Physical Sciences and Mathematics Commons^™

Grammar And Variation: Understanding How Cis-Regulatory Information Is Encoded In Mammalian Genomes, Dana Michele King

Arts & Sciences Electronic Theses and Dissertations

Understanding how genotype leads to phenotype is key to understand both the development and dysfunction of complex organisms. In the context of regulating the gene expression patterns that contribute to cell identity and function, the goal of my thesis research is to how changes in genome sequence may impact impact gene expression by determining how sequence features contribute to regulatory potential. To accomplish this goal, I first leveraged the key regulatory role of pluripotency transcription factors (TFs) in mouse embryonic stem cells (mESCs) and tested synthetically generated and genomic identified combinations of binding site for four TFs, OCT4, SOX2, KLF4, …

Climatic Range Filling Of North American Trees, Benjamin Seliger

Electronic Theses and Dissertations

Understanding the degree to which species distributions are controlled by climate is crucial for forecasting biodiversity responses to climate change. Climatic equilibrium, when species are found in all places which are climatically suitable, is a fundamental assumption of species distribution models, but there is evidence in support of climate disequilibria in species ranges. Long-lived, sessile organisms such as trees may be especially vulnerable to being outpaced by climate change, and thus prone to disequilibrium. In this dissertation, I tested the degree to which North American trees are in equilibrium with their potential climatic ranges using the ‘range filling’ metric, which …

Understory Community Assembly Following Wildfire In Boreal Forests: Shift From Stochasticity To Competitive Exclusion And Environmental Filtering, Bo Liu, Han Y. H. Chen, Jian Yang

Forestry and Natural Resources Faculty Publications

Understory vegetation accounts for the majority of plant species diversity and serves as a driver of overstory succession and nutrient cycling in boreal forest ecosystems. However, investigations of the underlying assembly processes of understory vegetation associated with stand development following a wildfire disturbance are rare, particularly in Eurasian boreal forests. In this study, we measured the phylogenetic and functional diversity and trait dispersions of understory communities and tested how these patterns changed with stand age in the Great Xing'an Mountains of Northeastern China. Contrary to our expectation, we found that understory functional traits were phylogenetically convergent. We found that random …

Parental Habituation To Human Disturbance Over Time Reduces Fear Of Humans In Coyote Offspring, Christopher J. Schell, Julie K. Young, Elizabeth V. Lonsdorf, Rachel M. Santymire, Jill M. Mateo

Wildland Resources Faculty Publications

A fundamental tenet of maternal effects assumes that maternal variance over time should have discordant consequences for offspring traits across litters. Yet, seldom are parents observed across multiple reproductive bouts, with few studies consider‐ ing anthropogenic disturbances as an ecological driver of maternal effects. We ob‐ served captive coyote (Canis latrans) pairs over two successive litters to determine whether among‐litter differences in behavior (i.e., risk‐taking) and hormones (i.e., cortisol and testosterone) corresponded with parental plasticity in habituation. Thus, we explicitly test the hypothesis that accumulating experiences of anthropogenic disturbance reduces parental fear across reproductive bouts, which should have disparate phenotypic …

Predicting Combined Effects Of Land Use And Climate Change On River And Stream Salinity, John Olson

John Olson

Relationships Among Biodiversity Dimensions Of Birds In Nebraska, Nadejda Mirochnitchenko

School of Natural Resources: Dissertations, Theses, and Student Research

Biological diversity, or biodiversity, is a multi-dimensional concept that can be decomposed to measure information about taxonomic, phylogenetic, and functional variation within communities. Although the dimensions of biodiversity are interrelated, the assumption that measuring one dimension of diversity can inform about patterns in another dimension does not necessarily follow from theory or empirical study. The relationships among biodiversity dimensions is not well understood, nor how differences among dimensions could influence conservation decision making. Using the avian community as a study system, we explored the relationships of breadth metrics from the taxonomic, phylogenetic, and functional dimensions among each other and across …

The Biological Significance And Utility Of Feeding By Dermestes Maculatus, Braymond Adams

School of Natural Resources: Dissertations, Theses, and Student Research

With their efficient feeding habits and tolerance to very low moisture and humidity, beetles in the Family Dermestidae are especially adapted to variable environments and habitats. Dermestid cultures have been in use since 1922 in cleaning tissue and flesh from bones, and proven benefit in multiple fields, including zoology, ornithology, and forensics. Dermestid feeding behaviors when coupled with known life stage and insect succession information aids in providing significant entomological evidence. However, the feeding activities of insects, like those of vertebrate scavengers and predators, change remains and may leave artifacts that can be sometimes be difficult to assign to a …

