Digital Commons Network^™

Computational And Biochemical Characterizations Of Anhydrobiosis-Related Intrinsically Disordered Proteins., Brett R. Janis

Electronic Theses and Dissertations

Anhydrobiosis is the remarkable phenomenon of “life without water”. It is a common technique found in plant seeds, and a rare technique utilized by some animals to temporarily stop the clock of life and enter a stasis for up to several millennia by removing all of their cellular water. If this phenomenon can be replicated, then biological and medical materials could be stored at ambient temperatures for centuries, which would address research challenges as well as enhance the availability of medicine in areas of the world where refrigeration, freezing, and cold-chain infrastructure are not developed or infeasible. Furthermore, modifying crop …

Insight Into The Evolution Of Anuran Foot Flag Displays: A Comparative Study Of Color And Kinematics, Nigel K. Anderson, K. V. Gururaja, Lisa A. Mangiamele, Erin C. Netoskie, Sarah Smith, Matthew J. Fuxjager, Doris Preininger

Biological Sciences: Faculty Publications

Understanding how complex animal displays evolve is a major goal of evolutionary organismal biology. Here, we study this topic by comparing convergently evolved gestural displays in two unrelated species of frog (Bornean Rock Frog, Staurois parvus, and Kottigehara Dancing Frog, Micrixalus kottigeharensis). This behavior, known as a foot flag, is produced when a male ?waves' his hindlimb at another male during bouts of competition for access to mates. We assess patterns of variation in the color of frog feet and the kinematics of the display itself to help pinpoint similarities and differences of the visual signal elements. We find clear …

Large-Scale Genome Sampling Reveals Unique Immunity And Metabolic Adaptations In Bats, Diana D. Moreno Santillán, Tanya M. Lama, Yocelyn T. Gutierrez Guerrero, Alexis M. Brown, Paul Donat, Huabin Zhao, Stephen J. Rossiter, Laurel R. Yohe, Joshua H. Potter, Emma C. Teeling, Sonja C. Vernes, Kalina T.J. Davies, Eugene Myers, Graham M. Hughes, Zixia Huang, Federico Hoffmann, Angelique P. Corthals, David A. Ray, Liliana M. Dávalos

Biological Sciences: Faculty Publications

Comprising more than 1,400 species, bats possess adaptations unique among mammals including powered flight, unexpected longevity, and extraordinary immunity. Some of the molecular mechanisms underlying these unique adaptations includes DNA repair, metabolism and immunity. However, analyses have been limited to a few divergent lineages, reducing the scope of inferences on gene family evolution across the Order Chiroptera. We conducted an exhaustive comparative genomic study of 37 bat species, one generated in this study, encompassing a large number of lineages, with a particular emphasis on multi-gene family evolution across immune and metabolic genes. In agreement with previous analyses, we found lineage-specific …

Local Canopy Disturbance As An Explanation For Long-Term Increases In Liana Abundance, Stefan A. Schnitzer, David M. Defilippis, Marco Visser, Sergio Estrada-Villegas, Rigoberto Rivera-Camaña, Boris Bernal, Salomé Peréz, Abelino Valdéz, Seberino Valdéz, Antonio Aguilar, James W. Dalling, Eben N. Broadbent, Angelica M. Almeyda Zambrano, Stephen P. Hubbell, Maria Garcia-Leon

Biological Sciences Faculty Research and Publications

Canopy disturbance explains liana abundance and distribution within tropical forests and thus may also explain the widespread pattern of increasing liana abundance; however, this hypothesis remains untested. We used a 10-year study (2007–2017) of 117,100 rooted lianas in an old-growth Panamanian forest to test whether local canopy disturbance explains increasing liana abundance. We found that liana density increased 29.2% and basal area 12.5%. The vast majority of these increases were associated with clonal stem proliferation following canopy disturbance, particularly in liana-dense, low-canopy gaps, which had far greater liana increases than did undisturbed forest. Lianas may be ecological niche constructors, arresting …

King Mackerel (Scomberomorus Cavalla), Aubrey L. Anthony, Erin Keeley, David Kerstetter

