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There is a defined need to provide accessible and effective professional development for 4-H educators. Lesson study is a Community of Practice-based approach to educator professional development. Prior research has shown lesson study to be effective with 4-H staff, adult volunteers, and teen volunteers. This inquiry, a multisite case study, was designed to investigate the application of lesson study in authentic contexts with 4-H county agents from 1890 land-grant universities. Quantitative and qualitative measures revealed improved preparedness, participation, and camaraderie among participating educators. Other benefits to participants included improved lesson planning and implementation.

In this study, we examine how race and racism impact the schooling of African American males by analyzing the first-person perspective of hip-hop superstar, Nasir "Nas" Jones. We selected Nas due to his unique yet prevalent educational trajectory and perspectives. Critical race theory is employed as a framework as well as notions of Sankofa methodology and literary analysis to investigate his music, documentaries, and an open letter whereby he critiques the public school system while providing academic ideas to engage and inspire Black students. Studies about Black males routinely focus on their subpar academic performance with the intention of "correcting" these behaviors. We utilize the experiences of Nas to reframe the conversation and provide nuanced insight into Black educational experiences instead of perpetuating recycled, bleak narratives. This article concludes with suggestions for educators to better serve African American males in the Pre K-12 academic context.

The current study investigated perfectionism and procrastination from the trait and cognitive perspectives and addressed how they relate to components of a personal orientation toward failure. A sample of 327 undergraduate students completed three perfectionism measures (i.e., Frost Multidimensional Perfectionism Scale, Hewitt-Flett Multidimensional Perfectionism Scale, and Perfectionism Cognitions Inventory), two procrastination measures (i.e., Lay Procrastination Scale and Procrastinatory Cognitions Inventory), and measures of fear of failure and overgeneralizing failure. Correlational analyses showed that the composite trait dimension of perfectionistic concerns and the cognitive dimension of perfectionistic automatic thoughts had modest links with trait procrastination but much stronger links with the cognitive measure of procrastinatory automatic thoughts. All perfectionism and procrastination measures were significantly correlated with fear of failure and overgeneralization of failure. More extensive analyses showed that fear of failure mediated trait and cognitive pathways between perfectionism and procrastination, and the overgeneralization of failure mediated most pathways. Other evidence supported a sequential mediation between perfectionism and procrastination (i.e., fear of failure followed by the overgeneralization of failure). Overall, the results suggest that procrastinating perfectionists have a cognitive hypersensitivity to failure and a potentially debilitating form of perfectionistic reactivity characterized by overgeneralizing failures to the self. The theoretical and practical implications are discussed.

The Perfectionism Social Disconnection Model (PSDM) and the Existential Model of Perfectionism and Depressive Symptoms (EMPDS) are promising models of perfectionism and psychopathology. However, research examining suicide ideation within the PSDM is scarce, and no research has examined suicide ideation as an outcome in the EMPDS. Moreover, tests of the PSDM and EMPDS have been conducted separately and most research has examined the PSDM and EMPDS using cross-sectional or two-wave longitudinal designs, which do not provide a satisfactory test of mediation. In the current study, we addressed these limitations by testing whether perfectionism confers vulnerability to suicide ideation via feelings of mattering and anti-mattering (from the PSDM) and via difficulty accepting the past (from the EMPDS) in a three-wave longitudinal design in two independent samples of undergraduate students and community adults. Participants completed measures on three occasions over 6 weeks. Findings revealed that socially prescribed perfectionism indirectly predicted suicide ideation via difficulty accepting the past in both samples. In addition, in the undergraduate sample only, socially prescribed perfectionism indirectly predicted higher suicide ideation via anti-mattering, and self-oriented perfectionism indirectly predicted higher suicide ideation via mattering. Based on our findings, we advocate for future research to include suicide ideation in the PSDM and EMPDS, to integrate explanatory models, and to examine a mattering-specific EMPDS.

