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Full-Text Articles in Life Sciences

Minerva 2004, The Honors College Dec 2004

Minerva 2004, The Honors College

Minerva

This issue of Minerva includes an article on HON 350: An Introduction to Functional Genomics; an article on the creation and inaugural year of HON 180: A Cultural Odyssey; a profile on Honors alumnus, Charles Stanhope and his 2004 Distinguished Honors Graduate Lecture; and interviews with Allison Kelly, Jessica Hudec, and Jennifer Merchant on their experiences as Honors student-athletes.


Intranasal Vaccination With Streptococcal Fibronectin Binding Protein Sfb1 Fails To Prevent Growth And Dissemination Of Streptococcus Pyogenes In A Murine Skin Infection Model, Jason D. Mcarthur, E. Medina, J. Chin, B. J. Currie, K. S. Sriprakash, S. R. Talay, G. S. Chhatwal, Mark J. Walker Dec 2004

Intranasal Vaccination With Streptococcal Fibronectin Binding Protein Sfb1 Fails To Prevent Growth And Dissemination Of Streptococcus Pyogenes In A Murine Skin Infection Model, Jason D. Mcarthur, E. Medina, J. Chin, B. J. Currie, K. S. Sriprakash, S. R. Talay, G. S. Chhatwal, Mark J. Walker

Faculty of Science - Papers (Archive)

Fibronectin binding protein F1 (Sfb1) of Streptococcus pyogenes (group A streptococcus [GAS]) is a well-characterized adhesin that has been shown to induce protection in mice against a lethal intranasal GAS challenge after intranasal immunization with cholera toxin B subunit (CTB) as adjuvant. With a murine skin infection model, we have shown that Sfb1/CTB vaccination neither elicits opsonizing antibodies nor prevents systemic bacterial growth and dissemination to internal organs after a subcutaneous GAS challenge. These results indicate that an Sfb1-based vaccine should be complemented with additional protective antigens in order to be used in areas such as the tropical north ...


Multiple Testing Procedures: R Multtest Package And Applications To Genomics, Katherine S. Pollard, Sandrine Dudoit, Mark J. Van Der Laan Dec 2004

Multiple Testing Procedures: R Multtest Package And Applications To Genomics, Katherine S. Pollard, Sandrine Dudoit, Mark J. Van Der Laan

U.C. Berkeley Division of Biostatistics Working Paper Series

The Bioconductor R package multtest implements widely applicable resampling-based single-step and stepwise multiple testing procedures (MTP) for controlling a broad class of Type I error rates, in testing problems involving general data generating distributions (with arbitrary dependence structures among variables), null hypotheses, and test statistics. The current version of multtest provides MTPs for tests concerning means, differences in means, and regression parameters in linear and Cox proportional hazards models. Procedures are provided to control Type I error rates defined as tail probabilities for arbitrary functions of the numbers of false positives and rejected hypotheses. These error rates include tail probabilities ...


With High Fertilizer Prices Is It Business As Usual Or Should Fertilization Practices Change?, John E. Sawyer Dec 2004

With High Fertilizer Prices Is It Business As Usual Or Should Fertilization Practices Change?, John E. Sawyer

Proceedings of the Integrated Crop Management Conference

After the spike in natural gas price in the winter of 2000-2001 the price of natural gas and N fertilizers have fluctuated, but remained above previous historic levels. Seasonal trends have also resulted in both N product availability and high cost issues, including this fall. Recently, similar problems have hit phosphate and potash fertilizers where world demand and production problems (hurricanes affecting phosphate production in Florida) have negatively affected product price and supply in the United States. With these trends, are there fertilizer use practices that should change, or does crop response to fertilization pay no matter the cost? Crop ...


Atrazine Runoff In The Blue River Basin: Geomorphology, Rainfall, And Agronomic Practices, Kundan Dhakal Dec 2004

Atrazine Runoff In The Blue River Basin: Geomorphology, Rainfall, And Agronomic Practices, Kundan Dhakal

Theses, Dissertations, and Student Research in Agronomy and Horticulture

Atrazine concentrations in the Big Blue River Basin (BRB) in Nebraska and Kansas periodically exceed the U.S. EPA Maximum Contaminant Level (MCL) of 3 µg L-1. The present study is focused on watershed variables influencing surface runoff of atrazine. The assessment includes the impact of corn and sorghum planting progress (indicating atrazine application), rainfall, antecedent soil water content, and soil restrictive layer on stream-measured weekly atrazine load in independent BRB subwatersheds for 1997 - 2004. Maximum atrazine loading occurred after most of the corn had been planted but during sorghum planting from mid-May to early June, immediately following multiple ...


