the peptides was examined by molecular dynamics, circular dichroism spectroscopy, and testing the ability to form membrane pores. P4 was found to suppress the oxidase but not the peroxidase activity of solubilized CcO. The Ki(app) is linearly dependent on the dodecyl-maltoside (DM) concentration, indicating that DM and P4 compete in a 1:1 ratio. The true Ki is 3 μM. The deoxycholate-induced increase in Ki(app) points to a competition between P4 and deoxycholate. A1 and A4 inhibit solubilized CcO with Ki(app)~20 μM at 1 mM DM. A2 and A3 hardly inhibit CcO either in solution or in membranes. The mitochondrial membrane-bound CcO retains sensitivity to P4 and A4 but acquires resistance to A1. We associate the inhibitory effect of P4 with its binding to BABS and dysfunction of the proton channel K. Trp residue is critical for inhibition. The resistance of the membrane-bound enzyme to inhibition may be due to the disordered secondary structure of the inhibitory peptide.
Effects of Exogenous Auxin on Mesocotyl Elongation of Sorghum

The length of sorghum mesocotyl plays a vital role in seed emergence from the soil, which is the foundation of healthy growth. In this study, we aimed to understand how exogenous auxin (IAA) promoted mesocotyl elongation of sorghum and its physiology mechanism. The results presented that exogenous IAA significantly promoted mesocotyl elongation in MS24B (short mesocotyl inbred line) by increasing the cell length, while with extra exogenous NPA (IAA inhibitor) application, the mesocotyl length presented a significant short phenotype. In Z210 (long mesocotyl inbred line), exogenous IAA had a slight effect on mesocotyl length elongation, while the NPA treatment decreased the mesocotyl length considerably. In MS24B, IAA treatment increased the activity of amylase to degrade starch to soluble sugar, and the activity of hexokinase was improved to consume the increased soluble sugar to offer more energy. The energy will help to increase the activity of PM H+-ATPase and the expression of expansin-related genes, which ultimately will promote the acidification of the plasma membrane in MS24B for cell elongation. Overall, the exogenous IAA functioned on the activation of energy metabolism, which in turn, inducted the acidification of the plasma membrane for mesocotyl elongation.
Antimalarial and Cytotoxic Activity of Native Plants Used in Cabo Verde Traditional Medicine

Medicinal plants have historically been a source of drugs in multiple applications, including the treatment of malaria infections. The Cabo Verde archipelago harbors a rich diversity of native plants, most of which are used for medicinal purposes. The present study investigated the in vitro antiplasmodial activities of four native plants from Cabo Verde (i.e., Artemisia gorgonum, Lavandula rotundifolia, Sideroxylon marginatum, and Tamarix senegalensis). Traditional preparations of these medicinal plants, namely aqueous extracts (infusions) and ethanolic extracts, were tested against both chloroquine-sensitive (3D7) and chloroquine-resistant (Dd2) Plasmodium falciparum strains using the SYBR Green detection method. The in vitro cytotoxicity was evaluated in Caco-2 and PLP2 cells using a sulforhodamine B colorimetric assay. An ethanolic extract of A. gorgonum and infusions of T. senegalensis exhibited high antiplasmodial activities (EC50 < 5 μg/mL) without cytotoxicity (GI50 > 400 μg/mL). Extracts of L. rotundifolia and S. marginatum exhibited moderate activities, with EC50 values ranging from 10–30 μg/mL. The A. gorgonum ethanolic extract showed activity toward early ring stages, and parasites treated with the T. senegalensis infusions progressed to the early trophozoite stage, although did not develop further to the late trophozoite or schizont stages. Antimalarial activities and the lack of cytotoxicity of the extracts are reported in the present study and support previous claims by traditional practitioners for the use of these plants against malaria while suggesting their ethnopharmacological usefulness as future antimalarials.
Rights, conflict, and removal: depictions of Indigenous groups in Californian and Texan history textbooks, 1836-2019

ABSTRACT Formal schooling in the U.S. has a long and violent history towards Indigenous peoples, today morphing into exclusion and erasure. Using a novel longitudinal dataset of U.S. textbooks (n = 193) from California and Texas, published from 1850 to 2019, we seek to shine light on the issue through a comprehensive analysis of depictions of Indigenous peoples in high school history textbooks. Despite extensive violence, over time, we find parallel increases in mentions of Indigenous rights in the two states. We complement this longitudinal analysis with a detailed snapshot of the linguistic nuances in a sub-set of the contemporary books in the sample (n = 33) via natural language processing (NLP). We again observe similar patterns between states, but we find that most of the discourse sentiment is negative and focused on historic conflicts with the state and settlers. Although rights are mentioned, it is only in passing discussions. Our findings illustrate that the rise of liberal narratives of equality still permit a high degree of marginalization of minorities. Further, the similarities between states supports theories that view the production of this curricular content is primarily a product of national or global processes.
Artificial intelligence based approach for categorization of COVID-19 ECG images in presence of other cardiovascular disorders

