Laboratory Rearing of Phalangium Opilio (Arachnida: Opiliones)

While a good deal of work has been reported on the natural history and ecology of the opiliones in Europe and England (Bristowe, 1949; Sankey, 1949; Todd, 1949; Phillipson, 1959; Savory, 1964; Juberthie, 1965), this important group has received little attention in North America. Bishop (1949) published a concise synopsis of reactions and general habits of the opiliones of New York and, in a Ph. D. dissertation, Edgar (1960) described the biology of the order in Michigan. Current studies at Michigan State University on the effects of insecticides on non-target organisms have revealed an acute lack of biological information on the group, and before the effects of insecticides could be determined, life histories of the opiliones had to be clarified. Consequently, in 1966 a study of the ecology and rearing requirements of selected Michigan species was initiated. The present paper describes a new incubation technique for opilione eggs that shows promise of facilitating laboratory rearing of this group

Polytopality and Cartesian products of graphs

We study the question of polytopality of graphs: when is a given graph the graph of a polytope? We first review the known necessary conditions for a graph to be polytopal, and we provide several families of graphs which satisfy all these conditions, but which nonetheless are not graphs of polytopes. Our main contribution concerns the polytopality of Cartesian products of non-polytopal graphs. On the one hand, we show that products of simple polytopes are the only simple polytopes whose graph is a product. On the other hand, we provide a general method to construct (non-simple) polytopal products whose factors are not polytopal.Comment: 21 pages, 10 figure

Front Propagation with Rejuvenation in Flipping Processes

We study a directed flipping process that underlies the performance of the random edge simplex algorithm. In this stochastic process, which takes place on a one-dimensional lattice whose sites may be either occupied or vacant, occupied sites become vacant at a constant rate and simultaneously cause all sites to the right to change their state. This random process exhibits rich phenomenology. First, there is a front, defined by the position of the left-most occupied site, that propagates at a nontrivial velocity. Second, the front involves a depletion zone with an excess of vacant sites. The total excess D_k increases logarithmically, D_k ~ ln k, with the distance k from the front. Third, the front exhibits rejuvenation -- young fronts are vigorous but old fronts are sluggish. We investigate these phenomena using a quasi-static approximation, direct solutions of small systems, and numerical simulations.Comment: 10 pages, 9 figures, 4 table

3' tag digital gene expression profiling of human brain and universal reference RNA using Illumina Genome Analyzer

<p>Abstract</p> <p>Background</p> <p>Massive parallel sequencing has the potential to replace microarrays as the method for transcriptome profiling. Currently there are two protocols: full-length RNA sequencing (RNA-SEQ) and 3'-tag digital gene expression (DGE). In this preliminary effort, we evaluated the 3' DGE approach using two reference RNA samples from the MicroArray Quality Control Consortium (MAQC).</p> <p>Results</p> <p>Using Brain RNA sample from multiple runs, we demonstrated that the transcript profiles from 3' DGE were highly reproducible between technical and biological replicates from libraries constructed by the same lab and even by different labs, and between two generations of Illumina's Genome Analyzers. Approximately 65% of all sequence reads mapped to mitochondrial genes, ribosomal RNAs, and canonical transcripts. The expression profiles of brain RNA and universal human reference RNA were compared which demonstrated that DGE was also highly quantitative with excellent correlation of differential expression with quantitative real-time PCR. Furthermore, one lane of 3' DGE sequencing, using the current sequencing chemistry and image processing software, had wider dynamic range for transcriptome profiling and was able to detect lower expressed genes which are normally below the detection threshold of microarrays.</p> <p>Conclusion</p> <p>3' tag DGE profiling with massive parallel sequencing achieved high sensitivity and reproducibility for transcriptome profiling. Although it lacks the ability of detecting alternative splicing events compared to RNA-SEQ, it is much more affordable and clearly out-performed microarrays (Affymetrix) in detecting lower abundant transcripts.</p

Effect of Non-Magnetic Impurities (Zn,Li) in a Hole Doped Spin-Fermion Model for Cuprates

The effect of adding non-magnetic impurities (NMI), such as Zn or Li, to high-Tc cuprates is studied applying Monte Carlo techniques to a spin-fermion model. It is observed that adding Li is qualitatively similar to doping with equal percentages of Sr and Zn. The mobile holes (MH) are trapped by the NMI and the system remains insulating and commensurate with antiferromagnetic (AF) correlations. This behavior persists in the region %NMI > %MH. On the other hand, when %NMI < %MH magnetic and charge incommensurabilities are observed. The vertical or horizontal hole-rich stripes, present when % NMI=0 upon hole doping, are pinned by the NMI and tend to become diagonal, surrounding finite AF domains. The %MH-%NMI plane is investigated. Good agreement with experimental results is found in the small portion of this diagram where experimental data are available. Predictions about the expected behavior in the remaining regions are made.Comment: Four pages with four figures embedded in tex

