Digital Commons Network^™

Functional Genomics Of Carboxyltransferase, Nathan R. Ranney

Honors Capstones

No abstract provided.

The Glucose And Insulin Responsiveness Of The Rat Glucose-6-Phosphate Dehydrogenase Promoter, Daryl Arkwright-Keeler

Dissertations

The regulation of expression of some enzymes involved in glucose homeostasis and fat metabolism requires both insulin and glucose to elicit an effect, while the regulation of others requires only one. Glucose-6-phosphate dehydrogenase (G6PDH), an important enzyme involved in glucose homeostasis, has been shown to be transcriptionally regulated by carbohydrate feeding in rat liver, a diet regime that increases the levels of both glucose and insulin. Our lab had previously shown that insulin induces expression of G6PDH, thus we wanted to determine if glucose also induced G6PDH expression and if so, are the glucose and insulin responses mediated through identical …

A Taxonomic Study Of The Lichen Genera Canomaculina, Canoparmelia And Rimelia In The Great Smoky Mountain National Park, Erin Boente '05

Honors Projects

The 1997 National Park Service checklist of lichen species in the Great Smoky Mountains National Park (GSMNP) included only two Rimelia species (R. reticulata and R. subisidiosa), two Canoparmelia species (C caroliniana and C crozalsiana) and one Canomaculina species (as Rimeliella subtinctorium). Previous field and laboratory work by Jonathan Dey, often with Illinois Wesleyan University undergraduate student assistants, pointed to the presence of additional species of Rimelia in the GSMNP. Thus, we examined all specimens of Rimelia, Canoparmelia and Canomaculina previously collected in the GSMNP and deposited in the lichen herbarium at Illinois Wesleyan University in order to update the …

An Autonomous Vehicle Approach For Quantifying Bioluminescence In Ports And Harbors, Mark A. Moline, Paul Bissett, Shelley Blackwell, James Mueller, Jeff Sevadjian, Charles Trees, Ron Zaneveld

Biological Sciences

Bioluminescence emitted from marine organisms upon mechanical stimulation is an obvious military interest, as it provides a low-tech method of identifying surface and subsurface vehicles and swimmer tracks. Clearly, the development of a passive method of identifying hostile ships, submarines, and swimmers, as well as the development of strategies to reduce the risk of detection by hostile forces is relevant to Naval operations and homeland security. The measurement of bioluminescence in coastal waters has only recently received attention as the platforms and sensors were not scaled for the inherent small-scale nature of nearshore environments. In addition to marine forcing, many …

Monitoring Water Transparency And Diver Visibility In Ports And Harbors Using Aircraft Hyperspectral Remote Sensing, Charles C. Trees, Paul W. Bissett, Heidi Dierssen, David D.R. Kohler, Mark A. Moline, James L. Mueller, Richard E. Pieper, Michael S. Twardowski, J. Ronald V. Zaneveld

Biological Sciences

Diver visibility analyses and predictions, and water transparency in general, are of significant military and commercial interest. This is especially true in our current state, where ports and harbors are vulnerable to terrorist attacks from a variety of platforms both on and below the water (swimmers, divers, AUVs, ships, submarines, etc.). Aircraft hyperspectral imagery has been previously used successfully to classify coastal bottom types and map bathymetry and it is time to transition this observational tool to harbor and port security. Hyperspectral imagery is ideally suited for monitoring small-scale features and processes in these optically complex waters, because of its …

Targeting Of Arf-1 To The Early Golgi By Membrin, An Er-Golgi Snare, Akira Honda, Omayma S. Al-Awar, Jesse C. Hay, Julie G. Donaldson

Biological Sciences Faculty Publications

Arf and Rab family GTPases regulate membrane traffic in cells, yet little is known about how they are targeted to distinct organelles. To identify sequences in Arf-1 necessary for Golgi targeting, we examined the localization of chimeras between Arf-1 and Arf-6. Here, we identify a 16-amino acid sequence in Arf-1 that specifies Golgi targeting and contains a motif (MXXE) that is important for Arf-1 binding to membrin, an ER-Golgi SNARE protein. The MXXE motif is conserved in all Arfs known to localize to the Golgi and enables Arf-1 to localize to the early Golgi. Arf-1 lacking these 16 aa can …

Phylogenetic Relationship Of Forest Spiny Pocket Mice (Genus Heteromys) Inferred From Mitochondrial And Nuclear Markers With Implications For Species Boundaries, Malinda Wallentine Gonzalez

