Biology Commons^™

The Missing Metric: An Evaluation Of Microorganism Importance In Wetland Assessments, Aaron John Onufrak

Browse all Theses and Dissertations

In the contiguous US, an estimated 50% of original wetland areas have been lost since the late 1700s. In growing recognition of the importance of preserving wetland ecosystem function, federal and state agencies have developed proxy-based functional-assessment procedures to manage and preserve remaining wetland areas. Ohio uses the Ohio Rapid Assessment Method (ORAM) to score wetland quality based on six metrics: wetland size, buffer width and surrounding land use, hydrology, habitat alteration and development, special wetland communities, and vegetation. Currently, the ORAM, and many other wetland scoring systems, do not consider microorganisms when determining wetland quality. This is particularly notable, …

Anthropogenic Noise Alters Avian Community Composition In Temperate Forests, Chelsea Jill Wright

Browse all Theses and Dissertations

Noise is an under-appreciated source of pollution that can influence the spatial distribution of birds. In this study, I examined how noise frequency and intensity (both background noise (kHz) and decibel levels (dB)) affected avian richness, density, and number of birds that sing with the same frequency as anthropogenic noise (low note frequency). I also examined the responses of two species in detail, the Eastern Wood Pewee and the Acadian Flycatcher, because they lack song plasticity. I examined whether they responded to noise by avoiding "noisy" areas or shifting their song frequency. I examined the response of bird communities to …

A Planarian Tau Tubulin Kinase Homolog Is Required For Spermatogenesis And Epithelial Ciliogenesis, Robert Alan Magley

Browse all Theses and Dissertations

Tubulin comprises the structural element of microtubules and Tau is one of many microtubule-associated proteins. Tau Tubulin Kinase (TTBK) phosphorylates both Tau and Tubulin and is required for the initial steps of cilia formation. Due to the structural similarities between cilia and sperm flagella, as well as the enriched expression of TTBK1 and TTBK2 in human testes, we hypothesized that TTBK homologs play a role in sperm maturation. This hypothesis was tested in the planarian Schmidtea mediterranea, a lophotrochozoan model capable of whole-body regeneration and development a complete reproductive system post-embryonically. Six TTBK homologs were identified in the genome of …

Effects Of Hydrological Connectivity On The Benthos Of A Large River (Lower Mississippi River, Usa), Audrey B. Harrison

Electronic Theses and Dissertations

The effects of hydrological connectivity between the Mississippi River main channel and adjacent secondary channel and floodplain habitats on macroinvertebrate community structure, water chemistry, and sediment makeup and chemistry are analyzed. In river-floodplain systems, connectivity between the main channel and the surrounding floodplain is critical in maintaining ecosystem processes. Floodplains comprise a variety of aquatic habitat types, including frequently connected secondary channels and oxbows, as well as rarely connected backwater lakes and pools. Herein, the effects of connectivity on riverine and floodplain biota, as well as the impacts of connectivity on the physiochemical makeup of both the water and sediments …

Diel Activity Patterns And Movement Of Invasive Lionfish (Pterois Volitans/P. Miles) In The Florida Keys Identified Using Acoustic Telemetry, Michael Mccallister, Jeffrey Renchen, Benjamin Binder, Alejandro Acosta

Gulf and Caribbean Research

The invasion of Indo—Pacific lionfish (Pterois volitans/P. miles) throughout the Caribbean and southeastern U.S. Atlantic represents a significant ecological threat, yet few studies have examined the daily activity and movement patterns of this invasive species. In this study, passive acoustic telemetry was used to track lionfish at 4 coral reef sites in the Florida Keys. Fourteen lionfish were tagged among the 4 sites, and the total number of days tagged fish were detected ranged from 5 to 141 days. Hourly detection data revealed diel activity patterns with peaks at dawn and dusk. Mixed model analysis of detection data indicated a …

Natural History Of The Southern Bog Lemming In Southeastern Virginia, Robert K. Rose

Biological Sciences Faculty Publications

The isolated subspecies of Southern Bog Lemming of southeastern Virginia, Synaptomys cooperi helaletes, has been studied extensively since its "rediscovery" in the Great Dismal Swamp in 1980. Multiple studies using pitfall traps, starting in the Great Dismal Swamp National Wildlife Refuge and then extending elsewhere in southeastern Virginia and adjacent northeastern North Carolina, have revealed lemmings to be much more widespread and often more common than previously believed, with their presence now confirmed as far west as Surry and Sussex counties, about 30 km east of Petersburg, Virginia. When present, lemmings often are among the most numerous members of …