Magnetic Domains and Stripes in the Spin-Fermion Model for Cuprates

Monte Carlo simulations applied to the Spin-Fermion model for cuprates show the existence of antiferromagnetic spin domains and charge stripes upon doping. The stripes are partially filled, with a filling of approximately 1/2 hole per site, and they separate spin domains with a $\pi$ phase shift among them. The stripes observed run either along the x or y axes and they are separated by a large energy barrier. No special boundary conditions or external fields are needed to stabilize these structures at low temperatures. When magnetic incommensurate peaks are observed at momentum $\pi(1,1-\delta)$ and symmetrical points, charge incommensurate peaks appear at $(0,2 \delta)$ and symmetrical points, as experimentally observed. The strong charge fluctuations responsible for the formation of the stripes also induce a pseudogap in the density of states.Comment: Four pages with four figures embedded in tex

Persistent anthrax as a major driver of wildlife mortality in a tropical rainforest

Anthrax is a globally important animal disease and zoonosis. Despite this, our current knowledge of anthrax ecology is largely limited to arid ecosystems, where outbreaks are most commonly reported. Here we show that the dynamics of an anthrax-causing agent, Bacillus cereus biovar anthracis, in a tropical rainforest have severe consequences for local wildlife communities. Using data and samples collected over three decades, we show that rainforest anthrax is a persistent and widespread cause of death for a broad range of mammalian hosts. We predict that this pathogen will accelerate the decline and possibly result in the extirpation of local chimpanzee (Pan troglodytes verus) populations. We present the epidemiology of a cryptic pathogen and show that its presence has important implications for conservation

Impact of Anxiety During Hospitalization on the Clinical Outcome of Patients With Osteoporotic Thoracolumbar Vertebral Fracture

STUDY DESIGN: Multicenter prospective cohort study. OBJECTIVES: Anxiety in combination with osteoporotic vertebral compression fractures (OVCFs) of the spine remains understudied. The purpose of this study was to analyze whether anxiety has an impact on the short-term functional outcome of patients with an OVCF. Furthermore, a direct impact of the fracture on the patient's anxiety during hospitalization should be recognized. METHODS: All inpatients with an OVCF of the thoracolumbar spine from 2017 to 2020 were included. Trauma mechanism, analgetic medication, anti-osteoporotic therapy, timed-up-and-go test (TuG), mobility, Barthel index, Oswestry-Disability Index (ODI) and EQ5D-5L were documented.For statistical analysis, the U test, chi-square independence test, Spearman correlation, General Linear Model for repeated measures, Bonferroni analysis and Wilcoxon test were used. The item anxiety/depression of the EQ5D-5L was analyzed to describe the patients' anxiousness. RESULTS: Data from 518 patients from 17 different hospitals were evaluated. Fracture severity showed a significant correlation (r = .087, P = .0496) with anxiety. During the hospital stay, pain medication (P < .001), anti-osteoporotic medication (P < .001), and initiation of surgical therapy (P < .001) were associated with less anxiety. The anxiety of a patient at discharge was negatively related to the functional outcomes at the individual follow-up: TuG (P < .001), Barthel index (P < .001), ODI (P < .001) and EQ5D-5L (P < .001). CONCLUSIONS: Higher anxiety is associated with lower functional outcome after OVCF. The item anxiety/depression of the EQ5D-5L provides an easily accessible, quick and simple tool that can be used to screen for poor outcomes and may also offer the opportunity for a specific anxiety intervention

Design considerations for workflow management systems use in production genomics research and the clinic

Abstract The changing landscape of genomics research and clinical practice has created a need for computational pipelines capable of efficiently orchestrating complex analysis stages while handling large volumes of data across heterogeneous computational environments. Workflow Management Systems (WfMSs) are the software components employed to fill this gap. This work provides an approach and systematic evaluation of key features of popular bioinformatics WfMSs in use today: Nextflow, CWL, and WDL and some of their executors, along with Swift/T, a workflow manager commonly used in high-scale physics applications. We employed two use cases: a variant-calling genomic pipeline and a scalability-testing framework, where both were run locally, on an HPC cluster, and in the cloud. This allowed for evaluation of those four WfMSs in terms of language expressiveness, modularity, scalability, robustness, reproducibility, interoperability, ease of development, along with adoption and usage in research labs and healthcare settings. This article is trying to answer, which WfMS should be chosen for a given bioinformatics application regardless of analysis type?. The choice of a given WfMS is a function of both its intrinsic language and engine features. Within bioinformatics, where analysts are a mix of dry and wet lab scientists, the choice is also governed by collaborations and adoption within large consortia and technical support provided by the WfMS team/community. As the community and its needs continue to evolve along with computational infrastructure, WfMSs will also evolve, especially those with permissive licenses that allow commercial use. In much the same way as the dataflow paradigm and containerization are now well understood to be very useful in bioinformatics applications, we will continue to see innovations of tools and utilities for other purposes, like big data technologies, interoperability, and provenance