Biology Commons^™

Using Scanning Electron Microscopy And Morphologic Characteristics To Identify Centric Diatom Species In San Francisco Bay, Ria Angelica Laxa

Creative Activity and Research Day - CARD

Planktonic diatoms exhibit high biodiversity in marine systems and make a significant contribution to water column primary productivity. This makes research on planktonic diatoms particularly important in measuring the health of coastal marine ecosystems. At the University of San Francisco (USF), research has been conducted since September 2015 to study planktonic diatoms in San Francisco Bay. A previous study by Keith (2018), Planktonic Diatom Species Succession in San Francisco Bay, documented changes in species diversity over time, observing seasonal patterns in species richness as well as the effect of environmental factors such as salinity, temperature, and rainfall on species succession. …

Investigations Of Southern Sea Otter Foraging Ecology At The Northern Range Extent, Sophia Lyon, Michelle Hartwick, Christina Weatherford

Creative Activity and Research Day - CARD

Sea otters (Enhydra lutris) are vital keystone predators within coastal ecosystems. Following near extinction during the fur trade, population recovery has proceeded slowly in California with southern sea otters currently ranging from Pigeon Point in the north to Point Conception in the south. Decades of research have revealed consistent evidence of inverse relationships between sea otter density and prey resources. Furthermore, population density is known to influence foraging effort and success rates, such that individuals in populations nearing carrying capacity spend more time foraging, with lower rates of energy return. These relationships likely play a role in species recovery and …

Diatom Morphology In Light Of A Changing Climate: A Focus On Aulacoseira Crenulata, Brighid Welchans

Honors Program: Senior Projects (Public)

Fossilized diatoms are arguably the most vital proxy record utilized in paleolimnology. Diatoms are unicellular microalgae that are the basis of countless food webs, are invaluable bioindicators, and generate nearly a quarter of global net primary productivity. Diatoms are affected by a variety of environmental factors but there is relatively little research on how environmental conditions impact diatom valve morphology, and in particular whether there is a correlation between incoming light and diatom pore morphology. This report focuses on the Amazon lowland lake Garzacocha, and analyzes the relationship between light levels and the corresponding size of Aulacoseira crenulata pores. We …

Selection And Exploitation Of Prevalent, Tandemly Repeated Genomic Targets For Improved Real-Time Pcr-Based Detection Of Wuchereria Bancrofti And Plasmodium Falciparum In Mosquitoes, Michael F. Zulch, Nils Pilotte, Jessica R. Grant, Corrado Minetti, Lisa J. Reimer, Steven A. Williams

Biological Sciences: Faculty Publications

Background Optimization of polymerase chain reaction (PCR)-based diagnostics requires the careful selection of molecular targets that are both highly repetitive and pathogen-specific. Advances in both next-generation sequencing (NGS) technologies and bioinformatics-based analysis tools are facilitating this selection process, informing target choices and reducing labor. Once developed, such assays provide disease control and elimination programs with an additional set of tools capable of evaluating and monitoring intervention successes. The importance of such tools is heightened as intervention efforts approach their endpoints, as accurate and complete information is an essential component of the informed decision-making process. As global efforts for the control …

The Effects Of Ppal-1 In Arabidopsis Gamete Development., Amanda White

College of Arts & Sciences Senior Theses

Prenylation is a type of post-translational modification in which a 15- or 20-carbon lipid is added to the carboxyl (C) terminus of the protein. Arabidopsis thaliana contains the PROTEIN PRENYLTRANSFERASE ALPHA SUBUNIT-LIKE (PPAL) gene, which encodes a protein with homology to the α-subunits of the three known prenylation enzymes, PFT, PGGT, and Rab-GGT. We previously identified two mutations in PPAL, one of which is ppal-1, which contains a T-DNA insertion in the fourth intron. We have previously observed that self-fertilizing heterozygous ppal-1 plants produce progeny in which homozygous ppal-1 is underrepresented. This project attempts to ascertain …

Habitat Selection And Host Detection In The Salamander Mussel, Simpsonaias Ambigua, Eric A. Stegmann

Graduate Theses/Dissertations

The native freshwater mussels, Order Unionida, have suffered many species extinctions and loss of abundance. Two important threats to native mussels are loss of habitat and loss of access to the vertebrate hosts of the parasitic mussel larvae. The Salamander mussel, Simpsonaias ambigua, is a habitat specialist, living under flat rocks. It is often found in direct association with its only known host, the common mudpuppy, Necturus maculosus. This association could result from movement and habitat selection by the mussels themselves. Alternatively, it might result from the deposition of juveniles by a resident host. Habitat selection and host …