All Scans: Kerstetter Fisheries and Avian Ecology 3D Scan Series

Neurocranium from [length] cm total length (TL) King Mackerel (Scomberomorus Cavalla), collected from Bravo Market on 11/16/2021 by Aubrey Anthony

From Microbes To Management: Spatial And Temporal Variations In Available Vegetation Affect The Gut Microbiota In A Population Of Free-Ranging Generalist Herbivores, Olivia K. Rodríguez

Boise State University Theses and Dissertations

The effects of extrinsic environmental factors that shape ecological systems are not only seen at the macroscopic level, but additionally influence and govern the host-associated microbial communities of their mammalian hosts. These microbial communities are susceptible to the fluctuation of abiotic and biotic factors which affect their host organisms. The surge in the research of microbiota–communities of archaea, bacteria, fungi, and viruses residing in various environmental systems–has shown that these communities can profoundly influence animal health. As such, monitoring microbiota has allowed for a new approach to study animal health and physiology. This is of particular benefit in the conservation …

Phenology Dictates The Impact Of Climate Change On Geographic Distributions Of Six Co-Occurring North American Grasshoppers, Nathan P. Lemoine

Biological Sciences Faculty Research and Publications

Throughout the last century, climate change has altered the geographic distributions of many species. Insects, in particular, vary in their ability to track changing climates, and it is likely that phenology is an important determinant of how well insects can either expand or shift their geographic distributions in response to climate change. Grasshoppers are an ideal group to test the hypothesis that phenology correlates with range expansion, given that co-occurring confamilial, and even congeneric, species can differ in phenology. Here, I tested the hypothesis that early- and late-season species should possess different range expansion potentials, as estimated by habitat suitability …

Herbivores Alleviate The Negative Effects Of Extreme Drought On Plant Community By Enhancing Dominant Species, Chong Xu, Yuguang Ke, Honghui Wu, Melinda D. Smith, Nathan P. Lemoine, Weiguo Zhang, Qiang Yu

Biological Sciences Faculty Research and Publications

Aims

Both extreme drought and insect herbivores can suppress plant growth in grassland communities. However, most studies have examined extreme drought and insects in isolation, and there is reason to believe that insects might alter the ability of grasslands to withstand drought. Unfortunately, few studies have tested the interactive effects of extreme drought and insect herbivores in grassland communities.

Methods

Here, we tested the drought–herbivore interactions using a manipulative experiment that factorially crossed extreme drought with the exclusion of insect herbivores in a temperate semiarid grassland in Inner Mongolia.

Important Findings

Our results demonstrated that both extreme drought and insect …

Patch Size Drives Colonization By Aquatic Insects, With Minor Priority Effects Of A Cohabitant, Reed C. Scott, Matthew R. Pintar, William J. Resetarits

Faculty and Student Publications

Patch size is one of the most important factors affecting the distribution and abundance of species, and recent research has shown that patch size is an important niche dimension affecting community structure in aquatic insects. Building on this result, we examined the impact of patch size in conjunction with presence of larval anurans on colonization by aquatic insects. Hyla chrysoscelis (Cope's gray treefrog) larvae are abundant and early colonists in fishless lentic habitats, and these larvae can fill multiple ecological roles. By establishing larvae in mesocosms prior to colonization, we were able to assess whether H. chrysoscelis larvae have priority …

The Philosophy Of Outliers: Reintegrating Rare Events Into Biological Science, Chelsea N. Cook, Angela R. Freeman, James C. Liao, Lisa A. Mangiamele

Biological Sciences Faculty Research and Publications

Individual variation in morphology, physiology, and behavior has been a topic of great interest in the biological sciences. While scientists realize the importance of understanding diversity in individual phenotypes, historically the “minority” results (I.e., outlier observations or rare events) of any given experiment have been dismissed from further analysis. We need to reframe how we view “outliers” to improve our understanding of biology. These rare events are often treated as problematic or spurious, when they can be real rare events or individuals driving evolution in a population. It is our perspective that to understand what outliers can tell us in …

