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Faithful DNA replication with correct termination is essential for genome stability and transmission of genetic information. Here we have investigated the potential roles of Topoisomerase II (Top2) and the RecQ helicase Sgs1 during late stages of replication. We find that cells lacking Top2 and Sgs1 (or Top3) display two different characteristics during late S/G2 phase, checkpoint activation and accumulation of asymmetric X-structures, which are both independent of homologous recombination. Our data demonstrate that checkpoint activation is caused by a DNA structure formed at the strongest rDNA replication fork barrier (RFB) during replication termination, and consistently, checkpoint activation is dependent on the RFB binding protein, Fob1. In contrast, asymmetric X-structures are formed independent of Fob1 at less strong rDNA replication fork barriers. However, both checkpoint activation and formation of asymmetric X-structures are sensitive to conditions, which facilitate fork merging and progression of replication forks through replication fork barriers. Our data are consistent with a redundant role of Top2 and Sgs1 together with Top3 (Sgs1-Top3) in replication fork merging at rDNA barriers. At RFB either Top2 or Sgs1-Top3 is essential to prevent formation of a checkpoint activating DNA structure during termination, but at less strong rDNA barriers absence of the enzymes merely delays replication fork merging, causing an accumulation of asymmetric termination structures, which are solved over time.

The conserved family of RecQ DNA helicases consists of caretaker tumour suppressors, that defend genome integrity by acting on several pathways of DNA repair that maintain genome stability. In budding yeast, Sgs1 is the sole RecQ helicase and it has been implicated in checkpoint responses, replisome stability and dissolution of double Holliday junctions during homologous recombination. In this study we investigate a possible genetic interaction between SGS1 and RAD9 in the cellular response to methyl methane sulphonate (MMS) induced damage and compare this with the genetic interaction between SGS1 and RAD24. The Rad9 protein, an adaptor for effector kinase activation, plays well-characterized roles in the DNA damage checkpoint response, whereas Rad24 is characterized as a sensor protein also in the DNA damage checkpoint response. Here we unveil novel insights into the cellular response to MMS-induced damage. Specifically, we show a strong synergistic functionality between SGS1 and RAD9 for recovery from MMS induced damage and for suppression of gross chromosomal rearrangements, which is not the case for SGS1 and RAD24. Intriguingly, it is a Rad53 independent function of Rad9, which becomes crucial for genome maintenance in the absence of Sgs1. Despite this, our dissection of the MMS checkpoint response reveals parallel, but unequal pathways for Rad53 activation and highlights significant differences between MMS- and hydroxyurea (HU)-induced checkpoint responses with relation to the requirement of the Sgs1 interacting partner Topoisomerase III (Top3). Thus, whereas earlier studies have documented a Top3-independent role of Sgs1 for an HU-induced checkpoint response, we show here that upon MMS treatment, Sgs1 and Top3 together define a minor but parallel pathway to that of Rad9.

Whilst a plethora of research has taken into account the exertion of website homepages as a conduit for effectively conveying information, it is acknowledged that the matter of ideological values and how these ideals are manifested through such digital communication media has been somewhat overlooked. Thus, the research at hand attempts to go over how the university advertises its ideological construal on its homepages by way of the adoption of multiple modes, involving both linguistic and aesthetic dimensions, and video. In this investigation, multimodal approaches encapsulated by Kress (2010) and Pauwels (2012) were employed to address the ideological values through visual components on the university homepages. Drawing from the attainable data, the university's homepage is crafted utilizing two fundamental categories of semiotic methods such as a combination of visual and textual elements, as well as video to reinforce the aesthetic, nevertheless, it neglects to incorporate any semiotic resource that places particular emphasis on visual components. The strategic utilization of diverse multiple modalities of communication on the homepage has effectively promoted an array of constructive ideological ideals that hold significant worth for stakeholders and the public, considering the pivotal role that universities play in shaping societal beliefs and perspectives. [ABSTRACT FROM AUTHOR]

In the face of the climate crisis, cities have committed to ambitious sustainability targets. The UN Agenda 2030 and its 17 Sustainable Development Goals (SDGs) provide a globally shared language for decision-makers and policymakers regarding their sustainability objectives. Espoo, Finland’s second-largest city, has become a pioneer in implementing the Agenda, not least due to its recent nomination as ‘Europe’s most sustainable city’. This article investigates the use of the Agenda in strategic governance in Espoo with the aim to identify challenges and opportunities of SDG localisation. Although the Agenda has affected many aspects of policymaking in Espoo and ambitions have been high to shine as an SDG pioneer, a systematic integration of sustainability concerns into policymaking is not yet achieved. Moreover, there is a need to question the reliance of the Agenda framework on the ecological modernisation paradigm, which does not see economic growth and ecological sustainability at odds.