Laying-Sequence Variation In Yolk Carotenoids Of Eastern Bluebirds, Jessica Barkhouse

Theses and Dissertations

Carotenoids are naturally occurring, fat-soluble pigments that play an important role in the embryonic development of songbirds. Female songbirds use different strategies to allocate these important maternal resources to their eggs. Little research has been done on whether North American songbirds exhibit laying sequence patterns in their allocation of carotenoids. We studied the laying-sequence variation in yolk carotenoids and egg metrics of nine full clutches of Eastern Bluebirds (Sialia sialis) in Columbus, Georgia. I predicted that Eastern Bluebirds would exhibit a brood reduction strategy, with the first-laid eggs containing a higher concentration of carotenoids than the last-laid eggs. …

Estimating Taxonomic Diversity Using Centrum Growth Profiles And Stinger Morphology Of 36 Million Year Old Stingrays From North Dakota, Persia S. Tillman

Theses and Dissertations

Stingrays are a diverse and popular group of vertebrates; however, nothing is known about the relationships between growth biology and climate change. Freshwater stingrays once inhabit the United States and Canada during very warm times in the geologic record. No stingray material has been recorded from the northern part of the United States for the last 33 million years. The Earth’s climate cooled from 50 to 33 million year ago when many warm adapted organisms were relegated to warmer, southern latitudes in North America. Today, freshwater stingrays only inhabit subtropical and tropical environments. We are interested in the freshwater stingrays …

Earliest Known Material Of Amia, Bowfin, From The Sentinel Butte Formation (Paleocene), Medora, North Dakota, Abby Grace Moore

Theses and Dissertations

Amia calva is an icon in the field of comparative osteology, yet we have a poor understanding of the evolution of the genus because many fossil amiid bones have gone unidentified. Here we identify new material of the genus, Amia, with evidence of two unidentified species. Previously, the oldest known material identifiable as Amia cf. A. pattersoni, was a specimen from the Paleocene epoch of Alberta, Canada approximately 58 million years in age. Fossils of the two unidentified species of Amia were found in the Sentinel Butte Formation, a geologic formation of Paleocene age (~ 60 million years …

Seasonal Habitat Usage Of Iowa Wood Turtles (Glyptemys Insculpta), Amanda Stewart

Honors Program Theses

Iowa wood turtles (Glyptemys insculpta) were tracked using radio telemetry to compare juvenile, male, and female habitat usage during specific seasonal activity periods. Field data collected included: time, geographic location, habitat type, surrounding vegetation type and abundance, ambient weather conditions, turtle body temperature and mass, water depth (when aquatic), distance from water, behavior category, and amount of exposure to UV light. While active in 2017 – 2019, the wood turtle population at three Iowa sites was 53% terrestrial and 47% aquatic, with the most frequent respective habitats being emergent clearings (grasses, forbs, saplings) and lotic (river, stream, creek). …

Exploring Interactions Of Phyllosphere Epiphytes With Plant Pathogenic Bacteria Pseudomonas And Xanthomonas On Tomato, Ashley D. Turner

Theses and Dissertations

Recent studies have indicated the importance of resident microflora of plants in contributing towards overall plant health. Among difference components of the plant microbiome, Methylobacterium and Sphingomonas have been recognized as common residents of the phyllosphere for many host plants, however their role in disease control needs to be further investigated. The purpose of this study was to conduct experiments investigating the effectiveness of phyllosphere Methylobacterium and Sphingomonas isolated from red clover against common tomato phyllosphere bacterial pathogens, Pseudomonas syringae pv. tomato and Xanthomonas perforans. Additionally, this study uses X. perforans wild-type and X. perforans type VI secretion system …

Trace Element Accumulation And Distribution In Two Turtle Species, Malaclemys Terrapin And Chelydra Serpentine In New Jersey, Usa, Molly Hillenbrand

Theses, Dissertations and Culminating Projects

Trace elements occur naturally in the environment and through anthropogenic pollution can become elevated beyond natural levels. Within an ecological community these trace elements can bioaccumulate and biomagnify up the food web. Elevated levels of trace elements can pose a significant threat to human health. Diamondback terrapins (Malaclemys terrapin) and common snapping turtles (Chelydra serpentina) are two turtle species consumed by humans and were studied for trace element bioaccumulation. Inductively Coupled Plasma Mass Spectrometry (ICPMS) was used to determine the total concentrations of arsenic (As), silver (Ag), cadmium (Cd), cobalt (Co), chromium (Cr), copper (Cu), mercury (Hg), nickel (Ni), selenium …

Investigating The Behavioral Response Of Lampsilis Ovata To Various Salinity Conditions, Victoria Good