Complete Vertebrate Mitogenomes Reveal Widespread Repeats And Gene Duplications, Giulio Formenti, Arang Rhie, Jennifer Balacco, Bettina Haase, Jacquelyn Mountcastle, Olivier Fedrigo, Samara Brown, Marco Rosario Capodiferro, Farooq O. Al-Ajli, Roberto Ambrosini, Peter Houde, Sergey Koren, Karen Oliver, Michelle Smith, Jason Skelton, Emma Betteridge, Jale Dolucan, Craig Corton, Iliana Bista, James Torrance, Alan Tracey, Jonathan Wood, Marcela Uliano-Silva, Kerstin Howe, Shane Mccarthy, Sylke Winkler, Woori Kwak, Jonas Korlach, Arkarachai Fungtammasan, Et Al, Tanya M. Lama

Biological Sciences: Faculty Publications

Background: Modern sequencing technologies should make the assembly of the relatively small mitochondrial genomes an easy undertaking. However, few tools exist that address mitochondrial assembly directly. Results: As part of the Vertebrate Genomes Project (VGP) we develop mitoVGP, a fully automated pipeline for similarity-based identification of mitochondrial reads and de novo assembly of mitochondrial genomes that incorporates both long (> 10 kbp, PacBio or Nanopore) and short (100–300 bp, Illumina) reads. Our pipeline leads to successful complete mitogenome assemblies of 100 vertebrate species of the VGP. We observe that tissue type and library size selection have considerable impact on mitogenome …

The Brown Bear Gut Microbiome: A Novel Tool For Conservation & Management, Sarah M. Trujillo

All NMU Master's Theses

Gut microbiomes (GMBs), complex communities of microorganisms inhabiting the gastrointestinal tracts of their hosts, perform countless micro-ecosystem services such as facilitating energy uptake and modulating immune responses. While scientists increasingly recognize the role GMBs play in host health, the role of GMBs in wildlife ecology and conservation has yet to be realized fully. Here, I use brown bears (Ursus arctos) as an ecological model to investigate (1) how both extrinsic and intrinsic factors influence GMB community membership and structure; and (2) the correlation between GMB membership and brown bear health metrics. To achieve these aims, I subsampled archived …

Gather Round The Tree: Woody Aboveground Biomass Increases Animal Presence And Species Richness In A Tropical Forest-Savanna Ecotone, Merry Vanessa Marshall Davidson

Boise State University Theses and Dissertations

Boundaries between ecosystems are often biodiversity hotspots with relatively high vulnerability to global change. The boundary between tropical rainforest and savanna ecosystems in the Amazon presents an ecotone that is undergoing a shift in ecosystem structure, as a warming climate promotes the expansion of grassland. How animal communities in the Amazon will respond to changes in ecosystem structure is a crucial unanswered question with implications for the many ecosystem services that animals provide, from a food source for Indigenous people to seed dispersal for vulnerable tree populations. Recent modeling work has forecasted that faunal savannization will occur in the Amazon, …

Role Of Hsp70 And The Tlr4-Md2 Complex In The Vasculature: From Function To Dysfunction In Diabetes, Amanda Almeida De Oliveira

Theses and Dissertations

Diabetes impairs vascular functionality, which contributes to the pathophysiology of its associated complications. Recently, it was suggested that innate immune receptors assist in the development of diabetic vasculopathies, which sustains the pro-inflammatory state of the disease. Among these receptors, Toll-like receptor 4 (TLR4) is a strategic player as its activation prime the release of inflammatory mediators and reactive oxygen species (ROS), which are well-known pathological mechanisms linked to diabetic complications. The TLR4-Myeloid differentiation factor 2 (MD2) complex has gained much attention over the last decade, primarily because it interacts with self-produced molecules. In vascular tissues, the Heat-shock protein 70 (HSP70) …

Light Level Intensity Alters Anxiety, But Not Memory, During Open-Field And Novel Object Location Tasks In Male Rats, Angelina Tassone

