Digital Commons Network^™

A Deeper Meaning For Shallow-Level Phylogenomic Studies: Nested Anchored Hybrid Enrichment Offers Great Promise For Resolving The Tiger Moth Tree Of Life (Lepidoptera: Erebidae: Arctiinae), Nicolas J. Dowdy, Shannon Keating, Alan R. Lemmon, Emily M. Lemmon, William E. Conner, Clare H. Scott Chialvo, Susan Weller, Rebecca B. Simmons, Melissa S. Sisson, Jennifer M. Zaspel

Department of Entomology: Faculty Publications

Anchored hybrid enrichment (AHE) has emerged as a powerful tool for uncovering the evolutionary relationships within many taxonomic groups. AHE probe sets have been developed for a variety of insect groups, though none have yet been shown to be capable of simultaneously resolving deep and very shallow (e.g., intraspecific) divergences. In this study, we present NOC1, a new AHE probe set (730 loci) for Lepidoptera specialized for tiger moths and assess its ability to deliver phylogenetic utility at all taxonomic levels. We test the NOC1 probe set with 142 individuals from 116 species sampled from all the major lineages of …

Investigation Of An Elevational Gradient Reveals Strong Differences Between Bacterial And Eukaryotic Communities Coinhabiting Nepenthes Phytotelmata, Kadeem J. Gilbert, Leonora S. Bittleston, Mark Arcebal K. Naive, Anthony E. Kiszewski, Perry Archival C. Buenavente, David J. Lohman, Naomi E. Pierce

Publications and Research

Elevation is an important determinant of ecological community composition. It integrates several abiotic features and leads to strong, repeatable patterns of community structure, including changes in the abundance and richness of numerous taxa. However, the influence of elevational gradients on microbes is understudied relative to plants and animals. To compare the influence of elevation on multiple taxa simultaneously, we sampled phytotelm communities within a tropical pitcher plant (Nepenthes mindanaoensis) along a gradient from 400 to 1200 m a.s.l. We use a combination of metabarcoding and physical counts to assess diversity and richness of bacteria, micro-eukaryotes, and arthropods, and compare the …

What Smells? Developing In-Field Methods To Characterize The Chemical Composition Of Wild Mammalian Scent Cues, Cynthia Thompson, Kimberly N. Bottenberg, Andrew W. Lantz, Maria A B De Oliveira, Leonardo C O Melo, Christopher J. Vinyard

Peer Reviewed Articles

Olfactory cues play an important role in mammalian biology, but have been challenging to assess in the field. Current methods pose problematic issues with sample storage and transportation, limiting our ability to connect chemical variation in scents with relevant ecological and behavioral contexts. Real-time, in-field analysis via portable gas chromatography–mass spectrometry (GC-MS) has the potential to overcome these issues, but with trade-offs of reduced sensitivity and compound mass range. We field-tested the ability of portable GC-MS to support two representative applications of chemical ecology research with a wild arboreal primate, common marmoset monkeys (Callithrix jacchus). We developed methods …

Diversity And Ethnobotanical Importance Of Pine Species From Sub-Tropical Forests, Azad Jammu And Kashmir, Kishwar Sultana, Sher Wali Khan, Safdar Ali Shah

Journal of Bioresource Management

A general investigation of sub-tropical forests, from Pir Chinasi National Park, Tolipir National Park, Dhirkot Nature Reserve and Banjosa Game Reserve was carried out during different months from February 2008 to May 2010. The relative abundance of species was calculated using line transects of 50m. A total of five different species (Abies pindrow. Cedrus deodara, Pinus wallichiana, Pinus roxburgii and Picea smithiana) from the Pinaceae family were recorded. The main reported use of Cedrus deodara and Pinus wallichiana by the local people was for furniture and construction purposes. Pinus wallichiana was observed as the dominant …

Taxonomy And Systematics Of The New Zealand Pselaphini (Coleoptera: Staphylinidae: Pselaphinae), Brittany Elin Owens

