Biology Commons^™

Pcr And Fish Detection Extends The Range Of Pfiesteria Piscicida In Estuarine Waters, P. A. Rublee, J. Kempton, E. Schaefer, J.M. Burkholder, H. B. Glasgow Jr., David Oldach

Virginia Journal of Science

PCR and fluorescent in situ hybridization probes were used to assay for the presence of the dinoflagellate Pfiesteria piscicida in 170 estuarine water samples collected from New York to northern Florida. 20% of samples tested positive for the presence of P. piscicida, including sites where fish kills due to Pfiesteria have occurred and sites where there was no historical evidence of such events. The results extend the known range of P. piscicida northward to Long Island, New York. The results also suggest that P. piscicida is common, and normally benign, inhabitatant of estuarine waters of the eastern US.

Limitation Of Algal Growth By Iron Deficiency In The Australian Subantarctic Region, Peter N. Sedwick, Giacomo R. Ditullio, David A. Hutchins, Philip W. Boyd, F. Brian Griffiths, A. Clive Crossley, Thomas W. Trull, Bernard Queguiner

OES Faculty Publications

In March 1998 we measured iron in the upper water column and conducted iron- and nutrient-enrichment bottle-incubation experiments in the open-ocean Subantarctic region southwest of Tasmania, Australia. In the Subtropical Convergence Zone (∼42°S, 142°E), silicic acid concentrations were low (< 1.5μM) in the upper water column, whereas pronounced vertical gradients in dissolved iron concentration (0.12-0.84 nM) were observed., presumably reflecting the interleaving of Subtropical and Subantarctic waters, and mineral aerosol input. Results of a bottle-incubation experiment performed at this location indicate that phytoplankton growth rates were limited by iron deficiency within the iron-poor layer of the euphotic zone. In the Subantarctic water mass (∼46.8°S, 142°E), low concentrations of dissolved iron (0.05-0.11nM) and silicic acid (< 1μM) were measured throughout the upper water column, and our experimental results indicate that algal growth was limited by iron deficiency. These observations suggest that availability of dissolved iron is a primary factor limiting phytoplankton growth over much of the Subantarctic Southern Ocean in the late summer and autumn.

New Caribbean Locality For The Extinct Great White Shark Carcharodon, Clare Flemming, Donald A. Mcfarlane

WM Keck Science Faculty Papers

Carcharodon is represented by a single upper tooth (Fig. 1) which we extracted from the eroding Pliocene limestone wall, some six meters above the floor at the northern end of Darby Sink. Much of the tooth is missing, but the remaining portion includes features diagnostic of this genus. The tooth conforms in size and morphology to Carcharodon megalodon (Agassiz, 1843), an extinct great white shark.

A Second Pre-Wisconsinan Locality For The Extinct Jamaican Rodent, Clidomys (Rodentia: Heptaxodontidae), Donald A. Mcfarlane, Joyce Lundberg, Clare Flemming, Ross D. E. Macphee, Stein-Erik Lauritzen

WM Keck Science Faculty Papers

Clidomys is the most distinctive but least well known member of the late Quaternary terrestrial mammal fauna of Jamaica. Here we report the second dated locality for this genus. The Illinoisan age we report further strengthens arguments we have made elsewhere, that Clidomys represents an early - probably pre-Wisconsinan - extinction that contrasts with the growing record of Holocene extinctions in the Antilles.

Immunological Relationship Between The Class I Epitope Of Streptococcal M Protein And Myosin, Anthony Quinn, Kent Ward, Vincent A. Fischetti, Mark E. Hemric, Medeleine W. Cunningham

Faculty Publications and Presentations

The class I epitope of streptococcal M protein is an epidemiological marker for acute rheumatic fever (ARF)-associated serotypes of group A streptococci and is recognized by anti-M protein monoclonal antibody (MAb) 10B6. Using MAb 10B6, we determined the relationship between the class I epitope of M protein and the a-helical coiled-coil protein myosin. MAb 10B6 reacted by enzyme-linked immunosorbent assay and Western blotting with human cardiac myosin and rabbit skeletal myosin and its heavy meromyosin (HMM) subfragment. Overlapping synthetic peptides of M5 protein were used to identify the region of M5 protein recognized by MAb 10B6. Two C repeat peptides …