Undergraduate Honors Theses

The Pocket-book mussel, Lampsilis ovata, is a native freshwater bivalve species that is endemic to North America. The salinity tolerance of this species is of interest because anthropogenic salinization events and climate change factors threaten their natural freshwater habitats. Furthermore, the invasive freshwater bivalve species Corbicula fluminea has been shown to display significant salinity tolerance, which may lead to negative competitive interactions with native freshwater bivalve species if the salinization of freshwater habitats exceeds thresholds beyond which native species can effectively cope. It was hypothesized that L. ovata would be sensitive to salinity conditions above 1 g/L and respond …

Assessing The Influence Of Riparian Invasion By The Shrub Lonicera Maackii On Terrestrial Subsidies To Headwater Streams, Erin C. Rowekamp, Julia I. Chapman, Ryan Mcewan

Biology Faculty Publications

Invasion of Amur honeysuckle (Lonicera maackii) into riparian areas of headwater streams creates strong potential for alterations of terrestrial subsidies that may drive bottom-up effects on aquatic biota. In this study, we analyzed effects of L. maackii on terrestrial subsidies in stream sites that represented a gradient of invasion intensity in temperate deciduous forests of southwestern Ohio (USA). Leaf litter biomass, terrestrial and aquatic fine woody debris (0.5–9.9 cm diameter) volume and count, and terrestrial and aquatic coarse woody debris (>9.9 cm diameter) volume were analyzed. Based on previous research, we hypothesized that sites with a higher …

Pismo Clams (Tivela Stultorum) In Califorina: Population Status, Habitat Associations, Reproduction, And Growth, Alexandria R. Marquardt

Master's Theses

Marine shellfish play a vital role in intertidal ecosystems and coastal communities, but many of these fisheries are small-scale and lack the necessary monitoring to ensure long-term sustainability. Effective management often requires information on key demographic parameters, such as population status, reproduction and growth. Pismo clams (Tivela stultorum) are a culturally important and iconic species in California, which supported a thriving commercial and recreational fishery throughout much of the 1900’s. However, Pismo clam populations have declined statewide in recent decades and are attributed to human harvest and predation by California sea otters (Enhydra lutris); However, no …

Comparing Novel And Traditional Sampling Methodologies To Analyze The Population Status Of The Rio Grande Cooter (Pseudemys Gorzugi), Amy P. Bogolin

Theses and Dissertations

The Rio Grande Cooter, Pseudemys gorzugi, is an understudied aquatic turtle species of conservation concern in the Rio Grande, Pecos, and Devils river systems. Traditional sampling methodologies for aquatic turtle species face numerous challenges, but novel sampling methodologies, such as drone-based surveys and environmental DNA analysis, may address these issues. This study compared novel sampling methodologies to traditional sampling methodologies in mean detections and identifications of aquatic turtle species, developed and implemented an environmental DNA assay to detect P. gorzugi, and characterized P. gorzugi habitat. Following an introductory chapter, each task is addressed by chapter and formatted to …

Lipid Analysis, Fluorescence Microscopy And Flow Cytometry As Tools To Evaluate Microalgae For Potential Biofuel Production, Giovanina Aimee Hinojosa

Theses and Dissertations

Petroleum-based crude oil is nonrenewable and toxic to the environment, leading to a need for a more efficient and environmentally effective replacement. Microalgae produce lipids which can be converted to recyclable biofuels; therefore, research in lipid production by algae is becoming important for an economic and environmental sustainability. Microalgae can re-absorb atmospheric CO2 and have rapid growth, thereby lowering greenhouse gasses (GHGs) emission, renewability, and simple growth requirements.

Nannochloris sp. is a marine microalga that is amenable for lipid production because there is little research on it so this study will focus on using flow cytometry, fluorescence microscopy and other …

Regional Differences In Wild North American River Otter (Lontra Canadensis) Behavior And Communication, Sarah Walkley

Dissertations

This study focuses on the vocalization repertoires of wild North American river otters (Lontra canadensis) in New York and California. Although they are the same species, these two established populations of river otters are separated by a significant distance and are distinct from one another. River otters are semi-aquatic social predators that can be found throughout North America. This is the first study to examine the vocalizations of wild river otters, and results are compared across field sites in the different regions. River otter vocalizations and behaviors in New York were recorded using Bushnell Aggressor trail cameras that …

