Recoding: reprogrammed genetic decoding with an emphasis on antizyme regulatory frameshifting

Recoding embraces mechanisms that augment the rules of standard genetic decoding. The deviations from standard decoding are often purposeful and their realisation provides diverse and flexible regulatory mechanisms. Recoding events such as programed ribosomal frameshifting are especially plentiful in viruses. In most organisms only a few cellular genes are known to employ programed ribosomal frameshifting in their expression. By far the most prominent and therefore well-studied case of cellular +1 frameshifting is in expression of antizyme mRNAs. The protein antizyme is a key regulator of polyamine levels in most eukaryotes with some exceptions such as plants. A +1 frameshifting event is required for the full length protein to be synthesized and this requirement is a conserved feature of antizyme mRNAs from yeast to mammals. The efficiency of the frameshifting event is dependent on the free polyamine levels in the cell. cis-acting elements in antizyme mRNAs such as specific RNA structures are required to stimulate the frameshifting efficiency. Here I describe a novel stimulator of antizyme +1 frameshifting in the Agaricomycotina class of Basidiomycete fungi. It is a nascent peptide that acts from within the ribosome exit tunnel to stimulate frameshifting efficiency in response to polyamines. The interactions of the nascent peptide with components of the peptidyl transferase centre and the protein exit tunnel emerge in our understanding as powerful means which the cell employs for monitoring and tuning the translational process. These interactions can modulate the rate of translation, protein cotranslational folding and localization. Some nascent peptides act in concert with small molecules such as polyamines or antibiotics to stall the ribosome. To these known nascent peptide effects we have added that of a stimulatory effect on the +1 frameshifting in antizyme mRNAs. It is becoming evident that nascent peptide involvement in regulation of translation is a much more general phenomenon than previously anticipated.

Perspectives esthétique et compositionnelle d’une dialectique entre le son et la musique

Visant à contribuer à la pérennité de la musique d’art instrumentale, cette thèse aborde plusieurs sujets la concernant, autant sur les plans théorique et esthétique que pratique et compositionnel. Les deux principaux contextes observés sont ceux de la modernité et de l’économie de marché. Le premier, par le triomphe de la raison technicienne, aurait conduit à l’autonomie de l’art désormais confronté aux risques de l’autoréférence. Le deuxième, par la pression exercée sur le compositeur à la base de la chaîne création-production-diffusion, compromettrait cette autonomie qu’elle avait pourtant contribuée à rendre possible. Or, l’autonomie de l’art, en tant que conquête sur les plans esthétique, social, politique, économique et intellectuel, représente un enjeu de taille, puisque d’éventuelles compromissions envers des impératifs extérieurs impliquent un recul sur tous ces plans. Pour répondre à cette problématique, la thèse explore des pistes de réflexions et d’opérations pour réaffirmer – en le revendiquant – ce que la musique d’art possède en propre et qui mérite encore d’être entendu, militant ainsi pour la survie de ce qui la rend possible. Plus précisément, la dialectique du son et de la musique que je développe ici me permet, dans un premier temps, d’aborder les médiations successives conduisant des ondes mécaniques à se structurer dans notre conscience jusqu’à se transmettre à nous sous forme de patrimoine; puis, dans un deuxième temps, de décrire ma propre intention de communication par la musique en analysant deux œuvres de ma composition : Musique d’art pour quintette à cordes et Musique d’art pour orchestre de chambre II (partie 1.). Musique d’art pour quintette à cordes est une œuvre-concert de soixante-cinq minutes pour quatuor à cordes et contrebasse, spatialisation, traitement et mise en espace des musiciens. Il s’agit d’un projet de recherche-création de mon initiative que j’ai aussi mené à titre de producteur. Musique d’art pour orchestre de chambre II (partie 1.) est une œuvre de commande de quatorze minutes. Le retour critique portant sur l’ensemble des composantes caractéristiques du média ouvre la voie à une corrélation plus étroite entre son contenu et sa forme privilégiée de présentation, le concert. Cette corrélation peut amener le public à désirer visiter les œuvres et apprécier leur signification, préservant la musique d’art comme mode spécifique de connaissance du monde.

Vers l'installation d'un espace musical : ethnographie de la scène punk à Montréal

Mémoire numérisé par la Direction des bibliothèques de l'Université de Montréal.

