Convergent recombination suppression suggests role of sexual selection in guppy sex chromosome formation.

Sex chromosomes evolve once recombination is halted between a homologous pair of chromosomes. The dominant model of sex chromosome evolution posits that recombination is suppressed between emerging X and Y chromosomes in order to resolve sexual conflict. Here we test this model using whole genome and transcriptome resequencing data in the guppy, a model for sexual selection with many Y-linked colour traits. We show that although the nascent Y chromosome encompasses nearly half of the linkage group, there has been no perceptible degradation of Y chromosome gene content or activity. Using replicate wild populations with differing levels of sexually antagonistic selection for colour, we also show that sexual selection leads to greater expansion of the non-recombining region and increased Y chromosome divergence. These results provide empirical support for longstanding models of sex chromosome catalysis, and suggest an important role for sexual selection and sexual conflict in genome evolution

A review of mentorship measurement tools

© 2016 Elsevier Ltd. Objectives: To review mentorship measurement tools in various fields to inform nursing educators on selection, application, and developing of mentoring instruments. Design: A literature review informed by PRISMA 2009 guidelines. Data Sources: Six databases: CINHAL, Medline, PsycINFO, Academic Search Premier, ERIC, Business premier resource. Review Methods: Search terms and strategies used: mentor* N3 (behav* or skill? or role? or activit? or function* or relation*) and (scale or tool or instrument or questionnaire or inventory). The time limiter was set from January 1985 to June 2015. Extracted data were content of instruments, samples, psychometrics, theoretical framework, and utility. An integrative review method was used. Results: Twenty-eight papers linked to 22 scales were located, seven from business and industry, 11 from education, 3 from health science, and 1 focused on research mentoring. Mentorship measurement was pioneered by business with a universally accepted theoretical framework, i.e. career function and psychosocial function, and the trend of scale development is developing: from focusing on the positive side of mentorship shifting to negative mentoring experiences and challenges. Nursing educators mainly used instruments from business to assess mentorship among nursing teachers. In education and nursing, measurement has taken to a more specialised focus: researchers in different contexts have developed scales to measure different specific aspects of mentorship. Most tools show psychometric evidence of content homogeneity and construct validity but lack more comprehensive and advanced tests. Conclusion: Mentorship is widely used and conceptualised differently in different fields and is less mature in nursing than in business. Measurement of mentorship is heading to a more specialised and comprehensive process. Business and education provided measurement tools to nursing educators to assess mentorship among staff, but a robust instrument to measure nursing students' mentorship is needed

Outflows in the Gaseous Discs of Active Galaxies and their impact on Black Hole Scaling Relations

To tackle the still unsolved and fundamental problem of the role of Active Galactic Nuclei (AGN) feedback in shaping galaxies, in this work we implement a new physical treatment of AGN-driven winds into our semi-analytic model of galaxy formation. To each galaxy in our model, we associate solutions for the outflow expansion and the mass outflow rates in different directions, depending on the AGN luminosity, on the circular velocity of the host halo, and on gas content of the considered galaxy. To each galaxy we also assign an effective radius derived from energy conservation during merger events, and a stellar velocity dispersion self-consistently computed via Jeans modelling. We derive all the main scaling relations between Black hole (BH) mass and total/bulge stellar mass, velocity dispersion, host halo dark matter mass, and star formation efficiency. We find that our improved AGN feedback mostly controls the dispersion around the relations but plays a subdominant role in shaping slopes and/or normalizations of the scaling relations. Including possible limited-resolution selection biases in the model provides better agreement with the available data. The model does not point to any more fundamental galactic property linked to BH mass, with velocity dispersion playing a similar role with respect to stellar mass, in tension with present data. In line with other independent studies carried out on comprehensive semi-analytic and hydrodynamic galaxy-BH evolution models, our current results signal either an inadequacy of present cosmological models of galaxy formation in fully reproducing the local scaling relations, in terms of both shape and residuals, and/or point to an incompleteness issue affecting the local sample of dynamically-measured BHs.Comment: 21 pages, accepted for publications in Astronomy & Astrophysic

Justifying the design and selection of literacy and thinking tools

Criteria for the design and selection of literacy and thinking tools that allow educators to justify what they do are described within a wider framework of learning theory and research into best practice. Based on a meta-analysis of best practice, results from a three year project designed to evaluate the effectiveness of a secondary school literacy initiative in New Zealand, together with recent research from cognitive and neuro-psychologists, it is argued that the design and selection of literacy and thinking tools used in elementary schools should be consistent with (i) teaching focused (ii) learner focused, (iii) thought linked (iv) neurologically consistent, (v) subject specific, (vi) text linked, (vii) developmentally appropriate, and (viii) assessment linked criteria. Key words: Literacy, thinking, tools, justifying criteria

STELLAR (Semantic Technologies Enhancing the Lifecycle of Learning Resources): Jisc Final Report