Abstract Genetic effects on changes in human traits over time are understudied and may have important pathophysiological impact. We propose a framework that enables data quality control, implements mixed models to evaluate trajectories of change in traits, and estimates phenotypes to identify age-varying genetic effects in GWAS. Using childhood BMI as an example trait, we included 71,336 participants from six cohorts and estimated the slope and area under the BMI curve within four time periods (infancy, early childhood, late childhood and adolescence) for each participant, in addition to the age and BMI at the adiposity peak and the adiposity rebound. GWAS of the 12 estimated phenotypes identified 28 genome-wide significant variants at 13 loci, one of which (in DAOA) has not been previously associated with childhood or adult BMI. Genetic studies of changes in human traits over time could uncover unique biological mechanisms influencing quantitative traits.

ABSTRACT Substituting alternative materials and energy sources with forest biomass can cause significant environmental consequences, such as alteration in the released emissions which can be described by displacement factors (DFs). Until now, DFs of wood‐based materials have included greenhouse gas (GHG) emissions and have been associated with lower fossil and process‐based emissions than non‐wood counterparts. In addition to GHGs, aerosols released in combustion processes, for example, alter radiative forcing in the atmosphere and consequently have an influence on climate. In this study, the objective was to quantify the changes in the most important aerosol emission components for cases when wood‐based materials and energy were used to replace the production of high‐density polyethylene (HDPE) plastic, common fossil‐based construction materials (concrete, steel and brick), non‐wood textile materials and energy produced by fossil fuels and peat. For this reason, we expanded the DF calculations to include aerosol emissions of total suspended particles (TSP), respirable particulate matter (PM10), fine particles (PM2.5), black carbon (BC), nitrogen oxides (NOx), sulphur dioxide (SO2) and non‐methane volatile organic compounds (NMVOCs) based on the embodied energies of materials and energy sources. The DFs for cardboard implied a decrease in BC, SO2 and NMVOC emissions but an increase in the other emission components. DFs for sawn wood mainly indicated higher emissions of both particles and gaseous emissions compared to non‐wood counterparts. DFs for wood‐based textiles demonstrated increased particle emissions and reduced gaseous emissions. DFs for energy biomass mainly implied an increase in emissions, especially if biomass was combusted in small‐scale appliances. Our main conclusion highlights the critical need to thoroughly assess how using forest biomass affects aerosol emissions. This improved understanding of the aerosol emissions of the forestry sector is crucial for a comprehensive evaluation of the climate and health implications associated with forest biomass use.

In this digital age, the presence of internet memes becomes a common way to share information online. People may use different stylistic and rhetoric elements to communicate their ideas and convey a particular meaning. This paper aimed to analyze stylistic and rhetoric elements employed in the selected memes in education context by using Van Dijk Critical Discourse Analysis. The data were forty memes related to education which were collected from four Instagram groups, namely itb.receh, school_life memoriess, 9gag.com, and memeindonesia.real. This research utilized descriptive qualitative method. The result showed that in stylistic, the most dominant dictions used were slang and denotative. The high frequency of using slang is done as a strategy to express a sense of familiarity to audiences and to show portrait of daily basis situation in students’ lives, while the use of denotative dictions conveys clear understanding and avoid misinterpretation toward these memes. Furthermore, in rhetoric elements, no metaphor is found in the selected memes while graphics is mostly used in the memes to highlight important parts. It was delivered through the production of words in bigger size, bold, different colour, different type of fonts, words which are crossed out, and the use of emoticon. Graphic provides a visual representation for audiences and these highlighted words help them comprehend messages and values which the writer is trying to deliver.

