Digital Commons Network^™

Summer Transport Estimates Of The Kamchatka Current Derived As A Variational Inverse Of Hydrophysical And Surface Drifter Data, G.G. Panteleev, P. Stabeno, V.A. Luchin, Dmitri A. Nechaev, M. Ikeda

Faculty Publications

The quasistationary summer Bering Sea circulation is reconstructed as a variational inverse of the hydrographic and atmospheric climatologies, transport estimates through the Bering Strait, and surface drifter data. Our results indicate the splitting of the Kamchatka Current in the vicinity of the Shirshov Ridge. This branching is in agreement with independent ARGO drifter observations. It was also found, that transport of the Kamchatka Current gradually increases downstream from 14 Sv in the Olyutorsky Gulf to 24 Sv in the Kamchatka Strait, which is twice higher than previous estimates.

Mechanisms Imposing The Vbeta Bias Of V14a Natural Killer T Cells And Consequences For Microbial Glycolipid Recognition, Paul B. Savage, Dasten G. Wei, Shane A. Curran, Luc Teyton, Albert Bendelac

Faculty Publications

Mouse and human natural killer T (NKT) cells recognize a restricted set of glycosphingolipids presented by CD1d molecules, including self iGb3 and microbial alpha-glycuronosylceramides. The importance of the canonical Valpha 14-Jalpha18 TCR alphachain for antigen recognition by NKT cells is well recognized, but the mechanisms underlying the Vbeta8, Vbeta7, and Vbeta2 bias in mouse have not been explored. To study the influences of thymic selection and the constraints of pairing with Valpha 14-Jalpha 18, we have created a population of mature T cells expressing Valpha 14-Jalpha 18 TCRalpha chain in CD1d-deficient mice and studied its recognition properties in vitro and …

Phylogeny And Androecial Evolution In Schisandraceae, Inferred From Sequences Of Nuclear Ribosomal Dna Its And Chloroplast Dna TrnL-F Regions, Zhong Liu, Gang Hao, Yi-Bo Luo, Leonard B. Thien, Samuel W. Rosso, An-Ming Lu, Zhi-Duan Chen

Faculty Publications

Sequences of nuclear ribosomal DNA ITS and chloroplast trnL‐F regions were used to construct a phylogeny of Schisandraceae. The results show that there are two major clades in Schisandraceae. One is composed entirely of Schisandra species; the other contains a mixture of Schisandra and Kadsura species. Molecular data place Smith’s sect. Sphaerostema of Schisandra prominently within Kadsura, and thus neither Schisandra nor Kadsura is monophyletic, refuting the traditional division of the family into two genera based on morphological characters of mature fruits. The sister relationship between S. glabra (North America) and S. bicolor (China) and the monophyly of …

Vittatispora, A New Melanosporaceous Genus From Indian Soil, Preeti Chaudhary, Jinx Campbell, David L. Hawksworth, Kedarnath N. Sastry

Faculty Publications

Vittatispora coorgii gen. sp. nov., isolated from soil in India, is described and illustrated. The fungus has morphological characteristics of the genera Melanospora, Sphaerodes and Syspastospora. The most striking feature is the presence of a thick hyaline ridge along the vertical axis of the lemonshaped ascospores wall. Perithecia also have a long neck composed of adhering hyphae, similar to that of Syspatospora. Phylogenetic studies on the 28S rDNA indicate it is closely related to Melanospora and Sphaerodes and belongs in the Ceratostomataceae. The new genus is based on the distinctive morphology and phylogenetic analyses. The fungus grew in culture only …

Erratum: "Hard Sphere Radial Distribution Function Again", Andrij Trokhymchuk, Douglas Henderson, Ivo Nezbeda, Jan Jirsak

Faculty Publications

Some misprints have been found for parameters given by Eqs. 29 and 30 and the relevant equations in the Appendix.