Friendships are important for the mental well-being of emerging adults. Socially prescribed perfectionism, where individuals feel pressured to be perfect by others, can be destructive, leading to conflict with others, depressive symptoms, and problematic drinking. However, its impact on friendships is not well-explored. This study examined 174 emerging adult friendship dyads using a 4-wave, 4-month dyadic design. Data were analyzed using longitudinal actor-partner interdependence models. Using a novel friend-specific measure of socially prescribed perfectionism, we found that an individual's perceived expectation to be perfect from a friend was positively associated with increased conflict between friends, as well as with higher levels of depressive symptoms and problematic drinking in the individual. Findings lend credence to longstanding theoretical accounts and case histories suggesting socially prescribed perfectionism leads to harmful individual and relational outcomes and extends them to the specific context of friendships.

Global resources of heavy Rare Earth Elements (REE) are dominantly sourced from Chinese regolith-hosted ion-adsorption deposits, yet the adsorption mechanisms remain unclear. Here, the authors find that heavy REE are adsorbed as easily leachable 8-coordinated outer-sphere hydrated complexes, dominantly onto kaolinite, in clays from both China and Madagascar.

The Big Three Perfectionism Scale (BTPS) was created to integrate different aspects of perfectionism, including the newly conceptualized concept of narcissistic perfectionism. The goal of our two studies (N = 1341) was to examine the psychometric properties of the Polish adaptation of the BTPS, supporting the validity and portability of the measure. The studies were conducted among people who had a child, thus contributing to a better understanding of parental perfectionism, one of the key factors influencing parental well-being and a child's functioning. Our analyses included investigating the structure of the scale, intercorrelations between subscales, reliability, and convergent validity by correlating BTPS scores with other measures of perfectionism and correlates of psychopathology (borderline symptoms) and parental difficulties (parental stress and parental burnout). Results supported the structure of the original BTPS. As predicted, confirmatory factor analysis indicated that items comprising the Polish adaptation of the questionnaire, like the original version, measure three related but specific aspects of perfectionism: rigid perfectionism, self-critical perfectionism, and narcissistic perfectionism. The three dimensions were also found to be specifically related to the difficulties experienced by parents. Further, the Polish version of the BTPS was found to have good internal reliability and validity. Our results from two independent Polish samples suggest that the Polish version of the BTPS is a psychometrically robust measure of perfectionism for assessing the three perfectionism factors.

Heavy rare earth elements (HREE) are an important global resource for many industries. Here, Xuet al. have discovered new REE minerals, which represent oxidized REE-rich fluids that metasomatized granites resulting in an enrichment of HREE, therefore contributing to our knowledge of global REE resources.

Curricula are planned and written by curriculum developers; they serve as instructional guides for educators. Educators make adaptations to written curricula to meet learners' needs and achieve intended learning outcomes. The efficacy of curriculum adaptations is enhanced when educators have a high pedagogical design capacity, which can be improved through effective professional development. Lesson study is a model of situated professional development centered around ongoing improvement of curriculum enactment. Educators work collaboratively to make curriculum modifications and data-driven decisions to improve their teaching practices. Lesson study occurs at regular intervals over an extended duration.

Abstract Background The Leishmania genome harbors formerly active short interspersed degenerated retroposons (SIDERs) representing the largest family of repetitive elements among trypanosomatids. Their substantial expansion in Leishmania is a strong predictor of important biological functions. In this study, we combined multilevel bioinformatic predictions with high-throughput genomic and transcriptomic analyses to gain novel insights into the diversified roles retroposons of the SIDER2 subfamily play in Leishmania genome evolution and expression. Results We show that SIDER2 retroposons form various evolutionary divergent clusters, each harboring homologous SIDER2 sequences usually located nearby in the linear sequence of chromosomes. This intriguing genomic organization underscores the importance of SIDER2 proximity in shaping chromosome dynamics and co-regulation. Accordingly, we show that transcripts belonging to the same SIDER2 cluster can display similar levels of expression. SIDER2 retroposons are mostly transcribed as part of 3'UTRs and account for 13% of the Leishmania transcriptome. Genome-wide expression profiling studies underscore SIDER2 association generally with low mRNA expression. The remarkable link of SIDER2 retroposons with downregulation of gene expression supports their co-option as major regulators of mRNA abundance. SIDER2 sequences also add to the diversification of the Leishmania gene expression repertoire since ~ 35% of SIDER2-containing transcripts can be differentially regulated throughout the parasite development, with a few encoding key virulence factors. In addition, we provide evidence for a functional bias of SIDER2-containing transcripts with protein kinase and transmembrane transporter activities being most represented. Conclusions Altogether, these findings provide important conceptual advances into evolutionary innovations of transcribed extinct retroposons acting as major RNA cis-regulators.

