Wing-Nut: A Mobile Political Magazine for Millennials

Wing-Nut is a mobile based political magazine/news outlet for millennials. It is one of the first magazines designed specifically for mobile devices in an attempt to better appeal to the tech obsessed, smartphone addicted millennial generation. The magazine was designed to engage 18-to-25-year olds and make them think about political issues and how politics affect their everyday lives. The overall goal of the media outlet is to get the political discussion or conversation started between millennials: get them informed and get them involved

The Effect of Supply Chain Configuration on Small Modular Reactor Economics

This thesis examines the opportunity presented by small modular reactors (SMRs) to bring down the cost of nuclear power. The economies of scale that have traditionally driven nuclear vendors to design larger reactors can be overcome for small reactors by the combination of standardisation of design, modularisation of the build process, and progressive reduction in production cost through learning. By employing the most comprehensive nuclear plant construction cost data available, in conjunction with established cost estimating methods, a model was devised to estimate the capital costs and levelized electricity cost of a SMR, based on conventional light water reactor technology. Key elements of supply chain configuration were parameterised in the model, enabling the investigation of its effect on SMR economics. Credible SMR supply chain configurations were hypothesised, by applying procurement decision models to industry data and nuclear sector specific constraints. These configurations were evaluated using the model against a range of programme conditions. Beyond single programme supply chain design, the challenges posed by global production and deployment were considered, such as the segmentation of market demand, variations in labour costs, and the implications of regulatory barriers and localisation for SMR cost reduction methods. The costs of first developing a SMR programme were also estimated. It was established that in order for SMRs to become cost competitive with large nuclear plants, a sizeable programme of at least 10 GW of standard units is needed to achieve sufficient production volume and production rate. The preferred SMR size is in the region of 250 MWe, to achieve a balance between economies of scale and learning. Progress needs to be made in harmonising global technical standards and safety regulation to make the product-like reactor concept feasible. Moreover, a committed supply chain of collaborative enterprise partners, rather than competing transactional suppliers, is required to realise the necessary learning cost reduction.Funded by EPSRC through the ICO CDT in Nuclear Energ

Unleashing the Genome of Brassica Rapa

The completion and release of the Brassica rapa genome is of great benefit to researchers of the Brassicas, Arabidopsis, and genome evolution. While its lineage is closely related to the model organism Arabidopsis thaliana, the Brassicas experienced a whole genome triplication subsequent to their divergence. This event contemporaneously created three copies of its ancestral genome, which had diploidized through the process of homeologous gene loss known as fractionation. By the fractionation of homeologous gene content and genetic regulatory binding sites, Brassica’s genome is well placed to use comparative genomic techniques to identify syntenic regions, homeologous gene duplications, and putative regulatory sequences. Here, we use the comparative genomics platform CoGe to perform several different genomic analyses with which to study structural changes of its genome and dynamics of various genetic elements. Starting with whole genome comparisons, the Brassica paleohexaploidy is characterized, syntenic regions with A. thaliana are identified, and the TOC1 gene in the circadian rhythm pathway from A. thaliana is used to find duplicated orthologs in B. rapa. These TOC1 genes are further analyzed to identify conserved non-coding sequences that contain cis-acting regulatory elements and promoter sequences previously implicated in circadian rhythmicity. Each “cookbook style” analysis includes a step-by-step walk-through with links to CoGe to quickly reproduce each step of the analytical process

cis-Inhibition of Notch by Endogenous Delta Biases the Outcome of Lateral Inhibition

SummaryLateral inhibition mediated by Delta/Notch (Dl/N) signaling is used throughout development to limit the number of initially equivalent cells that adopt a particular fate [1–3]. Although adjacent cells express both Dl ligand and N receptor, signaling between them ultimately occurs in only one direction. Classically, this has been explained entirely by feedback: activated N can downregulate Dl, amplifying even slight asymmetries in the Dl or N activities of adjacent cells [1–5]. Here, however, we present an example of lateral inhibition in which unidirectional signaling depends instead on Dl's ability to inhibit N within the same cell, a phenomenon known as cis-inhibition [6–11]. By genetically manipulating individual R1/R6/R7 photoreceptor precursors in the Drosophila eye, we show that loss of Dl-mediated cis-inhibition reverses the direction of lateral signaling. Based on our finding that Dl in R1/R6s requires endocytosis to trans-activate but not to cis-inhibit N, we reexamine previously published data from other examples of lateral inhibition. We conclude that cis-inhibition generally influences the direction of Dl/N signaling and should therefore be included in standard models of lateral inhibition