Percentages of sand-sized material and biogenic components in sediment core GIK12392-1

The paleo-oceanography of the southeastern North Atlantic Ocean during the last 150,000 yr has been studied using biogenous and terrigenous components of hemipelagic sediments sampled close to the northwest African continental margin. Variations of oxygen isotope ratios in shells of benthic calcareous foraminifers in two cores allow the assignment of absolute ages to these cores (in the best case at 1000 yr increments). The uncorrected bulk sedimentation rates of the longest core range from 3.4 to 7.6 cm/ 1000 yr during Interglacial conditions, and from 6.5 to 9.9 cm/1000 yr during Glacial conditions; all other cores have given results of the same order of magnitude, but with generally increasing values towards the continental edge. The distribution of sediment components allow us to make inferences about paleo-oceanographic changes in this region. Frequencies of biogenic components from benthic organisms, oxygen isotope ratios measured in benthic calcareous foraminiferal shells, the total carbonate contents of the sediment and distributions of biogenic components from planktonic organisms often fluctuate in concert. However, all fluctuations which can be attributed to changes of the bottom water masses (North Atlantic Deep Water) seem to precede by several thousand years those which can be linked to changes of the surface water mass distributions or to changes of the climate over the neighboring land masses. Late Quaternary planktonic foraminiferal assemblages in the cores from the northwest African continental margin can be defined satisfactorily in the way that distributions of assemblages found in sediment surface samples from the northeast Atlantic Ocean have been explained. The distributions of assemblages in the northwest African cores can also be used to estimate past sea surface temperatures and salinities. The downcore record of these estimates reveals two warm periods during the last 150,000 yr, the lower one corresponding to the oxygen isotope stage 5 e (equivalent to the Eemian proper in Europe), the upper one to the younger half of the Holocene. Winter surface water temperatures during oxygen isotope stages 6, 4, 3, and 2 are remarkably constant in most cores, while summer sea surface temperatures during stage 3 reach values comparable to those of the warm periods during the Late Holocene and Eemian. Estimated winter sea surface temperatures range from > 16 °C to < 11°C, the summer sea surface temperatures from > 22 °C to < 15 °C during the last 150,000 yr. Estimates of the winter sea surface salinities fluctuate between 36.6? and 35.5?, the higher values being restricted to the warm periods since the penultimate Glacial. Estimates for sea surface temperatures and salinities for two cores from the center of today's coastal upwelling region show less pronounced fluctuations than the record of the open ocean cores in the case of the station 12379 off Cape Barbas, more pronounced in the case of station 12328 off Cape Blanc. Seasonal differences between winter and summer sea surface temperatures derived from the estimated temperatures are today more pronounced in the boundary region of the ocean to the continent than further away from the continent. The differences are generally higher during warm climatic periods of the last 150,000 yr than during cooler ones. The abundance of terrigenous grains in the coarse fractions generally decreases with increasing distance from the continental edge, and also from south to north. The dominant portion of the terrigenous detritus is carried out into the ocean during the relatively cool climatic periods (stage 6, 4, later part of stage 3, stage 2 and oldest part of stage 1). The enhanced precision of dating combined with the stratigraphic resolution of these high deposition rate cores make it clear that the peaks of the terrigenous input off this part of the northwest African continental margin occur simultaneously with times of rapid sea level fluctuations resulting from large volume changes of the large Glacial ice sheets.

Sedimentology of core M74/4_1143-1

Periplatform ooze is an admixture of pelagic carbonate and sediment derived from neritic carbonate platforms. Compositional variations of periplatform ooze allow the rectonstruction of past sea-level changes. Periplatform ooze formed during sea-level highstands is finer grained and richer in aragonit through the elevated input of material from the flooded platform compared to periplatform ooze formed during the episodes of lowered sea level. In many cases, however, the sea floor around carbonate platforms is subjected to bottom currents which are expected to affect sediment composition, i.e. through winnowing of the fine fraction. The interaction of sea-level driven highstand shedding and current impact on the formation of periplatform ooze is influenced or even distorted by changing current activity, an integrated study using seismic, hydroacoustic and sedimentological data has been performed on periplatform ooze deposited in the Inner Sea of the Maldives. The Miocene to Pleistocene succession of drift deposits is subdivided into nine units; limits of seismostratigraphic units correspond to changes or turnarounds in grain size trends in cores recovered at ODP Site 716 and NEOMA Site 1143. For the Pleistocene it can be shown how changes in grain size occur in concert with sea-level changes and changes of the monsoonal system, which is thought to be a major driver bottom currents in the Maldives. A clear hightstand shedding pattern only appears in the data at a time of of relaxation of monsoonal strength during the last 315 ky. Results imply (1) that drift sediments provide a potential target for analyzing past changes in oceanic currents and (2) that the ooze composition bears a mixed signal of input and physical winnowing at the sea floor.