Abstract Hydrogen borrowing is an attractive and sustainable strategy for carbon–carbon bond formation that enables alcohols to be used as alkylating reagents in place of alkyl halides. However, despite intensive efforts, limited functional group tolerance is observed in this methodology, which we hypothesize is due to the high temperatures and harsh basic conditions often employed. Here we demonstrate that room temperature and functional group tolerant hydrogen borrowing can be achieved with a simple iridium catalyst in the presence of substoichiometric base without an excess of reagents. Achieving high yields necessitates the application of anaerobic conditions to counteract the oxygen sensitivity of the catalytic iridium hydride intermediate, which otherwise leads to catalyst degradation. Substrates containing heteroatoms capable of complexing the catalyst exhibit limited room temperature reactivity, but the application of moderately higher temperatures enables extension to a broad range of medicinally relevant nitrogen rich heterocycles. These newly developed conditions allow alcohols possessing functional groups that were previously incompatible with hydrogen borrowing reactions to be employed.

Abstract Convolutional Neural Networks (CNNs) have been central to the Deep Learning revolution and played a key role in initiating the new age of Artificial Intelligence. However, in recent years newer architectures such as Transformers have dominated both research and practical applications. While CNNs still play critical roles in many of the newer developments such as Generative AI, they are far from being thoroughly understood and utilised to their full potential. Here we show that CNNs can recognise patterns in images with scattered pixels and can be used to analyse complex datasets by transforming them into pseudo images with minimal processing for any high dimensional dataset, representing a more general approach to the application of CNNs to datasets such as in molecular biology, text, and speech. We introduce a pipeline called DeepMapper, which allows analysis of very high dimensional datasets without intermediate filtering and dimension reduction, thus preserving the full texture of the data, enabling detection of small variations normally deemed ‘noise’. We demonstrate that DeepMapper can identify very small perturbations in large datasets with mostly random variables, and that it is superior in speed and on par in accuracy to prior work in processing large datasets with large numbers of features.

Abstract Despite increasing risks from sea-level rise (SLR) and storms, US coastal communities continue to attract relatively high-income residents, and coastal property values continue to rise. To understand this seeming paradox and explore policy responses, we develop the Coastal Home Ownership Model (C-HOM) and analyze the long-term evolution of coastal real estate markets. C-HOM incorporates changing physical attributes of the coast, economic values of these attributes, and dynamic risks associated with storms and flooding. Resident owners, renters, and non-resident investors jointly determine coastal property values and the policy choices that influence the physical evolution of the coast. In the coupled system, we find that subsidies for coastal management, such as beach nourishment, tax advantages for high-income property owners, and stable or increasing property values outside the coastal zone all dampen the effects of SLR on coastal property values. The effects, however, are temporary and only delay precipitous declines as total inundation approaches. By removing subsidies, prices would more accurately reflect risks from SLR but also trigger more coastal gentrification, as relatively high-income owners enter the market and self-finance nourishment. Our results suggest a policy tradeoff between slowing demographic transitions in coastal communities and allowing property markets to adjust smoothly to risks from climate change.

Strengthening young people's scientific literacy and civic engagement are important educational goals for Cooperative Extension. We implemented youth participatory action research (YPAR) projects over three years at five schools. The YPAR approach integrates science learning and civic engagement by empowering youth, with the help of adult facilitators, to decide upon a community issue to research, design and implement their research, and then plan a service project based on research findings to address the issue. We explored young people's and educators' perspectives on which project elements influenced youth participation, examined opportunities for youth science and civic-related learning, and asked educators to reflect on their own learning and development. Using data generated from youth focus groups and educator interviews, we found that YPAR grounds science learning in young people's lived experience. It also provides a meaningful approach to science learning through raising young people's critical consciousness of community issues. YPAR may be used in other extension programs to increase motivation for deeper and sustained participation in learning experiences.

