Digital Commons Network^™

Phage Cluster Relationships Identified Through Single Gene Analysis., Kyle C Smith, Eduardo Castro-Nallar, Joshua Nb Fisher, Donald P Breakwell, Julianne H Grose, Sandra H Burnett

Computational Biology Institute

BACKGROUND: Phylogenetic comparison of bacteriophages requires whole genome approaches such as dotplot analysis, genome pairwise maps, and gene content analysis. Currently mycobacteriophages, a highly studied phage group, are categorized into related clusters based on the comparative analysis of whole genome sequences. With the recent explosion of phage isolation, a simple method for phage cluster prediction would facilitate analysis of crude or complex samples without whole genome isolation and sequencing. The hypothesis of this study was that mycobacteriophage-cluster prediction is possible using comparison of a single, ubiquitous, semi-conserved gene. Tape Measure Protein (TMP) was selected to test the hypothesis because it …

The Embryonic Transcriptome Of The Red-Eared Slider Turtle (Trachemys Scripta), Nicholas J. Kaplinsky, Scott F. Gilbert, J. Cebra-Thomas, K. Lilleväli, M. Saare, Eric Yanbo Chang , '13, Hannah Elizabeth Edelman , '12, Melissa Afton Frick , '12, Yin Guan , '13, Rebecca Ming Hammond , '13, Nicholas Henry Hampilos , '13, David Selassie Bampo Opoku , '12, Karim Sariahmed , '13, Eric Alan Sherman , '13, Ray Hess Bair Watson , '13

Biology Faculty Works

The bony shell of the turtle is an evolutionary novelty not found in any other group of animals, however, research into its formation has suggested that it has evolved through modification of conserved developmental mechanisms. Although these mechanisms have been extensively characterized in model organisms, the tools for characterizing them in non-model organisms such as turtles have been limited by a lack of genomic resources. We have used a next generation sequencing approach to generate and assemble a transcriptome from stage 14 and 17 Trachemys scripta embryos, stages during which important events in shell development are known to take place. …

Visco-Elastic Properties Of Duct Tape, Ashley Brown, Ulrich Zurcher

Physics Faculty Publications

A simple experiment for determining the nonlinear stress–strain relation of duct tape is described. After weights are added and subsequently removed, the tape does not return to its original state and is no longer taut. The tape exhibits hysteresis, which implies the loss of work during the cyclical process. The exponent describing the nonlinearity is related to the fractional work loss.

Community Volunteers, Thank You For Your Time – And Following Rules, Linda Walters

UCF Forum

Saturday was perfect. It combined seeing old friends, meeting new and interesting people, eating good food, and being outside on the coast of Florida, all while saving the world!

Comparative Feedstock Analysis In Setaria Viridis L. As A Model For C4 Bioenergy Grasses And Panicoid Crop Species, Carloalberto Petti, Andrew Shearer, Mizuki Tateno, Mathew J. Ruwaya, Sue E. Nokes, Tom Brutnell, Seth Debolt

Horticulture Faculty Publications

Second generation feedstocks for bioethanol will likely include a sizable proportion of perennial C4 grasses, principally in the Panicoideae clade. The Panicoideae contain agronomically important annual grasses including Zea mays L. (maize), Sorghum bicolor (L.) Moench (sorghum), and Saccharum officinarum L. (sugar cane) as well as promising second generation perennial feedstocks including Miscanthus × giganteus and Panicum virgatum L. (switchgrass). The underlying complexity of these polyploid grass genomes is a major limitation for their direct manipulation and thus driving a need for rapidly cycling comparative model. Setaria viridis (green millet) is a rapid cycling C4 panicoid grass with a relatively …

Uab, School Of Dentistry Ranked First Nationally In Nidcr Funding, Traci Bratton

Browse All News

No abstract provided.

President's Award For Excellence In Teaching Goes To 11, Tyler Greer

Browse All News

No abstract provided.

Oa Policy Development At Uri, Andrée Rathemacher

Technical Services Faculty Presentations

Slides and other materials related to a presentation on the development of an open access policy at the University of Rhode Island.

The presentation was part of a discussion on recent OA policy development in New England at the ACRL New England Chapter Scholarly Communication Interest Group Summer Program, New Roles for Supporting Digital Scholarship in Academic Libraries. The program took place on June 19, 2013 at Northeastern University in Boston, MA.

Preventing A Return To Twilight And Straitjackets: Using The Patient Protection And Affordable Care Act As A Starting Point For Evidence-Based Obstetric Reform In The United States, Alexius Cruz O'Malley

Northwestern Journal of Law & Social Policy

The United States has the most medicalized approach to childbirth of any nation in the world. Women in the United States have a greater lifetime risk of dying due to pregnancy-related complications than women in forty other developed nations. Babies born in the United States have a higher risk of dying within the first months of life than babies born in the forty other countries. Poor outcomes combined with costly, procedure-intensive care have been labeled the “perinatal paradox: doing more and accomplishing less.” Inspired by her own pregnancy and childbirth experience, the Author explores this “perinatal paradox” and the state …

The Genesis Of Malaria: The Origin Of Mosquitoes And Their Protistan Cargo, Plasmodium Falciparum, Alan L. Gillen, Frank Sherwin

Faculty Publications and Presentations

Malaria is caused by the parasite belonging to the genus Plasmodium; however, creation biologists maintain this organism was not always parasitic. Plasmodium is probably a degenerate form of algae. Mosquitoes, the vector of Plasmodium, were probably designed to be pollinators, not parasite vectors. In this article, we present both the evolutionary and creation explanation for the origin of malaria with a mention to its vector, the mosquito.