Notes: Two-Headed White-Tailed Deer Fetus, William F. Jensen, Daniel M. Grove, Ryan J. Herigstad, William J. Haase

The Prairie Naturalist

On 6 April 2018 a female white-tailed deer (Odocoileus virginianus dakotensis) was hit and killed by a vehicle along HWY 1806 in rural Morton County, North Dakota, USA (N46o 38.617; W100o 42.901). Based upon dental eruption and wear (Severinghaus 1949), the female was estimated to be a >4.5 years-of-age. A male fetus with parapagus diprosopus (i.e., shared face) apparently was expelled from the adult female, and a domestic canine (Canis lupus familiaris) carried the fetus to a private residence. The resident contacted the North Dakota Game and Fish Department (NDGFD) to turn in the fetus. On 10 April 2018, NDGFD …

Review: Canids Of The World: Wolves, Wild Dogs, Foxes, Jackals, Coyotes, And Their Relatives. José R. Castelló., Jonathan (Jon) Way

The Prairie Naturalist

Canids of the World is one of those reads where just when you think that something cannot be beat, this book comes out. What I mean by that is that I have read many works on wolves and other canids, most recently Nate Blakeslee’s American Wolf (Way 2017), and I have enjoyed and been enthralled with many of them. But Canids of the World may take the cake for being the most impressive book available on canids. For a modest price of just under $30.00, you can own a book that has over 600 amazing high-resolution glossy photographs of every …

Edges And Rushes Of Minnesota: The Completeguidetospeciesidentification. Welby R. Smith; Photography By Richard Haug., Edward S. Dekeyser

The Prairie Naturalist

Even the most seasoned individual with a plant identification background can relate to the difficulty of identifying sedges and rushes to the species level. Historically, one has had to rely on dichotomous keys to identify a sedge or rush species in the field. After hours of frustration, a person ends up collecting the plant and, if lucky, bringing the collection back to a herbarium where it can be compared to known specimens. I have been collecting and identifying sedge and rush species for over 25 years, and author Welby Smith along with photographer Richard Haug have published what I believe …

Review: Behavior Of The Golden Eagle: An Illustrated Ethogram. David H. Ellis (Illustrated By N. John Schmitt)., Jeremy E. Guinn

The Prairie Naturalist

Author David H. Ellis and illustrator N. John Schmitt deliver precisely what is promised in Behavior of the Golden Eagle: An Illustrated Ethogram. This “little volume,” as the author coins it, represents a single source for defining, identifying, and describing behaviors of the Golden Eagle (Aquila chrysaetos). With the inclusion of Schmitt’s exceptional drawings, the book is a piece of art, as well as the most useful manual describing Golden Eagle behaviors. Nearly four decades earlier, Ellis (1979) authored the very first Golden Eagle ethogram—the set of repeated standard behaviors for a species called action patterns—and in his new book, …

The Prairie Naturalist: The Journal Of The Great Plains Natural Science Society Volume 50 No. 2

The Prairie Naturalist

TABLE OF CONTENTS

43 EDITOR’S NOTE

RESEARCH ARTICLES

46 Metabolic Gas Emissions from Prairie Soil Containing Foraging Termites Charles E. Konemann, B. M. Kard, Tom A. Royer, and Mark. E. Payton

59 Comparison of northern flying and red squirrel phylogenies with focus on the insular United States Alyssa M. Kiesow, and Hugh B. Britten

NOTES

70 Two-Headed White-Tailed Deer Fetus

72 Red-Bellied Snake (Storeria occipitomacilata) Copulation in South Dakota

74 New Breeding Record and Location for Wilson's Phalarope (Phalaropus tricolor) in the Nebraska Great Plains, USA

BOOK REVIEWS

76 Sedges and Rushes of Minnesota: The Complete Guide to Species Identification. …

Metabolic Gas Emissions From Prairie Soil Containing Foraging Termites, Charles E. Konemann, B.M. Kard, Tom A. Royer, Mark E. Payton

The Prairie Naturalist

Differences in subterranean termite metabolic gas emissions are readily observed in laboratory experiments. However, in natural field ecosystems a primary difficulty in measuring subterranean termite gases is non-homogeneous distribution of foraging termites in soil. Our field experiment was designed to aggregate foragers of the 'eastern subterranean termite', Reticulitermes flavipes Kollar (EST), in one of four flux chamber configurations placed on a tallgrass prairie throughout 2014 and 2015. We used differently configured flux chambers to measure metabolic gas emissions from soil with or without foraging termites on The Joseph H. Williams Tallgrass Prairie Preserve (TGPP) in north-central Oklahoma. Foraging termitesaggregated in …

