Miracle-dz/UniFAR-FTUs huggingface dataset:
Profiling of N6-methyladenosine dynamics indicates regulation of oyster development by m6A-RNA epitranscriptomes

The N6-methylation of RNA adenosines (m6A) is an important regulator of gene expression with critical implications in vertebrate and insect development. However, the developmental significance of epitranscriptomes in lophotrochozoan organisms remains unknown. Using MeRIP-seq, we generated transcriptome-wide m6A-RNA methylomes covering the whole development of the oyster from oocytes to juveniles. Oyster RNA classes display specific m6A signatures, with mRNAs and lncRNAs exhibiting distinct profiles and being highly methylated compared to transposon transcripts. Epitranscriptomes are dynamic and correspond to chronological steps of development (cleavage, gastrulation, organogenesis and metamorphosis), with a minimal mRNA and lncRNA methylation at the morula stage followed by a global increase. mRNA m6A levels are correlated to transcript levels and shifts in methyladenine profiles correspond to expression kinetics. Differentially methylated transcripts cluster according to embryo-larval stages and bear the corresponding developmental functions (cell division, signal transduction, morphogenesis and cell differentiation). The m6A level of transposon transcripts is also regulated and peaks during the gastrulation. We demonstrate that m6A-RNA methylomes are dynamic and associated to gene expression regulation during oyster development. The putative epitranscriptome implication in the cleavage, maternal-to-zygotic transition and cell differentiation in a lophotrochozoan model brings new insights into the control and evolution of developmental processes
Load Monitoring Practice in Elite Women Association Football

The description of current load monitoring practices may serve to highlight developmental needs for both the training ground, academia and related industries. While previous studies described these practices in elite men's football, no study has provided an overview of load monitoring practices in elite women's football. Given the clear organizational differences (i.e., professionalization and infrastructure) between men's and women's clubs, making inferences based on men's data is not appropriate. Therefore, this study aims to provide a first overview of the current load monitoring practices in elite women's football. Twenty-two elite European women's football clubs participated in a closed online survey (40% response rate). The survey consisted of 33 questions using multiple choice or Likert scales. The questions covered three topics; type of data collected and collection purpose, analysis methods, and staff member involvement. All 22 clubs collected data related to different load monitoring purposes, with 18 (82%), 21 (95%), and 22 (100%) clubs collecting external load, internal load, and training outcome data, respectively. Most respondents indicated that their club use training models and take into account multiple indicators to analyse and interpret the data. While sports-science staff members were most involved in the monitoring process, coaching, and sports-medicine staff members also contributed to the discussion of the data. Overall, the results of this study show that most elite women's clubs apply load monitoring practices extensively. Despite the organizational challenges compared to men's football, these observations indicate that women's clubs have a vested interest in load monitoring. We hope these findings encourage future developments within women's football.
The interaction between the microbiome, diet and health

The gut microbiome refers to the intestinal community of microbes that help to maintain and influence health. This community includes trillions of microbes from more than a thousand bacterial species. As a supraorganism vital to human well-being and survival, the microbiome has developed alongside humans. According to Velasquez-Manoff, “our intestinal community of microbes calibrates our immune and metabolic function, and its corruption or depletion can increase the risk of chronic diseases. ”
VOLUME COMPARISON OF AUTOMATICALLY RECONSTRUCTED MULTI-LOD BUILDING MODELS FOR URBAN PLANNING APPLICATIONS

3D city models are playing a growing role worldwide as sources of integrated information upon which different urban applications are developed. In the context of urban planning and design, semantic 3D city models can provide plenty of qualitative and quantitative information about the urban context and of the area(s) to be transformed. This paper takes inspiration and continues a work recently published in which several design parameters and Key Performance Indicators are computed from a semantic 3D city model, and later used in a GIS-supported urban design process to develop a new area. As many of such parameters are derived from the gross volume of the building stock, this paper investigates whether and to which extent different building stock models might affect the estimation of the gross volume. The study is carried out in anticipation of the upcoming LoD2-based, country-wide model of the Netherlands that is being finalised by our team. At the same time, the paper investigates whether and which information can be obtained regarding the quality of the LoD2 model from a comparison with the LoD1 one, with a focus on volume calculation.
The polyglutamine amyloid nucleus in living cells is a monomer with competing dimensions of order