Introduction To The Legal Foundation Of Federal Land Management, University Of Colorado Boulder. Natural Resources Law Center Dec 2004

Introduction To The Legal Foundation Of Federal Land Management, University Of Colorado Boulder. Natural Resources Law Center

Introduction to the Legal Foundation of Federal Land Management (December 1-3)

1 v. (various pagings) : ill., maps ; 28 cm

Materials prepared for the course held at the National Center for Atmospheric Research in Boulder, Colorado on December 1-3, 2004

Course instructors: Charles Wilkinson; Sarah Krakoff; Kathryn Mutz; Ann Morgan; Maggie Fox

Contents:

Introduction -- Agenda -- Summaries of laws -- Case studies. Travel management; Oil and gas development; Timber/fuels reduction -- How to influence agency decision makers -- Natural resource related legal and policy resources for the non-legal professional


Agenda: Introduction To The Legal Foundation Of Federal Land Management, University Of Colorado Boulder. Natural Resources Law Center Dec 2004

Agenda: Introduction To The Legal Foundation Of Federal Land Management, University Of Colorado Boulder. Natural Resources Law Center

Introduction to the Legal Foundation of Federal Land Management (December 1-3)

Materials prepared for the course held at the National Center for Atmospheric Research in Boulder, Colorado on December 1-3, 2004

Course instructors: Charles Wilkinson; Sarah Krakoff; Kathryn Mutz; Ann Morgan; Maggie Fox

Contents:

Introduction -- Agenda -- Summaries of laws -- Case studies. Travel management; Oil and gas development; Timber/fuels reduction -- How to influence agency decision makers -- Natural resource related legal and policy resources for the non-legal professional


Nitrogen And Phosphorus Budgets For Iowa And Iowa Watersheds, Robert D. Libra, C. F. Wolter, R. J. Langel Dec 2004

Nitrogen And Phosphorus Budgets For Iowa And Iowa Watersheds, Robert D. Libra, C. F. Wolter, R. J. Langel

Technical Information Series

No abstract provided.


Coral Reef Ecosystem Restoration Off Southeast Florida, David S. Gilliam, Walter Jaap, Richard E. Dodge, Elizabeth Glynn Fahy, Jamie A. Monty, Brian K. Walker, Lauren F. Shuman, B. D. Ettinger, Daniel P. Fahy, Shaun M. Gill, Richard Shaul Dec 2004

Coral Reef Ecosystem Restoration Off Southeast Florida, David S. Gilliam, Walter Jaap, Richard E. Dodge, Elizabeth Glynn Fahy, Jamie A. Monty, Brian K. Walker, Lauren F. Shuman, B. D. Ettinger, Daniel P. Fahy, Shaun M. Gill, Richard Shaul

Marine & Environmental Sciences Faculty Proceedings, Presentations, Speeches, Lectures

Significant coral reef community development along the eastern shelf of the United States continues northward of the Florida Keys through Miami-Dade, Broward, Palm Beach, and Martin Counties, Florida (to Latitude 27° N). These Southeast Florida high-latitude coral communities have approximately 30 species of stony corals, stony coral coverage of 2-3%, and a diverse assemblage of reef gorgonians, sponges, and fishes.

This system lays within 3 km of the coast offshore a highly urbanized area comprising a population of over 5 million people (the population of Broward County alone exceeds 1.7 million). These reefs are important economic assets: a 2001 ...