Introduction: Human papillomavirus (HPV) integration can induce gene expression dysregulation by destroying higher-order chromatin structure in cervical cancer. Objectives: We established a 13q22 site-specific HPV16 gene knock-in cell model to interrogate the changes in chromatin structure at the initial stages of host cell malignant transformation. Methods: We designed a CRISPR-Cas9 system with sgRNA targeting 13q22 site and constructed the HPV16 gene donor. Cells were cotransfected, screened, and fluorescence sorted. The whole genome sequencing (WGS) was used to confirm the precise HPV16 gene integration site. Western blot and qRT-PCR were used to measure gene expression. In vitro and in vivo analysis were performed to estimate the tumorigenic potential of the HPV16 knock-in cell model. Combined Hi-C, chromatin immunoprecipitation and RNA sequencing analyses revealed correlations between chromatin structure and gene expression. We performed a coimmunoprecipitation assay with anti-PIBF1 antibody to identify endogenous interacting proteins. In vivo analysis was used to determine the role of PIBF1 in the tumor growth of cervical cancer cells. Results: We successfully established a 13q22 site-specific HPV16 gene knock-in cell model. We found that HPV integration promoted cell proliferation, invasion and stratified growth in vitro, and monoclonal proliferation in vivo. HPV integration divided the affected topologically associated domain (TAD) into two smaller domains, and the progesterone-induced blocking factor 1 (PIBF1) gene near the integration site was upregulated, although PIBF1 was not enriched at the domain boundary by CUT-Tag signal analysis. Moreover, PIBF1 was found to interact with the cohesin complex off chromatin to reduce contact domain formation by disrupting the cohesin ring-shaped structure, causing dysregulation of tumorigenesis-related genes. Xenograft experiments determined the role of PIBF1 in the proliferation in cervical cancer cells. Conclusion: We highlight that PIBF1, a potential chromatin structure regulatory protein, is activated by HPV integration, which provides new insights into HPV integration-driven cervical carcinogenesis.

Malaria, caused by Plasmodium parasites and transmitted through Anopheles mosquitoes, remains a formidable global health challenge. This abstract provides an overview of the intricate molecular mechanisms underlying malaria pathogenesis, explores current therapeutic approaches, and highlights emerging insights that may shape future strategies for malaria control. The intricate dance between Plasmodium parasites and their human hosts begins with the mosquito’s bite, leading to the invasion of erythrocytes by Plasmodium species. We delve into the molecular mechanisms governing parasite entry and subsequent replication within host cells, shedding light on key factors such as erythrocyte surface receptors and parasite-encoded proteins critical to invasion and survival. While malaria treatment has relied heavily on antimalarial drugs, the emergence of drug resistance necessitates ongoing exploration of novel therapeutic strategies. This abstract reviews current antimalarial drug classes, their mechanisms of action, and the challenges posed by drug resistance. We also highlight promising drug candidates and innovative approaches in the pipeline, including the use of advanced molecular techniques and immunotherapies. Emerging insights from genomics, proteomics, and transcriptomics have deepened our understanding of Plasmodium biology and host-parasite interactions. We discuss the potential of these omics approaches in identifying new drug targets, understanding drug resistance mechanisms, and developing vaccines. Additionally, we examine the role of human genetics in influencing susceptibility to malaria and response to treatment. Vector control remains a critical component of malaria prevention. We touch upon emerging strategies, such as genetically modified mosquitoes and novel insecticides, in the context of integrated vector management programs. Finally, we emphasize the importance of a multifaceted approach to malaria control, combining advances in molecular biology, drug development, vector control, and public health interventions.