Biological Sciences

Appropriate design and control of testing conditions during assessment of animal behavior is critical to maximize generalizability, replicability, and translational relevance. Some sensory stimuli are often controlled: for instance, during rodent behavioral testing, efforts are commonly made to reduce or eliminate olfactory and auditory distractions. However, less attention is paid to the ambient light level intensity (lux), which may vary even between rooms in the same facility. We sought to explore whether behavior is influenced by the standard illumination intensity in one of our behavioral testing rooms. To this end, we measured anxiety-like behaviors, exploration, and spatial memory performance in …

How Salivary Glands Recover From Fibrotic Injury, Gabriella Majka

Biological Sciences

Extracellular matrix deposition is required for repair after injury, but if left unresolved can result in fibrosis. Fibrosis is an excess deposition of extracellular matrix proteins following injury or aging that leads to eventual organ dysfunction. One surgical model that we have used to study mechanisms of fibrosis is the salivary gland ductal ligation model. During the process of ligation, a clip is placed on the main ducts of the submandibular (SMG) and sublingual gland (SLG) which leads from the salivary glands to the mouth. This causes the gland to atrophy, or waste away, resulting in decreased acinar cell differentiation …

Characterization Of Soil Nematode Community As Influenced By Weedy Plants And Edaphic Properties, Orlando Garcia

Theses and Dissertations

Nematodes are one of the most critical species globally as they are part of most nutrient recycling. While nematodes play a vital role in nutrient cycling, little is known about them from an ecological standpoint. The majority of current research has focused on a singular component of the community, being those of herbivore/plant-parasitic nematodes. In this study, the community shifts of the nematode trophic groups were analyzed as influenced by native and invasive grasses species in the Lower Rio Grande Valley (LRGV) with the addition of edaphic soil properties.

In our study, the results indicate changes in the composition of …

Early Embryology In Collembola With An Emphasis On Wing Development, Samantha A. Gonzalez

Theses and Dissertations

The primary objective of this study was to further the understanding of the wing origin in insects. Currently there are several theories which are popular such as the tergum theory, the pleural plate theory, and the dual theory of wing origin. Studies for these theories have been done on crustaceans, the ancestors to modern day insects. By utilizing a pre insect hexapod, it may be possible to better understand the transition to insect wings. Members of the Collembola species Hypogastrurid are one of these pre-insect hexapods which may provide a clue into origins of wing development. During this study, the …

Duet Phonology And Syntax Of The Red-Crowned Parrots In South Texas, Abigail Pozulp

Theses and Dissertations

Bird behavioral interaction systems show a preference for temporal precision. This preference is exemplified in the way many species avoid masking of vocal signals. Antiphonal duetting in songbirds suggest that overlapping notes are a sign of poor temporal coordination which can signify a weak pairbond, a possible cue for conspecifics seeking to usurp territories or mates. However, parrots (Psittacidae) are accomplished yet understudied duetters in nature. I recorded antiphonal duets produced by a wild population of red-crowned parrots (Amazona viridigenalis) in Brownsville, Texas. Temporal and acoustic variation of signals was assessed within and across a sample of mated …

Home Range Dynamics And Juvenile Dispersal Of Gray Hawks In The Lower Rio Grande Valley, Michael Stewart

Theses and Dissertations

Using GPS-GSM transmitters I determined when 14 juvenile Gray Hawks (Buteo plagiatus) in the Lower Rio Grande Valley of Texas fledged from their natal areas and how far they traveled once they dispersed. These transmitters also allowed me to calculate home range sizes for 22 adults. Additionally, with the GPS-GSM transmitters and 15 VHF transmitters, I discovered that adult Gray Hawks in the study area remained in their territories year-round. Home range sizes were calculated using the minimum convex polygon estimator, the estimation of kernel home-range, and the estimation of kernel Brownian bridge home-range. The same three methods allowed me …

Reintegrating Biology Through The Nexus Of Energy, Information, And Matter, Kim L. Hoke, Sara L. Zimmer, Adam B. Roddy, Mary Jo Ondrechen, Craig E. Williamson, Nicole R. Buan