Techniques For Restoring Gorgonians To Coral Reef Injury Areas, Lauren F. Shuman, David S. Gilliam, Richard E. Dodge, B. D. Ettinger, Daniel P. Fahy, Elizabeth Glynn Fahy, Shaun M. Gill, Jamie A. Monty, Brian K. Walker Dec 2004

Techniques For Restoring Gorgonians To Coral Reef Injury Areas, Lauren F. Shuman, David S. Gilliam, Richard E. Dodge, B. D. Ettinger, Daniel P. Fahy, Elizabeth Glynn Fahy, Shaun M. Gill, Jamie A. Monty, Brian K. Walker

Marine & Environmental Sciences Faculty Proceedings, Presentations, Speeches, Lectures

Great attention and energy has been spent investigating reattachment techniques for dislodged and fragmented scleractinian corals; however there has been a lack of controlled experimentation on how to restore dislodged gorgonians following a disturbance event, such as a ship grounding. Unfortunately, reef damage events occur frequently off southeast Florida. As an example, since 1998 at least five freighters have grounded on the reefs near Ft. Lauderdale, Broward County. These freighters dislodged many scleractinian and gorgonian corals and often destroyed thousands of square feet of reef habitat. After these events, restoration efforts concentrated on stabilizing loose debris and rubble, and reattaching ...


The Other Side Of Silence: Rachel Carson’S Views Of Animals, Marc Bekoff, Jan Nystrom Dec 2004

The Other Side Of Silence: Rachel Carson’S Views Of Animals, Marc Bekoff, Jan Nystrom

Animal Welfare Collection

The publication of Rachel Carson’s Silent Spring in 1962 is widely regarded as one of the major events that launched the modern environmental movement. Silent Spring is a compelling blend of stories, natural history, human values, and biological facts. In this essay we consider Carson’s attitude toward animals in Silent Spring and in other texts. Despite the facts that she was raised to love Nature and animals, little direct attention has been given to Carson’s views about our moral responsibilities to, and the moral standing of animals. Carson favored responsible stewardship, was more of an animal welfarist ...


Meeting The Scientific Needs Of Ecological Risk Assessment In A Regulatory Context, Steven P. Bradbury, Tom C. Feitel, Cornelis J. Van Leeuwen Dec 2004

Meeting The Scientific Needs Of Ecological Risk Assessment In A Regulatory Context, Steven P. Bradbury, Tom C. Feitel, Cornelis J. Van Leeuwen

Steven P. Bradbury

During the past decade, the field of ecological risk assessment has progressed considerably. Advances have come from such international bodies as the Organisation for Economic Co-operation and Development (OECD), the World Health Organisation (WHO), the European and Mediterranean Plant Protection Organisation (EPPO), and the European Centre for Ecotoxicology and Toxicology of Chemicals (ECETOC) (1–8). Risk assessments have played a critical role in the development of various regulations within the European Commission (EC) as well as in other parts of the world, including the United States, Canada, and Japan (9–17). But scientists and regulators are faced with three significant ...


Wetland And Nest Scale Habitat Use By The Four-Toed Salamander (Hemidactylium Scutatum) In Maine, And A Comparison Of Survey Methods, Rebecca J. Chalmers Dec 2004

Wetland And Nest Scale Habitat Use By The Four-Toed Salamander (Hemidactylium Scutatum) In Maine, And A Comparison Of Survey Methods, Rebecca J. Chalmers

Electronic Theses and Dissertations

Conserving amphibian populations requires knowledge of a species and its habitat relationships. The four-toed salamander (Hemidactylium scutatum) is listed as Special Concern in Maine and 11 additional states and provinces, Threatened in Illinois, and Endangered in Indiana (Appendix A). Little is known of H. scutatum ecology despite the species' extensive range. Infrequent sightings of H. scutatum throughout its range may indicate either low numbers or that the species' behavior make detection difficult. Records for H. scutatum in Maine existed from only 32 sites before my study, and the total number of occurrences of this species in Maine is unknown (P ...


Chemical And Toxicological Characterization Of The Upper York River, Virginia The Mattaponi And Pamunkey Rivers, Morris H. Roberts Jr., Mark Richards, Peter F. Delisle Dec 2004

Chemical And Toxicological Characterization Of The Upper York River, Virginia The Mattaponi And Pamunkey Rivers, Morris H. Roberts Jr., Mark Richards, Peter F. Delisle

Reports

This study describes the most extensive effort to characterize the chemistry, toxicology and community of the sediments of the Mattaponi and Pamunkey Rivers. This was accomplished using a study design modified to expand the number of stations occupied by reducing the cost of analyses by compositing replicate samples collected from each study site rather than performing toxicity tests on these samples individually. In previous studies, the variability in field replicate samples was equivalent to the variability in laboratory replicates. This design has long been used to analyze samples for various chemical contaminants as a cost savings endeavor. More ....


