Natural Resources and Conservation Commons^™

Environmental Dna For Conservation, Antoinette J. Piaggio

United States Department of Agriculture Wildlife Services: Staff Publications

Biodiversity must be documented before it can be conserved. However, it may be difficult to document species with few individuals (Thompson, 2013; Goldberg et al., 2016), thus it requires a multitude of tools to detect species that occur in low numbers or are elusive (see the various chapters in this volume). One tool that has become useful for conservation efforts utilizes environmental DNA, which is DNA shed into the environment by organisms (eDNA; Taberlet et al., 2018). Typically this involves taking environmental samples such as soil, water, air, or using biological surrogates for sampling biodiversity (e.g. leeches, sponges, carrion flies, …

Allometric Regression Of Snake Body Length From Head Image Measurements, Shane R. Siers

United States Department of Agriculture Wildlife Services: Staff Publications

As in many fields of wildlife research and management, camera devices and photogrammetry have become an integral part of the toolkit for exploring otherwise‐unseen aspects of the biology, behavior, and control of the invasive brown treesnake (Boiga irregularis) on Guam. Because brown treesnakes are cryptic and nocturnal, and nearly all aspects of their ecology are influenced by snake size, methods are needed to estimate snake size from images captured by infrared wildlife cameras. Unfortunately, it is difficult to capture images of an entire snake’s length at a controlled distance from a simple camera setup. Here, I describe the …

Increased Abundance Of The Common Raven Within The Ranges Of Greater And Gunnison Sage-Grouse: Influence Of Anthropogenic Subsidies And Fire, Jonathan B. Dinkins, Lindsey R. Perry, Jeffrey L. Beck, Jimmy D. Taylor

United States Department of Agriculture Wildlife Services: Staff Publications

The common raven (Corvus corax; raven) is native to North America and has increased in abundance, especially throughout western North America, during the last century. Human subsidies have facilitated raven dispersal into less suitable habitats and enabled these populations to maintain higher annual survival and reproduction. Concomitantly, overabundant raven populations are impacting other native at-risk species such as the greater sage-grouse (Centrocercus urophasianus) and potentially the Gunnison sage-grouse (C. minimus). Using Breeding Bird Survey data from 1995–2014, we evaluated raven count data to quantitatively describe changes in abundance and expansion into sagebrush ( …

A Novel Technique To Improve Capture Success Of Common Ravens, Lindsey R. Perry, Terrah M. Owens, Zachary T. Slick, Jimmy Taylor, Jonathan B. Dinkins

United States Department of Agriculture Wildlife Services: Staff Publications

Traditional trapping techniques for common ravens (Corvus corax; raven) require significant effort, often produce low capture rates, and cannot be used in some situations. We designed a 3-m noose pole to secure ravens from nocturnal roost locations while using a strobe spotlight to temporarily disorient them. We collected measures of trapping efficiency and contrasted them with padded leghold traps also used in the study. We effectively implemented our noose pole method in July and August of 2018, 2019, and 2020 in the Baker and Cow Lakes sage-grouse (Centrocercus urophasianus) Priority Areas of Conservation in eastern Oregon, USA, which yielded trapping …

Nanomaterials In The Environment, Human Exposure Pathway, And Health Effects: A Review, Arindam Malakar, Sushil R. Kanel, Chittaranjan Ray, Daniel D. Snow, Mallikarjuna N. Nadagouda

Daugherty Water for Food Global Institute: Faculty Publications

Nanomaterials (NMs), both natural and synthetic, are produced, transformed, and exported into our environment daily. Natural NMs annual flux to the environment is around 97% of the total and is significantly higher than synthetic NMs. However, synthetic NMs are considered to have a detrimental effect on the environment. The extensive usage of synthetic NMs in different fields, including chemical, engineering, electronics, and medicine, makes them susceptible to be discharged into the atmosphere, various water sources, soil, and landfill waste. As ever-larger quantities of NMs end up in our environment and start interacting with the biota, it is crucial to understand …