Split Deoxyribozyme Probe For Efficient Detection Of Highly Structured Rna Targets, Sheila Raquel Solarez

Honors Undergraduate Theses

Transfer RNAs (tRNAs) are known for their role as adaptors during translation of the genetic information and as regulators for gene expression; uncharged tRNAs regulate global gene expression in response to changes in amino acid pools in the cell. Aminoacylated tRNAs play a role in non-ribosomal peptide bond formation, post-translational protein labeling, modification of phospholipids in the cell membrane, and antibiotic biosynthesis. ^[1] tRNAs have a highly stable structure that can present a challenge for their detection using conventional techniques. ^[2] To enable signal amplification and lower detection limits, a split probe - split deoxyribozyme (sDz or BiDz) probe, which …

Oyster Reef Restoration: Impacts On Infaunal Communities In A Shallow Water Estuary, Katherine P. Harris

Honors Undergraduate Theses

Oyster reefs are important estuarine ecosystems that provide habitat to many species including threatened and endangered wading birds and commercially important fishes and crabs. Infaunal organisms (i.e. small, aquatic animals that burrow in the sediment) are also supported by oyster reef habitats. Infaunal organisms are critical to marine food webs and are consumed by many important species that inhabit coastal estuaries. However, over the past century 85% of shellfish reef habitats have been lost, making restoration of these areas vital. Due to their important role in coastal food webs, infauna is hypothesized to be a strong indicator of habitat productivity …

The Evolution Of Peristenus (Hymenoptera: Braconidae): Taxonomy, Phylogenetics And Ecological Speciation, Yuanmeng Zhang

Electronic Theses and Dissertations

Parasitoid wasps are ecologically and economically important as biological control agents. However, little is known about the diversity, distribution and biology of most hymenopteran parasitoids due to their small size, morphological conservatism, and complex life styles. The focus of my PhD research was to investigate the evolution and speciation of euphorine braconid wasps, using a combination of multilocus phylogenetics and population genomic techniques combined with traditional taxonomy. The three data chapters of my dissertation are divided into different taxonomic ranks of euphorine braconids, focusing on genera, species, and populations. For chapter 2, I built a multilocus phylogeny of the tribe …

Evolution And Distribution Of Phenotypic Diversity In The Venom Of Mojave Rattlesnakes (Crotalus Scutulatus), Jason Strickland

Electronic Theses and Dissertations

Intraspecific phenotype diversity allows for local adaption and the ability for species to respond to changing environmental conditions, enhancing survivability. Phenotypic variation could be stochastic, genetically based, and/or the result of different environmental conditions. Mojave Rattlesnakes, Crotalus scutulatus, are known to have high intraspecific venom variation, but the geographic extent of the variation and factors influencing venom evolution are poorly understood. Three primary venom types have been described in this species based on the presence (Type A) or absence (Type B) of a neurotoxic phospholipase A2 called Mojave toxin and an inverse relationship with the presence of snake venom metalloproteinases …

Altered Spring Phenology Of North American Freshwater Turtles And The Importance Of Representative Populations, Fredric J. Janzen, Luke A. Hoekstra, Ronald J. Brooks, David M. Carroll, J Whitfield Gibbons, Judith L. Greene, John B. Iverson, Jacqueline D. Litzgus, Edwin D. Michael, Steven G. Parren, Willem M. Roosenburg, Gabriel F. Strain, John K. Tucker, Gordon R. Ultsch

Faculty & Staff Scholarship

Globally, populations of diverse taxa have altered phenology in response to climate change. However, most research has focused on a single population of a given taxon, which may be unrepresentative for comparative analyses, and few long-term studies of phenology in ectothermic amniotes have been published. We test for climate- altered phenology using long-term studies (10–36 years) of nesting behavior in 14 populations representing six genera of freshwater turtles (Chelydra, Chrysemys, Kinosternon, Malaclemys, Sternotherus, and Trachemys). Nesting season initiation oc- curs earlier in more recent years, with 11 of the populations advancing phenology. The onset of nesting for nearly all populations …

Biol 448-H01: Neuropathophysiology, Darshan Desai

Biology Syllabi

No abstract provided.