South East Humps Focus Catchment Report, A Hollick Dec 2004

South East Humps Focus Catchment Report, A Hollick

Resource management technical reports

This report provides a record of the activities carried out by the Lockhart Focus Support Team and the Catchment Group. It covers the results of the investigations and a summary of the group's catchment plan for the South East Humps Catchment east of Hyden in Western Australia. It covers the current best available information on soils, groundwater hydrology, surface water control, alternative crops and pastures, and revegetation options.


Education In The Environment: A Hands-On Student Research And Outdoor Learning Experience: Quarterly Progress Report, Period Ending November 30, 2004, Margaret N. Rees Nov 2004

Education In The Environment: A Hands-On Student Research And Outdoor Learning Experience: Quarterly Progress Report, Period Ending November 30, 2004, Margaret N. Rees

Reports (PLI Education)

During the past three-months, the focus of the university’s efforts has been 1) making progress on the hiring of permanent project managers for the Education in the Environment Strategy and the Forever Earth / Wonderful Outdoor World on the Water (WOW) projects; 2) completing legal review of the cooperative agreement and standard operating procedures required for the university to assume operations of the Forever Earth vessel; and 3) writing curriculum for the WOW and Forever Earth projects.


Evaluation Of Striped Bass Stocks In Virginia : Monitoring And Tagging Studies, 2004-2008 Annual Report 1 September 2003 - 31 August 2004, Philip W. Sadler, John M. Hoenig, Robert E. Harris, Bonnie G. Holliman Nov 2004

Evaluation Of Striped Bass Stocks In Virginia : Monitoring And Tagging Studies, 2004-2008 Annual Report 1 September 2003 - 31 August 2004, Philip W. Sadler, John M. Hoenig, Robert E. Harris, Bonnie G. Holliman

Reports

This report presents the results of striped bass (Marone saxatilis) tagging and monitoring activities in Virginia during the period 1 August 2003 through 31 August 2004. It includes an assessment of the biological characteristics of striped bass taken from the 2004 spring spawning run, estimates of annual survival based on annual spring tagging, and the results of the fall 2003 directed mortality study that is a collaborative effort with the Maryland Department ofNatural Resources. The information contained in this report is required by the Atlantic States Marine Fisheries Commission and is used to implement a coordinated management plan for striped ...


Bicistronic And Fused Monocistronic Transcripts Are Derived From Adjacent Loci In The Arabidopsis Genome, Jyothi Thimmapuram, Hui Duan, Lei Liu, Mary A. Schuler Nov 2004

Bicistronic And Fused Monocistronic Transcripts Are Derived From Adjacent Loci In The Arabidopsis Genome, Jyothi Thimmapuram, Hui Duan, Lei Liu, Mary A. Schuler

Cyber Center Publications

Comparisons of full-length cDNAs and genomic DNAs available for Arabidopsis thaliana described here indicate that some adjacent loci are transcribed into extremely long RNAs spanning two annotated genes. Once expressed, some of these transcripts are post-transcriptionally spliced within their coding and intergenic sequences to generate bicistronic transcripts containing two complete open reading frames. Others are spliced to generate monocistronic transcripts coding for fusion proteins with sequences derived from both loci. RT-PCR of several P450 transcripts in this collection indicates that these extended transcripts exist side by side with shorter monocistronic transcripts derived from the individual loci in each pair. The ...


Red Rock Desert Learning Center Core Group Meeting: November 16, 2004, Red Rock Desert Learning Center Nov 2004

Red Rock Desert Learning Center Core Group Meeting: November 16, 2004, Red Rock Desert Learning Center

Reports (RRLC)

  1. Introductions (5 min.)
  2. Approval of Minutes from October 19 Meeting (5 minutes)
  3. Presentation of Biology Curriculum Strands – Paul Buck (15 min.)
  4. Discussion of Possible Advisory Board Structures – Michael Reiland (15 min.)
  5. Update from Line and Space Architects – Les Wallach/Henry Tom (20 min.)
  6. Discussion of Student Risk Analysis/Liability Issues (15 min.)
  7. Standing Reports (10 minutes)
    A. UNLV/CESU Update – Nancy Flagg
    B. BLM Update – Michael Reiland
  8. Committee Reports (5 min.)
    A. Building Committee – Angie Lara
  9. Open Discussion / New Business (5 min.)
    A. January Meeting – Tuesday, January 18, 10:30 a.m., UNLV Paradise
    Campus
    B. Core Curriculum Handout