A long-standing goal of the study of amyloids has been to characterize the structural basis of the rate-determining nucleating event. However, the ephemeral nature of that event has made it inaccessible to classical biochemistry, structural biology, and computational approaches. Here, we addressed that limitation by measuring the dependence of amyloid formation on concentration and conformational templates in living cells, whose volumes are sufficiently small to resolve the outcomes of independent nucleation events. We characterized numerous rationally designed sequence variants of polyglutamine (polyQ), a polypeptide that precipitates Huntington’s and other amyloid-associated neurodegenerative diseases when its length exceeds a characteristic threshold. This effort uncovered a pattern of approximately twelve Qs, only for polypeptides exceeding the clinical length threshold, that allow for amyloid nucleation to occur spontaneously within single polypeptides. Nucleation was inhibited by intermolecular phase separation. Using atomistic molecular dynamics simulations, we found that the pattern encodes a minimal steric zipper of interdigitated side chains. Lateral growth of the steric zipper competed with axial growth to produce “pre-amyloid” oligomers. By illuminating the structural mechanism of polyQ amyloid formation in cells, our findings reveal a potential molecular etiology for polyQ diseases, and may provide a roadmap for the design of new therapies.
Conservation and divergence of poly(A) tail regulation during the mammalian oocyte-to-embryo transition

Poly(A) tail length and non-A residues are vital for oocyte-to-embryo transition (OET) in mice and humans1–5. However, the role of poly(A) tail length and non-A residues during OET in other commonly used mammalian animal models for human diseases remains unexplored. In addition, the degree of conservation in maternal mRNA poly(A) tail dynamics during OET across different mammal species is unknown. Here, we conduct a comparative analysis of the poly(A) tails during OET across four species: mice, rats, pigs, and humans. Dynamics during OET found to be conserved across all four species include: maternal mRNA deadenylation during oocyte maturation and re-polyadenylation after fertilization; a fall-rise trend in poly(A) tail length distribution; a rise-fall trend in the ratio of poly(A) tails with non-A residues; higher abundance of non-A residues in poly(A) tails of maternal mRNA than in zygotic genome activation (ZGA) mRNA; maternal mRNA with U residues degrades faster than those without U residues at the stage when ZGA takes place. While in mice and rats maternal mRNA deadenylation is impaired in parthenogenetic embryos and ZGA inhibition leads to blocked maternal mRNA deadenylation in mice and humans. In contrast, the length of consecutive U residues and the duration time of U residues in poly(A) tail diverges across the four species. Together, these findings reveal that the poly(A) tail mediated maternal mRNA post-transcriptional regulation is highly conserved in mammals with unique divergences in the length and life-span of U residues, providing new insights for the further understanding of OET across different mammals.
Development and population growth of the two-spotted spider mite (Tetranychus urticae Koch) on strawberry fertilized with different doses and sources of organic fertilizers

ABSTRACT This study deals with the evaluation of the biological parameters and population growth of TSSM in strawberry fertilized with different doses and sources of organic fertilizers. Plants were grown in a greenhouse where the treaments were: Bokashi compost, Penergetic®, boiled chicken manure solution at 2.5%, 5%, 7.5%, and 10% concentrations; and control (unfertilized plants). The immature duration, adult females longevity, number and viability of eggs were determined through mite rearing on leaf disks taken from the treated plants. Populations of TSSM adult females on strawberry leaves were also recorded in greenhouse. In addition, the levels of nitrogen, potassium and phenolic compounds were determined in leaves. Shorter immature period, higher female longevity, higher number and viability of eggs were obtained for TSSM reared on Bokashi fertilized plants. Denser adult TSSM population was also found on Bokashi fertilized plants in greenhouse. A moderate and positive correlation was observed between nitrogen foliar levels and egg numbers, adult female longevity, as well as between potassium foliar amount and mites density. The leaf content in phenolic compounds was correlated positively with the deutonymph duration and negatively with population density recorded in greenhouse.
Secure authentication in IoT and cloud server: An ECC based practice

Abstract The word Internet-of-Things (IoT) is continuously growing interest in the research sector compared to other advanced paradigms with its well-known real-life applications. However, for communication and resource sharing, these devices need to connect with highresource centers like cloud-server. Such integration involves security risk issues because any flaws in detection or authentication method will allocate a compromised entity to launch dangerous attacks and insert false data that lead to system failure. More importantly, IoT devices commune on a public channel that was more prone to access by prohibited abusers plus perturb the confidentiality of authentic abusers. In this article, we designed an authentication proposal raised on ECC for IoT devices with Cloud Server. We explore the fuzzy system service for channel non-reciprocal and ECC, one-way hash functions for secure authentication. Finally, we analyze the designed technique with the AVISPA tool and compare the computational communication costs with existing models.
Experimental investigation on self-loosening of a bolted joint under cyclical temperature changes