The purpose of this article is to provide a reasonable explanation for the genesis of malaria. Microbiology and parasitology research based on the creation paradigm appears to provide some answers to these puzzling …

The Alestle - Vol. 65 No. 37 - 06/19/2013, Southern Illinois University Edwardsville

The Alestle

Vol. 65 No. 37

Lesions Of The Intergeniculate Leaflet Lead To A Reorganization In Circadian Regulation And A Reversal In Masking Responses To Photic Stimuli In The Nile Grass Rat, Andrew J. Gall, Laura Smale, Lily Yan, Antonio A. Nunez

Faculty Publications

Light influences the daily patterning of behavior by entraining circadian rhythms and through its acute effects on activity levels (masking). Mechanisms of entrainment are quite similar across species, but masking can be very different. Specifically, in diurnal species, light generally increases locomotor activity (positive masking), and in nocturnal ones, it generally suppresses it (negative masking). The intergeniculate leaflet (IGL), a subdivision of the lateral geniculate complex, receives direct retinal input and is reciprocally connected with the primary circadian clock, the suprachiasmatic nucleus (SCN). Here, we evaluated the influence of the IGL on masking and the circadian system in a diurnal …

The Bg News June 19, 2013, Bowling Green State University

BG News (Student Newspaper)

The BGSU campus student newspaper. June 19, 2013. Volume 92-Issue 102.

Client Experiencing In Cognitive-Behavioral Treatment For Eating Disorders, James William Vandyke

Theses and Dissertations

Depth of client experiencing has been associated with positive therapeutic outcomes across theoretical orientations. Experiencing describes a particular mode of cognitive-affective processing in which clients use internal felt experience as the basis for self-examination and the resolution of personally significant issues. Given evidence that eating disorders are associated with particular disruptions of cognitive-affective processing, it is likely that experiencing plays a role in the successful treatment of eating pathology. However, no study to date has examined the relationship between experiencing and outcome in eating disorder treatment. The purposes of the current study were to examine depth of client experiencing during …

What's New In Spine Surgery, Keith H. Bridwell, Paul A. Anderson, Scott D. Boden, Alexander R. Vaccaro, Jeffrey C. Wang

Open Access Publications

No abstract provided.

Ocean Sustainability, Logan Levan, Joshua Millea, Woo Choi, Mark Powell, David Flint

Student Papers in Public Policy

Oceans cover over 70% of the Earth’s surface area. They provide more than 90% of the world’s oxygen production, account for 200 billion pounds of food each year, regulate the global climate, and are the primary mode of global shipping traffic (“www.marinebio.org”). With such social, economic, and environmental value, there is a clear need to enact sustainable policies and practices concerning marine zones.

Maximizing The Delivery Performance Of Point-Of-Care Cd4+ T-Cell Counting Tests In Resource-Limited Settings - A Policy Brief, Nan Kong, J. Paul Robinson, Fenggang Yang

Purdue Policy Research Institute (PPRI) Policy Briefs

Managing HIV/AIDS presents challenges to public health policymakers, frontline workers, and researchers worldwide. A key strategy in the disease management is early diagnosis and rapid treatment initiation. While the technological field of point‐of‐care HIV/AIDS diagnostics has advanced significantly in the past two decades, several critical issues remain that hinder the deployment of point‐of‐care testing devices in resource‐deprived settings. In this policy brief, we discuss these issues, including technological specifics of point‐of‐care CD4⁺ T‐cell counting approaches and requirements of deploying them. We also discuss cultural and religious concerns on the deployment. At the end of the brief, we propose a …

A Series Of Meta-Analytic Tests Of The Depletion Effect, Evan C. Carter

Open Access Dissertations

Few models of self-control have generated as much scientific interest as the limited strength model. The basic pattern of results predicted by this model is that acts of self-control that follow previous acts of self-control will be less likely to succeed (i.e., the so-called depletion effect). Based on results from a recent meta-analysis, researchers have concluded that the depletion effect is robust across experimental contexts and consistently medium in magnitude. Here, I detail three reasons to think that these estimates are inflated. To correct these estimates, I updated the earlier meta-analytic dataset and applied a set of statistical analyses to …

Biology Faculty Member Will Track Ranaviruses At Georgetown Refuge, Winthrop University

Winthrop News 2013

• Biology faculty member Matthew Heard has official credentials to visit Hobcaw Barony, a 17,500-acre refuge near Georgetown, S.C., as a Harry M. Lightsey Jr. Visiting Scholar.
• Graduate student Jamie Salters and undergraduates Kara Hardwick and Elizabeth Ray will assist with Heard's research by collecting tissue samples and oral-cloacal swabs of the six potential host species found in the reserve in order to determine if they are at risk from ranaviruses.