A Bayesian Method For Finding Interactions In Genomic Studies, Wei Chen, Debashis Ghosh, Trivellore E. Raghuanthan, Sharon Kardia Nov 2004

A Bayesian Method For Finding Interactions In Genomic Studies, Wei Chen, Debashis Ghosh, Trivellore E. Raghuanthan, Sharon Kardia

The University of Michigan Department of Biostatistics Working Paper Series

An important step in building a multiple regression model is the selection of predictors. In genomic and epidemiologic studies, datasets with a small sample size and a large number of predictors are common. In such settings, most standard methods for identifying a good subset of predictors are unstable. Furthermore, there is an increasing emphasis towards identification of interactions, which has not been studied much in the statistical literature. We propose a method, called BSI (Bayesian Selection of Interactions), for selecting predictors in a regression setting when the number of predictors is considerably larger than the sample size with a focus ...


Structural Mimicry In Class A G Protein-Coupled Receptor Rotamer Toggle Switches, Sean D. Mcallister, Dow P. Hurst, Judy Barnett-Norris, Diane L. Lynch, Patricia H. Reggio, Mary E. Abood Nov 2004

Structural Mimicry In Class A G Protein-Coupled Receptor Rotamer Toggle Switches, Sean D. Mcallister, Dow P. Hurst, Judy Barnett-Norris, Diane L. Lynch, Patricia H. Reggio, Mary E. Abood

Faculty Publications

In this study, we tested the hypothesis that a CB1 TMH3-4-5-6 aromatic microdomain, which includes F3.25(190), F3.36(201), W5.43(280), and W6.48(357), is centrally involved in CB1 receptor activation, with the F3.36(201)/W6.48(357) interaction key to the maintenance of the CB1-inactive state. We have shown previously that when F3.36(201), W5.43(280), and W6.48(357) are individually mutated to alanine, a significant reduction in ligand binding affinity is observed in the presence of WIN 55,212-2 and SR141716A but not CP55,940 and ...


High-Resolution Serum Proteomic Patterns For Ovarian Cancer Detection, Keith A. Baggerly, Sarah R. Edmonson, Jeffrey S. Morris, Kevin R. Coombes Nov 2004

High-Resolution Serum Proteomic Patterns For Ovarian Cancer Detection, Keith A. Baggerly, Sarah R. Edmonson, Jeffrey S. Morris, Kevin R. Coombes

Jeffrey S. Morris

No abstract provided.


Carbon Sequestration, Co-Benefits, And Conservation Programs, Hongli Feng, Catherine L. Kling, Philip W. Gassman Nov 2004

Carbon Sequestration, Co-Benefits, And Conservation Programs, Hongli Feng, Catherine L. Kling, Philip W. Gassman

CARD Working Papers

Land use changes to sequester carbon also provide "co-benefits," some of which (for example, water quality) have attracted at least as much attention as carbon storage. The non-separability of these co-benefits presents a challenge for policy design. If carbon markets are employed, then social efficiency will depend on how we take into account co-benefits, that is, externalities, in such markets. If carbon sequestration is incorporated into conservation programs, then the weight given to carbon sequestration relative to its co-benefits will partly shape these programs. Using the Conservation Reserve Program (CRP) as an example, we show that CRP has been sequestering ...


Two Distinct Genotypes Of Prtf2, Encoding A Fibronectin Binding Protein, And The Evolution Of The Gene Family In Streptococcus Pyogenes, V. Ramachandran, Jason D. Mcarthur, C. E. Behm, C. Gutzeit, M. Dowton, P. K. Fagan, R. Towers, B. J. Currie, K. S. Sriprakash, Mark J. Walker Nov 2004

Two Distinct Genotypes Of Prtf2, Encoding A Fibronectin Binding Protein, And The Evolution Of The Gene Family In Streptococcus Pyogenes, V. Ramachandran, Jason D. Mcarthur, C. E. Behm, C. Gutzeit, M. Dowton, P. K. Fagan, R. Towers, B. J. Currie, K. S. Sriprakash, Mark J. Walker