Theses and Dissertations

I constructed a best estimate phylogeny based on congruence of multiple data sources. In recent years molecular data has been used both to construct phylogenies of taxonomic groups and to aid in the delimitation of new species. I generated and analyzed sequence data for forest spiny pocket mice (Genus Heteromys) for the mitochondrial gene cyt b (1143 bp) and two nuclear gene segments MYH2 (252 bp) and EN2 (189 bp). I used maximum parsimony and Bayesian analyses to infer relationships among species and to provide a framework for using a species delimitation method to investigate the possibility of multiple …

A Multidisciplinary Comparison Of Rules-Driven Writing: Similarities In Legal Writing, Biology Research Articles, And Computer Programming, Karen L. Koch

Journal of Legal Education

No abstract provided.

Complete Genome Sequence Of The Probiotic Lactic Acid Bacterium Lactobacillus Acidophilus Ncfm, Eric Altermann, W. Michael Russell, M. Andrea Azcarate- Peril, Rodolphe Barrangou, B. Logan Buck, Olivia Mcauliffe, Nicole Souther, Alleson Dobson, Tri Duong, Michael Callanan, Sonja Lick, Alice Hamrick, Raul J. Cano, Todd R. Klaenhammer

Biological Sciences

Lactobacillus acidophilus NCFM is a probiotic bacterium that has been produced commercially since 1972. The complete genome is 1,993,564 nt and devoid of plasmids. The average GC content is 34.71% with 1,864 predicted ORFs, of which 72.5% were functionally classified. Nine phage-related integrases were predicted, but no complete prophages were found. However, three unique regions designated as potential autonomous units (PAUs) were identified. These units resemble a unique structure and bear characteristics of both plasmids and phages. Analysis of the three PAUs revealed the presence of two R/M systems and a prophage maintenance system killer protein. A spacers interspersed direct …

Vegetation Response Of A Wyoming Big Sagebrush (Artemisia Tridentata Ssp. Wyomingensis) Community To 6 Mechanical Treatments In Rich County, Utah, Daniel David Summers

Theses and Dissertations

In recent years, the importance of sagebrush to shrub-steppe ecosystems and associated plant and animal species has been recognized. The historical removal of herbaceous species by excessive and uncontrolled livestock grazing on many of our sagebrush ecosystems has resulted in a stagnant state where dense, competitive stands of sagebrush prevent herbaceous species from recovering. Most early research on sagebrush control was directed toward eradication to increase herbaceous forage for livestock production, rather than sagebrush thinning to improve shrub vigor and understory production for wildlife habitat and community diversity. Mechanical treatments have the ability to retain shrub and herbaceous components, while …

The Relationship Between Pelagic Larval Duration And Range Size In Tropical Reef Fishes: A Synthetic Analysis, Sarah E. Lester, Benjamin I. Ruttenberg

Biological Sciences

We address the conflict in earlier results regarding the relationship between dispersal potential and range size. We examine all published pelagic larval duration data for tropical reef fishes. Larval duration is a convenient surrogate for dispersal potential in marine species that are sedentary as adults and that therefore only experience significant dispersal during their larval phase. Such extensive quantitative dispersal data are only available for fishes and thus we use a unique dataset to examine the relationship between dispersal potential and range size. We find that dispersal potential and range size are positively correlated only in the largest ocean basin, …

Phylogenetic History, Morphological Parallelism, And Speciation In A Complex Of Appalachian Salamanders (Genus: Desmognathus), Nathan D. Jackson

Theses and Dissertations

Understanding the mechanisms that generate shared morphologies across closely related taxa is important when identifying distinct evolutionary lineages using morphological characters. Desmognathus salamanders are an ideal group for testing hypotheses concerning the correlation between morphological similarity and genetic exchange within and among nominal species due to a pattern of high discordance between the two. Phylogeographic hypotheses are tested for populations of the D. quadramaculatus species complex throughout southern Appalachia by combining phylogenetic and population genetic methods with geographical information. Phylogenetic and phylogeographic inferences are then assessed in conjunction with morphological characteristics that have traditionally diagnosed taxonomic entities to understand the …

Investigations Of Migratory Bull Trout (Salvelinus Confluentus) In Relation To Fish Passage At Albeni Falls Dam, Allan T. Scholz, Holly J. Mclellan, David R. Geist, Richard S. Brown, United States Department Of The Army Corps Of Engineers, Seattle District, Eastern Washington University

Biology Faculty Publications

Final report prepared for the United States Department of the Army Corps of Engineers, Seattle District. Contract No. DACW68-02-D-001