Antiestrogens Inhibit Xenoestrogen-Induced Brain Aromatase Activity But Do Not Prevent Xenoestrogen-Induced Feminization In Japanese Medaka (Oryzias Latipes), Adam J. Kuhl, Marius Brouwer

Faculty Publications

In fish, exposure to estrogen or estrogen-mimicking chemicals (xenoestrogeus)during a critical period of development can irreversibly invert sex differentiation. In medaka, a male-to-female reversal upon exposure to a xenoestrogen is accompanied by an increase in brain aromatase expression and activity. However, whether this increase is the direct cause of sex reversal is unknown. In this study we further examined the role brain aromatase plays in genesis of developmental abnormalities in response to endocrine-disrupting chemicals (EDCs). Further, the effects of a mixture of apparent antagonistic environmentally relevant EDCs on development were examined to determine if their combined actions could lessen each …

Cytochrome P4501a Is Induced In Endothelial Cell Lines From The Kidney And Lung Of The Bottlenose Dolphin, Tursiops Truncatus, Rita Anne Garrick, Bruce R. Woodin, Joanna Y. Wilson, Bobby L. Middlebrooks, John J. Stegman

Faculty Publications

Marine mammals respond to the presence of polycyclic and planar halogenated aromatic hydrocarbons (PAH or PHAH) with the induced expression in endothelium of cytochrome P4501A1, regulated through the aryl hydrocarbon receptor (AHR) transcription factor. Physiological responses in other animals, such as edema and inflammation indicate that the endothelium may be compromised by exposure to AHR agonists, which are ubiquitous in the marine environment. In other mammals and fish the cellular and molecular consequences of exposure to AHR agonists have been elucidated in cultured endothelial cells. We have cultured and characterized cetacean endothelial cells (EC) and used them in induction studies. …

Accuracy Assessment Of Land Cover Maps Derived From Multiple Data Sources, Daniel Unger, Hillary Tribby, Hans Michael Williams, I-Kuai Hung

Faculty Publications

Maximum Likelihood (ML) and Artificial Neural Network (ANN) supervised classification methods were used to demarcate land cover types within IKONOS and Landsat ETM+ imagery. Three additional data sources were integrated into the classification process: Canopy Height Model (CHM), Digital Terrain Model (DTM) and Thermal data. Both the CHM and DTM were derived from multiple return small footprint LIDAR. Forty maps were created and assessed for overall map accuracy, user's accuracy, producer's accuracy, kappa statistic and Z statistic using classification schemes from U.S.G.S. 1976 levels 1 and 2 and T.G.l.C. 1999 levels 2 and 4. Results for overall accuracy of land …

A Hydrothermal After-Ripening Time Model For Seed Dormancy Loss In Bromus Tectorum L., Phil S. Allen, Necia B. Bair

Faculty Publications

After-ripening, the loss of dormancy under dry conditions, is associated with a decrease in mean base water potential for germination of Bromus tectorum L. seeds. After-ripening rate is a linear function of temperature above a base temperature, so that dormancy loss can be quantified using a thermal after-ripening time (TAR) model. To incorporate storage water potential into TAR, we created a hydrothermal after-ripening time (HTAR) model. Seeds from two B. tectorum populations were stored under controlled temperatures (20 or 30° C) and water potentials (400 to 40MPa). Subsamples were periodically removed from each storage treatment and incubated at 15 or …

Zonal Patterns Of Delta C-13, Delta N-15 And Po-210 In The Tropical And Subtropical North Pacific, Min Chen, Laodong Guo, Qiang Ma, Yusheng Qiu, Run Zhang, E Lv, Yipu Huang

Faculty Publications

Nitrogen fixation process may supply a significant fraction of bioavailable nitrogen to surface waters, increase the oceanic sequestration of atmospheric CO2, and alter the distribution of geochemical parameters. We report a zonal pattern of delta N-15 and delta C-13 in particulate organic matter (POM), and ratios of particulate Po-210 to dissolved Po-210 along a transect through the subtropical and tropical North Pacific. Both N-15 and Po-210 signals indicated an enhanced N-2 fixation in the northwestern subtropical North Pacific. The eastward decrease of N-2 fixation along this transect testified the role of aeolian Fe and P in controlling marine N-2 fixation. …

Regulation Of Cytoplasmic Dynein Atpase By Lis1, Mariano T. Mesngon, Cataldo Tarricone, Sachin Hebbar, Aimee Guillotte, E. William Schmitt, Lorene Lanier, Andrea Musacchio, Stephen J. King, Deanna S. Smith

Faculty Publications

Mutations in Lis1 cause classical lissencephaly, a developmental brain abnormality characterized by defects in neuronal positioning.Over the last decade, a clear link has been forged between Lis1 and the microtubule motor cytoplasmic dynein. Substantial evidenceindicates that Lis1 functions in a highly conserved pathway with dynein to regulate neuronal migration and other motile events. Yeasttwo-hybrid studies predict that Lis1 binds directly to dynein heavy chains (Sasaki et al., 2000; Tai et al., 2002), but the mechanistic significance of this interaction is not well understood. We now report that recombinant Lis1 binds to native brain dynein and significantly increases the microtubule-stimulated enzymatic …

