Digital Commons Network^™

Coywolf, Canis Latrans × Lycaon, Pack Density Doubles Following The Death Of A Resident Territorial Male, Eric Strauss

Biology Faculty Works

We studied a subset of four radio-collared individuals that were a part of a larger study documenting Coywolf (Canis latrans × lycaon; Eastern Coyote) ecology in an urbanized landscape (Cape Cod, Massachusetts), and report on the territory of a typical sized pack that was subdivided roughly in half following the death of the breeding male from the original (" Centerville") pack. The original residents lived in a winter pack size (i.e., after pup/juvenile dispersal) of three or four individuals in a 19.66 km territory and a density of 0.15-0.20 individuals/km , as determined by radio-tracking and direct observations, with their …

An Algorithm For Identifying Novel Targets Of Transcription Factor Families: Application To Hypoxia-Inducible Factor 1 Targets, Yue Jiang, Bojan Cukic, Donald A. Adjeroh, Heath D. Skinner, Jie Lin, Qingxi J. Shen, Bing-Hua Jiang

Electrical & Computer Engineering Faculty Research

Efficient and effective analysis of the growing genomic databases requires the development of adequate computational tools. We introduce a fast method based on the suffix tree data structure for predicting novel targets of hypoxia-inducible factor 1 (HIF-1) from huge genome databases. The suffix tree data structure has two powerful applications here: one is to extract unknown patterns from multiple strings/sequences in linear time; the other is to search multiple strings/sequences using multiple patterns in linear time. Using 15 known HIF-1 target gene sequences as a training set, we extracted 105 common patterns that all occur in the 15 training genes …

The Influence Of Fallback Foods On Great Ape Tooth Enamel, Paul J. Constantino, Peter W. Lucas, James J.-W. Lee, Brian R. Lawn

Biological Sciences Faculty Research

Lucas and colleagues recently proposed a model based on fracture and deformation concepts to describe how mammalian tooth enamel may be adapted to the mechanical demands of diet (Lucas et al.: Bioessays 30[2008] 374-385). Here we review the applicability of that model by examining existing data on the food mechanical properties and enamel morphology of great apes (Pan, Pongo, and Gorilla). Particular attention is paid to whether the consumption of fallback foods is likely to play a key role in influencing great ape enamel morphology. Our results suggest that this is indeed the case. We also consider the implications of …

Freshwater Crabs And The Biodiversity Crisis: Importance, Threats, Status, And Conservation Challenges, Neil Cumberlidge, Peter Kl Ng, Darren Cj Yeo, Celio Magalhães, Martha R. Campos, Fernando Alvarez, Tohru Naruse, Savel R. Daniels, Lara J. Esser, Felix Yk Attipoe, France-Lyse Clotilde-Ba, William Darwall, Anna Mcivor, Jonathan Em Baillie, Ben Collen, Mala Ram

Journal Articles

No abstract provided.

How Do Animal Mitochondria Tolerate Water Stress?, Michael Menze, Steven Hand

Faculty and Staff Scholarship

The vast majority of animal species do not tolerate severe water stress, but the encysted embryo of the brine shrimp Artemia franciscana is an exceptionally useful organism to investigate physiological mechanisms for enduring extreme environmental insults. Any substantial reduction in cellular water poses a threat to survival. Nevertheless anhydrobiotic animals survive virtually complete loss of cellular water. The mechanisms that govern “life without water” (anhydrobiosis) are still not well understood. With certain exceptions, it seems that a recurring strategy for tolerating severe water loss involves the accumulation of both low molecular weight solutes (e.g. trehalose or other polyol) and highly …

The Effect Of Zinc On L-Leucine Transport In Lobster Intestine, Anna Lynn Mullins

UNF Graduate Theses and Dissertations

The current study is a characterization of L-leucine absorption across the American lobster intestine in order to determine the likelihood of a bis-complex formation with zinc ([Leu]-Zn-[Leu]) as a possible substrate for PEPT1. This study required isolated lobster intestines to be mounted in a perfusion chamber in order to quantify 3H-L-leucine transport. It was hypothesized that an apical dipeptide transporter, PEPT1, was responsible for uptake of L-leucine via formation of a bis-complex with zinc ([Leu]-Zn-[Leu]) in the form of molecular mimicry, where the bis-complex mimics the normal dipeptide substrate of the proposed carrier system. It was found that L-leucine transport …