Review: North American Ducks, Geese & Swans: Identification Guide. Frank S. Todd., Kevin M. Ringelman

The Prairie Naturalist

The North American Duck, Geese & Swans: Identification Guide, released in 2018, is the culmination of a lifetime of waterfowl photography by the late Frank Todd. Indeed, this book stands apart from other identification guides as being entirely photo-driven, with minimal introductory material, notations of field marks, or descriptions of the various waterfowl species. It is small enough to be carried in the field (6.5” × 9” × 0.5”), but most readers will find it less useful than a standard bird identification book (Sibley 2014), even for waterfowl. As the title suggests, the Todd guide focuses on North American species, …

Aquatic Invasions: Causes, Consequences, And Solutions, Corey Ackerson, Melissa Carmichael, Olivia Carpenter, Hannah Crull, Jillian Henrichon, Maeve Mcgowan, Allison Mills, Nicholas Paolini, Everett Pierce, Nicole Scherer, Nicole Volosin, Kady Winsor, Markus Frederich

Marine Sciences Student Projects

Invasive species represent a global threat to ecosystems, human health, and the economy. A basic knowledge of invasive species biology is crucial to understand current and future impacts and implications. The purpose of this book is to provide a broad background on invasive species, and also details on specific examples through case studies.

The students in the course Aquatic Invasive Species (MAR 442) at the University of New England in Biddeford, Maine, have researched and reviewed scientific literature to educate readers about these issues. The class, comprised of twelve junior and senior Marine Science, Marine Affairs, Applied Mathematics, and Environmental …

River Bank Inducement Influence On A Shallow Groundwater Microbial Community And Its Effects On Aquifer Reactivity, Natalie June Gayner

Theses and Dissertations

Placing groundwater wells next to riverbanks to draw in surface water, known as riverbank inducement (RBI), is common and proposed as a promising and sustainable practice for municipal and public water production across the globe. However, these systems require further investigation to determine risks associated with river infiltration especially with rivers containing wastewater treatment plant (WWTP) effluent. Since microbes drive biogeochemical transformations in groundwater and largely affect water quality, it is important to understand how the microbial communities in drinking water wells are affected by river infiltration. This study investigated if, and to what extent, the microbial community in a …

New Breeding Record And Location For Wilson’S Phalarope (Phalaropus Tricolor) In The Nebraska Great Plains, Usa, Madison O. Sutton, Nico Arcilla

The Prairie Naturalist

Wilson’s phalarope (Phalaropus tricolor; Scolopacidae) is a migratory shorebird that relies on interior wetlands for foraging and breeding (Colwell and Jehl 1994, van Gils et al. 2018). Its global population status is unclear (Colwell and Jehl 1994, Lesterhuis and Clay 2010), and is variously listed as declining (Morrison et al. 2006, van Gils et al. 2018), increasing (Andres 2009, BirdLife International 2018), and exhibiting a long-term decline but recent stability (Sauer et al. 2011, Andres et al. 2012). Its global population estimate of 1.5 million birds has not been updated for 30 years, since 1988 (Colwell and Jehl 1994, Lesterhuis …

Comparison Of Northern Flying And Red Squirrel Phylogenies With Focus On The Insular United States, Alyssa M. Kiesow, Hugh B. Britten

The Prairie Naturalist

Northern flying squirrel (Glaucomys sabrinus) and red squirrel (Tamiasciurus hudsonicus) populations are endemic to northern North America, including the Black Hills. The Black Hills populations are considered disjunct from other populations within their range. We examined insular populations to determine whether arboreal squirrels in the Black Hills each represent a unique population. We trapped and collected ear samples from northern flying and red squirrels in the Black Hills and in areas of Montana, Wyoming, Idaho, Utah, Minnesota, and Wisconsin to infer population phylogenies with special consideration of the Black Hills population. Microsatellite loci and two mtDNA sequences were used for …