Photoadaptation Rate Of Synechococcus Wh7803 Cultures At Two Iron Concentrations, Jon Daniel Moulton

Dissertations and Theses

The marine cyanobacterium Synechococcus WH7803 adapts to changes in light intensity by changing its photosynthetic physiology. This work is a study o f the rate o f photoadaptation of Synechococcus WH7803 in laboratory cultures. Cultures were shifted from constant 8 µEm^-2s^-1 light to constant 80 µEm^-2s^-1 light, from constant 80 µEm^-2s^-1 light to 8 µEm^-2s^-1 light and from different light regimes to a single fluctuating light regime. The response of high iron cultures grown in modified aquil culture medium at 5*10^-6M Fe was compared with the …

Abundance And Seasonal Distribution Of The Marbled Murrelet In Puget Sound And Hood Canal In Fall And Winter, Richard Anthony Jensen Merizon

Dissertations and Theses

The greater Puget Sound area is home to a diversity of seabirds, however with encroaching human recreational and economic use of these areas these birds are facing unique threats. It is vitally important that we understand where these seabirds occur in order to minimize the risks associated with human influences. Intensive and extensive transects were used to collect data on seasonal distribution and abundance of seabirds, specifically marbled murrelets (Brachyramphus marmoratus), in Puget Sound and Hood Canal. Surveys were conducted from the water during the fall and winter in 1995 and 1996 and summer of 1997. Marbled murrelets were abundant …

A Strategy For The Future Management Of The Joint Authority Northern Shark Fishery. A Discussion Paper., Tim Bray, Jo Kennedy

Fisheries Management Papers

This paper discusses the current status of the Joint Authority Northern Shark Fishery (JANSF), and the major issues affecting it. The main aim of the document is to present a seires of recommendations to enable effective future management of this resource. The paper provides a brief introduction to the JANSF, followed by an examination of the resource base of the fishery (primary species, stock distribution and stock assessment).

Western Rock Lobster Management - Options And Issues, Kevin Donohue

Fisheries Management Papers

Following the Rock Lobster Industry Advisory Committee meeting of the 3 March 1998 the Minister has advised that his position is that there will be no management changes for the 1998/99 season. The purpose of this paper is primarily to provide information explaining management options and issues for consideration of the long term management of the fishery. The paper is divided into three main sections which detail options that have been identified as having the potential to increase the catch value over the next three years. In the first section, an option for enhancing the catch value by transferring lobsters …

Confocal Microscopy: A Powerful Tool For Biological Research, Amit Singh, K. P. Gopinathan

Biology Faculty Publications

Conventional light microscopy allows the observation of living as well as fixed cells and tissues to generate two-dimensional images. The out-of-focus information often obscures the ultrastructural details, especially in thick specimens with overlapping structures. The earliest available light microscopy visualized the objects in hydrated state in two-dimensions during their temporal development. The emergence of electron microscopy (EM) provided superb resolution of ultrastructural details, but it was applicable only for objects in the dehydrated state and thereby potentially introducing handling artifacts. The usefulness of optical methods, however, has been limited by the poor depth discrimination. Often, the fluorescence and reflectance images …

The Age Of The Kirkdale Cave Palaeofauna, Donald A. Mcfarlane, Derek C. Ford

WM Keck Science Faculty Papers

The Kirkdale Cave palaeofauna represents the original and classic 'warm', interglacial mammalian cave deposit in Britain. Although long considered to be 'Ipswichian' in age, no previous attempts to obtain radiometric dates have been recorded. Here we report a uranium-series disequilibrium date of 121,000 ± 4000 yr BP on a flowstone capping that overlay the original bone bed. The precision of the date exceeds that obtained at any other British Interglacial cave site, and permits tentative correlation with the high precision ice core records now available.