LSU Doctoral Dissertations

The New Zealand (NZ) Pselaphini was revised at the species level, a phylogenetic analysis was performed using morphological data, and first steps were taken towards the construction of a molecular analysis of the tribe. Eight new genera and 33 new species were discovered from specimens collected from the NZ mainland, offshore islands, Chatham Islands and the Subantarctic Islands. Of the 13 species originally described in the genus Pselaphus by Thomas Broun during the late 19^th and early 20^th centuries, all were either reassigned to the genera Pselaphaulax and Pselaphogenius, or were placed into new genera. Three names …

Sandhill Crane Abundance In Nebraska During Spring Migration: Making Sense Of Multiple Data Points, Andrew J. Caven, Dana M. Varner, Jeff Drahota

Transactions of the Nebraska Academy of Sciences and Affiliated Societies

The USFWS conducts an annual one-day aerial survey of the North and Central Platte River Valleys, generally on the fourth Tuesday in March, to estimate the abundance of the midcontinent Sandhill Crane population. However, these abundance indices demonstrate unrealistic inter-annual variation as a result of deviations in migration chronology and other factors. Additional research efforts have been undertaken within the region to estimate Sandhill Crane abundance over time and space but these projects generally seek to answer unique questions, employ differing survey methods, and cover overlapping yet distinct survey areas. Despite the wealth of information there remains significant uncertainty regarding …

The Gut Microbiota Of A Wild American Black Bear (Ursus Americanus) Population, Sierra Gillman

All NMU Master's Theses

The gut microbiome (GMB), the mutualistic microbial communities located in the gastrointestinal tract (GIT), has co-evolved in vertebrates to perform micro-ecosystem services to facilitate physiological functions. Despite the key role of the GMB in host health, wildlife managers have been slow to consider the ramifications of anthropogenic pressures to wildlife-GMB diversity. For example, although diet is one of the most influential determinants of a host’s GMB, many wildlife agencies allow baiting with human-provisioned foods to facilitate the harvest of wildlife such as American black bear (Ursus americanus). Additionally, much of our knowledge of wildlife-GMB relationships is based on …

Early Goose Arrival Increases Soil Nitrogen Availability More Than An Advancing Spring In Coastal Western Alaska, Ryan T. Choi, Karen H. Beard, Katharine C. Kelsey, A. Joshua Leffler, Joel A. Schmutz, Jeffrey M. Welker

Ecology Center Publications

An understudied aspect of climate change-induced phenological mismatch is its effect on ecosystem functioning, such as nitrogen (N) cycling. Migratory herbivore arrival time may alter N inputs and plant–herbivore feedbacks, whereas earlier springs are predicted to increase N cycling rates through warmer temperatures. However, the relative importance of these shifts in timing and how they interact to affect N cycling are largely unknown. We conducted a 3-year factorial experiment in coastal western Alaska that simulated different timings of Pacific black brant (Branta bernicla nigricans) arrival (3 weeks early, typical, 3 weeks late, or no-grazing) and the growing season …

Land Use Influences Along Elevation Gradient On Macroinvertebrate Communities, Brittany Sprout

Electronic Theses and Dissertations

Land use activities have caused disturbances that affect the quality of freshwater ecosystems worldwide. How the influences of land use along an environmental gradient and the associated environmental variables that may influence stream diversity and function is unclear. We address these issues by studying biodiversity, abundance, and functional diversity of macroinvertebrates across different land types along a gradient in Colorado, USA. We also address how diversity may change along an elevation gradient by analyzing previously published macroinvertebrate research. We found evidence that land use and disturbance are stronger explanations of changes in macroinvertebrate communities, rather than elevation. Functional trait patterns …

The First Global Deep-Sea Stable Isotope Assessment Reveals The Unique Trophic Ecology Of Vampire Squid Vampyroteuthis Infernalis (Cephalopoda), A. V. Golikov, F. R. Ceia, R. M. Sabirov, J. D. Ablett, Ian G. Gleadall, Gudmundur Gudmundsson, Henk-Jan T. Hoving, Heather L. Judkins