Changes In A Tropical Forest Support Metabolic Zero-Sum Dynamics, S.K. Morgan Ernest, Ethan P. White, J. H. Brown

Biology Faculty Publications

Major shifts in many ecosystem-level properties of tropical forests have been observed, but the processes driving these changes are poorly understood. Over the past two decades, the forest on Barro Colorado Island, Panama (BCI) exhibited a 20% decrease in the number of trees and a 10% increase in average tree diameter. Here we show that these changes are consistent with a zero-sum constraint operating in this forest. Zero-sum constraints result when the total resource use of an ecosystem is limited by available resources. This causes increases in resource use by some groups of organisms to be compensated for by decreases …

Selective Herbivory By The Woodrat (Neotoma Lepida) On Joshua Trees (Yucca Brevifolia), M P. Stanford, Nancy J. Huntly

Biology Faculty Publications

We studied herbivory by the desert woodrat (Neotoma lepida) on Joshua trees (Yucca brevifolia) in the Mojave Desert to determine whether N. lepida fed selectively based on leaf nitrogen content. We measured leaf nitrogen content and the location and amount of herbivory by woodrats on Y. brevifolia trees in southwestern Utah, USA. Neotoma lepida removed the outer tips of leaves (1/3 to 2/3 of total leaf length) but left leaf bases, which had lower nitrogen content, uneaten. Herbivory by N. lepida also was concentrated on rosettes that were oriented south, and these had significantly higher nitrogen content than rosettes that …

An Introduction To The Biocomplexity Of Sanak Island, Western Gulf Alaska, Hd G. Maschner, M Betts, J Cornell, B Finney, J A. Dunne, Nancy J. Huntly, J W. Jordan, N Misarti, K L. Reedy-Maschner, R Russell

Biology Faculty Publications

The Sanak Biocomplexity Project is a transdisciplinary research effort focused on a small island archipelago 50 km south of the Alaska Peninsula in the western Gulf of Alaska. This team of archaeologists, terrestrial ecologists, social anthropologists, intertidal ecologists, geologists, oceanographers, paleoecologists, and modelers is seeking to understanding the role of the ancient, historic, and modern Aleut in the structure and functioning of local and regional ecosystems. Using techniques ranging from systematic surveys to stable isotope chemistry, long-term shifts in social dynamics and ecosystem structure are present in the context of changing climatic regimes and human impacts. This paper presents a …

The Taxonomic Designation Of Eriogonum Corymbosum Var. Nilesii (Polygonaceae) Is Supported By Aflp And Cpdna Analyses, M. W. Ellis, J. M. Roper, R. Gainer, J. P. Der, Paul G. Wolf

Biology Faculty Publications

We examined populations of perennial, shrubby buckwheats in the Eriogonum corymbosum complex and related Eriogonum species in the subgenus Eucycla, to assess genetic affiliations of the recently named E. corymbosum var. nilesii. The known populations of this varietyare all located in Clark County, Nevada, U. S. A. We compared AFLP profiles and chloroplast DNA sequences of plants sampled from populations of E. corymbosum var. nilesii with those of plants representing other E. corymbosum varieties and related Eriogonum species from Colorado,Utah, northern Arizona, and northern New Mexico. We found evidence of genetic cohesion among the Clark County populations as well astheir …

Global Chloroplast Phylogeny And Biogeography Of Bracken (Pteridium: Dennstaedtiaceae), J. P. Der, J. A. Thomson, J. K. Stratford, Paul G. Wolf

Biology Faculty Publications

Bracken ferns (genus Pteridium) represent an ancient species complex with a natural worldwide distribution. Pteridium has historically been treated as comprising a single species, but recent treatments have recognized several related species. Phenotypic plasticity, geographically structured morphological variation, and geographically biased sampling have all contributed to taxonomic confusion in the genus. We sampled bracken specimens worldwide and used variable regions of the chloroplast genome to investigate phylogeography and reticulate evolution within the genus. Our results distinguish two major clades within Pteridium, a primarily northern hemisphere Laurasian/African clade, which includes all taxa currently assigned to P. aquilinum, and a primarily southern …

Conservation Of Selection On Matk Following An Ancient Loss Of Its Flanking Intron, A. M. Duffy, S. A. Kelchner, Paul G. Wolf