Anthropogenic stressors such as land-use change, habitat degradation, and climate change stress inland fish populations globally. Such ecological disturbances can affect actors throughout the social-ecological system by contributing to uncertainty in landings, landing prices, and coastal incomes. Most literature to date on the resilience of the fishing sector has focused on fishing (production), fisheries management, and the livelihoods of fishers, whereas little attention has been paid to the post-harvest sector and the livelihoods of fish processors, logistics providers, wholesalers, and retailers. In the empirical case of the small-scale usipa ( Engraulicypris sardella ) trade in Malawi, we investigated the impacts of price volatility, a form of uncertainty, on small-scale fish retailers’ livelihood outcomes. By concentrating on fish retailers in the downstream region of the value chain, we provide new insight into how small-scale fisheries actors in the broader fish food system experience and adapt to uncertainty. We find that price volatility negatively impacts net income for retailers, and that an important adaptive strategy is spatial arbitrage. However, gender dynamics and access to capital limit retailers’ ability to employ the spatial arbitrage adaptive strategy.

Estimating the post mortem interval is an important aspect of the work of forensic pathologists and forensic anthropologists. Whilst temperature is generally agreed as the most important variable affecting decomposition, some formulae also incorporate relative humidity for a more detailed estimate. Both these variables are impacted by anthropogenic climate change. This study aims to provide a first overview of the likely extent to which anthropogenic climate change will affect future rates of decomposition. The post mortem interval from death until skeletonization (PMIDS) was calculated using the formula by Vass [1], as well as temperature and humidity predictions from two different climate models, to predict changes in the speed of decomposition between the decades 2020–2029 and 2090–2099. The changes are calculated for different climate zones, and a global average, as well as different climate change scenarios, and for decomposition starting in January and July. The estimated PMIDS is significantly (p

Summary: Neutralizing antibodies (NAbs) hold great promise for clinical interventions against SARS-CoV-2 variants of concern (VOCs). Understanding NAb epitope-dependent antiviral mechanisms is crucial for developing vaccines and therapeutics against VOCs. Here we characterized two potent NAbs, EH3 and EH8, isolated from an unvaccinated pediatric patient with exceptional plasma neutralization activity. EH3 and EH8 cross-neutralize the early VOCs and mediate strong Fc-dependent effector activity in vitro. Structural analyses of EH3 and EH8 in complex with the receptor-binding domain (RBD) revealed the molecular determinants of the epitope-driven protection and VOC evasion. While EH3 represents the prevalent IGHV3-53 NAb whose epitope substantially overlaps with the ACE2 binding site, EH8 recognizes a narrow epitope exposed in both RBD-up and RBD-down conformations. When tested in vivo, a single-dose prophylactic administration of EH3 fully protected stringent K18-hACE2 mice from lethal challenge with Delta VOC. Our study demonstrates that protective NAbs responses converge in pediatric and adult SARS-CoV-2 patients.

The location of new housing developments, and the provision of safe space for walking and cycling to key destinations around them, have major and long lasting impacts on travel behaviour, health, and environmental outcomes. Transit Oriented Development (TOD) is a well-recognised concept in urban planning, but systematic evidence is often lacking on the likely ‘active travel performance’ of new developments, making it hard for the planning process to support sustainable transport objectives. This paper articulates the concept of ‘Active Travel Oriented Development’ (ATOD) and describes methods for operationalising it. We demonstrate the use of a set of simple metrics to assess the active travel performance of new and proposed development sites. ATOD has the benefits of building on the established concept of TOD and being easy to assess. We conclude that ATOD, and tools for measuring it, are needed to ensure that transport and development policies work in harmony.