Summary Of Submissions To Fisheries Management Paper No 108 - Issues Affecting Western Australia's Inshore Crab Fishery, Cathy Campbell

Fisheries Management Papers

The summary of submissions is a record of comments offered in respect to the contet of Fisheries Management Paper No. 108 : Issues affecting Western Australia's inshore crab fishery (the Issues Paper) and submitted by groups or individuals who have an interest in inshore crab fishing activity in this State. Concerns of the respective parties included a percieved decline in recreational crab catches at specific locations; instances of conflict between commerical and recreational crabs fishers in Geographe Bay; concern for the types of gear used to take crabs; a substantial rise in the catch of crabs in the Cockburn Sound …

Magnetostratigraphy Of Cueva Del Aleman, Isla De Mona, Puerto Rico And The Species Duration Of Audobon's Shearwater, Bruce C. Panuska, John M. Mylroie, Darrell Armentrout, Donald A. Mcfarlane

WM Keck Science Faculty Papers

Magnetostratigraphic analysis of deposits exposed in Cueva del Aleman shows two reversed and two normal chronozones. The lower normal polarity event is observed in a clastic dike and probably predates initial cave formation. Sediments deposited inside the cave proper show a R-N-R sequence and probably date to at least 1.8 Ma. A fossiliferous clastic dike contains normal polarity with an overlying reversed magnetozone. Audubon’s Shearwater (bird) bones occur in the dike, which is tentatively correlated with the lower N polarity zone predating cave formation. If this correlation is correct, the Audubon’s Shearwater (Puffinus lherminieri) range can be extended back to …

Environmental Stress Effects On Vigor, Mortality, And Growth In Northern Hardwood Forests Along A Pollution-Climate Gradient, Neil W. Macdonald, John A. Witter, David R. Reed, Andrew J. Burton, Kurt S. Pregitzer, Hal O. Liechty

Peer Reviewed Publications

Concern exists over the effects of interacting environmental stresses on the ecological integrity of temperate forests. Coincidence of sensitivity to drought, increasing occurrence of defoliation, and elevated pollutant deposition has produced speculation that northern hardwood forests may be susceptible to the increased climatic stresses projected for the Great Lakes region. The objective of our study was to examine relationships among environmental stress factors, vigor, mortality, and growth in northern hardwood forests located along a pollution-climate gradient in the Great Lakes region. Between 1987 and 1993, we quantified climatic variables, pollutant deposition, insect defoliation, and tree vigor and growth at five …

Age, Growth, And Mortality Of Black Drum, Pogonias Cromis, In The Chesapeake Bay Region, Cynthia M. Jones, Brian Wells

OES Faculty Publications

We used otolith ageing to describe the population dynamics of black drum, Pogonias cromis, collected over a three-year period from the Chesapeake Bay region's commercial and recreational fisheries. Black drum average age, total length, and weight were 26 years, 109.5 cm, and 22.1 kg respectively. The oldest fish was 59 years and fish older than 50 years were present in the catch from 1990 to 1992. Growth in length slowed by age 20, whereas growth in weight did not slow until age 45. A von Bertalanffy growth function was fitted to our data (L(infinity) = 117.3 cm, …

Las Vegas Wash Water Quality Monitoring Program: 1996 Report Of Findings, Richard A. Roline, James J. Sartoris, U.S. Bureau Of Reclamation, U.S. Geological Survey

Publications (WR)

Las Vegas Wash, a natural wash east of the city of Las Vegas, Nevada, carries stormwater, groundwater drainage, and sewage effluent from three sewage treatment plants to Lake Mead. The Wash provides nearly the only surface water outlet for the entire 2,193 mi² of Las Vegas Valley. A drainage area of 1,586 mi² contributes directly to the Wash through surface flow which is channeled to Las Vegas Bay of Lake Mead, while drainage of the remaining 607 mi² is presumably subsurface and may drain toward Las Vegas Wash.

In the 1930's and 1940's, sewage treatment plants were …

Genetic Algorithms: A Visual Search, Paul W. Jones

Honors Theses, 1963-2015

Genetic algorithms apply the biological principles of selection, mutation, and crossover to a population set containing individuals representing target solutions to a given problem. Using these principles genetic algorithms attempt to create a migration of the individuals in subsequent generations toward the optimal solution.

This project is an attempt to visually represent the progress of a genetic algorithm. The coordinate fitness program attempts to find the maximum or minimum value of a given function. It visually represents the progress of the algorithm by providing a plot of each individual in each generation in time. It is then possible to view …

Seasonal Abundance Of Autotrophic Picoplankton In The Pagan River, A Nutrient Enriched Subestuary Of The James River, Virginia, Lillian N. Davis, Karen A. Phillips, Harold G. Marshall

Biological Sciences Faculty Publications

Autotrophic picoplankton had average monthly concentrations of 73.5 X 10⁶ cells/L in the Pagan River, with summer-early fall maxima of 10⁸ cells/L. The abundance peaks increased with rising water temperatures, declining to their least abundance in mid-winter (10⁵ cells/L).