Biology Faculty Publications

The chloroplast gene trnK and its associated group II intron appear to be absent in a large and ancient clade that includes nearly 90% of fern species. However, the maturase protein encoded within the intron (matK) is still present and located on the boundary of a large-scale inversion. We surveyed the chloroplast genome sequence of clade-member Adiantum capillus-veneris for evidence of a still present but fragmented trnK intron. Lack of signature structural domains and sequence motifs in the genome indicate loss of the trnK intron through degradation in an ancestor of the clade. In plants, matK preferentially catalyzes splicing of …

Differences In Nitrate Uptakeamong Benthic Algal Assemblages In A Mountain Stream, Michelle A. Baker, G. De Guzman

Biology Faculty Publications

We evaluated how benthic algal assemblages that vary in composition, richness, and other diversity metrics remove NO 3 -N from the water column of a mountain stream. Ecological theory and empirical studies suggest that ecosystem process rates should increase as richness increases because of niche separation or activity of dominant taxa. Accordingly, we predicted that algal assemblages with highest richness would show the highest rates of NO 3 -N uptake. To test this prediction, we transplanted 225 rocks representing 3 patch types (green, yellow, and brown) that differed macroscopically in algal composition from a lake outflow stream to a lake …

Comparison Of The Compositional Proclivities Of The Complete Genomes Of Plasmodium Falciparum And Human, April Williams, Yuriy Fofanov, Catherine Putonti

Bioinformatics Faculty Publications

Pathogens and hosts have a dynamic relationship, one that is ever changing at the molecular level - the pathogen influencing the evolutionary path of the host and the host influencing the evolutionary path of the pathogen. The pathogen’s adaptation to a particular host could serve several purposes, e.g. to mimic the host to avoid detection, to take advantage of the host’s cellular machinery, to increase virulence, etc. Recognizing these adaptations is far from trivial, particularly when the size of the pathogen’s and host’s genomes differ by orders of magnitudes. Novel algorithms and data structures have been developed in our laboratory …

Horseshoe Crab Spawning Survey Protocol, Jennifer Mattei

Biology Faculty Publications

The protocol lists supplies and clothing needed for the survey, as well as which data is to be collected and when and how it should be entered for the census of horseshoe crabs on the Recapture Data Sheet for 2009. Adopted from Cape Cod and Delaware Bay survey protocols.

Dispersion Of Large-Seeded Tree Species By Two Forest Primates: Primate Seed Handling, Microhabitat Variability, And Post-Dispersal Seed Fate, Nicole D. Gross-Camp

Antioch University Dissertations & Theses

I describe the relative effectiveness of two primates in dispersing large-seeded tree seeds (> 0.5 cm) in the Nyungwe National Park (NNP), Rwanda. My objectives are three-fold: (1) to describe the relative effectiveness of primates in dispersing the seeds of five large-seeded tree species, (2) to evaluate the influence of primate seed-handling method on seed fate, and (3) to determine the influence of deposition site on seed fate. I employed focal tree observations, day-follows of habituated primate groups, in situ monitoring of primate-dispersed seeds, and experimental plots to achieve these objectives. Data were collected over the course of one year …

Geobiology: Evidence For Early Life On Earth And The Search For Life On Other Planets, Sherry L. Cady, Nora Noffke

OES Faculty Publications

Extensive research efforts in the subdisciplinary field of geobiology have focused on the interactions between Earth and life through time. As a consequence, gaps in our knowledge of Earth’s history are closing, and the search for life beyond Earth is expanding. A few examples of geobiology studies designed to advance our understanding of life on early Earth and to improve the chances of finding life on other planets are provided to highlight recent developments and research areas that are on the verge of new discoveries.

Acceptance Of Evolution Increases With Student Academic Level: A Comparison Between A Secular And A Religious College, Guillermo Paz-Y-Mino C., Avelina Espinosa

Arts & Sciences Faculty Publications

Acceptance of evolution among the general public, high schools, teachers, and scientists has been documented in the USA; little is known about college students’ views on evolution; this population is relevant since it transits from a high-school/parent-protective environment to an independent role in societal decisions. Here we compare perspectives about evolution, creationism, and intelligent design (ID) between a secular (S) and a religious (R) college in the Northeastern USA. Interinstitutional comparisons showed that 64% (mean S + R) biology majors vs. 42/62% (S/R) nonmajors supported the exclusive teaching of evolution in science classes; 24/29% (S/R) biology majors vs. 26/38% (S/R) …

The Numerical Comparison Of Flow Patterns And Propulsive Performances For The Hydromedusae Sarsia Tubulosa And Aequorea Victoria, Mehmet Sahin, Kamran Mohseni, Sean Colin