[Project Summary] As one of the earliest distance learning providers The Open University (OU) has a rich heritage of archived learning materials. An ever increasing amount of that is in digital form and is being deposited with the University Archive. This growth has been driven by digitisation activity from projects such as AVA (Access to Video Assets) and the Fedora-based Open University Digital Library ‘a place to discover digital and digitised archival content from the OU Library, from videos and images to digitised documents’. Other digital content is being captured from web archiving activities, such as work to preserve Moodle Virtual Learning Environment course websites. An evidence based understanding is required to inform digital preservation policies, curation strategy and investment in digital library development. Following the Pre-enhancement, Enhancement and Post-enhancement methodology set out by Jisc, STELLAR adopted the model of a balanced scorecard to ascertain the value ascribed to the non-current learning materials. Four aspects were considered: Personal and professional perspectives of value; Value to the Higher Educational and academic communities; Value to internal processes and cultures; Financial perspectives of value. The outcomes of the survey indicated that stakeholders place a high value on the materials, and that they perceived them to have value in all areas evaluated. Three OU courses were chosen from the digital library for the transformation stage. These materials were enhanced and transformed into RDF, a process that required more extensive metadata expertise and effort than was expected. Following enhancement the RDF was accessed through a tool called DiscOU, created by a member of the project team from the OU’s Knowledge Media Institute. DiscOU uses both linked data and a semantic meaning engine to analyse the meaning of the text in a search query. This is matched against the meaning of the content derived from an index of the full-text of the digital library content. In the final stage stakeholders were asked through a survey and series of workshops to use the DiscOU proof-of-concept tool to assess their perception of the value of this transformation. This has revealed that overall, academics and other stakeholders in the university do believe that the value of the selected materials was positively impacted by the application of semantic technologies

Independent stratum formation on the avian sex chromosomes reveals inter-chromosomal gene conversion and predominance of purifying selection on the w chromosome

We used a comparative approach spanning three species and 90 million years to study the evolutionary history of the avian sex chromosomes. Using whole transcriptomes, we assembled the largest cross-species dataset of W-linked coding content to date. Our results show that recombination suppression in large portions of the avian sex chromosomes has evolved independently, and that long-term sex chromosome divergence is consistent with repeated and independent inversions spreading progressively to restrict recombination. In contrast, over short-term periods we observe heterogeneous and locus-specific divergence. We also uncover four instances of gene conversion between both highly diverged and recently evolved gametologs, suggesting a complex mosaic of recombination suppression across the sex chromosomes. Lastly, evidence from 16 gametologs reveal that the W chromosome is evolving with a significant contribution of purifying selection, consistent with previous findings that W-linked genes play an important role in encoding sex-specific fitness

Strong Purifying Selection at Synonymous Sites in D. melanogaster

Synonymous sites are generally assumed to be subject to weak selective constraint. For this reason, they are often neglected as a possible source of important functional variation. We use site frequency spectra from deep population sequencing data to show that, contrary to this expectation, 22% of four-fold synonymous (4D) sites in D. melanogaster evolve under very strong selective constraint while few, if any, appear to be under weak constraint. Linking polymorphism with divergence data, we further find that the fraction of synonymous sites exposed to strong purifying selection is higher for those positions that show slower evolution on the Drosophila phylogeny. The function underlying the inferred strong constraint appears to be separate from splicing enhancers, nucleosome positioning, and the translational optimization generating canonical codon bias. The fraction of synonymous sites under strong constraint within a gene correlates well with gene expression, particularly in the mid-late embryo, pupae, and adult developmental stages. Genes enriched in strongly constrained synonymous sites tend to be particularly functionally important and are often involved in key developmental pathways. Given that the observed widespread constraint acting on synonymous sites is likely not limited to Drosophila, the role of synonymous sites in genetic disease and adaptation should be reevaluated

RNA aptamers generated against oligomeric Abeta40 recognize common amyloid aptatopes with low specificity but high sensitivity.

Aptamers are useful molecular recognition tools in research, diagnostics, and therapy. Despite promising results in other fields, aptamer use has remained scarce in amyloid research, including Alzheimer's disease (AD). AD is a progressive neurodegenerative disease believed to be caused by neurotoxic amyloid beta-protein (Abeta) oligomers. Abeta oligomers therefore are an attractive target for development of diagnostic and therapeutic reagents. We used covalently-stabilized oligomers of the 40-residue form of Abeta (Abeta40) for aptamer selection. Despite gradually increasing the stringency of selection conditions, the selected aptamers did not recognize Abeta40 oligomers but reacted with fibrils of Abeta40, Abeta42, and several other amyloidogenic proteins. Aptamer reactivity with amyloid fibrils showed some degree of protein-sequence dependency. Significant fibril binding also was found for the naïve library and could not be eliminated by counter-selection using Abeta40 fibrils, suggesting that aptamer binding to amyloid fibrils was RNA-sequence-independent. Aptamer binding depended on fibrillogenesis and showed a lag phase. Interestingly, aptamers detected fibril formation with > or =15-fold higher sensitivity than thioflavin T (ThT), revealing substantial beta-sheet and fibril formation undetected by ThT. The data suggest that under physiologic conditions, aptamers for oligomeric forms of amyloidogenic proteins cannot be selected due to high, non-specific affinity of oligonucleotides for amyloid fibrils. Nevertheless, the high sensitivity, whereby aptamers detect beta-sheet formation, suggests that they can serve as superior amyloid recognition tools

Use of DNA-based genetic markers in plant breeding

Genetic markers have been used since the beginnings of plant breeding, but the concept of linkage and recently the availability of molecular markers have offered new and powerful tools that can help to perform the traditional tasks of selection or that can change the traditional breeding process. Markers can either be used in a descriptive manner to identify varieties, to study the ‘micro-evolution’ of composite crosses or variety mixtures or to analyse the breeding progress retrospectively in order to learn from the past. The operative use of markers in plant breeding is connected to the selection of parental lines and progeny lines. The possible implementation of these processes stretches from the introgression of specific chromosome fragments to ‘marker-based idiotype breeding’