Evaluation Of The Effects Of Afff Inputs On The Vip Biological Nutrient Removal Process And Pass-Through Toxicity. Phase 1a. Volume Ii. Appendix Vii. Acute Toxicity Test Results, Mujde Erten-Unal, Gary C. Schafran

Civil & Environmental Engineering Faculty Publications

This report discusses the results of a bench scale study conducted to evaluate the potential inhibitory effects of untreated AFFF wastewater to the Virginia Initiative Plant VIP biological nutrient removal process. A bench-scale study was conducted to evaluate the potential inhibitory effects of untreated AFFF wastewater to the nitrification process of the Virginia Initiative Plant biological nutrient removal system. Under this testing, bench-scale reactors simulating the nitrification process were loaded at various AFFF concentrations and the influence on the process performance was evaluated. The purpose of this effort was to determine the level of AFFF that could be incorporated into …

Modeling Nutrient And Plankton Processes In The California Coastal Transition Zone: 3. Lagrangian Drifters, J. R. Moisan, Eileen E. Hofmann

CCPO Publications

Two types of numerical Lagrangian drifter experiments were conducted, using a set of increasingly complex and sophisticated models, to investigate the processes associated with the plankton distributions in the California coastal transition zone (CTZ). The first experiment used a one-dimensional (1-D; vertical) time-dependent physical-bio-optical model, which contained a nine-component food web. Vertical velocities, along the track of simulated Lagrangian drifters, derived from a three-dimensional (3-D), primitive equation circulation model developed to simulate the flow observed within the CTZ; were used to parameterize the upwelling and downwelling processes. The second experiment used 880 simulated Lagrangian drifters from a 3-D primitive equation …

Rust Diseases Of Apple, John R. Hartman

Agriculture and Natural Resources Publications

Three related rust diseases occur on apple trees in Kentucky: cedar-apple rust, cedar-hawthorn rust, and cedarquince rust. Crabapple, hawthorn, mountain ash, pear, and serviceberry are also susceptible to these diseases. All three rusts are caused by different species of the fungus Gymnosporangium, each of which must spend a phase of its life cycle as a parasite on Juniperus species such as native red cedars or ornamental junipers.

Although cedar rusts can cause unsightly growths on Juniperus, they do not usually cause serious damage to these plants. Rust diseases can cause serious losses on apples, however, as a result …

Twig, Branch, And Stem Diseases Of Pine, John R. Hartman

Agriculture and Natural Resources Publications

Tip Blight

Tip blight, caused by the fungus Sphaeropsis sapinea (formerly Diplodia pinea), is a serious disease of mature Austrian, Scots (Scotch), and Mugo pines in Kentucky. In the landscape, tip blight is normally not observed until pines reach about 12 years old and begin to bear cones. Severe infections year after year can greatly weaken and eventually kill affected pines.

Isolation From Soil Microorganisms That Are Inhibitory To Wheat Seeding Pathogens, Kynita Wilson-Humphrey

McCabe Thesis Collection

Many diseases caused by bacteria, viruses, or fungi are responsible for the ruin of a great number of crops annually. At present, many of these crops are being treated for diseases by synthetic or man-made chemicals. Some of the chemicals have been proved to have adverse effects on the environment, including humans and animals. Very few non-chemical means are available to farmers at this time to control these pathogens. This is due to the fact that many of the means of control have little effect against the pathogens or diseases. This research attempts to isolate microorganisms from the soil which …

Reconnecting The Sciences, John Eggebrecht, Raymond Dagenais, Don Dosch, Norman J. Merczak, Margaret N. Park, Susan C. Styer, David Workman

Faculty Publications & Research

During the last three years at the Illinois Mathematics and Science Academy, we have been working on a partial reconstruction of Whitehead's "one subject matter," a course reconnecting biology, chemistry, earth and space sciences, and physics into an Integrated Science program.