Preparing An Effective Poster Presentation, Christopher N. Jacques

The Prairie Naturalist

Greetings GPNSS members! By the time you read this editorial, many of have been experiencing the fury unleashed by ‘Old Man Winter’ and may find yourself counting the days until warmer spring temperatures return once again to the Great Plains. Until then, just a couple more months of bitter cold temperatures, strong winds, and blowing and drifting snow. But not to worry, winter also provides the cold weather enthusiasts among us a chance to enjoy a range of outdoor recreational opportunities, a chance to reflect on the previous year in review, exciting professional and personal opportunities ushered in by the …

Red-Bellied Snake (Storeria Occipitomaculata) Copulation In South Dakota, Drew R. Davis

The Prairie Naturalist

Storeria occipitomaculata is a small, terrestrial species of snake that occurs across much of eastern North America (Ernst and Barbour 1989, Ernst 2002, Ernst and Ernst 2003). Due to this widespread distribution, S. occipitomaculata faces varied climates that likely result in regional differences in reproductive phenology. Much of what is known about the reproductive ecology of S. occipitomaculata has been documented from the southeastern portion of its range in North America (South Carolina: Semlitsch and Moran 1984, North Carolina: Willson and Dorcas 2004), though Blanchard (1937) studied a population from northern Michigan. The exact reproductive timing in this species has …

Along-Shelf Connectivity And Circumpolar Gene Flow In Antarctic Silverfish (Pleuragramma Antarctica), Jilda Alicia Caccavo, Chiara Papetti, Maj Wetjen, Rainer Knust, Julian R. Ashford, Lorenzo Zane

OES Faculty Publications

The Antarctic silverfish (Pleuragramma antarctica) is a critically important forage species with a circumpolar distribution and is unique among other notothenioid species for its wholly pelagic life cycle. Previous studies have provided mixed evidence of population structure over regional and circumpolar scales. The aim of the present study was to test the recent population hypothesis for Antarctic silverfish, which emphasizes the interplay between life history and hydrography in shaping connectivity. A total of 1067 individuals were collected over 25 years from different locations on a circumpolar scale. Samples were genotyped at fifteen microsatellites to assess population differentiation and …

Effect Of Macrograzers (Campostoma Spp. And Faxonius Spp.) On Periphyton In Ozark Streams With Considerations Given To Macrograzer Biomass, Phosphorus, And Season: Mensurative And Manipulative Studies, Kayla R. Sayre

Graduate Theses and Dissertations

Nutrient and benthic algal biomass relationships can guide numeric nutrient criteria development in lotic systems. However, herbivorous macrograzers may confound this relationship by reducing the slope of the positive relationship between nutrients and periphyton biomass in streams. I conducted a mensurative field study to determine if stoneroller and crayfish abundance related to algal biomass at varying nutrient concentrations and manipulated macrograzer presence with electrical exclosures in streams to examine macrograzer effects on algal biomass and understand whether these effects on periphyton varied with total phosphorus (TP) or season. Macrograzer density was quantified across a TP gradient (n=15 streams; range = …

Ncer Assistance Agreement Annual Progress Report For Grant #83582401 - Assessment Of Stormwater Harvesting Via Manage Aquifer Recharge (Mar) To Develop New Water Supplies In The Arid West: The Salt Lake Valley Example, Ryan Dupont, Joan E. Mclean, Richard C. Peralta, Sarah E. Null, Douglas B. Jackson-Smith

Civil and Environmental Engineering Faculty Publications

The goals of the original proposed project remain the same, that is, to test the hypothesis that Managed Aquifer Recharge (MAR) for stormwater harvesting is a technically feasible, socially and environmentally acceptable, economically viable, and legally feasible option for developing new water supplies for arid Western urban ecosystems experiencing increasing population, and climate change pressures on existing water resources. The project is being carried out via three distinct but integrated components that include: 1) Monitoring of existing distributed MAR harvesting schemes involving a growing number of demonstration Green Infrastructure (GI) test sites; 2) Integrated stormwater/vadose zone/groundwater/ ecosystem services modeling; and …

Wild Bees Of Grand Staircase-Escalante National Monument: Richness, Abundance, And Spatio-Temporal Beta-Diversity, Olivia Messinger Carril, Terry Griswold, James Haefner, Joseph S. Wilson

All PIRU Publications

Interest in bees has grown dramatically in recent years in light of several studies that have reported widespread declines in bees and other pollinators. Investigating declines in wild bees can be difficult, however, due to the lack of faunal surveys that provide baseline data of bee richness and diversity. Protected lands such as national monuments and national parks can provide unique opportunities to learn about and monitor bee populations dynamics in a natural setting because the opportunity for large-scale changes to the landscape are reduced compared to unprotected lands. Here we report on a 4-year study of bees in Grand …

