Biology Commons^™

Canopy Disturbance And Reproduction In Cornus Florida L., Daniel Carr

Theses and Dissertations

This study examined aspects of local reproductive variation in the flowering dogwood (Cornus florida L.) coincident with recent differences in primary canopy architecture. The dogwood trees in this study were impacted by a hurricane that created numerous treefall gaps, which created fine scale heterogeneity in the primary canopy. Fine scale disturbances in a forest can result in changes for multiple members of the forest community, including the reproductive responses of the trees and interspecific pollination mutualisms. Previously determined differences in offspring genetic structure suggested that pollen movement among genetically unstructured maternal individuals was significantly impacted between open, or disturbed, canopy …

Variation In Sound Production Of The Blue Catfish, Ictalurus Furcatus., Zachary Ghahramani

Theses and Dissertations

The blue catfish, Ictalurus furcatus, is an invasive species introduced to Virginia in 1974 and is the largest catfish in the United States. Like other Ictalurids, they are capable of producing disturbance calls via stridulation of the pectoral spine. These sounds can be made in air and water, and catfish can be preyed upon by both aerial and underwater predators. I characterized these putative distress calls by recording them in air and in the fish’s natural habitat. Sounds exhibited a wide variation in acoustic parameters relative to fish ontogeny: larger fish produced higher amplitude sounds with lower frequency bands. Sweep …

Effect Of Ph On The Transcriptional Profile Of Porphyromonas Gingivalis W83, Nathan Maietta

Theses and Dissertations

Porphyromonas gingivalis, a gram-negative, anaerobic bacterium, is widely recognized as a causative agent for periodontal disease. Despite sequencing of the complete genome, no research exists examining gene regulation response in P. gingivalis to shifts in pH. Previous studies have shown that P. gingivalis is capable of surviving in the variety of micro- environmental niches found within the oral cavity, including basic and acidic pH conditions. However, the underlying mechanisms of this survival are not well understood. This study examined P. gingivalis by comparing bacteria shocked at three acidic to neutral pH conditions (5.5, 6.5 and 7.0) to bacteria vii shocked …

Mutation Size Optimizes Speciation In An Evolutionary Model, Nathan Dees, Sonya Bahar

Physics Faculty Works

The role of mutation rate in optimizing key features of evolutionary dynamics has recently been investigated in various computational models. Here, we address the related question of how maximum mutation size affects the formation of species in a simple computational evolutionary model. We find that the number of species is maximized for intermediate values of a mutation size parameter μ; the result is observed for evolving organisms on a randomly changing landscape as well as in a version of the model where negative feedback exists between the local population size and the fitness provided by the landscape. The same result …

Early Detection Of Population Declines: High Power Of Genetic Monitoring Using Effective Population Size Estimators, Tiago Antao, Andres Perez-Figueroa, Gordon Luikart

Biological Sciences Faculty Publications

Early detection of population declines is essential to prevent extinctions and to ensure sustainable harvest. We evaluated the performance of two N_e estimators to detect population declines: the two-sample temporal method and a onesample method based on linkage disequilibrium (LD). We used simulated data representing a wide range of population sizes, sample sizes and number of loci. Both methods usually detect a population decline only one generation after it occurs if N_e drops to less than approximately 100, and 40 microsatellite loci and 50 individuals are sampled. However, the LD method often out performed the temporal method by …

Identification And Structural Characterization Of Fyve Domain-Containing Proteins Of Arabidopsis Thaliana, Ewa Wywial, Shaneen M. Singh

Publications and Research

Background FYVE domains have emerged as membrane-targeting domains highly specific for phosphatidylinositol 3-phosphate (PtdIns(3)P). They are predominantly found in proteins involved in various trafficking pathways. Although FYVE domains may function as individual modules, dimers or in partnership with other proteins, structurally, all FYVE domains share a fold comprising two small characteristic double-stranded β-sheets, and a C-terminal α-helix, which houses eight conserved Zn2+ ion-binding cysteines. To date, the structural, biochemical, and biophysical mechanisms for subcellular targeting of FYVE domains for proteins from various model organisms have been worked out but plant FYVE domains remain noticeably under-investigated.

