An updated evolutionary classification of CRISPR–Cas systems

The evolution of CRISPR–cas loci, which encode adaptive immune systems in archaea and bacteria, involves rapid changes, in particular numerous rearrangements of the locus architecture and horizontal transfer of complete loci or individual modules. These dynamics complicate straightforward phylogenetic classification, but here we present an approach combining the analysis of signature protein families and features of the architecture of cas loci that unambiguously partitions most CRISPR–cas loci into distinct classes, types and subtypes. The new classification retains the overall structure of the previous version but is expanded to now encompass two classes, five types and 16 subtypes. The relative stability of the classification suggests that the most prevalent variants of CRISPR–Cas systems are already known. However, the existence of rare, currently unclassifiable variants implies that additional types and subtypes remain to be characterized.

Investigating the outcomes of a physical activity program offered to older adults in South Florida and understanding the correlates of completion

Despite the well-known benefits of physical activity, in 2012, only 37.5% of older adults aged 60 years or older met recommended aerobic physical activity levels and 16.1% met muscle-strengthening guidelines. Effective exercise programs can help combat the problem of inactivity but 50% of those who start participating in an exercise program drop out within first few weeks, preventing them from gaining any health benefits. Since fall 2008, the Healthy Aging Regional Collaborative of South Florida has offered EnhanceFitness (EF), an evidence-based physical activity program to older adults. This dissertation compared EF effectiveness at 4-, 8-, and 12-months and examined the factors that were associated with program completion. A paired sample t-test identified changes at 4-months and repeated measures design was used to identify changes from baseline to 4-, 8-, and 12- months. Logistic regression was used to identify correlates associated with completion.^ Between October 1, 2008 and December 31, 2012, 4,531 older adults (>=60 years) attended one or more EF sessions. Participants showed significant improvement in the number of chair stands performed in 30-seconds with mean change of 1.7, 1.6, and 2.0 respectively at 4-,8-,and 12- months (p<0.001). Results suggest Black, non-Haitian men were less likely to complete the program when compared to white, non-Hispanic men (OR=0.41, p=0.02). Men who self-reported having at least one risk factor were more likely to complete the program (OR=1.81, p= 0.03). In addition, women who lived in Miami-Dade County (OR=2.13, p<0.001) and were 80 years or older (OR=1.46, p<0.05) were more likely to complete the program. When compared with non-Hispanic whites, Black women were less likely to complete the program (OR=0.613, p<0.01). Women who did not report depression were 1.6 times more likely to complete the program (OR=1.62, p<0.05). Absence of risk factors for chronic conditions increased completion rates among women (OR=1.63, p<0.01).^ Effectiveness results revealed that all participants significantly improved on all outcome measures. However, improvement is more than double for those who completed recommended sessions (p<0.01). Study findings reaffirm the successful translation of EF in community-based settings. Our findings suggest that participants should attend the minimum recommended sessions to attain greater health benefits.^

Ouvrir le livre et voir l’écran : pratiques littéraires et pratiques numériques

Ce dossier s’intéresse à la manière dont s’entrelacent littérature et numérique dans la littérature contemporaine. Puisque le numérique teinte l’ensemble des pratiques humaines, la littérature fait partie des lieux qu’elle investit. Ainsi, la question autour de laquelle s’articulent les textes de ce dossier est donc la suivante : comment pratiques littéraires et pratiques numériques peuvent-elles dialoguer aujourd’hui, et que peut-on dire des interactions qui découlent de ces échanges ? Il ne s’agit pas d’affirmer que toute la production littéraire contemporaine développe un discours sur le numérique, mais bien que les nouvelles possibilités de lecture et d’analyse qui nous sont offertes méritent d’être analysées et mises à l’épreuve.

Lire à l’ère du numérique « Le nénuphar et l’araignée » de Claire Legendre

Cet article se veut exploratoire en deux temps : une piste de réflexion sur l’impact du numérique sur les sciences humaines, et une lecture de l’essai « Le nénuphar et l’araignée » de Claire Legendre, publié le 4 février 2015 chez Les Allusifs. Notre hypothèse est qu’il est nécessaire de jeter les bases d’une théorie et d’une pensée du numérique, comme de poursuivre et de favoriser l’implémentation de nouveaux outils de recherche conçus par et pour les humanités, en lien direct avec les questions d’édition, de diffusion, d’encodage, de fouille, de curation, ou encore de visualisation et de représentation des données textuelles, sonores et visuelles. Cet article propose ainsi une première piste d’exploration de l’usage de ces nouvelles possibilités pour la littérature québécoise.