Adaptive Evolution Of Chloroplast Genome Structure Inferred Using A Parametric Bootstrap Approach, Liying Cui, Jim Leebens-Mack, Li-San Wang, Jijun Tang, Linda Rymarquis, David B. Stern, Claude W. Depamphilis

Faculty Publications

Background
Genome rearrangements influence gene order and configuration of gene clusters in all genomes. Most land plant chloroplast DNAs (cpDNAs) share a highly conserved gene content and with notable exceptions, a largely co-linear gene order. Conserved gene orders may reflect a slow intrinsic rate of neutral chromosomal rearrangements, or selective constraint. It is unknown to what extent observed changes in gene order are random or adaptive. We investigate the influence of natural selection on gene order in association with increased rate of chromosomal rearrangement. We use a novel parametric bootstrap approach to test if directional selection is responsible for the …

Evolution Of The Nanog Pseudogene Family In The Human And Chimpanzee Genomes, Daniel J. Fairbanks, Peter J. Maughan

Faculty Publications

The NANOG gene is expressed in mammalian embryonic stem cells where it maintains cellular pluripotency. An unusually large family of pseudogenes arose from it with one unprocessed and ten processed pseudogenes in the human genome. This article compares the NANOG gene and its pseudogenes in the human and chimpanzee genomes and derives an evolutionary history of this pseudogene family. Results: The NANOG gene and all pseudogenes except NANOGP8 are present at their expected orthologous chromosomal positions in the chimpanzee genome when compared to the human genome, indicating that their origins predate the human-chimpanzee divergence. Analysis of flanking DNA sequences demonstrates …

Parallelization Of Multicategory Support Vector Machines (Pmc- Svm) For Classifying Microarray Data, Chaoyang Zhang, Peng Li, Arun Rajendran, Youping Deng, Dequan Chen

Faculty Publications

Background: Multicategory Support Vector Machines (MC-SVM) are powerful classification systems with excellent performance in a variety of data classification problems. Since the process of generating models in traditional multicategory support vector machines for large datasets is very computationally intensive, there is a need to improve the performance using high performance computing techniques.

Results: In this paper, Parallel Multicategory Support Vector Machines (PMC-SVM) have been developed based on the sequential minimum optimization-type decomposition method for support vector machines (SMO-SVM). It was implemented in parallel using MPI and C++ libraries and executed on both shared memory supercomputer and Linux cluster …

Dynamin As A Mover And Pincher During Cell Migration And Invasion, Anne E. Kruchten, Mark A. Mcniven

Faculty Publications

The large GTPase dynamin, long known for its role in endocytosis, has most recently been implicated as a facilitator of cell migration and invasion. Recent observations link dynamin to the cycle of membrane expansion and retraction essential for cell motility. Its role in actin polymerization, membrane deformation and vesiculation, and focal adhesion dynamics are all important for this process, and the new findings provide exciting directions for studies of this ubiquitous and diverse protein family.

Allostasis, Homeostasis, And The Costs Of Physiological Adaptation, Sarah C. Coste

Faculty Publications

Sarah Coste reviews Allostasis, Homeostasis, and the Costs of Physiological Adaptation (edited by Jay Schulkin) for the Quarterly Review of Biology.

Impacts Of A Manure Composting Program On Stream Water Quality, A. Bekele, A. M.S. Mcfarland, A. J. Whisenant

Faculty Publications

In February 2001, the Texas Commission on Environmental Quality (TCEQ) adopted a Total Maximum Daily Load (TMDL) for soluble reactive phosphorus (SRP) along the North Bosque River. Within this TMDL, dairy waste application fields were identified as the major nonpoint-source contribution of nutrients. In September 2000, a manure composting program was initiated that resulted in about 500,000 metric tons of dairy manure being hauled to composting facilities and exported from the watershed through December 2004. To evaluate the impact of the manure composting program on stream water quality, storm event mean concentrations of nutrients and total suspended solids were compared …

Compatible Cubic-Foot Stem Volume And Upper-Stem Diameter Equations For Semi-Intensive Plantation Grown Loblolly Pine Trees In East Texas, Dean W. Coble, Keith Hilpp