Department of Biochemistry: Faculty Publications

Information, energy, and matter are fundamental properties of all levels of biological organization, and life emerges from the continuous flux of matter, energy, and information. This perspective piece defines and explains each of the three pillars of this nexus. We propose that a quantitative characterization of the complex interconversions between matter, energy, and information that compose this nexus will help us derive biological insights that connect phenomena across different levels of biological organization. We articulate examples from multiple biological scales that highlight how this nexus approach leads to a more complete understanding of the biological system. Metrics of energy, information, …

Quantifying Planarian Behavior As An Introduction To Object Tracking And Signal Processing, Nicole C. Stowell, T. Goel, Vir Shetty , '22, Jocelyne Noveral, Eva-Maria S. Collins

Biology Faculty Works

Answers to mechanistic questions about biological phenomena require fluency in a variety of molecular biology techniques and physical concepts. Here, we present an interdisciplinary approach to introducing undergraduate students to an important problem in the areas of animal behavior and neuroscience—the neuronal control of animal behavior. In this lab module, students explore planarian behavior by quantitative image and data analysis with freely available software and low-cost resources. Planarians are ∼1–2-cm-long aquatic free-living flatworms famous for their regeneration abilities. They are inexpensive and easy to maintain, handle, and perturb, and their fairly large size allows for image acquisition with a webcam, …

Transgenerational Differences Between Two Culturally Distinct Prairie Vole Populations, Richard Joaquin Ortiz

Open Access Theses & Dissertations

Culture can be described as a system of environmental beliefs, values, and social practices within one’s environment. This system is passed on from generation to generation and provides a basis for an individual’s behaviors and cognitive perceptions. Cultural neuroscience is an emerging field that intertwines domains of anthropology, psychology, neuroscience, and genetics to help understand the underlying processes, neural mechanisms and genomic factors that vary across cultures. Similar to humans, the socially monogamous prairie vole (Microtus ochrogaster) display populational differences in prosocial behavior and aggression based upon region-specific cultural upbringing and parental lineage. Prairie voles originating from Kansas (KS) display …

Development Of Comprehensive Theoretical Morphospaces For Canine Cranial Morphology, Alexa Ortega, Nicholas Hebdon, Lindsay Waldrop

Student Scholar Symposium Abstracts and Posters

Throughout the evolution of the family Canidae, there is a continuous belief that canines have an exceptional olfactory system which allows them to have a heightened sense of smell. Because of this olfactory sophistication, canines have become prevalent as detection animals in the military, homeland security, law enforcement, forensics, and civilian applications. However, while the trait is highly regarded, the exact role of nasal morphology is understudied. We aim to investigate the influences of nasal cavity and internal structure morphology in odor detection. However, nasal structure is a sophisticated morphological target and requires innovative solutions to capture the key variables …

The Philosophy Of Outliers: Reintegrating Rare Events Into Biological Science, Chelsea N. Cook, Angela R. Freeman, James C. Liao, Lisa A. Mangiamele

Biological Sciences: Faculty Publications

Individual variation in morphology, physiology, and behavior has been a topic of great interest in the biological sciences.While scientists realize the importance of understanding diversity in individual phenotypes, historically the minority results (i.e., outlier observations or rare events) of any given experiment have been dismissed from further analysis. We need to reframe how we view outliers to improve our understanding of biology. These rare events are often treated as problematic or spurious, when they can be real rare events or individuals driving evolution in a population. It is our perspective that to understand what outliers can tell us in our …

Population Connectivity In Voles (Microtus Sp.) As A Gauge For Tall Grass Prairie Restoration In Midwestern North America, Marlis R. Douglas, Steven M. Mussmann, Tyler Chafin, Whitney J.B. Anthonysamy, Mark A. Davis, Matthew P. Mulligan, Robert L. Schooley, Wade Louis, Michael E. Douglas