Coronavirus disease (COVID-19) is a class of SARS-CoV-2 virus which is initially identified in the later half of the year 2019 and then evolved as a pandemic. If it is not identified in the early stage then the infection and mortality rates increase with time. A timely and reliable approach for COVID-19 identification has become important in order to prevent the disease from spreading rapidly. In recent times, many methods have been suggested for the detection of COVID-19 disease have various flaws, to increase diagnosis performance, fresh investigations are required. In this article, automatically diagnosing COVID-19 using ECG images and deep learning approaches like as Visual Geometry Group (VGG) and AlexNet architectures have been proposed. The proposed method is able to classify between COVID-19, myocardial infarction, normal sinus rhythm, and other abnormal heart beats using Lead-II ECG image only. The efficacy of the technique proposed is validated by using a publicly available ECG image database. We have achieved an accuracy of 77.42% using Alexnet model and 75% accuracy with the help of VGG19 model.
Analysis of IPMSM Motor by Using SPWM and SVPWM Based Vector Controller with MTPA Control Strategy

Permanent magnet synchronous motors (PMSM) with field-oriented control (FOC) are widely used in best-performance drive systems due to their unique characteristics, including greater power factor, high efficiency, and higher power density. Typically, a voltage source inverter (VSI) is employed to regulate the PMSM. To control the VSI, an appropriate pulse width modulation (PWM) approach must be utilized. The performance of a vector-control (FOC) PMSM drive using SPWM and SVPWM algorithms is compared in this paper. Additionally, by injecting a demagnetizing current component, the Maximum torque per ampere (MTPA) approach is employed to increase the overall effectiveness of the motor drive system. The IPMSM drive has been modeled and simulated in MATLAB/Simulink and results have been analyzed. At finally implement the hardware with MicroLab Box and analyze the system performance.
Integrated tandem affinity protein purification using the polyhistidine plus extra 4 amino acids (HiP4) tag system

Peptide tag systems are a robust biophysical and biochemical method that is widely used for protein detection and purification. Here, we developed a novel tag system termed “HiP4” (histidine plus four amino acids) whose epitope sequence comprises only seven amino acids (HHHDYDI) that partially overlap with the conventional 6x histidine tag (6xHis‐tag). We produced a monoclonal antibody against the HiP4 tag that can be used in multiple immunoassays with high specificity and affinity. Using this system, we developed a tandem affinity purification (TAP) and mass spectrometry (TAP‐MS) system for comprehensive protein interactome analysis. The integrated use of nickel bead purification followed by HiP4 tag immunoprecipitation made it possible to reduce nonspecific binding and improve selectivity, leading to the recovery of previously unrecognized proteins that interact with hepatitis B virus X (HBx) protein or TAR DNA‐binding protein 43 (TARDBP or TDP‐43). Our results indicate that this system may be viable as a simple and powerful tool for TAP‐MS that can achieve low background and high selectivity in comprehensive protein–protein interaction analyses.
Improvisation, Economy, and MTV Moves: Online News and Video Production Style

This study uses content analysis to explore the way a news organization's norms and expectations is tied to video production style and extends Rogers's Diffusion of Innovations theory. The study compares the current online video production styles from legacy print, legacy TV, and digital native news organizations based in the United States. Over time, while these organizations have converged into one screen for viewers, their differing organizational histories, traditions, and norms affect the way they produce video news. The analysis found legacy print organizations continue to produce slower-paced videos without scripted narration; TV organizations use scripted narration with one correspondent; and digital natives produce stories with quick pacing and a mix of narrator types. Diffusion of Innovations theory helps to explain why these organizations offer distinct production styles that are not converging in form.
Measurements of sound speed in excised tissue over temperatures expected under high‐intensity focused ultrasound conditions

Noninvasive monitoring of high‐intensity focused ultrasound (HIFU) treatment by diagnostic ultrasound is currently limited by a poor understanding of the bioacoustic effects of tissue heating. Sound‐speed measurement has been proposed as a means of noninvasive thermal mapping. The sound speed in most tissues changes monotonically but nonlinearly with temperature to around 60 °C. Above that temperature, at which the tissue proteins begin to denature, irreversible changes occur in the tissue and its corresponding acoustic properties. Sound‐speed data around and above the range in which the tissue ‘‘cooks’’ is a challenge to obtain because of changes in tissue shape, compressibility, and overall dimensions associated with the cooking process. In this research, an apparatus to measure sound speed during a controlled temperature change was used to study the effects of temperature, thermal dose, and thermal dose rate on the speed of sound in various mammalian tissues. The apparatus, potential sources of error, .
Molecular Diagnosis and Cancer Prognosis—A Concise Review