Abstract Background Pubertal growth patterns correlate with future health outcomes. However, the genetic mechanisms mediating growth trajectories remain largely unknown. Here, we modeled longitudinal height growth with Super-Imposition by Translation And Rotation (SITAR) growth curve analysis on ~ 56,000 trans-ancestry samples with repeated height measurements from age 5 years to adulthood. We performed genetic analysis on six phenotypes representing the magnitude, timing, and intensity of the pubertal growth spurt. To investigate the lifelong impact of genetic variants associated with pubertal growth trajectories, we performed genetic correlation analyses and phenome-wide association studies in the Penn Medicine BioBank and the UK Biobank. Results Large-scale growth modeling enables an unprecedented view of adolescent growth across contemporary and 20th-century pediatric cohorts. We identify 26 genome-wide significant loci and leverage trans-ancestry data to perform fine-mapping. Our data reveals genetic relationships between pediatric height growth and health across the life course, with different growth trajectories correlated with different outcomes. For instance, a faster tempo of pubertal growth correlates with higher bone mineral density, HOMA-IR, fasting insulin, type 2 diabetes, and lung cancer, whereas being taller at early puberty, taller across puberty, and having quicker pubertal growth were associated with higher risk for atrial fibrillation. Conclusion We report novel genetic associations with the tempo of pubertal growth and find that genetic determinants of growth are correlated with reproductive, glycemic, respiratory, and cardiac traits in adulthood. These results aid in identifying specific growth trajectories impacting lifelong health and show that there may not be a single “optimal” pubertal growth pattern.

The goal of this community service is to use Toontastic 3D to improve teachers' competency in teaching. The target audiences of this program are teachers at Madrasah Ibtidaiyah Ar Rasyid-Deli Serdang, who represent a variety of academic disciplines. The fundamental ideas and skills that teachers must have in order to become effective in Toontastic 3D animation design are explained utilizing the lecture technique. Demonstrations are given to provide attendees practical experience with the application. They are trained and assisted in using Toontastic 3D independently through workshops. A question and answer is also used to enable teachers to ask questions and discuss any difficulties they may have had while receiving the training. Training booklets are given to the teachers. They can create an interesting Toontastic tutorial videos that are relevant to their areas of study. Their ability to impart knowledge has improved, as has their comprehension of creating animated videos. Based on the findings, teachers are overwhelmingly pleased and enthused (90%) about this activity. The teachers' imaginations have soared, and they are happy with the instruction and direction given for the Toontastic 3D animation program.

A study relating to eukaryotic DNA topoisomerase II was conducted to further characterize human topoisomerase IIalphabeta heterodimers concerning their abundance and phosphorylation status. Among other results, it appears that the fraction of alpha subunits participating in heterodimerization may be less than 5% and the evidence strongly suggests that the heterodimeric sub population of toiposomerase II has a ubiquitous nature in human cells and in mammalian cells in general.

Fluorescence line narrowing (FLN) spectroscopy is used to analyze the electronic spectra of cytochrome c peroxidase in terms of pH, binding and ion strength of cytochrome c. Vibrational lines of cytochrome c shift due to different frequency range of tautomers. Electric fields explain the spectral shift influenced by pH value. The heme pocket of the peroxidase is unchanged. The FLN provides information about vibrational structure of first excited state of cytochrome c.

Abstract Background Recurrent or metastatic cervical cancer (r/m CC) often has poor prognosis owing to its limited treatment options. The development of novel therapeutic strategies has been hindered by the lack of preclinical models that accurately reflect the biological and genomic heterogeneity of cervical cancer (CC). Herein, we aimed to establish a large patient-derived xenograft (PDX) biobank for CC, evaluate the consistency of the biologic indicators between PDX and primary tumor tissues of patients, and explore its utility for assessing patient’s response to conventional and novel therapies. Methods Sixty-nine fresh CC tumor tissues were implanted directly into immunodeficient mice to establish PDX models. The concordance of the PDX models with their corresponding primary tumors (PTs) was compared based on the clinical pathological features, protein biomarker levels, and genomic features through hematoxylin & eosin staining, immunohistochemistry, and whole exome sequencing, respectively. Moreover, the clinical information of CC patients, RNA transcriptome and immune phenotyping of primary tumors were integrated to identify the potential parameters that could affect the success of xenograft engraftment. Subsequently, PDX model was evaluated for its capacity to mirror patient’s response to chemotherapy. Finally, PDX model and PDX-derived organoid (PDXO) were utilized to evaluate the therapeutic efficacy of neratinib and adoptive cell therapy (ACT) combination strategy for CC patients with human epidermal growth factor receptor 2 (HER2) mutation. Results We established a PDX biobank for CC with a success rate of 63.8% (44/69). The primary features of established PDX tumors, including clinicopathological features, the expression levels of protein biomarkers including Ki67, α-smooth muscle actin, and p16, and genomics, were highly consistent with their PTs. Furthermore, xenograft engraftment was likely influenced by the primary tumor size, the presence of follicular helper T cells and the expression of cell adhesion-related genes in primary tumor tissue. The CC derived PDX models were capable of recapitulating the patient’s response to chemotherapy. In a PDX model, a novel therapeutic strategy, the combination of ACT and neratinib, was shown to effectively inhibit the growth of PDX tumors derived from CC patients with HER2-mutation. Conclusions We established by far the largest PDX biobank with a high engraftment rate for CC that preserves the histopathological and genetic characteristics of patient’s biopsy samples, recapitulates patient’s response to conventional therapy, and is capable of evaluating the efficacy of novel therapeutic modalities for CC.