USF St. Petersburg Campus Faculty Publications

Vampyroteuthis infernalis Chun, 1903, is a widely distributed deepwater cephalopod with unique morphology and phylogenetic position. We assessed its habitat and trophic ecology on a global scale via stable isotope analyses of a unique collection of beaks from 104 specimens from the Atlantic, Pacific and Indian Oceans. Cephalopods typically are active predators occupying a high trophic level (TL) and exhibit an ontogenetic increase in δ15N and TL. Our results, presenting the first global comparison for a deep-sea invertebrate, demonstrate that V. infernalis has an ontogenetic decrease in δ15N and TL, coupled with niche broadening. Juveniles are mobile zooplanktivores, while larger …

Selection Of Forage And Avoidance Of Predation Risk By Partially Migratory Mule Deer, Collin Jeffrey Peterson

Graduate Student Theses, Dissertations, & Professional Papers

Migration by ungulates has traditionally been thought of as a strategy that increases access to forage quality or reduces exposure to risk of predation, but the benefits of migration may be waning globally. In partially migratory populations, the persistence of both migrant and resident strategies is an intriguing ecological phenomenon, because migrants and residents often face contrasting fitness consequences. Partial migration is common in mule deer (Odocoileus hemionus), a species that has experienced widespread declines across the western United States during recent decades. Mule deer seldom switch between migratory strategies throughout their lifetime, which may make them less resilient to …

Is Context Dependency Imperative To Understanding The Impacts Of Invasive Plants?, Brendan B. Haile

Masters Theses

Introduced exotic species have a tendency to become invasive and impact local biological communities. Invasions often impact community attributes such as cover and species richness, but these factors may also regulate patterns of invasion. In such cases, impacts may be dependent on the invasion context. We used data from the Buell-Small Succession Study, a long-term permanent plot study in the piedmont region of New Jersey, to document context dependency in invasion. To do this, we analyzed the factors that affected the colonization and growth of four invasive species, Alliaria petiolata, Lonicera japonica, Microstegium vimineum and Rosa multiflora, as well …

A Comparative Spatial And Climate Analysis Of Human Granulocytic Anaplasmosis And Human Babesiosis In New York State (2013-2018), Collin J. O'Connor

Legacy Theses & Dissertations (2009 - 2024)

Human granulocytic anaplasmosis (HGA) and human babesiosis are tick-borne diseases spread by Ixodes scapularis (the blacklegged or deer tick) and are the result of infection with Anaplasma phagocytophilum and Babesia microti, respectively. In New York State (NYS), incidence rates of these diseases increased concordantly until around 2013, when rates of HGA began to increase more rapidly than human babesiosis, and the spatial extent of the diseases diverged. Surveillance data of tick-borne pathogens (2007 to 2018) and reported human cases of HGA (n=4,297) and human babesiosis (n=2,986) (2013 to 2018) from the New York State Department of Health (NYSDOH) showed a …

Food Web Effects Of Lake Trout (Salvelinus Namaycush) Invasion In Northwestern Montana, Charles Wainright

Graduate Student Theses, Dissertations, & Professional Papers

Around the turn of the 20th century, lake trout (Salvelinus namaycush) were widely introduced in several lakes and reservoirs outside their native range in western North America. Since then, lake trout have become problematic in many lakes where they were introduced, causing significant declines in popular sport fishes and native species, most notably federally protected bull trout (Salvelinus confluentus). Despite evidence that invasive fish can cause cascading trophic effects in aquatic communities, the impacts of lake trout introduction / invasion on aquatic food webs remain poorly understood. Moreover, native fish restoration programs tend to focus on suppression …

Diet Of A Recently Reintroduced River Otter (Lontra Canadensis) Population In Taos County, New Mexico, Gabriela Alexandra Wolf-Gonzalez