Faculty Publications

The Max-Burkhart taper equation was used to develop compatible taper and volume equations for semi-intensive plantation grown loblolly pine (Pinus taeda L.) trees in East Texas. Semi-intensive plantations in East Texas are characterized by some form of mechanical site preparation, a burn, possibly chemical weed control, improved seedlings if planted after 1985, and, possibly, a midrotation thinning and/or fertilization. The equations in this study were compared with those of Lenhart et al. [Lenhart, J.D., T.L. Hackett, C.J. Laman, T.J. Wiswell, and J.A. Blackard. 1987. Tree content and taper functions for loblolly and slash pine trees planted on non-old field in …

The Effect Of Carbon Revenues On The Rotation And Profitability Of Loblolly Pine Plantations In East Texas, Ching Hsun Huang, Gary D. Kronrad

Faculty Publications

This study determined the profitability and financially optimal thinning and final harvest rotation of loblolly pine (Pinus taeda) managed exclusively for timber production or for dual products of timber production and carbon sequestration. The results suggest that 1) depending on landowner’s alternative rate of return, the inclusion of carbon revenues in forest management may shorten or prolong the optimal timber-carbon rotation length, compared to the optimal rotation that maximizes timber value only; 2) the effect of carbon revenues on the optimal rotation length and the percentage gain in soil expectation value is larger on low-productivity sites than on high-productivity sites, …

A New Diameter Distribution Model For Unmanaged Loblolly Pine Plantations In East Texas, Young Jin Lee, Dean W. Coble

Faculty Publications

A parameter recovery procedure for the Weibull distribution function based on four percentile equations was used to develop a diameter distribution yield prediction model for unmanaged loblolly pine (Pinus taeda L.) plantations in East Texas. This model was compared with the diameter distribution models of Lenhart and Knowe, which have been used in East Texas. All three models were evaluated with independent observed data. The model developed in this study performed better than the other two models in prediction of trees per acre and cubic-foot volume per acre (wood and bark, excluding stump) across diameter classes. Lenhart’s model consistently underestimated …

Loblolly Pine Growth Response To Mid-Rotational Treatments In An Eastern Texas Plantation, Mohammad M. Bataineh, Amanda L. Bataineh, Brian P. Oswald, Kenneth W. Farrish, Hans Michael Williams

Faculty Publications

The effects of mid-rotational treatments (herbicide, prescribed burn, combination of herbicide and burn, and fertilization) on growth of loblolly pine were evaluated. Five replicates were established in a split-plot experimental design with fertilizer treatments as the whole-plot factor and competition control treatments as the sub-plot factor. Growth response was measured (as change in diameter, total height, and volume) at 8 months and again 4 years after treatments were applied. Mid-rotational treatments failed to enhance diameter, height, and volume growth of loblolly pine. However, a small positive response of diameter growth to fertilization was detected. Height growth was not significantly affected …

Tip Moth Control And Loblolly Pine Growth In Intensive Pine Culture: Four Year Results, David Kulhavy, Jimmie L. Yeiser, L. Allen Smith

Faculty Publications

Twenty-two treatments replicated four times were applied to planted loblolly pine, Pinus taeda L., on bedded industrial forest land in east Texas for measurement of growth impact of Nantucket pine tip moth (NPTM), Rhyacionia frustrana Comstock, and effects on pine growth over 2 years. Treatments were combinations of Velpar®, Oust®, Escort®, and Arsenal® herbicides; and diammonium phosphate (DAP) fertilizer with treatments in 2000, in 2001, or in both years. Ten of the treatments were treated with Mimic timed with pheromone traps to reduce NPTM infestations. NPTM was controlled with the Mimic, and there was a small but significant increase in …

Use Of A Generalized Sigmoid Growth Function To Predict Site Index For Unmanaged Loblolly And Slash Pine Plantations In East Texas, Dean W. Coble, Young-Jin Lee

Faculty Publications

A generalized sigmoid growth function was used in this study to model site index (SI) for unmanaged or lowintensity managed loblolly pine (Pinus taeda, L.) and slash pine (Pinus elliottii, Engelm.) plantations in east Texas. Schnute's growth function was fit to 11 ,367 and 5,040 height-age observations of loblolly and slash pine, respectively. These data were collected over a 20-year period from unmanaged pine plantations located across the east Texas region as a part of the East Texas Pine Plantation Research Project (ETPPRP). The fit model was used to derive Sl equations (25-year index age). The Sl equations apply to …

Effects Of Flooding Regime, Mycorrhizal Inoculation And Seddling Treatment Type On First-Year Survival Of Nuttall Oak (Quercus Nuttallii Palmer), Hans Michael Williams, Virginia Burkett