Colorectal cancer (CRC) is a common and deadly disease of the digestive system, but its targeted therapy is hampered by the lack of reliable and specific biomarkers. Hence, discovering new therapeutic targets and agents for CRC is an urgent and challenging task. Here we report that carnitine palmitoyltransferase 1A (CPT1A), a mitochondrial enzyme that catalyzes fatty acid oxidation (FAO), is a potential target for CRC treatment. We show that CPT1A is overexpressed in CRC cells and that its inhibition by a secolignan-type compound, 2,6-dihydroxypeperomin B (DHP-B), isolated from the plant Peperomia dindygulensis, suppresses tumor cell growth and induces apoptosis. We demonstrate that DHP-B covalently binds to Cys96 of CPT1A, blocks FAO, and disrupts the mitochondrial CPT1A-VDAC1 interaction, leading to increased mitochondrial permeability and reduced oxygen consumption and energy metabolism in CRC cells. We also reveal that CPT1A expression correlates with the survival of tumor-bearing animals and that DHP-B exhibits anti-CRC activity in vitro and in vivo. Our study uncovers the molecular mechanism of DHP-B as a novel CPT1A inhibitor and provides a rationale for its preclinical development as well as a new strategy for CRC targeted therapy.

Plant lipids in the diet are known to modify milk fatty acid (FA) composition and mitigate ruminal methane emissions. The objective of the present work was to examine the potential of milled rapeseeds and oats to decrease both milk saturated FAs and ruminal methane emissions in practical farm settings. In the pilot study, six Finnish Ayrshire cows were fed a control diet for 3 weeks, which was then followed by a lipid-rich test diet for 3 weeks. The experimental diets were based on grass silage supplemented with barley and rapeseed meals in the control diet and with oats and milled rapeseeds in the test diet. The lipid inclusion rate was 55 g/kg dry matter (DM). In the main study, the whole Finnish Ayrshire research herd in milk (n = 49–59) was used in a switch-back-designed study. The cows were fed a control diet for 3 weeks, then a test diet for 4 weeks, and, finally, a control diet for 3 weeks. The diets were the same as in the pilot study except for a lower lipid inclusion level of 50 g/kg DM. The test diet decreased DM intake by 15% and energy-corrected milk (ECM) yield by 13% in the pilot study. The adjustment of supplemental lipids from 55 g/kg to 50 g/kg DM was successful, as the DM intake decreased only by 4% relative to the control diet in the main study. Furthermore, the yields of milk, lactose, protein, and fat were also unaffected by dietary lipids in the main study. The milk fat composition was significantly altered in both studies. The milk fat saturated FAs were decreased by 16%–20% in the test diet, mainly due to the de novo FAs of 6- to 16-carbons (a reduction of 22%–48%). Milk fat cis-9 18:1 was increased by 63%–78% in the test diet relative to the control. Dairy products’ (milk, butter, and cheese) organoleptic quality was not compromised by the modified lipid profile. Ruminal methane and hydrogen intensities (n = 23; g or mg/kg ECM) were 20% and 39% lower, respectively, in the test diet than in the control diet. This reduction can be attributed to a lower amount of organic matter fermented in the rumen, as indicated by the lower DM intake and nutrient digestibility.