Abstract Background Hepatitis C (HCV) and many other RNA viruses exist as rapidly mutating quasi-species populations in a single infected host. High throughput characterization of full genome, within-host variants is still not possible despite advances in next generation sequencing. This limitation constrains viral genomic studies that depend on accurate identification of hemi-genome or whole genome, within-host variants, especially those occurring at low frequencies. With the advent of third generation long read sequencing technologies, including Oxford Nanopore Technology (ONT) and PacBio platforms, this problem is potentially surmountable. ONT is particularly attractive in this regard due to the portable nature of the MinION sequencer, which makes real-time sequencing in remote and resource-limited locations possible. However, this technology (termed here ‘nanopore sequencing’) has a comparatively high technical error rate. The present study aimed to assess the utility, accuracy and cost-effectiveness of nanopore sequencing for HCV genomes. We also introduce a new bioinformatics tool (Nano-Q) to differentiate within-host variants from nanopore sequencing. Results The Nanopore platform, when the coverage exceeded 300 reads, generated comparable consensus sequences to Illumina sequencing. Using HCV Envelope plasmids (~ 1800 nt) mixed in known proportions, the capacity of nanopore sequencing to reliably identify variants with an abundance as low as 0.1% was demonstrated, provided the autologous reference sequence was available to identify the matching reads. Successful pooling and nanopore sequencing of 52 samples from patients with HCV infection demonstrated its cost effectiveness (AUD$ 43 per sample with nanopore sequencing versus $100 with paired-end short read technology). The Nano-Q tool successfully separated between-host sequences, including those from the same subtype, by bulk sorting and phylogenetic clustering without an autologous reference sequence (using only a subtype-specific generic reference). The pipeline also identified within-host viral variants and their abundance when the parameters were appropriately adjusted. Conclusion Cost effective HCV whole genome sequencing and within-host variant identification without haplotype reconstruction are potential advantages of nanopore sequencing.

Youth participants in 4-H animal science projects are involved extensively with raising and exhibiting agricultural animals, often on backyard farms (Smith and Meehan 2012). Since backyard farms can serve as sources and vectors of pathogens (FAO 1999; WHO 2011), it is critical that 4-H youth take an active role in preventing the introduction and spread of economically important animal diseases. Fifteen 4-H youth from two counties in California participated in the 4-H Bio-Security Proficiencies Program, a long-term community and citizen science project focused on animal and zoonotic disease risk education and mitigation. Then, in the role of community science experts, they acted upon the risk assessments and mitigation plans they had developed to improve biosecurity practices and reduce the likelihood of disease spread on their home premises and at their local county fair. They also extended their knowledge to the broader livestock exhibition community through outreach videos.

Pathways to Your Future is a college and career readiness program for youth in Grades 9 through 12. The program’s curriculum provides youth with resources and opportunities to develop knowledge and learn skills that help them align their sparks with potential careers, while exploring various pathways to enter the workforce. The family component includes a pre-program orientation, a financing and budgeting workshop, and take-home materials. Latino students made up 71% of the study participants. Retrospective pre- and post-program surveys were administered to youth and parents/guardians. Results indicated that the program equipped youth participants with the knowledge and skills to plan and manage their education and career goals, prepared them for a successful post-secondary educational experience and/or entry into the workforce, and increased the number of participants who planned to attend a post-secondary institution. Few gender differences were found. Findings suggest the program increased participating parents’ knowledge, skills, and involvement in their children’s college and career aspirations and plans. The results pointed to the importance of a holistic approach to college and career readiness that involves the youth and their parents nested in a positive youth development model.

Abstract Background Nanopore sequencing enables portable, real-time sequencing applications, including point-of-care diagnostics and in-the-field genotyping. Achieving these outcomes requires efficient bioinformatic algorithms for the analysis of raw nanopore signal data. However, comparing raw nanopore signals to a biological reference sequence is a computationally complex task. The dynamic programming algorithm called Adaptive Banded Event Alignment (ABEA) is a crucial step in polishing sequencing data and identifying non-standard nucleotides, such as measuring DNA methylation. Here, we parallelise and optimise an implementation of the ABEA algorithm (termed f5c) to efficiently run on heterogeneous CPU-GPU architectures. Results By optimising memory, computations and load balancing between CPU and GPU, we demonstrate how f5c can perform ∼3-5 × faster than an optimised version of the original CPU-only implementation of ABEA in the Nanopolish software package. We also show that f5c enables DNA methylation detection on-the-fly using an embedded System on Chip (SoC) equipped with GPUs. Conclusions Our work not only demonstrates that complex genomics analyses can be performed on lightweight computing systems, but also benefits High-Performance Computing (HPC). The associated source code for f5c along with GPU optimised ABEA is available at https://github.com/hasindu2008/f5c .