Tail Wags the Dog? Functional Gene Classes Driving Genome-Wide GC Content in Plasmodium spp

Plasmodium parasites are valuable models to understand how nucleotide composition affects mutation, diversification, and adaptation. No other observed eukaryotes have undergone such large changes in genomic Guanine-Cytosine (GC) content as seen in the genus Plasmodium (approximate to 30% within 35-40 Myr). Although mutational biases are known to influence GC content in the human-infective Plasmodium vivax and Plasmodium falciparum; no study has addressed how different gene functional classes contribute to genus-wide compositional changes, or if Plasmodium GC content variation is driven by natural selection. Here, we tested the hypothesis that certain gene processes and functions drive variation in global GC content between Plasmodium species. We performed a large-scale comparative genomic analysis using the genomes and predicted genes of 17 Plasmodium species encompassing a wide genomic GC content range. Genic GC content was sorted and divided into ten equally sized quantiles that were then assessed for functional enrichment classes. In agreement that selection on gene classes may drive genomic GC content, trans-membrane proteins were enriched within extreme GC content quantiles (Q1 and Q10). Specifically, variant surface antigens, which primarily interact with vertebrate immune systems, showed skewed GC content distributions compared with other trans-membrane proteins. Although a definitive causation linking GC content, expression, and positive selection within variant surface antigens from Plasmodium vivax, Plasmodium berghei, and Plasmodium falciparum could not be established, we found that regardless of genomic nucleotide composition, genic GC content and expression were positively correlated during trophozoite stages. Overall, these data suggest that, alongside mutational biases, functional protein classes drive Plasmodium GC content change.National Science Foundation [NSF IOS-1339156, IOS-1444490]; CyVerse [NSF IOS-1339156, IOS-1444490, NSF DBI-0735191, DBI-1265383]Open access journalThis item from the UA Faculty Publications collection is made available by the University of Arizona with support from the University of Arizona Libraries. If you have questions, please contact us at [email protected]

Projectile Density Effects on Shield Performance

In the past, the orbital debris environment was modeled as consisting entirely of aluminum particles. As a consequence, most of the impact test database on spacecraft micro-meteoroid and orbital debris (MMOD) shields, and the resulting ballistic limit equations used to predict shielding performance, has been based on using aluminum projectiles. Recently, data has been collected from returned spacecraft materials and other sources that indicate higher and lower density components of orbital debris also exist. New orbital debris environment models such as ORDEM2008 provide predictions of the fraction of orbital debris in various density bins (high = 7.9 g/cu cm, medium = 2.8 g/cu cm, and low = 0.9-1.1 g/cu cm). This paper describes impact tests to assess the effects of projectile density on the performance capabilities of typical MMOD shields. Updates to shield ballistic limit equations are provided based on results of tests and analysis

The Dominion Range Ice Core, Queen Maud Mountains, Antarctica - General Site and Core Characteristics with Implications

The Transantarctic Mountains of East Antarctica provide a new milieu for retrieval of ice-core records. We report here on the initial findings from the first of these records, the Dominion Range ice-core record. Sites such as the Dominion Range are valuable for the recovery of records detailing climate change, volcanic activity, and changes in the chemistry of the atmosphere. The unique geographic location of this site and a relatively low accumulation rate combine to provide a relatively long record of change for this potentially sensitive climatic region. As such, information concerning the site and general core characteristics are presented, including ice surface, ice thickness, bore-hole temperature, mean annual net accumulation, crystal size, crystal fabric, oxygen-isotope composition, and examples of ice chemistry and isotopic composition of trapped gases