Arts & Sciences Faculty Publications

The thrust-generating mechanism of a prolate hydromedusa Sarsia tubulosa and an oblate hydromedusa Aequorea victoria was investigated by solving the incompressible Navier–Stokes equations in the swirl-free cylindrical coordinates. The calculations clearly show the vortex dynamics related to the thrust-generating mechanism, which is very important for understanding the underlying propulsion mechanism. The calculations for the prolate jetting hydromedusa S. tubulosa indicate the formation of a single starting vortex ring for each pulse cycle with a relatively high vortex formation number. However, the calculations for the oblate jet-paddling hydromedusa A. victoria indicate shedding of the opposite-signed vortex rings very close to each …

Crawling To Collapse: Ecologically Unsound Ornamental Invertebrate Fisheries, Andrew L. Rhyne, Randi Rotjan, Andrew Bruckner, Michael Tlusty

Arts & Sciences Faculty Publications

Background: Fishery management has historically been an inexact and reactionary discipline, often taking action only after a critical stock suffers overfishing or collapse. The invertebrate ornamental fishery in the State of Florida, with increasing catches over a more diverse array of species, is poised for collapse. Current management is static and the lack of an adaptive strategy will not allow for adequate responses associated with managing this multi-species fishery. The last decade has seen aquarium hobbyists shift their display preference from fish-only tanks to miniature reef ecosystems that include many invertebrate species, creating increased demand without proper oversight. The once …

Transcriptional Regulation Of Soluble Guanylyl Cyclase, Ashling Hampson

Masters

Each year cardiovascular disease causes over 4.3 million deaths in Europe and is the cause of nearly one in three deaths in the US. Nitric oxide (NO) is a toxic atmospheric gas which exists in tissues as a biological product of mammalian cells. It has been used to manage cardiovascular disease for over a century and to this day remains an important treatment option in cardiovascular medicine. NO is produced by many cells in the body including vascular endothelial cells. Because of its importance in vascular function, abnormal production of NO, which occurs in different disease states, can adversely affect …

Effects Of Habitat Quality On Reproduction In Two Georgia Populations Of Gopherus Polyphemus, Jaqueline W. Entz

College of Graduate Studies: Theses & Dissertations

Author's Abstract: The purpose of this study was to examine differences in maternal investment by examining variation in the habitat structure and reproductive parameters for two populations of Gopherus polyphemus in Southeast GA. Both habitat structure and reproductive parameters for these populations are known from a previous study, thus this study expands upon the previous one and addresses four main questions. (1) Has habitat quality changed in the past ten years within and between population sites? (2) Could a change of habitat have affected female morphology or female reproductive parameters within or between populations? (3) Is female body size shaping …

Electricity Generation And Ethanol Production Using Iron-Reducing, Haloalkaliphilic Bacteria, Varun Paul

Masters Theses

"Microbial life in extreme environments has been studied primarily for their metabolic activities. Very few commercial or industrial applications have been known from these systems. In this study, the metabolic pathways and properties of bacteria from a haloalkaliphilic environment of Soap Lake, Washington were employed in two research applications related to energy production. In the first study, the bacterial cultures that were known to reduce iron (III) were used in a Microbial Fuel Cell (MFC) reactor. Iron reducing bacteria have shown to shunt their electrons on to the surface of a carbon electrode of an MFC, and the electrons can …

A Phylogeographic Analysis Of Fiddler Crabs, Uca Longisignalis And U. Pugnax, Cydney Brooks

Dissertations and Theses @ UNI

Uca pugnax and U. longisignalis are fiddler crabs commonly found in the southeastern United States. These sibling species occupy distinct regions. Uca pugnax is found on the Atlantic and U. longisignalis on the Gulf coasts. Their distributions are separated by the Florida peninsula. Many different taxa with similar distributions in this region have been the focus of phylogeographic studies. In these studies, it appears there is no simple pattern to explain genetic variability. Previous studies of Uca pugnax and U. longisignalis reveal no significant morphological or physiological differences within either species across its respective region. The purpose of this study …

Evaluating Acute Toxicity Of Cadmium To Chironomid Using Hemoglobin As A Molecular Biomarker, Jun Taek Oh

Seton Hall University Dissertations and Theses (ETDs)