Integrating Towed Underwater Video With Multibeam Acoustics For Mapping Benthic Habitat And Assessing Reef Fish Communities On The West Florida Shelf, Alexander Ross Ilich

USF Tampa Graduate Theses and Dissertations

Using a towed underwater video camera system, benthic habitats were classified along transects in a popular offshore fishing area on the West Florida Shelf (WFS) known as “The Elbow.” Additionally, high resolution multibeam bathymetry and co-registered backscatter data were collected for the entire study area. Using these data, full coverage geologic and biotic habitat maps were developed using both unsupervised and supervised statistical classification methodologies. The unsupervised methodology used was k-means clustering, and the supervised methodology used a random forest algorithm. The two methods produced broadly similar results; however, the supervised methodology outperformed the unsupervised methodology. The results of the …

Examining Patterns In Nest Predation Using Artificial Nests, Victoria L. Simonsen

School of Natural Resources: Dissertations, Theses, and Student Research

The use of artificial nests to study the predation of avian nests has faced disregard by ecologists due to inconsistencies found between the survival rates of real and artificial nests across studies and reviews. The negative perception of artificial nests providing an inconsistent assessment of survival has thus fostered the perception that artificial nests are a secondary option to be used to overcome logistical hurdles associated with achieving sufficient sample sizes in systems where study species are rare or elusive, or as merely a preliminary method to study predation across gradients. We argue that the greatest mistake ecologists have made …

Resource Assessment Report: Temperate Demersal Elasmobranch Resource Of Western Australia, Matias Braccini, Nick Blay, S. A. Hesp, Brett Molony

Fisheries research reports

This document provides a cumulative description and assessment of the Temperate Demersal Elasmobranch Resource (TDER) and all of the fishing activities (i.e. fisheries / fishing sectors) affecting this resource in WA. Future Resource Assessment Reports will assess the State-wide sharks and rays resource.

The report is focused on the temperate indicator species (whiskery, gummy, dusky and sandbar sharks) used to assess the suites of demersal sharks and rays that comprise this resource. These species are primarily captured by demersal gillnets used in the Temperate Demersal Gillnet and Demersal Longline Fisheries (TDGDLF) that operate in the West Coast and South Coast …

Carnivorous Pitcher Plants Eat A Diet Of Certain Spiders, Regardless Of What's On The Menu, Marc A. Milne, Deborah A. Waller

Biological Sciences Faculty Publications

The purple pitcher plant, Sarracenia purpurea, is a low-lying carnivorous plant that uses pitcher-shaped leaves to catch arthropod prey for nutrition. Spiders make up a significant portion of these prey. To determine the tendency of specific spider taxa to be captured by the plant, we compared the composition (by taxonomic family) of three spider assemblages: those captured by the plant, those residing on or over the plant, and those found nearby in the local environment. Although there were some broad similarities within the three spider assemblages, significant differences existed when specific families and guilds were considered. While some families …

Resource Assessment Report Temperate Demersal Elasmobranch Resource Of Western Australia, Matias Braccini, Nick Blay, S. A. Hesp, Brett Molony

Fisheries research reports

This document provides a cumulative description and assessment of the TDER and all of the fishing activities (i.e. fisheries / fishing sectors) affecting this resource in WA. Future Resource Assessment Reports will assess the Statewide Sharks and Rays Resource. The report is focused on the temperate indicator species (whiskery, gummy, dusky and sandbar sharks) used to assess the suites of demersal sharks and rays that comprise this resource. These species are primarily captured by demersal gillnets used in the TDGDLF that operate in the West Coast and South Coast Bioregions. For the North Coast bioregion, no commercial fishing for sharks …

Integrating Multiple Genetic Detection Methods To Estimate Population Density Of Social And Territorial Carnivores, Sean M. Murphy, Ben C. Augustine, Jennifer R. Adams, Lisette P. Waits, John J. Cox

Forestry and Natural Resources Faculty Publications

Spatial capture–recapture models can produce unbiased estimates of population density, but sparse detection data often plague studies of social and territorial carnivores. Integrating multiple types of detection data can improve estimation of the spatial scale parameter (σ), activity center locations, and density. Noninvasive genetic sampling is effective for detecting carnivores, but social structure and territoriality could cause differential detectability among population cohorts for different detection methods. Using three observation models, we evaluated the integration of genetic detection data from noninvasive hair and scat sampling of the social and territorial coyote (Canis latrans). Although precision of estimated density was …