Summary: DNA replication timing and three-dimensional (3D) genome organization are associated with distinct epigenome patterns across large domains. However, whether alterations in the epigenome, in particular cancer-related DNA hypomethylation, affects higher-order levels of genome architecture is still unclear. Here, using Repli-Seq, single-cell Repli-Seq, and Hi-C, we show that genome-wide methylation loss is associated with both concordant loss of replication timing precision and deregulation of 3D genome organization. Notably, we find distinct disruption in 3D genome compartmentalization, striking gains in cell-to-cell replication timing heterogeneity and loss of allelic replication timing in cancer hypomethylation models, potentially through the gene deregulation of DNA replication and genome organization pathways. Finally, we identify ectopic H3K4me3-H3K9me3 domains from across large hypomethylated domains, where late replication is maintained, which we purport serves to protect against catastrophic genome reorganization and aberrant gene transcription. Our results highlight a potential role for the methylome in the maintenance of 3D genome regulation.

Organophosphorus ligands are an invaluable family of compounds that continue to underpin important roles in disciplines such as coordination chemistry and catalysis. Their success can routinely be traced back to facile tuneability thus enabling a high degree of control over, for example, electronic and steric properties. Diphosphines, phosphorus compounds bearing two separated PIII donor atoms, are also highly valued and impart their own unique features, for example excellent chelating properties upon metal complexation. In many classical ligands of this type, the backbone connectivity has been based on all carbon spacers only but there is growing interest in embedding other donor atoms such as additional nitrogen (–NH–, –NR–) sites. This review will collate some important examples of ligands in this field, illustrate their role as ligands in coordination chemistry and highlight some of their reactivities and applications. It will be shown that incorporation of a nitrogen-based group can impart unusual reactivities and important catalytic applications.

Over 1250 mutations in SCN1A, the Nav1.1 voltage-gated sodium channel gene, are associated with seizure disorders including GEFS+. To evaluate how a specific mutation, independent of genetic background, causes seizure activity we generated two pairs of isogenic human iPSC lines by CRISPR/Cas9 gene editing. One pair is a control line from an unaffected sibling, and the mutated control carrying the GEFS+ K1270T SCN1A mutation. The second pair is a GEFS+ patient line with the K1270T mutation, and the corrected patient line. By comparing the electrophysiological properties in inhibitory and excitatory iPSC-derived neurons from these pairs, we found the K1270T mutation causes cell type-specific alterations in sodium current density and evoked firing, resulting in hyperactive neural networks. We also identified differences associated with genetic background and interaction between the mutation and genetic background. Comparisons within and between dual pairs of isogenic iPSC-derived neuronal cultures provide a novel platform for evaluating cellular mechanisms underlying a disease phenotype and for developing patient-specific anti-seizure therapies.

The commons literature focuses heavily on rules and the behavior of resource users but places less emphasis on the returns to individual effort. However, for most resource settings, market conditions and associated resource prices are key drivers of exploitation effort. In a globalized world, import competition can strongly influence the incentives for individual resource users, a topic largely unexplored in the commons literature. Import competition is especially salient for seafood, one of the most internationally traded food groups. We analyze the US shrimp market, which was once dominated by domestic catches but is now mostly supplied by imports. For domestic producers (users of the commons), lower revenues result, while US consumers eat more shrimp at lower prices. Globalization changed the sources of price risk and compensation that domestic producers face and altered incentives to exploit the commons. In a market dominated by domestic supply shocks, the price response to a shock moderates the effect on revenue and effort. In a market dominated by imports, domestic shocks are buffered by import adjustments, while price movements are determined by global shocks. Despite losses for the domestic fishery, globalization creates new incentives to coordinate effort and capture price premiums determined in the global market.