Not so non-marine? Revisiting the Stoer Group and the Mesoproterozoic biosphere

Funding for this project was provided by the NASA postdoctoral program (EES), the Lewis and Clark Fund (EES), an NSERC PGS-D grant (EJB), the NSF ELT (TWL, NJP) and FESD (TWL) programs, and the NASA Astrobiology Institute (TWL, NJP).The Poll a’Mhuilt Member of the Stoer Group (Torridonian Supergroup) in Scotland has been heralded as a rare window into the ecology of Mesoproterozoic terrestrial environments. Its unusually high molybdenum concentrations and large sulphur isotope fractionations have been used as evidence to suggest that lakes 1.2 billion years ago were better oxygenated and enriched in key nutrients relative to contemporaneous oceans, making them ideal habitats for the evolution of eukaryotes. Here we show with new Sr and Mo isotope data, supported by sedimentological evidence, that the depositional setting of this unit was likely connected to the ocean and that the elevated Mo and S contents can be explained by evapo-concentration of seawater. Thus, it remains unresolved if Mesoproterozoic lakes were important habitats for early eukaryotic life.Publisher PDFPeer reviewe

SynFind: Compiling Syntenic Regions across Any Set of Genomes on Demand

The identification of conserved syntenic regions enables discovery of predicted locations for orthologous and homeologous genes, evenwhennosuchgeneispresent.Thiscapabilitymeansthatsynteny-basedmethodsarefarmoreeffectivethansequencesimilaritybased methods in identifying true-negatives, a necessity forstudying gene loss and gene transposition. However, the identification of syntenicregionsrequirescomplexanalyseswhichmustberepeatedforpairwisecomparisonsbetweenanytwospecies.Therefore,as the number of published genomes increases, there is a growing demand for scalable, simple-to-use applications to perform comparative genomic analyses that cater to both gene family studies and genome-scale studies. We implemented SynFind, a web-based tool that addresses this need. Given one query genome, SynFind is capable of identifying conserved syntenic regions in any set of targetgenomes.SynFindiscapableofreportingper-geneinformation,usefulforresearchersstudyingspecificgenefamilies,aswellas genome-wide data sets of syntenic gene and predicted gene locations, critical for researchers focused on large-scale genomic analyses. Inference of syntenic homologs provides the basis for correlation of functional changes around genes of interests between related organisms. Deployed on the CoGe online platform, SynFind is connected to the genomic data from over 15,000 organisms from all domains of life as well as supporting multiple releases of the same organism. SynFind makes use of a powerful job execution framework that promises scalability and reproducibility. SynFind can be accessed at http://genomevolution.org/CoGe/SynFind.pl. A video tutorial of SynFind using Phytophthrora as an example is available at http://www.youtube.com/watch?v=2Agczny9Nyc

SynFind: Compiling Syntenic Regions across Any Set of Genomes on Demand

The identification of conserved syntenic regions enables discovery of predicted locations for orthologous and homeologous genes, evenwhennosuchgeneispresent.Thiscapabilitymeansthatsynteny-basedmethodsarefarmoreeffectivethansequencesimilaritybased methods in identifying true-negatives, a necessity forstudying gene loss and gene transposition. However, the identification of syntenicregionsrequirescomplexanalyseswhichmustberepeatedforpairwisecomparisonsbetweenanytwospecies.Therefore,as the number of published genomes increases, there is a growing demand for scalable, simple-to-use applications to perform comparative genomic analyses that cater to both gene family studies and genome-scale studies. We implemented SynFind, a web-based tool that addresses this need. Given one query genome, SynFind is capable of identifying conserved syntenic regions in any set of targetgenomes.SynFindiscapableofreportingper-geneinformation,usefulforresearchersstudyingspecificgenefamilies,aswellas genome-wide data sets of syntenic gene and predicted gene locations, critical for researchers focused on large-scale genomic analyses. Inference of syntenic homologs provides the basis for correlation of functional changes around genes of interests between related organisms. Deployed on the CoGe online platform, SynFind is connected to the genomic data from over 15,000 organisms from all domains of life as well as supporting multiple releases of the same organism. SynFind makes use of a powerful job execution framework that promises scalability and reproducibility. SynFind can be accessed at http://genomevolution.org/CoGe/SynFind.pl. A video tutorial of SynFind using Phytophthrora as an example is available at http://www.youtube.com/watch?v=2Agczny9Nyc