Life Sciences Commons^™

Eutrophication In Farmington Bay And Its Potential Impacts On Wildlife, Wayne A. Wurtsbaugh

Watershed Sciences Faculty Publications

No abstract provided.

The Small Rna Repertoire Of Dictyostelium Discoideum And Its Regulation By Components Of The Rnai Pathway, Andrea Hinas, Johan Reimegård, E. Gerhart H. Wagner, Wolfgang Nellen, Victor R. Ambros, Fredrik Soderbum

Dartmouth Scholarship

Small RNAs play crucial roles in regulation of gene expression in many eukaryotes. Here, we report the cloning and characterization of 18–26 nt RNAs in the social amoeba Dictyostelium discoideum . This survey uncovered developmentally regulated microRNA candidates whose biogenesis, at least in one case, is dependent on a Dicer homolog, DrnB. Furthermore, we identified a large number of 21 nt RNAs originating from the DIRS-1 retrotransposon, clusters of which have been suggested to constitute centromeres. Small RNAs from another retrotransposon, Skipper, were significantly up-regulated in strains depleted of the second Dicer-like protein, DrnA, and a putative RNA-dependent RNA polymerase, …

A Hidden Spatial-Temporal Markov Random Field Model For Network-Based Analysis Of Time Course Gene Expression Data, Zhi Wei, Hongzhe Li

UPenn Biostatistics Working Papers

Microarray time course (MTC) gene expression data are commonly collected to study the dynamic nature of biological processes. One important problem is to identify genes that show different expression profiles over time and pathways that are perturbed during a given biological process. While methods are available to identify the genes with differential expression levels over time, there is a lack of methods that can incorporate the pathway information in identifying the pathways being modified/activated during a biological process. In this paper, we develop a hidden spatial-temporal Markov random field (hstMRF)-based method for identifying genes and subnetworks that are related to …

Sammd: Staphylococcus Aureus Microarray Meta-Database, Vijayaraj Nagarajan, Mohamed O. Elasri

Faculty Publications

Background

Staphylococcus aureus is an important human pathogen, causing a wide variety of diseases ranging from superficial skin infections to severe life threatening infections. S. aureus is one of the leading causes of nosocomial infections. Its ability to resist multiple antibiotics poses a growing public health problem. In order to understand the mechanism of pathogenesis of S. aureus, several global expression profiles have been developed. These transcriptional profiles included regulatory mutants of S. aureus and growth of wild type under different growth conditions. The abundance of these profiles has generated a large amount of data without a uniform annotation …

Effect Of Processing On The Composition And Microstructure Of Buttermilk And Its Milk Fat Globule Membranes, Pierre Morin, Rafael Jiménez-Flores, Yves Pouliot

Dairy Science

The effect of cream pasteurization on the composition and microstructure of buttermilk after pasteurization, evaporation and spray-drying was studied. The composition of milk fat globule membrane (MFGM) isolated from buttermilk samples was also characterized. Pasteurization of cream resulted in higher lipid recovery in the buttermilk. Spray-drying of buttermilk had a significant effect on phospholipid content and composition. After spray-drying, the phospholipid content decreased by 38.2% and 40.6%, respectively in buttermilk from raw or pasteurized cream when compared with initial buttermilks. Pasteurization of cream resulted in the highest increase in whey protein recovery in MFGM isolates compared with all other processing …

Seven Hills Winery Fall 2007 Newsletter, Casey Mcclellan

Seven Hills Winery Documents

This newsletter published by Seven Hills Winery provides winemaker Casey McClellan's report of the twentieth vintage and praises the resurgence of Riesling as one of the region's great grape varietals. Featuring photographs by Colby Kuschatka, the newsletter also contains information about new and current wine releases (2004-2005) and the Eleventh Annual Holiday Barrel Tasting event in December.

The Fire-Climate Connection, Gail Wells

Joint Fire Science Program Digests

JFSP-funded research is exploring and quantifying relationships among the large-scale drivers of climate and the occurrence and extent of wildfire in the various regions of the western United States.

A complex of stressors, Quick turnaround, Urgent questions, Weather, Climate, The research, The uncertain future, Help for land managers, A clearer picture

Impact Of Carbon Sources On Growth And Oxalate Synthesis By The Phytopathogenic Fungus Sclerotinia Sclerotiorum, Bryan Culbertson, Jaymie Krone, Erastus Gatebe, Norbert Furumo, Steven Daniel