Genetic Tool Development In Marine Protists: Emerging Model Organisms For Experimental Cell Biology, Drahomíra Faktorová, R. Ellen R. Nisbet, José A. Fernández Robledo, Elena Casacuberta, Lisa Sudek, Andrew E. Allen, Manuel Ares, Cristina Aresté, Cecilia Balestreri, Adrian C. Barbrook, Patrick Beardslee, Sara Bender, David S. Booth, François Yves Bouget, Chris Bowler, Susana A. Breglia, Colin Brownlee, Gertraud Burger, Heriberto Cerutti, Rachele Cesaroni, Miguel A. Chiurillo, Thomas Clemente, Duncan B. Coles, Jackie L. Collier, Elizabeth C. Cooney, Kathryn Coyne, Roberto Docampo, Christopher L. Dupont, Virginia Edgcomb, Elin Einarsson, Pía A. Elustondo, Deborah Robertson

Biology

Diverse microbial ecosystems underpin life in the sea. Among these microbes are many unicellular eukaryotes that span the diversity of the eukaryotic tree of life. However, genetic tractability has been limited to a few species, which do not represent eukaryotic diversity or environmentally relevant taxa. Here, we report on the development of genetic tools in a range of protists primarily from marine environments. We present evidence for foreign DNA delivery and expression in 13 species never before transformed and for advancement of tools for eight other species, as well as potential reasons for why transformation of yet another 17 species …

How Water Level And Irrigation Practices Affect Waterbird Community, Nesting, And Foraging Habitat Use On The Duck Valley Indian Reservation, Jamie L. Burke

Boise State University Theses and Dissertations

Loss of habitat continues to threaten all bird populations. Despite efforts for conservation of wetlands, waterbirds continue to face habitat threats especially in western North America where water resources are limited across the landscape. The White-faced Ibis (Plegadis chihi) is a colonial nesting waterbird of conservation concern that builds nests in emergent vegetation of freshwater wetlands throughout the western United States. An ibis breeding colony site located at the Blue Creek Wetland complex on Duck Valley Indian Reservation may face habitat threats in the future due to plans intended to increase irrigation water use efficiency. Plans include manipulation …

Differences In Learning And Gene Expression In Brains Of Male And Female Bicyclus Anynana, Gabrielle Agcaoili

Biological Sciences Undergraduate Honors Theses

One way to understand the variation in the behavior of animals is by looking at the genes involved. We were particularly interested in behavioral differences between the sexes. How might these differences be manifested in the brain? This study worked to answer this question by using male and female butterflies of the species Bicyclus anynana, examining what is going on in the brains of males and females as they learned from a social exposure. We focused in on how sex plays a role in behavior and learning; it has been seen that males and females respond to the same social …

Understanding Cytochrome C Maturation In Anaerobic Archaea, Blake Wojciechowski

Biological Sciences Undergraduate Honors Theses

Methanoperedens nitroreducens (MPEBLZ), an archaeal methanotroph and close relative of Methanosarcina acetivorans, contain numerous cytochrome c proteins. However, difficulty in using these organisms as a model for cytochrome cresearch has created a pressure to express cytochrome c proteins in an organism that is much easier to work with. A punitive cytochrome c protein (MPEBLZ_04274) from M. nitroreducens was attempted to be cloned into a model methanogen M. acetivorans as well as Escherichia coli. Cytochrome c proteins are important for many metabolic processes within anaerobic archaea. In order for a mature cytochrome c to be formed heme must …

Body Composition Of Female Collegiate Track And Field Athletes, Adelaide Cooke

Biological Sciences

The aim of this study is to see if there is a correlation between an athlete's body compostion and the demands of their different track and field events. Track and field is arugably the most diverse when it comes to body types in a single sport, with distance runners tending to be leaner and smaller and throwers more muscular and larger. However, most data collected is not female specfic. Thirty-one female track and field athletes were asked to take part in a series of physical measurements, which included recording their height, weight, percent body fat, and muscle mass. They were …

Sensing Ribonuclease H Activity With Dna Nanoswitches, Ruju Trivedi

Biological Sciences

Ribonuclease H (RNase H) is a damage-repair protein and ribonuclease that specifically catalyzes the hydrolysis of RNA in an RNA/DNA duplex and breaks down RNA/DNA junctions. It plays an important role in a variety of biological processes including DNA replication, DNA repair, and transcription. It is also pivotal in anti-HIV drug development and the analysis of cellular processes and has been shown to be a potential therapeutic target for various neoplastic diseases. This thesis discusses a unique assay based on DNA nanoswitches to detect RNase H levels and activity. The assay is based on conformational changes of DNA nanoswitches in …

Glutamine Antagonist 6-Diazo-5-Oxo-L-Norleucine, A Hyaluronan Synthesis Inhibitor, Slows Triple Negative Breast Cancer Growth, Le Gia Cat Pham