Le fait littéraire au temps du numérique. Pour une ontologie de l’imaginaire

Souvent conçues comme le vecteur de changements majeurs, les pratiques numériques constituent une occasion de mieux comprendre le fait littéraire en faisant apparaître de manière plus explicite que jamais des aspects ontologiques qui, en tant que tels, ont une valeur atemporelle. En particulier, et c’est l’objet de cet article, le fait numérique donne l’occasion de réinvestir une problématique qui parcourt l’ensemble de la réflexion sur le statut de la littérature depuis Platon et Aristote : celle du rapport entre littérature et réalité, dont Sartre et Derrida avaient déjà œuvré à déconstruire l’opposition au XXe siècle. Selon nous, le numérique souligne l’absence de séparation entre symbolique et non-symbolique, nous empêchant de penser une rupture entre imaginaire et réel. Pour rendre compte de cette structure, nous nous appuierons sur le concept d’éditorialisation, qui vient désigner l’ensemble des dispositifs permettant la production de contenus dans l’espace numérique en tenant compte de la fusion entre espace numérique et espace non numérique. À travers des exemples littéraires – Traque Traces de Cécile Portier et Laisse venir d’Anne Savelli et Pierre Ménard – nous démontrerons comment la littérature participe aujourd’hui à l’éditorialisation du monde, enterrant ainsi définitivement le dualisme imaginaire-réel pour lui préférer une structure anamorphique.

Relating Ediacaran Fronds

Ediacaran fronds are key components of terminal-Proterozoic ecosystems. They represent one of the most widespread and common body forms ranging across all major faunal localities and time slices postdating the Gaskiers glaciation, but uncertainty over their phylogenetic affinities has led to uncertainty over issues of homology and functional morphology between, and within, organisms displaying this ecomorphology. Here we present the first large scale, multi-group cladistic analysis of Ediacaran organisms sampling 20 ingroup taxa with previously asserted affinities to the Arboreomorpha, Erniettomorpha and Rangeomorpha. Using a newly derived morphological character matrix that incorporates multiple axes of potential phylogenetically informative data, including architectural, developmental, and structural qualities, we seek to illuminate the evolutionary history of these organisms. We find strong support for existing classification schema and devise apomorphy-based definitions for each of the three frondose clades examined here. Through a rigorous cladistics framework it is possible to discern the pattern of evolution within, and between, these clades, including the identification of homoplasies and functional constraints. This work both validates earlier studies of Ediacaran groups and accentuates instances where previous assumptions of their natural history are uninformative.

Call & response -- Fall 2012

Call & Response is the newsletter of the South Carolina African American Heritage Commission, whose mission is to identify and promote the preservation of historic sites, structures, buildings, and culture of the African American experience in South Carolina. This is volume X number 2 and includes a message from the chair, list of board members, spotlight on Vitoria A. Smalls and the agenda for the annual conference and awards ceremony.

Call & response -- Spring 2012

Call & Response is the newsletter of the South Carolina African American Heritage Commission, whose mission is to identify and promote the preservation of historic sites, structures, buildings, and culture of the African American experience in South Carolina. This is volume X number 2 and includes a message from the chair, list of board members, spotlight on Vitoria A. Smalls and the agenda for the annual conference and awards ceremony.

Call & response -- Winter 2012

Call & Response is the newsletter of the South Carolina African American Heritage Commission, whose mission is to identify and promote the preservation of historic sites, structures, buildings, and culture of the African American experience in South Carolina. This is volume X number 2 and includes a message from the chair, list of board members, spotlight on Vitoria A. Smalls and the agenda for the annual conference and awards ceremony.

Call & response -- Fall 2013

Call & Response is the newsletter of the South Carolina African American Heritage Commission, whose mission is to identify and promote the preservation of historic sites, structures, buildings, and culture of the African American experience in South Carolina. This is volume X number 2 and includes a message from the chair, list of board members, spotlight on Vitoria A. Smalls and the agenda for the annual conference and awards ceremony.

Call & response -- Spring/Summer 2013

Call & Response is the newsletter of the South Carolina African American Heritage Commission, whose mission is to identify and promote the preservation of historic sites, structures, buildings, and culture of the African American experience in South Carolina. This is volume X number 2 and includes a message from the chair, list of board members, spotlight on Vitoria A. Smalls and the agenda for the annual conference and awards ceremony.

Call & response -- Spring/Summer 2014

Call & Response is the newsletter of the South Carolina African American Heritage Commission, whose mission is to identify and promote the preservation of historic sites, structures, buildings, and culture of the African American experience in South Carolina. This is volume X number 2 and includes a message from the chair, list of board members, spotlight on Vitoria A. Smalls and the agenda for the annual conference and awards ceremony.

Call & response -- Winter 2014

Call & Response is the newsletter of the South Carolina African American Heritage Commission, whose mission is to identify and promote the preservation of historic sites, structures, buildings, and culture of the African American experience in South Carolina. This is volume X number 2 and includes a message from the chair, list of board members, spotlight on Vitoria A. Smalls and the agenda for the annual conference and awards ceremony.

Call & response -- Fall 2015

Call & Response is the newsletter of the South Carolina African American Heritage Commission, whose mission is to identify and promote the preservation of historic sites, structures, buildings, and culture of the African American experience in South Carolina. This is volume X number 2 and includes a message from the chair, list of board members, spotlight on Vitoria A. Smalls and the agenda for the annual conference and awards ceremony.