Theses and Dissertations--Forestry and Natural Resources

North American river otters (Lontra canadensis), native to every U.S. state and Canada, experienced extensive population decreases and range reduction until the mid-20th century as a result of overexploitation and habitat loss during European colonization. The last known river otter in New Mexico was killed on the Gila River in 1953, although unverified reports continued thru 2008. After a nearly 60-year absence from New Mexico, 33 adult river otters were reintroduced to the Rio Pueblo de Taos in the northern part of the state between 2008-2010; however, they were not subsequently monitored or studied. I characterized diet of …

Vertebrate Natural History Notes From Arkansas, 2020, C. Renn Tumlison, Matt Connior, Blake Sasse, Henry Robison, Stan Trauth, S Higdon, L Baer, Z. Baer, R. Stinson, D. Carson, T. Inebnit, L. Lewis, Roger Perry, Ron Redman

Journal of the Arkansas Academy of Science

Smaller details of natural history often go undocumented to science if those details are not parts of larger studies, but small details can provide insights that lead to interesting questions about ecological relationships or environmental change. We have compiled recent important observations of distribution and reproduction of fishes and mammals. Included are new distributional records of mammals, and observations of reproduction in several mammals for which few data exist in Arkansas. A rare record of the Long-tailed weasel, a special of special concern in Arkansas, is documented from Newton Co. We also provide evidence that Seminole bats likely reproduce in …

The Effect Of Seasonality On Yellow Perch Ecology And Ecotoxicology Within Lake Manganese, Bailey Duxbury

Dissertations, Master's Theses and Master's Reports

Seasonality is a consistent component of aquatic ecosystems yet most fish biological and ecotoxicological studies commonly employ field sampling protocols focused during the warm open water season with minimal emphasis placed on winter sampling, especially for north-temperate latitude ecosystems. Such strategies limit our understanding of poikilotherm biology and ecology during the overwintering seasons. Here, I investigated seasonal changes in yellow perch (Perca flavescens) biology, ecology and ecotoxicology over a one-year period in Lake Manganese. Significant seasonality was observed for metrics including fish energy densities (kJ/g), gonadosomatic indices, whole-body lipid contents, and carbon stable isotope values (δ¹³C). …

Monk Parakeet (Myiopsitta Monarchus Boddaert, 1783), Michael L. Avery

United States Department of Agriculture Wildlife Services: Staff Publications

Common Names: Monk Parakeet, Quaker Parakeet, Quaker Parrot, Quaker Conure, Grey-headed Parakeet

The natural distribution of the Monk Parakeet (Myiopsitta monachus Boddaert, 1783) extends from southern Bolivia, through Paraguay, southern Brazil and Uruguay to southern Argentina (Fig. 10.1 ). It is documented as invasive in a range of countries, and of these, there are at least 17 countries where they are breeding in the wild, as detailed below. ...

The Monk Parakeet is among the most successful invasive bird species in the world. Unlike many other invasive birds, such as the Ring-necked Parakeet (Psittacula krameri) and the …

Black Vulture Conflict And Management In The United States: Damage Trends, Management Overview, And Research Needs, Bryan M. Kluever, Morgan Pfeiffer, Scott C. Barras, Brett Dunlap, Lee A. Humberg

United States Department of Agriculture Wildlife Services: Staff Publications

Contrary to rapid declines of many vulture (Accipitridae, Cathartidea) species worldwide, black vulture (Coragyps atratus) populations are increasing and expanding their range in North America. Vultures exhibit complex behaviors and can adapt to any human-dominated landscape or land use. These traits, combined with population growth and range expansion, have contributed to increased human–vulture conflicts. Our goal was to summarize the current status and trends in human–black vulture conflicts (hereafter human– vulture conflicts), review available management strategies, identify knowledge gaps, and provide recommendations to enhance management and understanding of this species and the associated conflicts. We found human–vulture conflicts …

The Natural History Of The Marsh Rice Rat, Oryzomys Palustris, In Eastern Virginia, Robert K. Rose

Biological Sciences Faculty Publications

The marsh rice rat, Oryzomys palustris, is a common rodent in tidal marshes of eastern Virginia, including those on the barrier islands. It also is present in grassy old fields in upland habitats in the coastal plain and parts of the piedmont of Virginia. This report summarizes what has been learned in recent decades about the population biology of this species in Virginia, including aspects of behavior, density, diet, distribution, genetics, habitats, mammal associates, and reproduction.