Faculty Research & Creative Activity

The impact of various supplemental carbon sources (oxalate, glyoxylate, glycolate, pyruvate, formate, malate, acetate, and succinate) on growth and oxalate formation (i.e., oxalogenesis) by Sclerotinia sclerotiorum was studied. With isolates D-E7, 105, W-B10, and Arg-L of S. sclerotiorum, growth in an undefined broth medium (0.1% soytone; pH 5) with 25 mM glucose and 25 mM supplemental carbon source was increased by the addition of malate and succinate. Oxalate accumulation occurred in the presence of glucose and a supplemental carbon source, with malate, acetate, and succinate supporting the most oxalate synthesis. With S. sclerotiorum Arg-L, oxalate-to-biomass ratios, an indicator of oxalogenic …

Refuge Update Article Index, Ellen Fritts

United States Fish and Wildlife Service: Publications

This document was developed to promote protection of Alaska’ wildlife from nonnative rodents, especially rats. If constitutes a statewide invasive rodent management plan, which is part of a multi-agency effort to minimize the impact of invasive species in Alaska. A literature search and interviews were conducted, and reviews were obtained from experts in Alaska and elsewhere. The plan summarizes resisting information relevant to Alaska and recommends a collaborative structure for undertaking strategic actions, the Alaska Rodent Action Team. It also identifies dozens of strategic actions that are needed to prevent and eradicate invasive rodents. These fall into six categories: legal …

Analyzing Site Loyalty In Nyctimene Robinsoni At The End Of The Dry Season, Kolleen Nellett

Independent Study Project (ISP) Collection

The loyalty of Nyctimene robinsoni to its daytime roosting sites at the end of the dry season was assessed using radio tracking in Cape Tribulation, far north Queensland, Australia. N. robinsoni is a solitary roosting bat which specializes in figs. Bats were netted in front of a female fruiting Ficus congesta and glue-on transmitters were attached. Bats were then tracked to their daytime roosting sites and GPS coordinates were recorded. Night time positions were also monitored to gather information about how far from its roosting site each bat was foraging. A total of five bats were tagged although only two …

Impact Of Carbon Sources On Growth And Oxalate Synthesis By The Phytopathogenic Fungus Sclerotinia Sclerotiorum, Bryan J. Culbertson, Jaymie Krone, Erastus Gatebe, Norbert C. Furumo, Steven L. Daniel

Faculty Research & Creative Activity

The impact of various supplemental carbon sources (oxalate, glyoxylate, glycolate, pyruvate, formate, malate, acetate, and succinate) on growth and oxalate formation (i.e., oxalogenesis) by Sclerotinia sclerotiorum was studied. With isolates D-E7, 105, W-B10, and Arg-L of S. sclerotiorum, growth in an undefined broth medium (0.1% soytone; pH 5) with 25 mM glucose and 25 mM supplemental carbon source was increased by the addition of malate and succinate. Oxalate accumulation occurred in the presence of glucose and a supplemental carbon source, with malate, acetate, and succinate supporting the most oxalate synthesis. With S. sclerotiorum Arg-L, oxalate-to-biomass ratios, an indicator of oxalogenic …

Impact Of Carbon Sources On Growth And Oxalate Synthesis By The Phytopathogenic Fungus Sclerotinia Sclerotiorum, Steven L. Daniel, Bryan J. Culbertson, Jaymie Krone, Norbert Furumo

Faculty Research & Creative Activity

The impact of various supplemental carbon sources (oxalate, glyoxylate, glycolate, pyruvate, formate, malate, acetate, and succinate) on growth and oxalate formation (i.e., oxalogenesis) by Sclerotinia sclerotiorum was studied. With isolates D-E7, 105, W-B10, and Arg-L of S. sclerotiorum, growth in an undefined broth medium (0.1% soytone; pH 5) with 25 mM glucose and 25 mM supplemental carbon source was increased by the addition of malate and succinate. Oxalate accumulation occurred in the presence of glucose and a supplemental carbon source, with malate, acetate, and succinate supporting the most oxalate synthesis. With S. sclerotiorum Arg-L, oxalate-to-biomass ratios, an indicator of oxalogenic …

The Development Of New Concepts For Assessing Reproductive Toxicity Applicable To Large Scale Toxicological Programmes, S. Bremer, C. Pellizzer, S. Hoffmann, T. Seidle, T. Hartung

Experimentation Collection

Large scale toxicological testing programmes which are currently ongoing such as the new European chemical legislation REACH require the development of new integrated testing strategies rather than applying traditional testing schemes to thousands of chemicals. The current practice of requiring in vivo testing for every possible adverse effect endanger the success of these programmes due (i) to limited testing facilities and sufficient capacity of scientific/technical knowledge for reproductive toxicity; (ii) an unacceptable number of laboratory animals involved (iii) an intolerable number of chemicals classified as false positive.

A key aspect of the implementation of new testing strategies is the determination …

Fuzzy Data Sets, William D. Stansfield

Biological Sciences

No abstract provided.