An Nmr Investigation Of The Effect Of Hydrogen Bonding On The Rates Of Rotation About The C-N Bonds In Urea And Thiourea, Karl A. Haushalter, Janice Lau, John D. Roberts

All HMC Faculty Publications and Research

The interaction between urea and tetrabutylammonium acetate was investigated in dimethylformamide/ dimethyl sulfoxide solutions using ¹H and 15^N NMR. The chemical-shift behavior of the urea protons is consistent with a urea-acetate hydrogen-bonded complex involving both carboxylate oxygens and the urea hydrogens trans to the carbonyl oxygen with K_assoc = 120 ± 10. Line shape analysis of the temperature-dependent ¹H NMR spectra show that ∆G^‡ for rotation about the C-N bond of urea changes only slightly from 11.0 ± 0.1 to 11.2 ± 0.1 kcal/mol on 1:1 molar addition of tetrabutylammonium acetate to a dilute solution of urea. A parallel investigation …

Captive Environmental Influences On Behavior In Zoo Drills And Mandrills (Mandrillus), A Threatened Genus Of Primate, Erik Terdal

Dissertations and Theses

Drills (Mandrillus leucophaeus) are an endangered species of African monkey (Cercopithecidae), and their sole congener the mandrill (Mandrillus sphinx) is vulnerable to extinction. Both species are threatened in the wild by deforestation and hunting.

Drills have a poor record of captive reproduction. Many individuals appear to have behavioral deficiencies which interfere with reproduction. Thus, the zoo population of drills does not serve as a “hedge” against the species’ total extinction: drills are endangered in captivity as well as in the wild. Mandrills, by contrast, reproduce well in captivity. Information on the behavior of mandrills in captivity may help zoo managers …

Mile-A-Minute Weed, (Polygonum Perfoliatum L.), An Invasive Vine In Natural And Disturbed Sites, J. Douglas Oliver

Faculty Publications and Presentations

Polygonum perfoliatum L. (Polygonaceae) or mile-a-minute weed, from eastern Asia, has been spreading through wild and disturbed areas of the mid-Atlantic United States. It has a wide ecological amplitude and is found on stream banks, moist thickets, roadsides, nurseries, wood-piles, clearings, and ditches. Polygonum perfoliatum presents serious problems for reforestation because it thrives where forests are clear-cut. A southward direction of spread indicates that the species will probably proliferate in at least some southern states. Mechanical control is not likely to be completely effective because seeds are often left behind. No appropriate biocontrols are known. The plant poses a threat …

Complex Dynamics And Multistability In A Damped Harmonic Oscillator With Delayed Negative Feedback, Sue Ann Campbell, Jacques Bélair, Toru Ohira, John Milton

WM Keck Science Faculty Papers

A center manifold reduction and numerical calculations are used to demonstrate the presence of limit cycles, two-tori, and multistability in the damped harmonic oscillator with delayed negative feedback. This model is the prototype of a mechanical system operating with delayed feedback. Complex dynamics are thus seen to arise in very plausible and commonly occurring mechanical and neuromechanical feedback systems.

Interview: Brenda Laurel, Jason Challas

SWITCH

This interview with Brenda Laurel, Virtual Reality (VR) author and thinker, discusses the applications and challenges of VR. Creating an emphatic experience using VR technology is possible, but the challenge lies in designing an environment that models the senses to stimulate emotions. VR enables experiences of different genders, but physiological differences between the sexes exist and are important to understand. However, technology used to create the environment and simulation of physical objects in VR is only in the developmental stage. Laurel believes in the importance of keeping the mind grounded in the physical body, in order to strengthen the appreciation …

A High-Bandwidth Frequency-Domain Photon Migration Instrument For Clinical Use, Steen J. Madsen, Eric R. Anderson, Richard C. Haskell, Bruce J. Tromberg

All HMC Faculty Publications and Research

We have developed a high-bandwidth frequency-domain photon migration (FDPM) instrument which is capable of noninvasively determining the optical properties of biological tissues in near-real-time. This portable, inexpensive, diode-based instrument is unique in the sense that we employ direct diode laser modulation and avalanche photodiode detection. Diffusion models were used to extract the optical properties (absorption and transport scattering coefficients)of tissue-simulating solutions.from the 300 kHz to I GHz photon density wave data.