Baseflow Nitrate Dynamics Within Nested Watersheds Of An Agricultural Stream In Nebraska, Usa, Galen Richards, Troy E. Gilmore, Aaron R. Mittelstet, Tiffany Messer, Daniel D. Snow

Daugherty Water for Food Global Institute: Faculty Publications

There is a need to evaluate high surface nitrate concentrations across agricultural watersheds, both spatially and temporally, to increase understanding of source and timing of nitrogen loads in streams and rivers. Bazile Creek is a high-nitrate stream originating in the agriculturally intensive Bazile Groundwater Management Area of Eastern Nebraska, USA. It is a gaining stream that receives groundwater with high nitrate concentrations originating from nonpoint sources. The objective of this study was to determine spatial and temporal variability of baseflow nitrate concentrations in Bazile Creek and its tributaries and to relate this variability to watershed characteristics. Surface-water nitrate samples were …

Surveillance Of Plasticizers, Bisphenol A, Steroids And Caffeine In Surface Water Of River Ganga And Sundarban Wetland Along The Bay Of Bengal: Occurrence, Sources, Estrogenicity Screening And Ecotoxicological Risk Assessment, Paromita Chakraborty, Nancy W. Shappell, Moitraiyee Mukhopadhyay, Sathaporn Onanong, Daniel D. Snow

Daugherty Water for Food Global Institute: Faculty Publications

The transboundary River Ganga serves as a conduit for meltwater from the Himalayas and is a major freshwater source for two thirds of Indian population before emptying into the Sundarban Delta, the largest estuary in the Bay of Bengal. Endocrine disrupting compounds (EDCs) such as phthalic acid esters (PAEs) and bisphenol A (BPA) used as organic plastic additives can pollute the aquatic environment receiving plastic litter. Hence, we have investigated these EDCs in water samples from Ganga and Sundarban wetland of India. Since these compounds exhibit estrogenic potential, we have further measured steroids and evaluated the estrogenic activity (estradiol equivalents, …

Transmission Routes Of The Microbiome And Resistome From Manure To Soil And Lettuce, Yuepeng Sun, Daniel D. Snow, Harkamal Walia, Xu Li

Daugherty Water for Food Global Institute: Faculty Publications

The land application of animal manure can introduce manure microbiome and resistome to croplands where food crops are grown. The objective of this study was to characterize the microbiome and resistome on and in the leaves of lettuce grown in manured soil and identify the main transmission routes of microbes and antibiotic resistance genes (ARGs) from soil to the episphere and endosphere of lettuce. Shotgun metagenomic results show that manure application significantly altered the composition of the microbiome and resistome of surface soil. SourceTracker analyses indicate that manure and original soil were the main source of the microbiome and resistome …

Transboundary Marine Management In The Sulu-Sulawesi Seascape, Lindsey G. Ellett

Graduate Student Theses, Dissertations, & Professional Papers

Transboundary conservation aims to facilitate environmental conservation and management at the ecosystem level by operating across political boundaries, through the cooperation of two or more countries. Though there is increased interest and advocation for transboundary conservation initiatives around the world, there remains a limited understanding of how they function on-the-ground. Within this study, I address these gaps in knowledge through two phases of research, both focusing on the Sulu-Sulawesi Seascape as a case study site. Phase I involved a policy analysis of Indonesian, Malaysia, and Philippine policies related to fisheries, coastal zones and protected areas, and environmental quality. Through this …

Policy And Collaborative Governance: Case Studies Of Three Wildlife Crossings, Nicholas Maya

Graduate Student Theses, Dissertations, & Professional Papers

Over the last several decades, the number of wildlife-vehicle collisions in North America has significantly increased, driving substantial loss of human life and wildlife and economic costs. The most effective wildlife-vehicle collision mitigation is wildlife crossing structures (undercrossings and overcrossings), with some studies suggesting they can reduce wildlife-vehicle collisions by 97% when paired with wildlife exclusion fencing. However, cost, funding, jurisdiction, land ownership, and local support are limiting factors in constructing these crossing structures. This paper presents case studies of three crossing projects in Snoqualmie, Washington, Teton County, Wyoming, and Summit County, Colorado, to illustrate the similarities and differences in …