Fisheries Research Report 165: Biological And Fisheries Data For Managing Deep Sea Crabs In Western Australia - Project 2001/055, Roy Melville-Smith, S M. Norton, Adrian W. Thomson

Fisheries Research Reports

The crystal crab fishery on the west coast of Western Australia has only been commercially fished since the late 1990s. When this project was initiated in 2001, only compulsory monthly catch and effort data were being collected. This project has successfully set up the methods and means to collect and analyse more appropriate commercial catch and effort data for the fishery. Fishers now record detailed daily catch and effort data for legal as well as undersize and berried crabs and the Department of Fisheries, WA, has a regular monitoring programme to record population size structure information.

This project has also …

Fisheries Research Report No. 166 - Stock Enhancement Of Haliotis Laevigata In Western Australia - A Preliminary Assessment, Anthony M. Hart, Frank Fabris, Sabine Daume

Fisheries Research Reports

A preliminary assessment of stock enhancement of Haliotis laevigata (Greenlip abalone) in Western Australia was undertaken with the release of 6,000 abalone near Augusta in 2004. The objective of the project was to obtain quantitative data on the likelihood of enhancement, as an additional management tool to TACs and size-limits, being successful in natural habitats in Western Australia. Baseline surveys coupled with an assessment of growth and survival of released 1+ and 2 + animals were undertaken at 12 sites within Flinders Bay, Augusta. Overall survival was 19% for 1+ age abalone and 27% for 2+ animals after 9 months. …

A Multi-Objective Genetic Algorithm That Employs A Hybrid Approach For Isolating Codon Usage Bias Indicative Of Translational Efficiency, Douglas W. Raiford, Dan E. Krane, Travis E. Doom, Michael L. Raymer

Kno.e.sis Publications

Isolation of translational efficiency bias can have important applications in gene expression prediction and heterologous protein production. In some genomes the presence of a high GC(AT)-content bias can confound the isolation of translational efficiency bias. In other organisms translational efficiency bias is weak making it difficult to isolate. Described here is a multi-objective genetic algorithm that improves the isolation of translational efficiency bias in Streptomyces coelicolor A3(2) and Pseudomonas aeruginosa PAO1, two organisms shown to have high GC-content and weak translational efficiency bias.

Swashup: Situational Web Applications Mashups, E. Michael Maximilien, Ajith Harshana Ranabahu, Stefan Tai

Kno.e.sis Publications

Distributed programming has shifted from private networks to the Internet using heterogeneous Web APIs. This enables the creation of situational applications of composed services exposing user interfaces, i.e., mashups. However, this programmable Web lacks unified models that can facilitate mashup creation, reuse, and deployments. This poster demonstrates a platform to facilitate Web 2.0 mashups.

Santa Clara Magazine, Volume 49 Number 2, Fall 2007, Santa Clara University

Santa Clara Magazine

14 - A DAY IN THE LIFE OF THE PRESIDENT By Ron Hansen. Set your alarm clock early-then get up and follow Paul Locatelli, S.J., through a day of leading the University and serving as pastor, professor, mayor, and CEO.

22 - BUILT BY IMMIGRANTS By Gerald McKevitt, S.J. How Italian Jesuits helped shape the American West, from religious devotions to curriculum to pasta.

28 - YOU ARE HERE By Sarah Stanek. SCU students and faculty collaborate on a groundbreaking project documenting early life at Mission Santa Clara-and the result is a book that's the first of its kind for …

Documenting Lineages From My ‘Littlest Ancestor’ To My Deep Ancestral Roots, Emily F. Schmitt Lavin

Biology Faculty Proceedings, Presentations, Speeches, Lectures

No abstract provided.

Patterns Of Life: Integrating Mathematics With Science, Culture, And Art, Dian Calkins, James B. Cunningham, Foad Satterfield, Mietek Kolipinski, Sibdas Ghosh

Collected Faculty Scholarship

We offered undergraduate students an interdisciplinary course Patterns of Life that develops mathematical reasoning strategies to solve complex problems. In its most essential form, mathematics is the study of patterns; and mathematical (patterned) reasoning is the ability to think with a plan and a purpose. Students personally experience and use patterns of reasoning in diverse disciplines, and then work in groups to form a valid strategy for solving a selected problem. Patterns of Life is designed as guided, on-site, active-learning experiences, in cooperation with local scientific, cultural and fine arts communities. Course goals for students include: (1) to increase mathematical …

American Society Of Parasitologists Newsletter, V. 29, No. 3, Fall 2007, Scott Lyell Gardner

American Society of Parasitologists: Newsletter

An issue of the American Society of Parasitologists' quarterly newsletter, also called the Journal of Parasitology Newsletter.

National Wildlife Refuge System: Friends Forward

United States Fish and Wildlife Service: Publications

Contents:

First Friends Academy Hailed as a Success

Pass the News Around

From the Chief: Out from Behind the Desk

In the Hopper

Six Congressmen to be Honored

Thinking of Starting a Bookstore at Your Refuge?