Polypeptides, Systems, And Methods Useful For Detecting Glucose, Sylvia Daunert, Kendrick Turner, Smita Joel, Laura Rowe

Chemistry Faculty Patents

The presently-disclosed subject matter provides biosensors for detecting molecules of interest. The biosensors include a polypeptide capable of selectively-binding glucose, wherein the polypeptide molecule is selected from: an unnatural analogue of wild type glucose binding protein; a fragment of wild type glucose binding protein; and an unnatural analogue fragment of wild type glucose binding protein.

2013 June 18 - Medical Student Education Committee Minutes, Medical Student Education Committee, East Tennessee State University

Medical Student Education Committee Minutes

No abstract provided.

Yan Yan V. Penn State University

2013 Decisions

USDC for the Middle District of Pennsylvania

Top 10: A Tiny Violet, Stumbled Upon In The Andes, Ohio University College Of Arts & Sciences

All Forum Articles

No abstract provided.

Responses Of Soil Respiration And Its Temperature/Moisture Sensitivity To Precipitation In Three Subtropical Forests In Southern China, H. Jiang, Qi Deng, Guoyi Zhou, Dafeng Hui, Deqiang Zhang, S. Liu, Guowei Chu, J. Li

Biology Faculty Research

Both long-term observation data and model simulations suggest an increasing chance of serious drought in the dry season and extreme flood in the wet season in southern China, yet little is known about how changes in precipitation pattern will affect soil respiration in the region. We conducted a field experiment to study the responses of soil respiration to precipitation manipulations – precipitation exclusion to mimic drought, double precipitation to simulate flood, and ambient precipitation as control (abbr. EP, DP and AP, respectively) – in three subtropical forests in southern China. The three forest sites include Masson pine forest (PF), coniferous …

Biomarkers For Ovarian Cancer, Eric T. Fung, Frederick Ueland, J. R. Van Nagell, Paul D. Depriest, Andre T. Baron

Epidemiology and Environmental Health Faculty Patents

The present invention provides protein-based biomarkers and biomarker combinations that are useful in qualifying ovarian cancer status in a patient. In particular, the biomarkers of this invention are useful to classify a subject sample as ovarian cancer, ovarian cancer of low malignant potential, benign ovarian disease or other malignant condition. The biomarkers can be detected by SELDI mass spectrometry.

Modeling Of An Ion Exchange Reaction Involving Decamethylcucurbit[5]Uril In The Gas Phase, Jacob Hedelius, Dr. David Dearden

Journal of Undergraduate Research

Mathematical modeling is both common and increasingly expected in scientific research, to both predict and to explain results. Models are used in many disciplines, from describing cellular process in biology, weather patterns in planetary science, to galaxies in physics. As part of my studies with the Office of Research and Creative Activities (ORCA), I created a simple model for reactions of the molecule decamethylcucurbit[5]uril (mc5) in the gas phase.

Assessment Of The Implementation Of Learner-Centred Teaching Approaches In Secondary Schools In Kibondo, Tanzania, Leatitia Gabriel

Journal of Humanities and Social Sciences

This study assesses the extent to which the learner-centred approach (LCA) is effectively articulated in secondary schools in Kibondo District of Kigoma Region, Tanzania. Data were collected through document analysis, observation, interviews, focus group discussion and questionnaires from 166 respondents. Research findings show that teachers encountered a number of transitional problems in implementing the LCA, including overcrowded classes, lack of students’ readiness and interest, language problem among learners, lack of in-service training on LCA, poor students’ participation in class, inadequate instructional resources such as textbooks and reference materials and shortage of teachers, the situation which lead to an enormous teaching …

Eight Morris Faculty Members Receive Grant-In-Aid Awards, University Relations

Campus News Archive

Eight faculty members received awards in the spring grant round of the University of Minnesota Grant-in-Aid of Research, Artistry and Scholarship Program.

Post Protein Hydrolysis Removal Of A Potent Ribonuclease Inhibitor And The Enzymatic Capture Of Dna, Matt Ewert

USF Patents

The present invention concerns compositions and methods of extracting infectious pathogens from a volume of blood. In one embodiment, the method includes the steps of creating a fibrin aggregate confining the pathogens and introducing a fibrin lysis reagent to expose the pathogens for analysis. The present invention also concerns materials and methods for removing aurintricarboxylic acid (ATA) from a sample.

Proteasome Inhibitors Having Chymotrypsin-Like Activity, Harshani Lawrence, Yiyu Ge, Said M. Sebti, Wayne Guida

USF Patents

Disclosed herein is the use of HLM-008182, as well as its analogues formed via in-house synthesis, as a potent proteasome inhibitors. A new method was developed for HLM-008182 through a four-step protocol and the method was further optimized to a two step protocol. The synthesis in both protocols was regioselective with TiCl4. The reaction was highly efficient with microwave assisted heating and THF as solvent. The modification around the molecule HLM-008182 established primary SAR, indicating that the proteasome inhibition activity was a function of the 2-side chain.