Extrapair Fertilization And Genetic Similarity Of Social Mates In The Mexican Jay, John Eimes, Patricia Parker, Jerram Brown, Esther Brown

Biology Department Faculty Works

Inbreeding depression should favor the ability of females to avoid inbreeding or minimize its effects. We tested for a relationship between genetic similarity of social pairs and the occurrence of extrapair fertilization (EPF) in the Mexican jay (Aphelocoma ultramarina). Multilocus minisatellite and microsatellite DNA fingerprinting was used to detect extrapair young and measure genetic similarity between social parents. We found that 12 of 31 (39%) nests had at least one EPF and 15 of 93 (16%) young were the result of EPF. The mean DNA fingerprinting band sharing score between social mates who had at least one EPF was significantly …

Fitness Correlates Of Song Repertoire Size In Free-Living Song Sparrows (Melospiza Melodia), J. M. Reid, P. Arcese, A. L. E. V. Cassidy, Sara Hiebert Burch, J. N.M. Smith, P. K. Stoddard, A. B. Marr, L. F. Keller

Biology Faculty Works

Models of sexual selection propose that exaggerated secondary sexual ornaments indicate a male's own fitness and the fitness of his offspring. These hypotheses have rarely been thoroughly tested in free-living individuals because overall fitness, as opposed to fitness components, is difficult to measure. We used 20 years of data from song sparrows ( Melospiza melodia) inhabiting Mandarte Island, British Columbia, Canada, to test whether a male's song repertoire size, a secondary sexual trait, predicted overall measures of male or offspring fitness. Males with larger song repertoires contributed more independent and recruited offspring, and independent and recruited grandoffspring, to Mandarte's population. …

Writing The Future: Progress And Evolution, Michael Dietrich

Dartmouth Scholarship

Review of Writing the Future: Progress and Evolution edited by David Rothenberg and Wandee J Pryor, 2004.

Law And Behavioral Biology, Owen D. Jones, Timothy H. Goldsmith

Vanderbilt Law School Faculty Publications

Society uses law to encourage people to behave differently than they would behave in the absence of law. This fundamental purpose makes law highly dependent on sound understandings of the multiple causes of human behavior. The better those understandings, the better law can achieve social goals with legal tools. In this Article, Professors Jones and Goldsmith argue that many long held understandings about where behavior comes from are rapidly obsolescing as a consequence of developments in the various fields constituting behavioral biology. By helping to refine law's understandings of behavior's causes, they argue, behavioral biology can help to improve law's …

Structural Basis For The Inhibition Of Mammalian Membrane Adenylyl Cyclase By 2 '(3')-O-(N-Methylanthraniloyl)-Guanosine 5 '-Triphosphate, Tung-Chung Mou, Andreas Gille, David A. Fancy, Roland Seifert, Stephen R. Sprang

Biological Sciences Faculty Publications

Membrane-bound mammalian adenylyl cyclase (mAC) catalyzes the synthesis of intracellular cyclic AMP from ATP and is activated by stimulatory G protein alpha subunits (Galpha(s)) and by forskolin (FSK). mACs are inhibited with high potency by 2 '(3')-O-(N-methylanthraniloyl) (MANT)-substituted nucleotides. In this study, the crystal structures of the complex between Galpha(s).GTPgammaS and the catalytic C1 and C2 domains from type V and type II mAC (VC1.IIC2), bound to FSK and either MANT-GTP.Mg(2+) or MANT-GTP.Mn(2+) have been determined. MANT-GTP coordinates two metal ions and occupies the same position in the catalytic site as P-site inhibitors and substrate analogs. However, the orientation of …

Origin Of Asymmetry In Adenylyl Cyclases: Structures Of Mycobacterium Tuberculosis Rv1900c, Sangita C. Sinha, Martina Wetterer, Stephen R. Sprang, Joachim E. Schultz, Jürgen U. Linder

Biological Sciences Faculty Publications

Rv1900c, a Mycobacterium tuberculosis adenylyl cyclase, is composed of an N-terminal alpha/beta-hydrolase domain and a C-terminal cyclase homology domain. It has an unusual 7% guanylyl cyclase side-activity. A canonical substrate-defining lysine and a catalytic asparagine indispensable for mammalian adenylyl cyclase activity correspond to N342 and H402 in Rv1900c. Mutagenic analysis indicates that these residues are dispensable for activity of Rv1900c. Structures of the cyclase homology domain, solved to 2.4 A both with and without an ATP analog, form isologous, but asymmetric homodimers. The noncanonical N342 and H402 do not interact with the substrate. Subunits of the unliganded open dimer move …