Using Ttr50-127 Fragments As Probes To Detect Amyloidogenic Seeding, Luke Thomas Nelson, J. D. Schonhoft, Jeffrey Kelly, Jeff Duerr

Faculty Publications - Department of Biological & Molecular Science

The aggregation and amyloid deposition of soluble transthyretin (TTR) has been linked to the development sporadic and familial forms of cardiac amyloidosis. TTR associated cardiomyopathies are often diagnosed when the disease state has reached advanced stages (if at all), precluding effective clinical intervention. This diagnostic problem can largely be attributed to a lack of fundamental understanding of the mechanism of disease pathogenesis and the clinical similarities of TTR cardiomyopathies to other heart failure related conditions. In the human prion diseases and tau protein related neurodegenerative diseases, the amyloidogenic protein conformations have the ability to “seed” and transform non-amyloidogenic states into …

Diet Composition Explains Reductions In Stream Salamander Occupancy And Abundance Along A Conductivity Gradient, Jacob Matthew Hutton

Theses and Dissertations--Forestry and Natural Resources

Changes in land use such as mountaintop removal mining with valley fills (MTR/VF) affect chemical, physical, and hydrological properties of headwater streams. Although numerous stream taxa have experienced significant declines from MTR/VF, stream salamanders appear to be particularly sensitive. Yet, the specific mechanism(s) responsible for the population declines has eluded researchers. We sampled salamander assemblages across a continuous specific conductivity (SC) gradient in southeastern Kentucky and estimated occupancy rates and abundance estimates along this gradient. We also examined the diet of larval and adult salamanders to determine if autochthony (A/T prey), total prey volume, and body condition is influenced by …

Tropical Herbivorous Phasmids, But Not Litter Snails, Alter Decomposition Rates By Modifying Litter Bacteria, Chelse M. Prather, Gary E. Belovsky, Sharon A. Cantrell, Grizelle Gonzalez

Biology Faculty Publications

Consumers can alter decomposition rates through both feces and selective feeding in many ecosystems, but these combined effects have seldom been examined in tropical ecosystems. Members of the detrital food web (litter-feeders or microbivores) should presumably have greater effects on decomposition than herbivores, members of the green food web. Using litterbag experiments within a field enclosure experiment, we determined the relative effects of common litter snails (Megalomastoma croceum) and herbivorous walking sticks (Lamponius portoricensis) on litter composition, decomposition rates, and microbes in a Puerto Rican rainforest, and whether consumer effects were altered by canopy cover presence. Although canopy presence did …

45442 (Gmr18d08), Neha Gogia, Ankita Sarkar, Amit Singh

Dpp Enhancer Sequences Utilized in GMR Line

dpp enhancer - 45442

• Id - GMR 18D08
• Location - 2L:2446783,2449086
• Base pairs – 2303 bp

49283 (Gmr19c03), Neha Gogia, Ankita Sarkar, Amit Singh

Dpp Enhancer Sequences Utilized in GMR Line

dpp enhancer - 49283

• Id - GMR19C03
• Location - 2L:2440970,2444735
• Base pairs – 3765 bp

Improving Methods To Estimate Time Of Death From Body Temperature, Carly Berdan

Theses

By protocol, ambient and body temperatures are collected at every investigated death scene. These data has been used since 1839 to estimate the time of death, a crucial factor when it comes to cases of unnatural deaths and homicides. The Glaister Equation and Henssge's nomogram, commonly used to calculate estimated time of death, are inconsistent and often do not agree with each other. Therefore, my objective was to evaluate and improve them.

I collected data in the field and consistently measured temperature data. Furthermore, I was granted access to a database of every death in New Jersey and published data. …

A Bronchiolitis Study: The Overuse Of Bronchiolitis Therapies In Children Admitted Into The Hospital, Jocelyn S. Canedo

Theses and Dissertations

Bronchiolitis is prevalent among infants of 0 to 12 months, and usually caused by a variation of viruses. Signs and symptoms consist of coughing, rapid breathing, and an occasional fever in some infants. Bronchiolitis is not treated with antibiotics, but rather with proper medical examination and other procedures. Chest radiographs, steroids, and certain bronchodilators are considered ineffective treatments. This study identified the amount of ineffective procedures being used in infants admitted into the pediatric emergency room, and the effect it had on the patient’s average hospital stay. Past medical records were used in this clinical study. Statistical analyses and graphs …