The most commonly used part in engineering fields is threaded fasteners. There are a lot of advantages of fasteners. One of them is that they can be easily disassembled and reused, but a bolted joint can loosen easily when a transversal load is applied. The clamp load of a bolted joint can also loosen slowly when subjected to repeated temperature changes. This paper presents an experimental investigation of the self-loosening of bolted joints under cyclical temperature variation. Experiments are carried out under several cyclical temperature changes with different bolt preloads. Rectangular threaded bolted joints with M12 × 1.75 bolts and nuts are tested in a specially designed testing apparatus. Material of bolt, nut, and plates is a stainless steel. The experimental results show that the high initial bolt preload may prevent the joint from self-loosening and the bolted joint has loosened significantly in the first cycle of temperature changes. From this investigation, the loosening of the bolted joint can be considered as a first stage self-loosening.
Unraveling Phylogenetic Relationships, Reticulate Evolution, and Genome Composition of Polyploid Plant Complexes by Rad-Seq and Hyb-Seq

Complex genome evolution of young polyploid complexes is poorly understood. Besides challenges caused by hybridization, polyploidization, and incomplete lineage sorting, bioinformatic analyses are often exacerbated by missing information on progenitors, ploidy, and reproduction modes. By using a comprehensive, self-developed bioinformatic pipeline integrating phylogenetic, structure, network, and SNP-origin analyses, we for the first time unraveled polyploid phylogenetic relationships and genome evolution within the large Eurasian Ranunculus auricomus species complex comprising more than 840 taxa. Our results rely on 97,312 genomic RAD-Seq loci, target enrichment of 576 nuclear genes (48 phased), and 71 plastid regions (Hyb-Seq; OMICS-data) derived from the 75 most widespread polyploid apomictic taxa and four di- and one tetraploid potential sexual progenitor species. Phylogenetic tree and structure analyses consistently showed 3–5 supported polyploid groups, each containing sexual progenitor species. In total, analyses revealed four diploid sexual progenitors and a one unknown, probably extinct progenitor, contributing to the genome composition of R. auricomus polyploids. Phylogenetic network, structure, and SNP-origin analyses based on RAD-Seq loci and phased nuclear genes completed by plastid data demonstrated predominantly allopolyploid origins, each involving 2–3 different diploid sexual subgenomes. Allotetraploid genomes were characterized by subgenome dominance and large proportions of interspecific, non-hybrid SNPs, indicating an enormous degree of post-origin evolution (i.e., Mendelian segregation of the diploid hybrid generations, back-crossings, and gene flow due to facultative sexuality of apomicts), but only low proportions of lineage-specific SNPs. The R. auricomus model system is the first large European polyploid species complex studied with reduced representation OMICS data. Our bioinformatic pipeline underlines the importance of combining different approaches and datasets to successfully unveil how reticulate evolution and post-origin processes shape the diversity of polyploid plant complexes.
B-arrestin-2 Signaling Is Important to Preserve Cardiac Function During Aging

Experiments reported here tested the hypothesis that β-arrestin-2 is an important element in the preservation of cardiac function during aging. We tested this hypothesis by aging β-arrestin-2 knock-out (KO) mice, and wild-type equivalent (WT) to 12–16months. We developed the rationale for these experiments on the basis that angiotensin II (ang II) signaling at ang II receptor type 1 (AT1R), which is a G-protein coupled receptor (GPCR) promotes both G-protein signaling as well as β-arrestin-2 signaling. β-arrestin-2 participates in GPCR desensitization, internalization, but also acts as a scaffold for adaptive signal transduction that may occur independently or in parallel to G-protein signaling. We have previously reported that biased ligands acting at the AT1R promote β-arrestin-2 signaling increasing cardiac contractility and reducing maladaptations in a mouse model of dilated cardiomyopathy. Although there is evidence that ang II induces maladaptive senescence in the cardiovascular system, a role for β-arrestin-2 signaling has not been studied in aging. By echocardiography, we found that compared to controls aged KO mice exhibited enlarged left atria and left ventricular diameters as well as depressed contractility parameters with preserved ejection fraction. Aged KO also exhibited depressed relaxation parameters when compared to WT controls at the same age. Moreover, cardiac dysfunction in aged KO mice was correlated with alterations in the phosphorylation of myofilament proteins, such as cardiac myosin binding protein-C, and myosin regulatory light chain. Our evidence provides novel insights into a role for β-arrestin-2 as an important signaling mechanism that preserves cardiac function during aging.
Descriptive Epidemiology of the Tuberculosis Service Delivery Project Beneficiaries in Northwest Syria: 2019-2020