Utilizing teachers as extenders may maximize the reach of Extension nutrition education programs; however, there is a need to identify effective professional development (PD) strategies to ensure quality implementation. Lesson study is a PD model that demonstrated improvements in school teachers’ self-efficacy and knowledge in various disciplines. In this study, fourth-grade teachers at two schools delivered nutrition education in their classrooms. Lesson study was examined to improve self-efficacy, content knowledge, and use of inquiry-based teaching strategies. While teachers at one school followed the lesson study model, teachers at the other school did not. Teachers reported time, resources, and funding were barriers to using lesson study and implementing the curriculum. Teachers who reported teaching nutrition previously declined in self-efficacy and knowledge. It is possible that they underestimated what would be required to teach this curriculum, resulting in a higher pre-test rating of self-efficacy compared to ratings after teaching the curriculum. This shift may have affected their motivation and willingness to participate fully in the lesson study process. Increasing teacher access to content experts during PD may improve teacher selfefficacy. Providing additional support and materials may increase the likelihood that teachers participate as extenders of Extension nutrition education programs.

Abstract The diversity of processed transcripts in eukaryotic genomes poses a challenge for the classification of their biological functions. Sparse sequence conservation in non-coding sequences and the unreliable nature of RNA structure predictions further exacerbate this conundrum. Here, we describe a computational method, DotAligner, for the unsupervised discovery and classification of homologous RNA structure motifs from a set of sequences of interest. Our approach outperforms comparable algorithms at clustering known RNA structure families, both in speed and accuracy. It identifies clusters of known and novel structure motifs from ENCODE immunoprecipitation data for 44 RNA-binding proteins.

Given an evolutionary process, we expect distinct categories of heritable data, sampled in ever larger amounts, to converge on a single tree of historical relationships. We tested this assertion by undertaking phylogenetic analyses of a new morphology-DNA dataset for mammals, focusing on Glires and including the oldest known skeletons of geomyoid and Ischyromys rodents. Our results support geomyoids in the mouse-related clade (Myomorpha) and a ricochetal locomotor pattern for the common ancestor of geomyoid rodents. They also support Ischyromys in the squirrel-related clade (Sciuromorpha) and the evolution of sciurids and Aplodontia from extinct, ‘protrogomorph’-grade rodents. Moreover, ever larger samples of characters from our dataset increased congruence with an independent, well-corroborated tree. Addition of morphology from fossils increased congruence to a greater extent than addition of morphology from extant taxa, consistent with fossils' temporal proximity to the common ancestors of living species, reflecting the historical, phylogenetic signal present in our data, particularly in morphological characters from fossils. Our results support the widely held but poorly tested intuition that fossils resemble the common ancestors shared by living species, and that fossilizable hard tissues (i.e. bones and teeth) help to reconstruct the evolutionary tree of life.

Abstract Wiwaxiids are a problematic group of scale-covered lophotrochozoans known from Cambrian Stages 3–5. Their imbricating dorsal scleritome of leaf-like scales has prompted comparison with various annelids and molluscs and has been used as a template to reconstruct the articulation pattern of isolated Small Shelly Fossils. The first articulated specimens of Wiwaxia from the Cambrian Stage 3 Chengjiang Konservat-Lagerstätte show that the Wiwaxia scleritome comprised nine equivalent transverse rows associated with outgrowths of soft tissue, but did not possess a separate zone of anterior sclerites. This serial construction is fundamentally incompatible with the circumferential disposition of sclerites in early molluscs, but does closely resemble the armature of certain annelids. A deep homology with the annelid scleritome must be reconciled with Wiwaxia’s mollusc-like mouthparts and foot; together these point to a deep phylogenetic position, close to the common ancestor of annelids and molluscs.