Consequences Of The Historical Demography On The Global Population Structure Of Two Highly Migratory Cosmopolitan Marine Fishes: The Yellowfin Tuna (Thunnus Albacares) And The Skipjack Tuna (Katsuwonus Pelamis), Bert Ely, Jordi Viñas, Jaime R. Alvarado Bremer, Donna Black, Luciano Lucas, Kelly Covello, Alexis V. Labrie, Eric Thelen

Faculty Publications

Background

Yellowfin and skipjack tuna are globally distributed in the world's tropical and sub-tropical oceans. Since little, if any, migration of these fishes occurs between the Atlantic and Indo-Pacific Oceans, one might expect to see genetic differences between sub-populations in these ocean basins. However, yellowfin and skipjack tuna have extremely large population sizes. Thus, the rate of genetic drift should be slower than that observed for other tunas.

Results

Low levels of genetic differentiation were observed between Atlantic and Pacific samples of yellowfin tuna. In contrast, no genetic differentiation was observed between Atlantic and Pacific samples of skipjack tuna.

Conclusion …

From The Cover: Assignment Of An Essential Role For The Neurospora Frequency Gene In Circadian Entrainment To Temperature Cycles, Antonio M. Pregueiro, Nathan Price-Lloyd, Deborah Bell-Pedersen, Christian Heintzen, Jennifer J. Loros, Jay C. Dunlap

Dartmouth Scholarship

Circadian systems include slave oscillators and central pacemakers, and the cores of eukaryotic circadian clocks described to date are composed of transcription and translation feedback loops (TTFLs). In the model system Neurospora, normal circadian rhythmicity requires a TTFL in which a White Collar complex (WCC) activates expression of the frequency (frq) gene, and the FRQ protein feeds back to attenuate that activation. To further test the centrality of this TTFL to the circadian mechanism in Neurospora, we used low-amplitude temperature cycles to compare WT and frq-null strains under conditions in which a banding rhythm was elicited. WT cultures were entrained …

Two Crystal Structures Of Dihydrofolate Reductase-Thymidylate Synthase From Cryptosporidium Hominis Reveal Protein–Ligand Interactions Including A Structural Basis For Observed Antifolate Resistance, Amy C. Anderson

Dartmouth Scholarship

Cryptosporidium hominis is a protozoan parasite that causes acute gastro- intestinal illness. There are no effective therapies for cryptosporidiosis, highlighting the need for new drug-lead discovery. An analysis of the protein ligand interactions in two crystal structures of dihydrofolate reductase- thymidylate synthase 􏰀DHFR-TS) from C. hominis, determined at 2.8 and 2.87 AÊ resolution, reveals that the interactions of residues Ile29, Thr58 and Cys113 in the active site of C. hominis DHFR provide a possible structural basis for the observed antifolate resistance. A comparison with the structure of human DHFR reveals active-site differences that may be exploited for the design of …

Relationship Among Genes Conferring Partial Resistance To Leaf Rust (Puccinia Triticina) In Wheat Lines Ci 13227 And L-574-1., Jeffery S. Lehman, Karin A. Hanson, Gregory Shaner

Biology and Earth Science Faculty Scholarship

This study describes the segregation of genes for resistance to the fungus Puccinia triticinain a cross between partially resistant wheat lines L-574-1 and CI 13227 with two and four genes for resistance, respectively. The objectives of this study were to use parental, F1, F2, and backcross populations to quantify maternal effects, degree of dominance, and transgressive segregation, and to determine whether CI 13227 and L-574-1 share any resistance genes for long latent period or small uredinia. In two experiments conducted in the greenhouse, the uppermost leaf of adult wheat plants was inoculated prior to heading with P. triticina. On days …

Opinion: Avian Brains And A New Understanding Of Vertebrate Brain Evolution, Gerald E. Hough, The Avian Brain Nomenclature Consortium

College of Science & Mathematics Departmental Research

We believe that names have a powerful influence on the experiments we do and the way in which we think. For this reason, and in the light of new evidence about the function and evolution of the vertebrate brain, an international consortium of neuroscientists has reconsidered the traditional, 100-year-old terminology that is used to describe the avian cerebrum. Our current understanding of the avian brain — in particular the neocortex-like cognitive functions of the avian pallium — requires a new terminology that better reflects these functions and the homologies between avian and mammalian brains.