On The Acceptance Of Urban Beavers In Martinez, California, Zane A. Eddy

Cal Poly Humboldt theses and projects

As ecosystem engineers, beavers construct complex riparian and wetland habitats that benefit many other species, including endangered salmonids. Through their landscape alterations, beavers also promote increased groundwater recharge and provide refugia during wildfires and high flow events by impounding water and allowing it to spread across the landscape. Prior to the North American colonial fur trapping campaigns, there were between 60 and 400 million beavers in North America. By the beginning of the 20th century, beavers were extirpated from many parts of the continent, however through human efforts, their population has since rebounded to between 10 and 15 million. The …

The Great Plains Irrigation Experiment (Grainex), Eric Rappin, Rezaul Mahmood, Udaysankar S. Nair, Roger A. Pielke Sr., William Brown, Steven Oncley, Joshua Wurman, Karen Kosiba, Aaron Kaulfus, Chris Phillips, Emilee Lachenmeier, Joseph A. Santanello Jr., Edward Kim, Patricia Lawston-Parker

School of Natural Resources: Faculty Publications

Extensive expansion in irrigated agriculture has taken place over the last half century. Due to increased irrigation and resultant land use land cover change, the central United States has seen a decrease in temperature and changes in precipitation during the second half of 20th century. To investigate the impacts of widespread commencement of irrigation at the beginning of the growing season and continued irrigation throughout the summer on local and regional weather, the Great Plains Irrigation Experiment (GRAINEX) was conducted in the spring and summer of 2018 in southeastern Nebraska. GRAINEX consisted of two, 15-day intensive observation periods. Observational platforms …

Assessing California Commercial Fishing Community Well-Being In The Context Of Marine Protected Area (Mpa) Formation, Samantha Cook

Cal Poly Humboldt theses and projects

Marine protected areas (MPAs)—defined geographic areas where fishing and harvesting activity is limited or restricted—have emerged as a popular marine biodiversity and climate resilience strategy worldwide. MPA monitoring efforts often follow MPA designation to help inform the adaptive management of MPAs and MPA networks. In 2012, California completed the largest statewide system of MPAs to date, consisting of 124 MPAs covering 16% of state waters. Following MPA implementation, the state initiated a long-term monitoring program (2019-2022) to help inform the 10-year MPA management review. This two-chapter thesis presents findings from a state-funded project to conduct long-term socioeconomic monitoring for human …

Reconstruction Of Ancient Microbial Genomes From The Human Gut, M. C. Wibowo, Z. Yang, M. Borry, A. Hubner, K. D. Huang, B. T. Tierney, S. Zimmerman, F. Barajas-Olmos, C. Contreras-Cubas, H. Garcia-Ortiz, A. Martinez-Hernandez, J. M. Luber, K. Reinhard Et Al.

School of Natural Resources: Faculty Publications

No abstract provided.

Recovery Of Phosphorus From Florida Phosphatic Waste Clay, Amir Eskanlou

Graduate Theses, Dissertations, and Problem Reports (ETD)

This MS thesis examines the recovery of phosphorus (P) from Florida waste clay (WC). A comprehensive literature review revealed that: (i)-The most important values being lost to WC are P and rare earth elements (REEs). For the recovery of these values from WC, two crucial attempts are the removal of extremely fine-sized clays, followed by the recovery of phosphate content, which can pave the path for the recovery of REEs; (ii)-Any scientific/ technological solution should, at the same time, be economically and environmentally attractive to the industry. As such, moving from mostly chemical separation processes to the primarily physical/ physicochemical …

The Nebraska Water Leaders Academy Graduates’ Influence On Community Capitals And Community Capacity, Dakota W. Staggs, Mark E. Burbach, Gina S. Matkin, Cheryl Burkhart-Kriesel

School of Natural Resources: Faculty Publications

An overarching goal of the Nebraska Water Leaders Academy is to prepare a diverse group of Nebraskans from across the state to impact change in their communities by working together to solve wicked water problems. With 136 graduates from across Nebraska there is potential for graduates to effect change and impact their communities’ capitals (i.e., Built, Financial, Political, Social, Human, Cultural, and Natural). This study explored the impact of Academy graduates on their communities’ capitals and community capacity to prepare for future challenges from the perspective of graduates and community members. Findings show that Academy graduates are impacting their communities …