The majority of women serving short-term sentences in provincial prisons in Canada are incarcerated for illegal activities involving alcohol and substance use. Although there is a wealth of research on substance use among those serving sentences within the federal prison system, little of that literature addresses the needs and experiences of women prisoners. Additionally, very scant research exists on the experience of women incarcerated in the provincial system for crimes related to drug and alcohol use. The purpose of this article is to present the results of a Canadian participatory research project conducted in a minimum-medium security provincial prison. In conducting this project, our objectives were to understand incarcerated women's perspectives on reasons for their substance use, why they continued to use, the consequences of their use, and their suggestions for change. The data were collected and analyzed by the collaborative efforts of both the peer researchers who were incarcerated women at the time of the research and university-based researchers. Upon release, several women continued on the project as co-researchers and co-authors of this paper. We present the results of a "drug of choice" survey and the qualitative responses to open-ended questions concerning prisoners' use of drugs and alcohol. (Contains 2 tables.)

Identificar, cuantificar y minimizar el riesgo técnico asociado a las decisiones de inversión es un desafío clave para los directivos de la industria minera y los inversores. Sin embargo, en la mayor parte de los estudios de factibilidad bancables, el análisis de riesgo se basa en la modelización estocástica del "Valor actual neto" del proyecto (VAN) que, en la mayoría de los casos, no aporta a los tomadores de decisión una análisis completo de los riesgos derivados de la incertidumbre técnica y de gestión y por ello, resulta de escasa utilidad en el análisis de riesgo y la optimización del proyecto. Este articulo presenta un planteamiento de la gestión de riesgo basado en la cadena de valor, en el que el riesgo del proyecto se evalúa en cada etapa del ciclo de vida del proyecto, desde la exploración al cierre de la mina, y la gestión del riesgo forma parte de un proceso en etapas de valor agregado y optimización.

Human exposure to lead is a substantial public health hazard worldwide and is particularly problematic in the Republic of South Africa given the country's late cessation of leaded petrol. Lead exposure is associated with a number of serious health issues and diseases including developmental and cognitive deficiency, hypertension and heart disease. Understanding the distribution of lifetime lead burden within a given population is critical for reducing exposure rates. Femoral bone from 101 deceased adult males living in urban Transvaal Province (now Gauteng Province), South Africa between 1960 and 1998 were analyzed for lead concentration by Inductively Coupled Plasma Mass Spectrometry (ICP-MS). Of the 72 black and 29 white individuals sampled, chronic lead exposure was apparent in nearly all individuals. White males showed significantly higher median bone lead concentration (ME = 10.04 µg·g(-1)), than black males (ME = 3.80 µg·g(-1)) despite higher socioeconomic status. Bone lead concentration covaries significantly, though weakly, with individual age. There was no significant temporal trend in bone lead concentration. These results indicate that long-term low to moderate lead exposure is the historical norm among South African males. Unexpectedly, this research indicates that white males in the sample population were more highly exposed to lead.

Pregnancy-induced noncoding RNA (PINC) and retinoblastoma-associated protein 46 (RbAp46) are upregulated in alveolar cells of the mammary gland during pregnancy and persist in alveolar cells that remain in the regressed lobules following involution. The cells that survive involution are thought to function as alveolar progenitor cells that rapidly differentiate into milk-producing cells in subsequent pregnancies, but it is unknown whether PINC and RbAp46 are involved in maintaining this progenitor population. Here, we show that, in the post-pubertal mouse mammary gland, mPINC is enriched in luminal and alveolar progenitors. mPINC levels increase throughout pregnancy and then decline in early lactation, when alveolar cells undergo terminal differentiation. Accordingly, mPINC expression is significantly decreased when HC11 mammary epithelial cells are induced to differentiate and produce milk proteins. This reduction in mPINC levels may be necessary for lactation, as overexpression of mPINC in HC11 cells blocks lactogenic differentiation, while knockdown of mPINC enhances differentiation. Finally, we demonstrate that mPINC interacts with RbAp46, as well as other members of the polycomb repressive complex 2 (PRC2), and identify potential targets of mPINC that are differentially expressed following modulation of mPINC expression levels. Taken together, our data suggest that mPINC inhibits terminal differentiation of alveolar cells during pregnancy to prevent abundant milk production and secretion until parturition. Additionally, a PRC2 complex that includes mPINC and RbAp46 may confer epigenetic modifications that maintain a population of mammary epithelial cells committed to the alveolar fate in the involuted gland.