Patterns Of Trematode Distribution From Hosts Collected At Lake Winnibigoshish, Minnesota, Scott Malotka

All Graduate Theses, Dissertations, and Other Capstone Projects

A comparative and seasonal study was performed on trematode populations and communities within waterfowl definitive hosts in order to determine important factors in the structuring of these communities. Furthermore, larval trematode populations were also sampled in order to compare larval stages found within snail hosts to adult stages found within collected waterfowl in order to determine where infections could have occurred with the trematode species. 52 birds including 18 blue-winged teal (Anas discors), 5 bufflehead (Bucephala albeola), 4 common goldeneye (Bucephala clangula), 1 greater scaup (Aythya marila), 1 green-winged teal (Anas carolinensis), 11 lesser scaup (Aythya affinis), 1 northern pintail …

Biodiversity And Evolution In The Guiana Shield, South America, Andrew Michael Snyder

Electronic Theses and Dissertations

The neotropics are characterized as the most species rich region in the world. Unfortunately, the region's unparalleled biodiversity has not protected it from ongoing threats such as agriculture, mining, logging, oil extraction, and climate change. I studied the biodiversity and evolution of the herpetofauna of South America in order to investigate the influence of historical geological and climatological events in shaping extant neotropical diversity, particularly the Guiana shield. For my research, I set out to explore the processes involved in shaping the remarkable extant diversity using anuran amphibians as models. With my dissertation, I provide a comprehensive review of the …

An Assessment Of Inheritance Patterns In Two Mutant Eye-Color Traits Of Drosophila Melanogaster, Jedidiah Heiser, Seth B. Yates

A with Honors Projects

This experiment was a two generation test cross (from F0 to F1 and F1 to F2) to check the patterns of inheritance and their chi-square significance. Wild-type males and females were paired with the opposite sex of the two mutant groups -- Sepia eyes and White eyes. The pairing thus resulted in 4 tube conditions. Generations were counted and identified by sex and phenotype -- Wild-type or Mutant. The next generation was seeded with approximately 6 - 8 individuals from each sex and released once the next generation reached their pupal phase. Fresh tubes were seeded between F1 and F2. …

Figure 2d: Effect Of Torpor On Host Transcriptomic Responses To A Fungal Pathogen In Hibernating Bats, Kenneth A. Field

Other Faculty Research and Publications

Fig 2. Comparison of M. lucifugus gene expression in tissues from torpid and aroused bats either uninfected or infected with P. destructans.

(a) Differential expression between tissue infected with P. destructans and uninfected tissue in torpid bats. (b) Differential expression between tissue infected with P. destructans and uninfected tissue in bats after arousal. (c) Differential expression between tissue from torpid and aroused bats not infected with P. destructans. (d) Differential expression between tissue from torpid and aroused bats infected with P. destructans. (a-d) Expression of …

Building Capacity For A Global Genome Editing Observatory: Conceptual Challenges, J. Benjamin Hurlbut, Sheila Jasanoff, Krishanu Saha, Aziza Ahmed, Anthony Appiah, Elizabeth Bartholet, Francoise Baylis, Gaymon Bennett, George Church, I. Glenn Cohen, George Daley, Kevin Finneran, William Hurlbut, Rudolf Jaenisch, Laurence Lwoff, John Paul Kimes, Peter Mills, Jacob Moses, Buhm Soon Park, Erik Parens, Rachel Salzman, Abha Saxena, Hilton Simmet, Tania Simoncelli, O. Carter Snead, Kaushik Sunder Rajan, Robert D. Truog, Patricia Williams, Christiane Woopen

Journal Articles

A new infrastructure is urgently needed at the global level to facilitate exchange on key issues concerning genome editing. We advocate the establishment of a global observatory to serve as a center for international, interdisciplinary, and cosmopolitan reflection.