A Conceptual Model Evaluation Framework For Adaptive Governance And Adaptive Management In Large-Scale Restoration Programs, Chadwin Smith

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

Adaptive management (AM) has become a kind of plastic phrase applied as a formulaic panacea for most major species recovery and ecosystem restoration efforts now underway across the United States. AM emerged as an application of the scientific method to resource management, closely tying management to science learning through experimental actions. The phrase “learning by doing” best captures the premise behind developing an experimental management approach that could be applied on the larger scale of a river system or ecosystem. In nearly five decades of application, however, examples of successful AM implementation at large scales are few and conflict remains …

Core Commitments For Field Trials Of Gene Drive Organisms, Kanya C. Long, Luke Alphey, George J. Annas, Cinnamon S. Bloss, Karl J. Campbell, Jackson Champer, Chun-Hong Chen, Amit Choudhary, George M. Church, James P. Collins, Kimberly L. Cooper, Jason A. Delborne, Owain R. Edwards, Claudia I. Emerson, Kevin Esvelt, Sam Weiss Evans, Robert M. Friedman, Valentino M. Gantz, Fred Gould, Sarah Hartley, Elizabeth Heitman, Janet Hemingway, Hirotaka Kanuka, Jennifer Kuzma, James V. Lavery, Yoosook Lee, Marce Lorenzen, Jeantine E. Lunshof, John M. Marshall, Philipp W. Messer, Craig Montell, Kenneth A. Oye, Megan J. Palmer, Philippos Aris Papathanos, Prasad N. Paradkar, Antoinette J. Piaggio, Jason L. Rasgon, Gordana Rašić, Larisa Rudenko, J. Royden Saah, Maxwell J. Scott, Jolene T. Sutton, Adam E, Vorsino, Omar S. Akbari

United States Department of Agriculture Wildlife Services: Staff Publications

We must ensure that trials are scientifically, politically, and socially robust, publicly accountable, and widely transparent.

Gene drive organisms (GDOs), whose genomes have been genetically engineered to spread a desired allele through a population, have the potential to transform the way societies address a wide range of daunting public health and environmental challenges. The development, testing, and release of GDOs, however, are complex and often controversial. A key challenge is to clarify the appropriate roles of developers and others actively engaged in work with GDOs in decision-making processes, and, in particular, how to establish partnerships with relevant authorities and other …

Decline Of Novel Ecosystems Used By Endangered Species: The Case Of Piping Plovers, Least Terns, And Aggregate Mines, Joel G. Jorgensen, Stephen J. Brenner, Lauren R. Greenwalt, Mark P. Vrtiska

School of Natural Resources: Faculty Publications

Sand and gravel mining creates novel ecosystems along the Platte, Loup, and Elkhorn rivers in Nebraska, USA. Piping plovers and least terns are state and/or federally threatened and endangered species, respectively, that nest and raise young at these sites and their derivatives. Despite hosting relatively large numbers of piping plovers and least terns for decades, an important question that has largely gone unaddressed is whether the industry that has produced these novel ecosystems is stable and will continue to produce habitat consistently in the future. We evaluated how the number, size, and spatial distribution of different site types hosting different …

Operationalizing Niche Construction Theory With Stone Tools, Radu Lovita, David R. Braun, Matthew J. Douglass, Simon J. Holdaway, Sam C. Lin, Deborah I. Olsezewski, Zeljko Rezek

School of Natural Resources: Faculty Publications

One of the greatest difficulties with evolutionary approaches in the study of stone tools (lithics) has been finding a mechanism for tying culture and biology in a way that preserves human agency and operates at scales that are visible in the archaeological record. The concept of niche construction, whereby organisms actively construct their environments and change the conditions for selection, could provide a solution to this problem. In this review, we evaluate the utility of niche construction theory (NCT) for stone tool archaeology. We apply NCT to lithics both as part of the “extended phenotype” and as residuals or precipitates …