Faculty of Science - Papers (Archive)

The group A Streptococcus (GAS) is an important pathogen responsible for a wide range of human diseases. Fibronectin binding proteins (FBPs) play important role in promoting GAS adherence and invasion of host cells. The gene prtF2 encodes a FBP and is contained in approximately 60% of GAS strains. In the present study we have examined 51 prtF2-positive GAS strains isolated from the Northern Territory of Australia and describe two genotypes of prtF2, which are mutually exclusive. Both genotypes have been previously identified in the literature as pfbp and fbaB. We show these genotypes map to the same chromosomal location within ...


Laboratory Routines Cause Animal Stress, Jonathan P. Balcombe, Neal D. Barnard, Chad Sandusky Nov 2004

Laboratory Routines Cause Animal Stress, Jonathan P. Balcombe, Neal D. Barnard, Chad Sandusky

Laboratory Experiments Collection

Eighty published studies were appraised to document the potential stress associated with three routine laboratory procedures commonly performed on animals: handling, blood collection, and orogastric gavage. We defined handling as any non-invasive manipulation occurring as part of routine husbandry, including lifting an animal and cleaning or moving an animal's cage. Significant changes in physiologic parameters correlated with stress (e.g., serum or plasma concentrations of corticosterone, glucose, growth hormone or prolactin, heart rate, blood pressure, and behavior) were associated with all three procedures in multiple species in the studies we examined. The results of these studies demonstrated that animals ...


Can Solid Matrix Priming With Ga3 Break Seed Dormancy In Eastern Gamagrass?, C. Rogis, L. R. Gibson, A. D. Knapp, R. Horton Nov 2004

Can Solid Matrix Priming With Ga3 Break Seed Dormancy In Eastern Gamagrass?, C. Rogis, L. R. Gibson, A. D. Knapp, R. Horton

Agronomy Publications

Development of methods for breaking seed dormancy in eastern gamagrass (Tripsacum dactyloides, L.) could increase its use. Solid matrix priming, the controlled hydration of seed in a system of solid carrier and water, has been used with some success to enhance germination in warm-season grasses. gibberellic acid (ga3), a known promoter of eastern gamagrass germination, can be added to solid matrix priming systems. In this study, systems were evaluated for conditioning eastern gamagrass seeds using the solid carriers Agro-Lig, MicroCel E, and Vermiculite #5. GA3 was added in 0.01 M concentration solutions to systems with water potentials of −0 ...


South Yarding Focus Catchment Report, A Hollick Nov 2004

South Yarding Focus Catchment Report, A Hollick

Resource management technical reports

This report provides a record of the activities carried out by the South Yarding Focus Support Team and Catchment Group. It covers the results of investigations and summarises the group's catchment plan of South Yarding, Western Australia, based on the best available information on soils, groundwater hydrology, surface water control, alternative crops and pastures and revegetation options.


Soil-Landscape Mapping In South-Western Australia : An Overview Of Methodology And Outputs, B R. Purdie, Peter J. Tille, Noel R. Schoknecht Nov 2004

Soil-Landscape Mapping In South-Western Australia : An Overview Of Methodology And Outputs, B R. Purdie, Peter J. Tille, Noel R. Schoknecht

Resource management technical reports

This report provides an overview of the soil-landscape mapping program for south-Western Australia. It outlines the techniques and standards used in describing the soil-landscape as well as the outputs of the mapping program and their uses.


2004 Scholars And Artists Bibliography, Michael Schwartz Library, Cleveland State University, Friends Of The Michael Schwartz Library Oct 2004

2004 Scholars And Artists Bibliography, Michael Schwartz Library, Cleveland State University, Friends Of The Michael Schwartz Library

Scholars and Artists Bibliographies

This bibliography was created for the annual Friends of the Michael Schwartz Library Scholars and Artists Reception, recognizing scholarly and creative achievements of Cleveland State University faculty, staff and emeriti


2004 Forage Spokesperson Contestants, James Chestnut, Jimmy May, Steve Meredith, Bill Payne Oct 2004

2004 Forage Spokesperson Contestants, James Chestnut, Jimmy May, Steve Meredith, Bill Payne

Kentucky Grazing Conference

No abstract provided.