Synthetic chromosome arms function in yeast and generate phenotypic diversity by design

Recent advances in DNA synthesis technology have enabled the construction of novel genetic pathways and genomic elements, furthering our understanding of system-level phenomena. The ability to synthesize large segments of DNA allows the engineering of pathways and genomes according to arbitrary sets of design principles. Here we describe a synthetic yeast genome project, Sc2.0, and the first partially synthetic eukaryotic chromosomes, Saccharomyces cerevisiae chromosome synIXR, and semi-synVIL. We defined three design principles for a synthetic genome as follows: first, it should result in a (near) wild-type phenotype and fitness; second, it should lack destabilizing elements such as tRNA genes or transposons; and third, it should have genetic flexibility to facilitate future studies. The synthetic genome features several systemic modifications complying with the design principles, including an inducible evolution system, SCRaMbLE (synthetic chromosome rearrangement and modification by loxP-mediated evolution). We show the utility of SCRaMbLE as a novel method of combinatorial mutagenesis, capable of generating complex genotypes and a broad variety of phenotypes. When complete, the fully synthetic genome will allow massive restructuring of the yeast genome, and may open the door to a new type of combinatorial genetics based entirely on variations in gene content and copy number.     

Avifauna of the Mt. Dellenbaugh region, Shivwits Plateau, Arizona

An investigation of the avifauna of Mt. Dellenbaugh, Arizona, and nearby areas on the Shivwits Plateau was conducted during fall 1974 and during spring and summer 1975. A total of 92 species of birds was recorded, of which 56 were considered resident. Species composition is discussed in relation to habitat.     

Intercanine crown distances in red foxes and badgers

Recent distribution maps show raccoon as occupying only the extreme eastern - northeastern portion of Wyoming. However, there is substantial evidence that raccoon are common throughout Wyoming and currently inhabit all the major and many of the minor drainages throughout Wyoming.     

RNA-guided genetic silencing systems in bacteria and archaea

Clustered regularly interspaced short palindromic repeat (CRISPR) are essential components of nucleic-acid-based adaptive immune systems that are widespread in bacteria and archaea. Similar to RNA interference (RNAi) pathways in eukaryotes, CRISPR-mediated immune systems rely on small RNAs for sequence-specific detection and silencing of foreign nucleic acids, including viruses and plasmids. However, the mechanism of RNA-based bacterial immunity is distinct from RNAi. Understanding how small RNAs are used to find and destroy foreign nucleic acids will provide new insights into the diverse mechanisms of RNA-controlled genetic silencing systems.     

Perceptual consequences of centre-surround antagonism in visual motion processing

Centre-surround receptive field organization is a ubiquitous property in mammalian visual systems, presumably tailored for extracting image features that are differentially distributed over space. In visual motion, this is evident as antagonistic interactions between centre and surround regions of the receptive fields of many direction-selective neurons in visual cortex. In a series of psychophysical experiments we make the counterintuitive observation that increasing the size of a high-contrast moving pattern renders its direction of motion more difficult to perceive and reduces its effectiveness as an adaptation stimulus. We propose that this is a perceptual correlate of centre-surround antagonism, possibly within a population of neurons in the middle temporal visual area. The spatial antagonism of motion signals observed at high contrast gives way to spatial summation as contrast decreases. Evidently, integration of motion signals over space depends crucially on the visibility of those signals, thereby allowing the visual system to register motion information efficiently and adaptively.     

Dynamics of travelling waves in visual perception

Nonlinear wave propagation is ubiquitous in nature, appearing in chemical reaction kinetics, cardiac tissue dynamics, cortical spreading depression and slow wave sleep. The application of dynamical modelling has provided valuable insights into the mechanisms underlying such nonlinear wave phenomena in several domains. Wave propagation can also be perceived as sweeping waves of visibility that occur when the two eyes view radically different stimuli. Termed binocular rivalry, these fluctuating states of perceptual dominance and suppression are thought to provide a window into the neural dynamics that underlie conscious visual awareness. Here we introduce a technique to measure the speed of rivalry dominance waves propagating around a large, essentially one-dimensional annulus. When mapped onto visual cortex, propagation speed is independent of eccentricity. Propagation speed doubles when waves travel along continuous contours, thus demonstrating effects of collinear facilitation. A neural model with reciprocal inhibition between two layers of units provides a quantitative explanation of dominance wave propagation in terms of disinhibition. Dominance waves provide a new tool for investigating fundamental cortical dynamics.