Faculty Publications

Three different types of Nuttall oak ( Quercus nuttallii Palmer) seedlings were planted on floodprone, former cropland in Mississippi, Louisiana, and Texas. The three types of 1+0 seedlings planted at each site in January and February of 1995 were bareroot seedlings, seedlings grown in 164 square centimeters plastic containers, and containergrown seedlings inoculated with vegetative mycelia of Pisolithus tinctorious (Pers.) Coker and Couch. Seedlings at the Mississippi site were planted in a split-plot design at three different elevations, which provided three different natural flooding treatments. Seedlings at the other two sites were planted in a Latin square design at a …

Effects Of Sower Type And Seedbed Density On Bareroot Seedling Morphology And Early Field Performance Of An East Texas Family Of Loblolly Pine, Hans Michael Williams, Tim Stewart

Faculty Publications

Precision sowing is commonly used at forest tree nurseries in order to improve the growing space uniformity of seedlings in the beds. Temple-Inland Forest Products Corporation recently purchased a vacuum sower and requested a study be conducted comparing their new sower with a drill sower on the morphological characteristics of loblolly pine (Pinus taeda L.) at lifting. The study was conducted in 2000 and repeated in 2001. The seed were sown using the two sower types to achieve four densities of 161 , 215, 269, and 323 seedlings/m2• Two half-sibling families were tested in 2000, and one halfsibling family was …

Characteristics Of Bark Beetle Infestations In East Texas During A Period Of Low Southern Pine Beetle Activity, David L. Kulhavy

Faculty Publications

The species composition nf southern pine bark beetle infestations was examined in east Texas in 1979, A total of 545 infestations were located in thirteen 18,000 acresurvey blocks. Ips spp, were observed in 98.9 of ihe infestations, with black turpentine beetles, Dendrnclonus lerebrans Olivier, present in 42.4 % ofthe infestations. Southern pine beetles, D. fronlulis Zimmemiann. were only observed in 11 infestations (2.0%), and were less abundant than other bark beetle species in these infestations. Almost 80% of the infestations were associated with a recognizable pre-disposing factor (lightning, fire, etc.). Most Infestations were small (less than six trees), though infestations …

Genetic Variation Among Gravid Female American Woodcock In Eastern Texas During Winter (Abstract), R. Montaque Whiting Jr., Christopher E. Comer

Faculty Publications

No abstract provided.

Spatial Autocorrelation And Pseudoreplication In Fire Ecology, Amanda L. Bataineh, Brian P. Oswald, Mohammad M. Bataineh, Daniel Unger, I-Kuai Hung, Daniel Scognamillo

Faculty Publications

Fire ecologists face many challenges regarding the statistical analyses of their studies. Hurlbert (1984) brought the problem of pseudoreplication to the scientific community’s attention in the mid 1980’s. Now, there is a new issue in the form of spatial autocorrelation. Spatial autocorrelation, if present, violates the traditional statistical assumption of observational independence. What, if anything, can the fire ecology community do about this new problem? An understanding of spatial autocorrelation, and knowledge of available methods used to reduce the effect of spatial autocorrelation and pseudoreplication will greatly assist fire ecology researchers.

Population Trends Of Red-Cockaded Woodpeckers In Texas, Richard N. Conner, Daniel Saenz, D. Craig Rudolph

Faculty Publications

We tracked population trends of Red-cockaded Woodpeckers (Picoides borealis) in eastern Texas from 1983 through 2004. After declining precipitously during the 1980s, woodpecker population trends on federal lands (National Forests and Grasslands in Texas, but excluding the Big Thicket National Preserve) increased between 1990 and 2000, and have been stable to slightly decreasing over the past four years. Litigation against the U.S. Forest Service in the mid 1980s reversed a severe population decline, whereas litigation during the past 8 years hampered recovery efforts for the Red-cockaded Woodpecker. Red-cockaded Woodpecker populations on private and State of Texas lands have steadily declined …

The Effects Of Sower And Bed Density On Bareroot Loblolly Pine Seedling Morphology And Early Height Growth, Hans M. Williams, Tim Stewart

Faculty Publications

Precision sowing is commonly used at forest tree nurseries in order to improve the growing space uniformity of seedlings in the beds. Temple-Inland Forest Products Corporation recently purchased a vacuum sower and requested a study be conducted comparing their new sower with a drill sower on the morphological characteristics of loblolly pine (Pinus taeda L.) at lifting. The study was conducted in 2000 and repeated in 2001. The seed were sown using the two sower types to achieve four densities of 161, 215, 269, and 323 seedlings/m2. Two half-sibling families were tested in 2000, and one halfsibling family was …