Biological Sciences

Triple-negative breast cancers (TNBC) are the most aggressive subtype of breast cancer with few treatment options and poor outcomes. TNBCs are characterized by elevations in hexosamine biosynthetic pathway (HBP) enzyme expression, hyaluronan synthase 2 (HAS2) expression and hyaluronan (HA) production. Glutamine is an important substrate for HA production via the HBP. 6-diazo-5-oxo-L-norleucine (DON) is a well-known glutamine antagonist with validated antitumoral efficacy. This project examined the effects of DON on HA production and energy metabolism in TNBC cells. We examined the effect of DON treatment on Hs578T cells, which represent the mesenchymal stem-like subtype of TNBC. We specifically analyzed the …

Direct Evidence Of Missing Mepsps Using Ca2-Sensor Imaging, Petar Gajic

Biological Sciences

Following an action potential in the presynaptic neuron there is evoked release of neurotransmitter into the synapse which activates ionotropic transmembrane receptors on the postsynaptic membrane that cause depolarizations in voltage that get recorded as excitatory postsynaptic potentials (EPSPs). In the absence of an action potential there is spontaneous release of neurotransmitter that postsynaptically gets recorded as miniature excitatory postsynaptic potentials (mEPSPs). According to the quantal hypothesis, postulated by Bernard Katz, the mEPSPs are allor- none changes in potential caused by a single quantum of neurotransmitter, which when added up create EPSPs. Following studies have found that these two modes …

Toxicity Analysis Of 2’-Deoxyguanosine-N2-6-Aminopyrene And 2’-Deoxyguanosine-N2-8-Aminopyrene In Escherichia Coli, Emily Janeiro

Honors Scholar Theses

Cancer is a disease that stems from genomic errors that are not corrected properly by cellular repair mechanisms. Errors are more likely to form when organisms are subjected to DNA damage by mutagenic compounds. 1-Nitropyrene, a nitrated polycyclic aromatic hydrocarbon (nitro-PAH), has been shown to be a potent mutagen that causes cancer. Nitro-PAHs can arise from diesel exhaust products in the environment. Out of all nitro-PAHs, 1-nitropyrene is found in largest quantities in the environment. This poses a great need to study its effects biochemically in order to address its toxicity in DNA. Other nitropyrene derivatives, including 1,6-dinitropyrene and 1,8-dinitropyrene, …

The Effects Of The Atypical Dopamine Uptake Inhibitor Ce-158 On Extracellular Dopamine In The Nucleus Accumbens, Julia Neri

Honors Scholar Theses

Major Depressive Disorder (MDD) is characterized by symptoms such as cognitive dysfunctions, inflammatory changes, and motivational symptoms such as amotivation, fatigue, and anergia. While depressed people are commonly treated by traditional antidepressants such as serotonin reuptake inhibitors (SSRIs), previous studies have reported that SSRI medications do not treat fatigue and anergia symptoms well, and in some cases, can even worsen those symptoms. Subjects treated with dopamine (DA) uptake inhibitors, on the other hand, have been less likely to report symptoms of anergia and fatigue compared to those treated with SSRIs. Common DA uptake inhibitors such as methylphenidate and amphetamines, however, …

The Effects Of Salvia Hispanica On Biochemical Markers Related To Immune System, Hormone Regulation, And Lumbar Vertebrae In Postmenopausal Rat Model, Daisy M. Mendez

Theses and Dissertations

In women, with age and menopause there is increase in body weight and decreased immunity and bone mass. Due to severe side effects of currently available drugs for obesity and bone loss, new therapies with less side effects are sought after and alternative medications are becoming more popular. Recently, Salvia hispanica (SH), a herbal supplement is implicated in losing body weight. Currently, there is no information on how SH modulates obesity or bone health. In this study, effects of SH seed extract was investigated in a postmenopausal rat model on certain hormones, immune markers, and fourth lumbar vertebrae. The highest …

Organizational Effects Of Exogenous Corticosterone On Vocal Development In A Wild Parrot, Rory Eggleston

Theses and Dissertations

Songbirds learn songs during a plastic phase in vocal development, similar to human vocal babbling. Research has focused on male song learning, a process influenced by gonadal steroids. Like humans, parrots are very plastic vocal learners and both sexes learn vocalizations throughout life. It is unclear how the endocrine system mediates environmental information with developing phenotypes in parrots. Corticosterone (CORT) is a sex-neutral hormone that can affect cognitive development, but its role in vocal development has not been experimentally tested in wild parrots. I quantified vocal babbling from nestling Green-rumped Parrotlets (Forpus passerinus) recorded in Venezuela. Nestlings received oral CORT-oil …