Background: Tuberculosis (TB) is a chronic communicable disease caused by the Mycobacterium tuberculosis that thrives in protracted humanitarian crises. It is an important cause of morbidity and mortality burden in the developing world. Globally, TB is the number one cause of death from any single infectious disease agent that plagued an estimated 10 million (range, 8.9–11.0 million) people in 2019 alone. The Eastern Mediterranean region comprised 8.2% of the worldwide share of TB cases in 2019. Methods: in April 2019, the World Health Organization's (WHO) country office of Turkey started three TB centers in the cities of A'zaz, Idleb, and Afrin in northwest Syria, to provide the population with quality TB treatment curative services. The objectives of the project involved provision of full package of TB services in alignment with WHO TB standards and protocols. Three contractors i.e., national NGOs, were selected after a rigorous process in accordance with WHO policies. These newly established centers were equipped with the essential medical supplies, including well-functioning X-ray and microscopy laboratories run by WHO-trained medical doctors and lab technicians. Results: Based on the quarterly reports submitted by the WHO partners, from the last two quarters of the year 2019, and the four quarters for the year 2020, out of 785 cases diagnosed either by clinical, laboratory, or radiological assessment, 251 cases were bacteriologically confirmed as TB cases against the backdrop of 2236 bacteriological investigations done and a weekly average of 31 sputum specimens processed. A total of 316 smear positive slides were identified during the study period, with the proportion of smear positive slides to be 14.13%. Clinical status determined after 6 months of treatment revealed that out of the 181 patients enrolled in the third quarter of 2019, 128 patients were either cured or successfully completed their TB treatment; with a treatment success rate of 70.7% and in quarter 4, 2019 those figures were respectively: 133, 82 and 61.7%. Conclusion: Despite the challenging and protracted complex humanitarian situation in northwest Syria, the number of patients enrolled and the proportion who successfully completed the TB treatment is acceptable. However, these results are preliminary, as clinical outcomes were available only for the first and second cohorts of patients enrolled. Innovative solutions and flexibility in the execution and continued expansion of this promising project are imperative.
A Conceptual Model of Analogue Gamification to Enhance Learners' Motivation and Attitude

The concept of gamification has spread widely in recent years supported by the development of technology, especially due to the plethora of computers and video games and game apps for other devices. Gamification is the use of game thinking and game mechanics in non-game contexts that support play to engage users in solving problems or created for teaching and learning purposes. Gamification does not mean creating games but making education more engaging and fun with play for learners, without undermining its credibility. In modern education, lessons delivery is associated with the lack of engagement and motivation of learners to participate actively in the learning process. Teachers are increasingly faced with the problem of how to integrate technology and to impart good language learning habits at the level of primary school in Malaysia. Hence, the aim of this study is to propose a conceptual model of analogue gamification to enhance primary school learners’ motivation and attitude.
Sensitivity analysis of a simplified precipitation-runoff model to estimate water availability in Southern Portuguese watersheds

aRTicLE iNfO correspondence to: Tiago N. Martins : tmartins@lnec.pt Copyright: © 2021 by the authors. Licensee Associazione Acque Sotterranee. This is an open access article under the CC BY-NC-ND license: http://creativecommons.org/licenses/bync-nd/4.0/ citation: Tiago N. Martins, Manuel M. Oliveira, Maria M. Portela , Teresa E. Leitão (2021) Sensitivity analysis of a simplified precipitation-runoff model to estimate water availability in Southern Portuguese watersheds. Acque Sotterranee Italian Journal of Groundwater, 10(2), 33 47 https://doi.org/10.7343/as-2021-514
Virulence-genes Rib and Bca in Serotypes of Group B Streptococcus (GBS) Isolated from Symptomatic Pregnant Women in East Coast Malaysia

INTRODUCTION: Group B streptococcus (GBS) is a leading cause of maternally-acquired invasive infections in neonates. Nowadays maternal immunization is of utmost demand for prevention of these infections. We undertook capsular serotyping and virulence factor genes identification for local GBS isolates as a pilot study, to identify potential candidates to propagate vaccine development. MATERIALS AND METHODS: This is a descriptive lab -based study to determine GBS serotypes and presence of genes coding virulence factors bca and rib in isolates obtained from symptomatic pregnant women in Hospital Tengku Ampuan Afzan, Kuantan, Pahang, Malaysia. Sixty-two GBS isolates from high vaginal swabs were collected. Latex agglutination test was performed to determine GBS serotypes. Real-time PCR was done to determine the presence of virulence genes. RESULTS: Of the 62 GBS isolates, 77.4% were serologically typeable, and 22.6% were non -typeable. Serotypes Ia and Ib (16.1% each) were the most common capsular types, followed by II, V, and VII (9.7% each), III (8.1%), VI (6.5%), and VIII (1.6 %). Furthermore, 67.7% of the isolates harboured the rib gene while 98.4% possessed the bca gene. CONCLUSION: The five known prevalent serotypes worldwide, do not match the CPS distribution in symptomatic pregnant women in Kuantan. However, the frequency of virulence genes rib and bca is high among our isolates, which if confirmed by further bigger and wider studies makes the proteinaceous vaccine, N-terminal domains of Rib and AlpC a suitable candidate for GBS prevention in this geographical area.