Hybrid Xerogel Films As Novel Coatings For Antifouling And Fouling Release, Ying Tang, John A. Finlay, Gregory L. Kowalke, Anne E. Meyer, Frank V. Bright, Maureen E. Callow, James A. Callow, Dean E. Wendt, Michael R. Detty

Biological Sciences

Hybrid sol-gel-derived xerogel films prepared from 45/55 (mol ratio) n-propyltrimethoxysilane (C3-TMOS)/tetramethylorthosilane (TMOS), 2/98 (mol ratio) bis[3-(trimethoxysilyl)propyl]-ethylenediamine (enTMOS)/tetraethylorthosilane (TEOS), 50/50 (mol ratio) n-octyltriethoxysilane (C8-TEOS)/TMOS, and 50/50 (mol ratio) 3,3,3-trifluoropropyltrimethoxysilane (TFP-TMOS)/TMOS were found to inhibit settlement of zoospores of the marine fouling alga Ulva (syn. Enteromorpha) relative to settlement on acid-washed glass and give greater release of settled zoospores relative to glass upon exposure to pressure from a water jet. The more hydrophobic 50/50 C8-TEOS/TMOS xerogel films had the lowest critical surface tension by comprehensive contact angle analysis and gave significantly greater release of 8-day Ulva sporeling biomass after exposure to …

Structure Of The P115rhogef Rgrgs Domain-Galpha13/I1 Chimera Complex Suggests Convergent Evolution Of A Gtpase Activator, Zhe Chen, William D. Singer, Paul C. Sternweis, Stephen R. Sprang

Biological Sciences Faculty Publications

p115RhoGEF, a guanine nucleotide exchange factor (GEF) for Rho GTPase, is also a GTPase-activating protein (GAP) for G12 and G13 heterotrimeric Galpha subunits. The GAP function of p115RhoGEF resides within the N-terminal region of p115RhoGEF (the rgRGS domain), which includes a module that is structurally similar to RGS (regulators of G-protein signaling) domains. We present here the crystal structure of the rgRGS domain of p115RhoGEF in complex with a chimera of Galpha13 and Galphai1. Two distinct surfaces of rgRGS interact with Galpha. The N-terminal betaN-alphaN hairpin of rgRGS, rather than its RGS module, forms intimate contacts with the catalytic site …

Connecting Branches To Student Activities, Amy Cheng Vollmer

Biology Faculty Works

No abstract provided.

Mechanisms For The Environmental Regulation Of Gene Expression: Ecological Aspects Of Animal Development, Scott F. Gilbert

Biology Faculty Works

The environment can play a significant role in the production of phenotypes. However, the developmental mechanisms by which the environmental agents effect normal development are Just becoming known. At least three paths have been found through which the environment can modify gene activity. The first is the neuroendocrine route. Here, the nervous system monitors the environment and transfers signals to the endocrine system. The endocrine hormones can then alter gene expression. The second route involves environmental factors that change the methylation pattern of genes, thereby altering their transcriptional capabilities. The third route involves the direct induction of gene expression in …

Assessment Of Biogeochemical Deposits In Landfill Drainage Systems, Audrey D. Levine, Valerie J. Harwood, Antonio J. Cardoso, Lisa R. Rhea, Bina S. Nayak, Barbara M. Dodge, Mindy L. Decker, George Dzama, Lawrence Jones, Edward Haller

Integrative Biology Faculty and Staff Publications

Design, operation, and closure practices for Class I municipal solid waste (MSW) landfills are based on RCRA Subtitle D requirements for control of leachates and gases generated during the life of the landfill. Because leachate is generated as a result of water percolating through the landfill and waste consolidation, it contains dissolved and suspended materials that reflect the characteristics of the material it contacts. Over the past two decades significant changes have occurred in the characteristics of the waste streams that are disposed in landfills. In addition, many Florida municipalities have implemented Waste-to-Energy (WTE) systems. The WTE ash is either …

Phylogenetic Reconstruction Of Exoristinae Using Molecular Data: A Bayesian Re-Analysis, John O. Stireman Iii

Biological Sciences Faculty Publications

A few years ago I published the results of a phylogenetic analysis of New World Exoristinae based on molecular data from two genes, 28S rDNA and Elongation Factor 1-alpha (Stireman 2002). In that study I employed parsimony, neighbor joining, and maximum likelihood inference methods to generate phylogenetic reconstructions, and explored a variety of weighting schemes and combinations of the sequence data (i.e. each gene separately and both together). The results of these analyses generally supported recent taxonomic hypotheses (e.g., Herting 1984; Wood 1987; O’Hara and Wood 2004). For example, Tachinidae and Exoristinae were reconstructed as monophyletic in most analyses, as …