Results We carried out an …

The Perilipin Homologue, Lipid Storage Droplet 2, Regulates Sleep Homeostasis And Prevents Learning Impairments Following Sleep Loss, Matthew S. Thimgan, Yasuko Suzuki, Laurent Seugnet, Laura Gottschalk, Paul J. Shaw

Biological Sciences Faculty Research & Creative Works

Extended periods of waking result in physiological impairments in humans, rats, and flies. Sleep homeostasis, the increase in sleep observed following sleep loss, is believed to counter the negative effects of prolonged waking by restoring vital biological processes that are degraded during sleep deprivation. Sleep homeostasis, as with other behaviors, is influenced by both genes and environment. We report here that during periods of starvation, flies remain spontaneously awake but, in contrast to sleep deprivation, do not accrue any of the negative consequences of prolonged waking. Specifically, the homeostatic response and learning impairments that are a characteristic of sleep loss …

Reverse Engineering Of Oxygen Transport In The Lung: Adaptation To Changing Demands And Resources Through Space-Filling Networks, Chen Hou, Stefan Gheorghiu, Virginia H. Huxley, Peter Pfeifer

Biological Sciences Faculty Research & Creative Works

The space-filling fractal network in the human lung creates a remarkable distribution system for gas exchange. Landmark studies have illuminated how the fractal network guarantees minimum energy dissipation, slows air down with minimum hardware, maximizes the gas- exchange surface area, and creates respiratory flexibility between rest and exercise. In this paper, we investigate how the fractal architecture affects oxygen transport and exchange under varying physiological conditions, with respect to performance metrics not previously studied. We present a renormalization treatment of the diffusion-reaction equation which describes how oxygen concentrations drop in the airways as oxygen crosses the alveolar membrane system. The …

Kinematic Evidence For Superfast Locomotory Muscle In Two Species Of Teneriffiid Mites, Grace C. Wu, Jonathan C. Wright, Dwight L. Whitaker, Anna N. Ahn

All HMC Faculty Publications and Research

Locomotory muscles typically operate over a narrow range of contraction frequencies, characterized by the predominant fiber types and functional roles. The highest documented frequencies in the synchronous sound-producing muscles of insects (550 Hz) and toadfish (200 Hz) far exceed the contraction frequencies observed in weight-bearing locomotory muscles, which have maximum documented frequencies below 15-30 Hz. Laws of scaling, however, predict that smaller arthropods may employ stride frequencies exceeding this range. In this study we measured running speed and stride frequency in two undescribed species of teneriffiid mites from the coastal sage scrub of southern California. Relative speeds of both species …

Sierra Nevada Red Fox (Vulpes Vulpes Necator): A Conservation Assessment, John D. Perrine, Lori A. Campbell, Gregory A. Green

Biological Sciences

One goal of the Sierra Nevada Forest Plan Amendment (SNFPA) 2001 and 2004 Records of Decision was to protect and recover native Sierra Nevada red fox (Vulpes vulpes necator) populations in the Sierra Nevada (USDA Forest Service 2001 p. 14). To accomplish this goal, the ROD commits the U.S. Department of Agriculture (USDA) Forest Service to completing a conservation assessment for the Sierra Nevada red fox in cooperation with other federal, state, and local agencies, as well as Tribal governments. This conservation assessment synthesizes the best available scientific information and thought concerning habitat relationships, population status and trends, historical and …

Turning Crocodilian Hearts Into Bird Hearts: Growth Rates Are Similar For Alligators With And Without Right-To-Left Cardiac Shunt, John Eme, June Gwalthney, Tomasz Owerkowicz, Jason M. Blank, James W. Hicks

Biological Sciences

The functional and possible adaptive significance of non-avian reptiles’ dual aortic arch system and the ability of all non-avian reptiles to perform central vascular cardiac shunts have been of great interest to comparative physiologists. The unique cardiac anatomy of crocodilians – a four-chambered heart with the dual aortic arch system – allows for only right-to-left (R–L; pulmonary bypass) cardiac shunt and for surgical elimination of this shunt. Surgical removal of the R–L shunt, by occluding the left aorta (LAo) upstream and downstream of the foramen of Panizza, results in a crocodilian with an obligatory, avian/mammalian central circulation. In this study, …

Neural Reuse As A Source Of Developmental Homology, David S. Moore, Chris Moore

Pitzer Faculty Publications and Research

Neural reuse theories should interest developmental psychologists because these theories can potentially illuminate the developmental relations among psychological characteristics observed across the lifespan. Characteristics that develop by exploiting pre-existing neural circuits can be thought of as developmental homologues. And, understood in this way, the homology concept that has proven valuable for evolutionary biologists can be used productively to study psychological/behavioral development.