14,000 Hours and Still Working: Ron Tillier

Focus on Kids and Cranes

On the Fire Lines at Okefenokee Refuge

Fighting Invasives With Education and Cat Traps

An Employment Dream

Grant Deadlines are Fast approaching

Frequently Asked Questions

Calendar of Friends and National Events

Study Confirms Popularity of Outdoor activities

Center For Grassland Studies Newsletter, Fall 2007, Volume 13, No. 4

Center for Grassland Studies: Newsletters

Contents:

Turfgrass and Landscape Management Degree Program at UNL by Robert (Bob) C. Shearman, Department of Agronomy and Horticulture, UNL

New Farm Bill Should Continue Support for Grassland Management by Duane Hovorka, National Wildlife Federation

Another Great Nebraska Grazing Conference in 2007!

New Ph.D. Specialization in Applied Ecology at UNL by Tala Awada, James Brandle and Larkin Powell, School of Natural Resources, UNL

Nebraska Mentoring Program for Graziers by Roger Chesley, Nebraska Grazing Lands Coalition

2003 National Resources Inventory Information Online

2007 CGS Fall Seminar Series

A Proposed Statistical Protocol For The Analysis Of Metabolic Toxicological Data Derived From Nmr Spectroscopy, Benjamin J. Kelly, Paul E. Anderson, Nicholas V. Reo, Nicholas J. Delraso, Travis E. Doom, Michael L. Raymer

Kno.e.sis Publications

Nuclear magnetic resonance (NMR) spectroscopy is a non-invasive method of acquiring a metabolic profile from biofluids. This metabolic information may provide keys to the early detection of exposure to a toxin. A typical NMR toxicology data set has low sample size and high dimensionality. Thus, traditional pattern recognition techniques are not always feasible. In this paper, we evaluate several common alternatives for isolating these biomarkers. The fold test, unpaired t-test, and paired t-test were performed on an NMR-derived toxicological data set and results were compared. The paired t-test method was preferred, due to its ability to attribute statistical significance, to …

Lpe Center News, October 2007

Livestock and Poultry Environmental Learning Center: Newsletters

In this issue:

• November Webcast to Examine Vegetative Treatment Systems for Managing Open Lot or Barnyard Runoff

• New Webcast Technology to Debut in October

• Mid-Atlantic Water Quality Program Website Offers Nutrient Budgets

• Pennsylvania Project Examines Manure Management in No-Till Systems

Iowa Academy Of Science: The New Bulletin, V03n3, Autumn 2007, Iowa Academy Of Science

New Bulletin

Inside This Issue:

--Message from the Executive Director

--Iowa Science Teachers Section Fall Conference

--Myrle Burk Scholarship Winners

--Project WET Update

--Academy Awards

--Opportunities for Learning

--ISTS Fall Conference Workshops

--Increasing Academy Membership and Recognition Across the State

--Financial Statement

Ard News October 2007

Agricultural Research Division: News and Annual Reports

Contents:

Comments from the Associate Dean
Glimpses at ARD Research
New or Revised Projects July and August 2007
Proposals Submitted for Federal Grants July and August 2007
Grants and Contracts Received for July and August 2007

Food Science & Technology Alumni News, Fall 2007

Department of Food Science and Technology: Public Access Records

CONTENTS:
A message from the Department Head . . .
Graduates of the B.S. Program
Graduates of the M.S. Program
New M.S. Graduate Students
New Ph.D. Graduate Students
Graduate Follow-up
Food Science Club
Sophomore Food Science Major Wins Candy Scholarship
New Faces
Departures
Visiting Faculty
Let us Know how you’re doing!
Hyperspectral Imaging to Predict Beef Tenderness
Food Technology for Companion Animals: Research Grants
2007: The 90th Anniversary of the Dairy Store
Products Available at the Dairy Store
IICA Visits UNL
Fortenberry Holds Educational Conference on Local Foods
Laboratory Services
Meet the Faculty
Conferences and Workshops

Gene Synthesis, Cloning, Expression, Purification And Biophysical Characterization Of The C2 Domain Of Human Tensin, Kiran Sukumar Gajula

Doctoral Dissertations

Tensin is a large "docking" protein found in the adhesive junctions of animal cells and recruited early in the development of cell-substrate contacts. There it binds to the cytoplasmic domain of integrin β1 and caps the barbed ends of filamentous actin. This forms a rational basis for its implication in a direct role in the mechanics of membrane-cytoskeleton interactions. Tensin provides a physical link between the actin cytoskeleton, integrins, and other proteins at the cell-substrate contacts. Its overall biochemical properties are a function of its domain composition and architecture, i.e., the domains that are present and their relative positions in …