Cloning And Soluble Expression Of Mature ${\Alpha}$-Luffin From Luffa Cylindrica In E. Coli Using Sumo Fusion Protein, Shaghayegh Namvar, Farzaneh Barkhordari, Mozhgan Raigani, Hoda Jahandar, Leila Nematollahi, Fatemeh Davami

Turkish Journal of Biology

${\alpha}$-Luffin, found in Luffa cylindrica seeds, is a type I ribosome inactivating proteins. Cytotoxic effects make it an appropriate candidate for the construction of immunotoxins and conjugates. Because of limited natural resources, recombinant technology is the best approach to achieve large-scale production of plant-based proteins. In the present study, ${\alpha}$-luffin protein was expressed in E. coli and the effects of different temperature conditions, SUMO fusion tag, and cultivation strategies on total expression and solubility were investigated. Protein expression was evaluated at different intervals (0, 4, 6, 8, 24 h) postinduction. Our results showed that EnBase had higher efficiency than LB, …

3.4 Million Real-World Learning Management System Logins Reveal The Majority Of Students Experience Social Jet Lag Correlated With Decreased Performance, Benjamin L. Smarr, Aaron E. Schirmer

Biology Faculty Publications

Misalignments between endogenous circadian rhythms and the built environment (i.e., social jet lag, SJL) result in learning and attention deficits. Currently, there is no way to assess the impact of SJL on learning outcomes of large populations as a response to schedule choices, let alone to assess which individuals are most negatively impacted by these choices. We analyzed two years of learning management system login events for 14,894 Northeastern Illinois University (NEIU) students to investigate the capacity of such systems as tools for mapping the impact of SJL over large populations while maintaining the ability to generate insights …

Release From Intraspecific Competition Promotes Dominance Of A Non-Native Invader, Robert Warren

Biology Faculty Datasets

Species can coexist through equalizing (similar fitness abilities) and stabilizing (unique niche requirements) mechanisms – assuming that intraspecific competition imposes more limitation than interspecific competition. Non-native species often de-stabilize coexistence, suggesting that they bring either a fitness advantage or a distinct niche requirement. We tested whether greater fitness or unique niche requirements best explained a successful North American invasion by the European Myrmica rubra ant. North American invaded-range M. rubra aggressively sting and occur in enormous numbers (suggesting a fitness advantage), yet our study site has a history of anthropogenic disturbance that might favor M. rubra (suggesting a unique niche). …

Evaluation Of The Phylogenetic Relationships Of The Marine Rivulariaceae., Jose Alberto Martinez Yerena

Masters Theses

Historically, the Rivulariaceae family has grouped all heteropolar, tapered and heterocitous Cyanobacteria, however recent description of multiple cyanobacterial populations with this morphotype using 16S rRNA phylogenies have reported that the populations with this morphotype are polyphyletic, and many new and old tapered and heteropolar genera (Cyanomargarita, Gloeothrichia, Rohoaltiella, etc.) have been classified and reclassified to different families than the Rivulariaceae. This is also the case of the main genera of the family (Rivularia and Calothrix), which have been repeatedly reported as polyphyletic, and whose separation to different families has been called for. In this project I carried out the evaluation …

A Novel Quantitative Real-Time Pcr Diagnostic Assay For Seal Heartworm (Acanthocheilonema Spirocauda) Provides Evidence For Possible Infection In The Grey Seal (Halichoerus Grypus), Caroline D. Keroack, Kalani M. Williams, M. K. Fessler, Kaela E. Deangelis, Eirini Tsekitsidou, Jillian M. Tozloski, Steven A. Williams

Biological Sciences: Faculty Publications

The distinct evolutionary pressures faced by Pinnipeds have likely resulted in strong coevolutionary ties to their parasites (Leidenberger et al., 2007). This study focuses on the phocid seal filarial heartworm speciesAcanthocheilonema spirocauda. A. spirocauda is known to infect a variety of phocid seals, but does not appear to be restricted to a single host species (Measures et al., 1997; Leidenberger et al., 2007; Lehnert et al., 2015). However, to date, seal heartworm has never been reported in grey seals (Halichoerus grypus) (Measures et al., 1997; Leidenberger et al., 2007; Lehnert et al., 2015). The proposed vector for seal heartworm is …

The Role Of Climate In The Dynamics Of Annual Plants In A Chihuahuan Desert Ecosystem, Danielle Ignace, Nancy Huntly, Peter Chesson

Biological Sciences: Faculty Publications

Question: What is the role of temporal climate fluctuations in the dynamics of desert winter annual plants in the Portal Bajada, and in the sustained irruption of the non-native annual plant species, Erodium cicutarium?

Field site: Portal Bajada, San Simon Valley, Arizona, USA. Methods: We counted plants at flowering over a 21-year period on twelve permanent plots and related these numbers to weather data collected at an on-site weather station, supplemented by observations from the National Climate Data Center. Specific summary climate variables considered most relevant to annual plant biology were developed as candidate predictors of plant response variables.

Statistical …