Effects of cadmium (Cd), a heavy metal contaminant, on hemoglobin were investigated in aquatic midge fly larvae of the Family, Chironomidae. In this study, chironomid populations from one polluted site, Kearny Marsh, New Jersey, two reference sites, North East Creek, and Bass Harbor, ME, and a laboratory population were taxonomically identified and tested for their sensitivity to Cd. Heavy metals in tissue, water and sediment were analyzed using Atomic Absorption Spectroscopy. Water quality at each site was assessed by measuring pH, dissolved oxygen (DO), oxidation-reduction potential ( eH), salinity and temperature. Hemoglobin proteins in individual larvae were easily detected using …

Assessing The Potential Habitat Value Of Biomass Production Fields For Grassland Birds, Mandy Larson

Honors Program Theses

In this paper, I researched the habitat requirements of grassland birds in general, including an in-depth analysis of the specific habitat requirements of four selected species: Bobolink (Dolichonyx oryzivorus), Dickcissel (Spiza Americana), Grasshopper Sparrow (Ammodramus savannarum), and Sedge Wren (Cistothorus platensis). In the second part of my research, I evaluated three possible scenarios that could be used for biomass production in Iowa and reviewed the methods producers employ in establishing and managing their fields. I evaluated area, species diversity, timing of harvest, edge habitats, and fertilizers/chemicals used during production. Then I compared these three biomass production scenarios to the habitat …

Microarray And Cdna Sequence Analysis Of Transcription During Nerve-Dependent Limb Regeneration, J. R. Monaghan, L. G. Epp, S. Putta, Robert B. Page, J. A. Walker, C. K. Beachy, W. Zhu, G. M. Pao, I. M. Verma, T. Hunter, S. V. Bryant, D. M. Gardiner, T. T. Harkins, S. R. Voss

Biology Faculty Publications (Archived)

Background: Microarray analysis and 454 cDNA sequencing were used to investigate a centuries-old problem in regenerative biology: The basis of nerve-dependent limb regeneration in salamanders. Innervated (NR) and denervated (DL) forelimbs of Mexican axolotls were amputated and transcripts were sampled after 0, 5, and 14 days of regeneration. Results: Considerable similarity was observed between NR and DL transcriptional programs at 5 and 14 days post amputation (dpa). Genes with extracellular functions that are critical to wound healing were upregulated while muscle-specific genes were downregulated. Thus, many processes that are regulated during early limb regeneration do not depend upon nerve-derived factors. …

Identification Of Camk-Ii Protein Targets In Tissue Culture And Zebrafish Embryos Using Tandem Mass Spectrometry, Alexandra Myers

Theses and Dissertations

Calcium (Ca2+)/calmodulin-dependent kinase 2 (CaMK-II) is one member of a family of Ca2+/calmodulin-dependent protein kinases that responds to intracellular Ca2+ signals (Hudmon, A. and H. Schulman (2002)). CaMK-II is a multifunctional regulator of transcription, cell cycle progression, cell motility and neuronal development. (Wang, C., et al. (2008), Easley, C. A. IV, et al. (2008), Osterhoff, M., et al. (2003), Faison, M. O., et al. (2002)). Recently, CaMK-II has been shown to be important in the early development of vertebrates. In developing zebrafish, disruption of CaMK-II expression has been shown to induce phenotypes similar to those documented in several human diseases. …

Pollution Swapping: The Effect Of Phosphorus Sequestration On Denitrification In Wetland Sediments, Nathaniel Femi Adegboyega

Dissertations and Theses @ UNI

Surface water quality is currently one of the most important environmental issues facing the state of Iowa since the ecological and recreational health of water bodies are threatened by non-point pollution. Most of Iowa's lakes are polluted because of their high concentration of nutrients, often phosphorus (P), which leads to excessive algal growth (eutrophication). To prevent eutrophication, it is necessary to prevent P from entering surface waters or to sequester (make unavailable to algae) the P that is already in the water body. One method to achieve this is to introduce substances that can tightly fix P (sorption).

Previous studies …

Resistance To And Virulence Of Fusarium Verticillioides, Tracy Lynn Bruns

Dissertations and Theses @ UNI

The filamentous fungus Fusarium verticillioides is plant pathogen that is responsible for billions of dollars in crop loss world wide. Fusarium verticillioides is of concern as it causes serious infections in maize and other agronomically important crop plants worldwide. Toxins produced by this fungus make grains from infected crops unusable. Plant resistance (or lack thereof) to disease is and has been for centuries a problem in agricultural productivity. Recent advances in the understanding of plant disease resistance promises to allow us to discover ways to counter the invasive properties of Fusarium verticillioides. Currently, very little is known about the virulence …