Cancer is a complicated disease. Globally, it is one of the major causes for morbidity and mortality. A critical challenge associated with it is the difficulty to accurately diagnose it at an early stage. The malignancy due to multistage and heterogeneity that result from genetic and epigenetic modifications poses critical challenge to diagnose and monitor the progress at an early stage. Current diagnostic techniques normally suggest invasive biopsy procedure that can cause further infections and bleeding. Therefore, noninvasive diagnostic methods with high accuracy, safety and earliest detection are the needs of the hour. Herein, we provide a detailed review on the advanced methodologies and protocols developed for the detection of cancer biomarkers based on proteins, nucleic acids and extracellular vesicles. Furthermore, existing challenges and the improvements essential for the rapid, sensitive and noninvasive detection have also been discussed.
Characteristics of Microbiota in Different Segments of the Digestive Tract of Lycodon rufozonatus

Simple Summary Microorganisms are widely distributed in the skin, respiratory tract, digestive tract, external auditory tract, and urogenital tract of animals, with the highest microbiota abundance in the digestive tract. Considering the vital role of intestinal microbiota in nutrient metabolism, immunity, neuroregulation, and curing of disease, animal intestinal microbiota have become a research hotspot in conservation biology. The intestinal microbiota of mammals are dominated by Firmicutes and Bacteroidetes. The avian gut microbiota are similar to those of mammals at the phylum level and primarily consist of Bacteroidetes, Firmicutes, and Proteobacteria. Proteobacteria and Firmicutes dominated the bacterial communities of the insect gut. However, relatively little research has been conducted on reptiles, particularly snakes. In this study, the composition of the intestinal microbial community and its ecological adaptation were investigated in the different segments of the gastrointestinal tract of Lycodon rufozonatus specimens. We found that microbial diversity was higher in the stomach than that in the small and large intestines, and the microbes were involved in metabolic processes. Our results provide insights into the comprehensive understanding of the evolution and ecology of snakes and the formulation of conservation measures for these animals. Abstract The gastrointestinal tract of animals contains microbiota, forming a complex microecosystem. Gut microbes and their metabolites can regulate the development of host innate and adaptive immune systems. Animal immune systems maintain intestinal symbiotic microbiota homeostasis. However, relatively few studies have been published on reptiles, particularly snakes, and even fewer studies on different parts of the digestive tracts of these animals. Herein, we used 16S rRNA gene sequencing to investigate the microbial community composition and adaptability in the stomach and small and large intestines of Lycodon rufozonatus. Proteobacteria, Bacteroidetes, and Firmicutes were most abundant in the stomach; Fusobacteria in the small intestine; and Proteobacteria, Bacteroidetes, Fusobacteria, and Firmicutes in the large intestine. No dominant genus could be identified in the stomach; however, dominant genera were evident in the small and large intestines. The microbial diversity index was significantly higher in the stomach than in the small and large intestines. Moreover, the influence of the microbial community structure on function was clarified through function prediction. Collectively, the gut microbes in the different segments of the digestive tract revealed the unique features of the L. rufozonatus gut microbiome. Our results provide insights into the co-evolutionary relationship between reptile gut microbiota and their hosts.
Preparation of Highly Stable Polymer Microstructure with Enhanced Adhesion Strength by Pushpin-like Nano/Microstructure Array

This polymer microstructure expands more available application, which is a milestone for the development of micro-electro-mechanical system devices towards intelligence and multifunction. Poor interface bonding between the polymer and Si or metal is a particular problem, which restricts the application and promotion of polymer materials. In this study, a transition strengthening layer is proposed to obtain a highly stable polymer microstructure by enhancing the interfacial adhesion strength. The transition strengthening layer is activated by a pushpin-like nano/microstructure array with micromachining technology. Given its good graphical qualities and compatibility, epoxy negative photoresist SU-8 is applied to evaluate the strengthened capabilities of the pushpin-like nano/microstructure array. The microstructure of SU-8 is prepared by the same processes, and then the adhesion strength between the SU-8 microstructure and various activated substrates is tested by the thrust tester. It was determined that SU-8 with an activated pushpin-like microstructure array possessed a highly stable adhesion ability, and its adhesion strength increased from 6.51 MPa to 15.42 MPa. With its ultrahigh stable adhesion ability, it has been applied in fabricating three typical microstructures (hollow square microstructure, gradually increasing adjacent periodic microstructure, and slender strip microstructures) and large-area SU-8 microstructures to evaluate the feasibility of the transition strengthening layer and repeatability and universality of the microfabrication processes. The drifting and gluing phenomenon are avoided by this method compared with the traditional design. The proposed pushpin-like nano/microstructure array is promising in enhancing the stability of polymer microstructures with a substrate.