More Than Meets The Eye: A Taxonomic Revision Of The Nearctic Species In The Eye-Gnat Genus Amiota Loew (Diptera: Drosophilidae), Lance E. Jones

Dissertations and Theses

Thorough biotic inventories are still needed even in families as seemingly well-studied as fruit flies (Diptera: Drosophilidae). Drosophilidae have had an outsize effect on the history of biology because of their pivotal role in the study of genetics, development, and evolution. Even with more than a century of intensive study, large gaps remain in our understanding of diversity in this fly family, including well-studied areas such as North America. This thesis presents a taxonomic revision of the Nearctic species of the genus Amiota Loew. Twenty-three species are identified as being new to science for publication at a later date. This …

Evaluation Of The Impacts Of Radio-Marking Devices On Feral Horses And Burros In A Captive Setting, Kathryn A. Schoenecker, Sarah R. B. King, Gail H. Collins

Human–Wildlife Interactions

Radio-collars and other radio-marking devices have been invaluable tools for wildlife managers for >40 years. These marking devices have improved our understanding of wildlife spatial ecology and demographic parameters and provided new data facilitating model development for species conservation and management. Although these tools have been used on virtually all North American ungulates, their deployment on feral horses (Equus ferus caballus) or burros (E. asinus) has been limited. To determine if radio-collars and radio-tags could be safely deployed on feral equids, we conducted a 1-year observational study in 2015 to investigate fit and wear of radio-collars …

Partitioning Variation In Vegetation And Landscape Functionality In Arid Land Piosphere, Eahsan Shahriary

Open Access Theses & Dissertations

A piosphere is an interaction between vegetation community, watering point, and grazing livestock/wildlife. In this Dissertation, I begin by reviewing the concept of the piosphere, and the progress, knowledge gaps and common statistical approaches and errors in piosphere research. Landscape functionality, plant community distribution and their influencing factors on a piosphere in Iran are then investigated.

A total 862 piosphere publications of multiple types from 68 countries and 10 different languages during the period of 1915 â?? 2018 were reviewed. Australia was the most productive country followed by South Africa, the USA, Botswana and Argentina. Ivan Thrash is the most …

Dietary Antioxidants Attenuate The Endocrine Stress Response During Long-Duration Flight Of A Migratory Bird, Stefania Casagrande, Kristen J. Demoranville, Lisa Trost, Barbara J. Pierce, Amadeusz Bryła, Maciej Dzialo, Edyta T. Sadowska, Ulf Bauchinger, Scott R. Mcwilliams

Biology Faculty Publications

Glucocorticoids (GCs) are metabolic hormones that promote catabolic processes, which release stored energy and support high metabolic demands such as during prolonged flights of migrating birds. Dietary antioxidants (e.g. anthocyanins) support metabolism by quenching excess reactive oxygen species produced during aerobic metabolism and also by activating specific metabolic pathways. For example, similar to GCs’ function, anthocyanins promote the release of stored energy, although the extent of complementarity between GCs and dietary antioxidants is not well known. If anthocyanins complement GCs functions, birds consuming anthocyanin-rich food can be expected to limit the secretion of GCs when coping with a metabolically challenging …

The Influence Of Breeding Density On Female Aggression, Parental Care, And Ornamentation In A Secondary-Cavity Nesting Warbler, Elsa B. Chen

Theses and Dissertations

Tradeoffs between individual survival and reproductive success associated with aggressive behaviors are a driving force of evolution, but these tradeoffs are often overlooked for aggressive conspecific interactions between females. For avian males, it is well documented that more aggressive individuals tend to provide less parental care. In the few studies that address this in females, the tradeoffs seem to be more context-dependent, varying due to factors such as predation pressure and habitat quality. The relationship between female ornamentation and aggression is similarly understudied, but evidence suggests that both aggression and ornamentation are important traits involved in social selection – the …