Biological Sciences Faculty Publications and Presentations

Ecological restoration can promote biodiversity conservation in anthropogenically fragmented habitats, but effectiveness of these management efforts need to be statistically validated to determine ’success.’ One such approach is to gauge the extent of recolonization as a measure of landscape permeability and, in turn, population connectivity. In this context, we estimated dispersal and population connectivity in prairie vole (Microtus ochrogaster; N = 231) and meadow vole (M. pennsylvanicus; N = 83) within five tall-grass prairie restoration sites embedded within the agricultural matrix of midwestern North America. We predicted that vole dispersal would be constrained by the …

Cnidarian Hair Cell Development Illuminates An Ancient Role For The Class Iv Pou Transcription Factor In Defining Mechanoreceptor Identity, Ethan Ozment, Arianna N. Tamvacakis, Jianhong Zhou, Pablo Yamild Rosiles-Loeza, Estaban Elias Escobar-Hernandez, Selene L. Fernandez-Valverde, Nagayasu Nakanishi

Biological Sciences Faculty Publications and Presentations

Although specialized mechanosensory cells are found across animal phylogeny, early evolutionary histories of mechanoreceptor development remain enigmatic. Cnidaria (e.g. sea anemones and jellyfishes) is the sister group to well-studied Bilateria (e.g. flies and vertebrates), and has two mechanosensory cell types - a lineage-specific sensory effector known as the cnidocyte, and a classical mechanosensory neuron referred to as the hair cell. While developmental genetics of cnidocytes is increasingly understood, genes essential for cnidarian hair cell development are unknown. Here, we show that the class IV POU homeodomain transcription factor (POU-IV) - an indispensable regulator of mechanosensory cell differentiation in Bilateria and …

Northern Bobwhite Occupancy Patterns On Multiple Spatial Scales Across Arkansas, Ellery V. Lassiter, Marcus Asher, Grace Christie, Connor Gale, Andrhea Massey, Cody Massery, Christopher R. Middaugh, John T. Veon, Brett A. Degregorio

Biological Sciences Faculty Publications and Presentations

Northern bobwhite Colinus virginianus populations have been rapidly declining in the eastern, central, and southern United States for decades. Land use change and an incompatibility between northern bobwhite resource needs and human land use practices have driven declines. Here, we applied occupancy analyses on two spatial scales (state level and ecoregion level) to more than 5,000 northern bobwhite surveys conducted over 6 y across the entire state of Arkansas to explore patterns in occupancy and land use variables, and to identify priority areas for management and conservation. At the state level, northern bobwhite occupied 29% of sites and northern bobwhite …

Structural Analysis And Vaccine Efficacy Of Hla Mutants, Kelly Tomaszewski

Arts & Sciences Graduate Student Theses and Dissertations

Staphylococcus aureus is a commensal of the human skin and also a major human pathogen. Currently, there has been no successful vaccine despite many approaches over the last two decades. S. aureus α-hemolysin (Hla), a potent cytotoxin, plays an important role in the pathogenesis of S. aureus diseases, through the activation of its receptor, ADAM10. We utilized three distinct Hla mutants with differing structural and ADAM10 binding properties to examine for vaccine efficacy. Our studies have demonstrated immunization with each vaccine candidate antigens provided significant protection against S. aureus skin infection yet elicited distinguishable immune responses. We have also generated …

Applying Behavioral And Physiological Measures To Assess The Relative Impact Of The Prolonged Covid-19 Pandemic Closure On Two Mammal Species At The Oregon Zoo: Cheetah (A. Jubatus) And Giraffe (G. C. Reticulata And G. C. Tippelskirchii), Laurel Fink, Candace D. Scarlata, Becca Vanbeek, Todd Bodner, Nadja C. Wielebnowski

Biology Faculty Publications and Presentations

The effect of visitor presence on zoo animals has been explored in numerous studies over the past two decades. However, the opportunities for observations without visitors have been very limited at most institutions. In 2020, the Oregon Zoo was closed, in response to the global SARSCoV-2 (COVID-19) pandemic, from 15 March 2020 to 12 July 2020, resulting in approximately four consecutive months without visitor presence. This study aimed to quantify potential behavioral and hormonal changes expressed during two transition periods in zoo visitor attendance: the initial time period before and after closure in March 2020 and time before and after …