Algal Biomass Accrual In Relation To Nutrient Availability Along A Longitudinal Gradient In The Upper Green River, Kentucky, Mary Douglas Penick

Masters Theses & Specialist Projects

Nutrient limitation in aquatic ecosystems results from a deficiency in nitrogen or phosphorus levels relative to cellular growth needs. Nutrient limitation of freshwater systems is a function of biotic and abiotic factors. Biotic factors include vascular and nonvascular plant community composition. Abiotic factors include underlying bedrock and land-use activities (e.g. agriculture, septic systems). Nutrient availability directly affects growth, productivity, and community structure of primary producers. The purpose of this study was two-fold: (1) to assess the relationship between ambient algal biomass. and in-stream nutrient levels along the longitudinal course of a river through a transition from weak to well-developed underlying …

Age, Reproduction, Growth, Condition And Diet Of The Introduced Yellow Bass, Morone Mississippiensis, In Barren River Lake, Kentucky, Peter G. Zervas

Masters Theses & Specialist Projects

Introduction of fish species to North American drainages has occurred for over 100 years. Introduced fish species have been documented to have adverse effects on both the environment and native species of the drainage into which they have been introduced. To better understand the effects that introduced species may have on a particular drainage, it is essential to understand aspects of the introduced species’ life history. The objectives of the current study is to quantify the age, reproduction, growth, condition and diet of the yellow bass, Morone mississippiensis, in Barren River Lake, Kentucky. Monthly collections from three areas on …

Six New Species And 1 New Species Record Of Orthotrichia (Trichoptera: Hydroptilidae) From China, Zhou Lei, Yang Lian-Fang, John C. Morse

Publications

Six new species of the caddisfly genus Orthotrichia are described and illustrated from China, namely Or. apophysis Zhou & Yang, sp. nov.; Or. latiramifera Zhou & Yang, sp. nov.; Or. cornuta Zhou &Yang, sp. nov.; Or. discedata Zhou & Morse, sp. nov.; Or. cuspidigera Zhou & Yang, sp. nov.; and Or. subrhomba Zhou & Morse, sp. nov.. One species, Or. terpsichore Malicky & Chantaramongkol, 2007, is recorded for the first time from China, bringing the number of species of the genus known from China to 14. Of these, 10 species are distributed among 3 species groups of Marshall (1979), with …

From Structure To Function: The Ecology Of Host-Associated Microbial Communities, Courtney Robinson, Brendan Bohannan, Vincent Young

Department of Biology Faculty Publications

In the past several years, we have witnessed an increased interest in understanding the structure and function of the indigenous microbiota that inhabits the human body. It is hoped that this will yield novel insight into the role of these complex microbial communities in human health and disease. What is less appreciated is that this recent activity owes a great deal to the pioneering efforts of microbial ecologists who have been studying communities in non-host-associated environments. Interactions between environmental microbiologists and human microbiota researchers have already contributed to advances in our understanding of the human microbiome. We review the work …

The Spatial Influence Of Aboveground Diversity On Belowground Communities, T. Bliss, Tom Powers, Chad Brassil

School of Biological Sciences: Faculty Publications

Little is known about the effect of diversity surrounding a focal plant species on the belowground community under that species. At least two alternative hypotheses exist. First, studies involving a range of ecosystems and taxonomic groups have shown that changes in diversity in one group of species can promote diversity in other groups. Alternatively, many studies in soil ecology have shown that belowground communities are strongly determined by the dominant aboveground species. To better understand the role of aboveground diversity on belowground communities, we examined soil nematode communities directly under Panicum virgatum (switchgrass) in areas of high and low surrounding …

Western Rock Lobster International Stock Assessment And Modelling Workshop Report, Department Of Fisheries

Fisheries Occasional Publications

No abstract provided.

Integrative Genomic Approaches Highlight A Family Of Parasite-Specific Kinases That Regulate Host Responses, Lucia Peixoto, Feng Chen, Omar S. Harb, Paul H. Davis, Daniel P. Beiting, Catie Small Brownback, Dinkorma Ouloguem, David S. Roos

Biology Faculty Publications

Apicomplexan parasites release factors via specialized secretory organelles (rhoptries, micronemes) that are thought to control host cell responses. In order to explore parasite-mediated modulation of host cell signaling pathways, we exploited aphylogenomic approach to characterize the Toxoplasma gondii kinome, defining a 44 member family of coccidian-specific secreted kinases, some of which have been previously implicated in virulence. Comparative genomic analysis suggests that ‘‘ROPK’’ genes are under positive selection, and expression profiling demonstrates that most are differentially expressed between strains and/or during differentiation. Integrating diverse genomic-scale analyses points to ROP38 as likely to be particularly important in parasite biology. Upregulating expression …