Phylogenetic And Population Genetic Analysis Of The Humboldt's Flying Squirrel Using High-Throughput Sequencing Data, Stella Chi Yuan

Cal Poly Humboldt theses and projects

The intraspecific genetic variation and diversity within the Humboldt’s flying squirrel (Glaucomys oregonensis) has not yet been characterized despite its elevation to full species in 2017. The San Bernardino flying squirrel (G. o. californicus) is thought to be the southernmost population of G. oregonensis and is restricted to the San Bernardino and San Jacinto Mountains in California, but recent surveys indicate they have been extirpated from the latter locality. In order to provide baseline genetic data across the geographic range of G. oregonensis, I had the following objectives: 1) investigate the intraspecific molecular variation in …

Conospermum Undulatum: Insights Into Population Genetics And Pollination Ecology Of A Threatened Species, Nicola Delnevo

Theses: Doctorates and Masters

Fragmentation of natural vegetation is currently one of the largest threats to biodiversity. Within the southwest Australia global biodiversity hotspot, the Swan Coastal Plain was historically cleared for agriculture and forestry and is now experiencing extensive land clearing for urbanisation. The wavy-leaved smokebush Conospermum undulatum is a rare species endemic to the Swan Coastal Plain, and its future persistence is threatened by urban expansion.

Throughout this research, I investigated the pollination ecology of this species and found a specific association between C. undulatum and native bees for pollination. I also demonstrated that C. undulatum has evolved pollen with resistance to …

Assessment Of Tree Species Richness, Diversity, Population Structure And Natural Regeneration In Nongeni Forest Reserve In Morogoro Region, Tanzania, David Sylvester Kacholi

Tanzania Journal of Science

This study examined tree species richness, diversity, population structure and regeneration in Nongeni forest reserve, Morogoro, Tanzania. The study deployed plot sampling technique whereby a total of 20 plots of 0.05 ha each were randomly established in the forest. All species and individuals encountered in each plot were counted, identified and DBH measured. A total of 751 individuals/ha representing 24 species belonging to 11 families were recorded. Family Fabaceae was dominant with 9 species. The Shannon-Wiener, Margalef, Simpson’s and Pielou J index were calculated as 2.667, 3.474, 10.58 and 0.839, respectively. The Diplorhynchus condylocarpon (52.18) was the dominant species in …

Reconstructing Energy Flow Through Modern And Historical Marine Communities: Insights From Amino Acid Isotope Analysis, Emma A. Elliott Smith

Biology ETDs

The fundamental currency of life is energy. Organisms need energy to grow, to survive and to reproduce. Understanding the acquisition of energy by consumers is thus a foundational aspect of biological research. This is especially important in the modern era, as impacts of ongoing anthropogenic effects will be mediated or amplified through food webs. Here, I explore how isotopic analysis of individual amino acids – a technique new to ecological studies – can be used to trace energy flow through animal communities in modern and ancient time periods. In particular, I focus on kelp forest food webs, which are nearshore …

Springs Of The Arabian Peninsula: Historical Trends, Current Status And Human Impact In Saudi Arabia, Oman And Jordan, Kamal M. Aljohani

USF Tampa Graduate Theses and Dissertations

This research was conducted to update previous studies of the springs of the Arabian Peninsula (Saudi Arabia, Oman and Jordan). Approach: 76 springs were surveyed in between March and July 2018: 15 Saudi Arabia, 41 Oman and 20 Jordan to ascertain the current status, water quality and zooplankton benthos and fish communities. Investigation of the changes of biota and chemical parameters downstream from the springs source in Saudi Arabia. Results: Mercury exceeded the WHO and USEPA maximum contaminant level (MCL) in 63 of 76 springs, Aluminum exceeded MCL in 8 of 76 springs, and both were the common dissolved heavy …