Development Of A Rapid Method For Detection Of Bloom-Forming Cyanobacteria And Algae In Selected New Jersey Waterbodies, Ben Nyabwari Ondimu

Theses, Dissertations and Culminating Projects

Harmful algal blooms have been reported in many parts of the world affecting water quality, human and animal health. Timely intervention depends on early detection of bloom-forming algae and cyanobacteria. Water samples were collected from 15 northern New Jersey freshwater bodies and each processed through coarse (3.0um) and fine (0.45um) pore filters which were dried then frozen at -20°C. Five small discs punched from the filters were resuspended in 500ul water for microscopic observation. Many microorganisms-cyanobacteria and algae were detected, whose distinction and identification based on morphology was not conclusive. Two genes of interest (The cyanobacterial phycocyanin and the 16S …

Heavy Metals Zinc And Cadmium Resistance And Metal Effects Within Synechococcus Sp. Iu 625, Jose Leovigildo Perez

Theses, Dissertations and Culminating Projects

Heavy metal resistance within cyanobacteria is often observed because cyanobacteria are good indicators of pollutants in the environment. Their ability to recognize the presence of many heavy metals makes cyanobacteria an important source of study. Cadmium is one of the most toxic heavy metals. Cadmium inhibits spontaneous protein folding, binds to sulphydryl groups (found in nucleic acids, proteins, and enzymes), and outcompetes essential metals for important binding sites. The effects of cadmium (CdCl₂) on the growth and coupled permeability of Synechococcus sp. IU 625 was shown to inhibit Syn. sp. IU 625 cells at CdCl₂ concentration 30 …

Agolohymena Aspidocauda Nov. Gen., Nov. Spec., A Histophagous Freshwater Tetrahymenid Ciliate In The Family Deltopylidae (Ciliophora, Hymenostomatia), From Idaho (Northwest U.S.A.): Morphology, Ontogenesis And Molecular Phylogeny, William A. Bourland, Michaela C. Strüder-Kypke

Biology Faculty Publications and Presentations

Morphology, ontogeny and the molecular phylogeny of Agolohymena aspidocauda nov. gen., nov. spec., a new freshwater tetrahymenid ciliate from Idaho, U.S.A, are described. The ontogeny and histophagous mode of nutrition are similar to those of Deltopylum rhabdoides Fauré-Fremiet and Mugard, 1946. The new genus is placed with Deltopylum in the resurrected family Deltopylidae Song & Wilbert, 1989. We emend the diagnostic features of the family to include division by polytomy, right and left somatic kineties extending into the preoral suture, crook-shaped or sigmoid adoral membranelles 1 and 2, markedly reduced adoral membranelle 3 and a tetrahymenid silverline pattern. The main …

Localization And Binding Characteristics Of Kaposi's Sarcoma-Associated Herpesvirus Bcl-2 Protein In The Prevention Of Apoptosis, Erin T. St.Angelo

Seton Hall University Dissertations and Theses (ETDs)

Kaposi's sarcoma-associated herpesvirus (KSHV) is the causative agent of various diseases, and it encodes a Bcl-2 homolog, KS-Bcl-2. The Bcl-2 family is important in regulating cellular apoptosis. Pro-apoptotic Bcl-2 family members promote apoptosis through mitochondrial pore formation by Bak and Bax, or through BH3 only domain activators and sensitizers. Anti-apoptotic members, such as cellular Bcl-2 prevent apoptosis through interactions with pro-apoptotic proteins, for instance inhibiting pore formation by binding to Bak and/or Bax. Even though, KS-Bcl-2 has been shown to have an anti-apoptotic function like its homolog, it does not bind to either Bak or Bax, and little is known …

Incorporating Genomics And Bioinformatics Across The Life Sciences Curriculum, Zhaohui Xu, Jayna L. Ditty, Christopher A. Kvaal, Brad Goodner, Sharyn K. Freyermuth, Cheryl Bailey, Robert A. Britton, Stuart G. Gordon, Sabine Heinhorst, Kelynne Reed, Erin R. Sanders-Lorenz, Seth Axen, Edwin Kim, Mitrick Johns, Kathleen Scott, Cheryl A. Kerfeld

Biological Sciences Faculty Publications

Undergraduate life sciences education needs an overhaul, as clearly described in the National Research Council of the National Academies' publication BIO 2010: Transforming Undergraduate Education for Future Research Biologists. Among BIO 2010's top recommendations is the need to involve students in working with real data and tools that reflect the nature of life sciences research in the 21st century [1]. Education research studies support the importance of utilizing primary literature, designing and implementing experiments, and analyzing results in the context of a bona fide scientific question [1]–[12] in cultivating the analytical skills necessary to become a …

A Major Role For Mammals In The Ecology Of Mycobacterium Ulcerans, Janet A. Fyfe, Caroline J. Lavender, Kathrine A. Handasyde, Alistair R. Legione, Carolyn R. O'Brien, Timothy P. Stinear, Sacha J. Pidot, Torsten Seemann, Mark Eric Benbow, John R. Wallace, Christina Mccowan, Paul D. R. Johnson

Biology Faculty Publications

Background: Mycobacterium ulcerans is the causative agent of Buruli ulcer (BU), a destructive skin disease found predominantly in sub-Saharan Africa and south-eastern Australia. The precise mode(s) of transmission and environmental reservoir(s) remain unknown, but several studies have explored the role of aquatic invertebrate species. The purpose of this study was to investigate the environmental distribution of M. ulcerans in south-eastern Australia.

Population Structure Influences Sexual Conflict In Wild Populations Of Water Striders., Omar Tonsi Eldakar, Michael J. Dlugos, Galen P. Holt, David Sloan Wilson, John W. Pepper

Biology Faculty Articles

In sexual conflict, aggressive males frequently diminish the long-term reproductive success of females in efforts to gain a short-term advantage over rival males. This short-term advantage can selectively favour high-exploitation males. However, just as the over-exploitation of resources can lead to local extinction, the over-exploitation of females in the form of harassment by aggressive males can yield similar consequences resulting in reduced female fecundity, increased female mortality and overall decline in mating activity. This outcome may often be prevented by selection acting at multiple levels of biological organization. Directional selection favouring aggressive exploitation within groups can be balanced by directional …

Information Acquisition And Sociality Among Migratory Birds, Zoltán Németh

Dissertations

Information use is a key feature of adaptive behavior: the better informed an individual, the better it is able to adjust its behavior to meet the demands of a variable world. Therefore, most animals attempt to reduce environmental uncertainty by gathering information when it is available. However, tracking unpredictable ecological factors may carry costs as individuals invest valuable time and energy in the process of information acquisition. Social learning (i.e., use of social information inadvertently produced by other individuals) enables the individual to gain rapid and more complete assessment of its novel environment. This process may be particularly important for …

Patterns Of Diversity, Zoogeography, And Ecological Gradients In Honduran Freshwater Fishes, Wilfredo Antonio Matamoros

Dissertations

Nineteen major river drainages across Honduras were sampled from 2005-2009 in order to understand Honduran geographical patterns of freshwater fish distribution, to delineate the Honduran freshwater fishes ichthyographical provinces, and to understand patterns of species assemblage at the drainage level. A total of 166 species of freshwater fishes were sampled, a 64% increase over previously published reports. Eight species belong to primary freshwater families, 47 to secondary, and 111 to peripherals. In order to understand the species-drainages relationships, a presence-absence matrix was built for the 19 major drainages and 55 primary and secondary freshwater fishes. Correspondence and cluster analysis clearly …

Effects Of Old Nest Material On Occupancy And Reuse Of Artificial Burrows, And Breeding Dispersal By Burrowing Owls (Athene Cunicularia) In Southwestern Idaho, Corey S. Riding

Boise State University Theses and Dissertations

This thesis comprises two chapters describing my investigations of the breeding ecology of burrowing owls (Athene cunicularia) in southwestern Idaho. The first chapter details two experimental studies where I examined the effects of old nest material, primarily mammal dung, on the occupancy and reuse of artificial burrows by burrowing owls in 2004 and 2005. For burrows that owls had not used previously for nesting, adding material from actual nests did not induce occupancy. Thus, old nest material does not appear to function as a cue for burrow suitability. Removing old material from burrows that owls had used for …

Algal Community Structure In Water Bodies Of Mississippi: The Role Of Environmental Factors In Its Spatial And Temporal Dynamics, Nestor Raul Anzola

Dissertations

A meta-analysis was done on studies that included six major taxa groups: Cyanobacteria, Chlorophyta, Chrysophyta (primarily diatoms), Euglenophyta, Pyrrophyta, and Rhodophyta and six aquatic habitats of Mississippi to determine the abundance and richness of the algal community and to identify relevant environmental drivers of algal assemblage composition. Twenty algae data sets on small order streams, large streams and rivers, lakes and reservoirs, fish production ponds, brackish water, and marine water were analyzed. Chlorophyta was dominant in lakes and reservoirs and was the most diverse taxa in the phytoplankton of small order streams and large streams and rivers. Cyanobacteria were the …