Policy Changes Impact In Deforestation Of The Brazilian Amazon, Iara Silva Jaques

Master's Projects and Capstones

Since discovered and inhabited, the Brazilian Amazon has been explored and impacted negatively by human activities. The conversion of forest to pastureland and farmland, as well as mining activities, road opening, wood and ore extraction and fire are historically the main causes of environmental damages and forest loss in the region. This project overviewed the latest changes in environmental policy and practices towards environmental protection conducted by the Brazilian president Jair Bolsonaro, since he took office in 2019, and analyzed the progress of deforestation in the recent years under the new federal administration. Geographic Information System analysis were used to …

Leveraging Image Analysis To Compute 3d Plant Phenotypes Based On Voxel-Grid Plant Reconstruction, Sruti Das Choudhury, Srikanth Maturu, Ashok Samal, Vincent Stoerger, Tala Awada

School of Natural Resources: Faculty Publications

High throughput image-based plant phenotyping facilitates the extraction of morphological and biophysical traits of a large number of plants non-invasively in a relatively short time. It facilitates the computation of advanced phenotypes by considering the plant as a single object (holistic phenotypes) or its components, i.e., leaves and the stem (component phenotypes). The architectural complexity of plants increases over time due to variations in self-occlusions and phyllotaxy, i.e., arrangements of leaves around the stem. One of the central challenges to computing phenotypes from 2-dimensional (2D) single view images of plants, especially at the advanced vegetative stage in presence of self-occluding …

Food System Resilience In Nigeria: Farmers Perspective, Azariah Lawal

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

Disturbances are inherent in every socio-ecological system (SES). However, the spate and scope of upheavals in contemporary SES has increased dramatically in recent years. Agricultural systems are perhaps the most impacted when disasters occur because different aspects of agricultural production are directly affected. The burgeoning farmers-Fulani herdsmen conflict in West Africa is a manifestation of these challenges. When faced with events like these, contemporary food systems are faced with two options: collapse or transform. It is essential to have resilient agricultural systems because these systems lie at the nexus of resolving emerging global issues.

Nigeria is an important country in …

Infaunal Bivalve Density And Richness In North Inlet Estuary, South Carolina: Seasonal Patterns And Ecological Factors, Valerie M. Knowles, Juliana Harding

Honors Theses

Estuarine bivalves recruit to benthic habitats after the larvae are in the planktonic stage. The observed infaunal bivalve density relates to larval supply from adult reproduction during warmer months as well as larval and juvenile mortality post-recruitment. The purpose of this research was to examine annual and seasonal patterns of infaunal bivalve density and richness in the context of habitat water temperature and salinity. Cores were collected biweekly from Bly Creek in North Inlet estuary between January 2019 and February 2020. Temperatures ranged from 9-30 ºC and salinity ranged from ~17-36 psu. Bivalves were sieved out of the cores, counted, …

Population Characteristics And Movement Of Blue Catfish In The Kansas River, Quintin Dean

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

Blue Catfish Ictalurus furcatus is a mobile, large-river species native to the Missouri River and its tributaries, including the Kansas River. Historical data regarding the Kansas River population is negligible, limiting managers’ ability to appropriately manage this population. Multiple anthropogenic barriers along the Kansas River create a gradient of connectivity within the Kansas River, and with the Missouri River, possibly limiting Blue Catfish movement. Additionally, the contribution of tributary-reservoir populations to the Kansas River remains unknown. My objectives were to: 1) describe population characteristics and 2) quantify stock contributions from the Missouri River and Kansas River tributary reservoirs to the …

Impacts Of Irrigated Agriculture On The Near Surface And Planetary Boundary Layer Atmosphere: Results From The Great Plains Irrigation Experiment (Grainex), Emilee Lachenmeier

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

Modification of natural prairie grasslands into irrigated and rainfed agriculture in the Great Plains produced significant impacts on regional weather and climate including temperatures, precipitation, energy fluxes, and the planetary boundary layer (PBL) atmosphere. The Great Plains Irrigation Experiment (GRAINEX) during the 2018 growing season collected data over irrigated and non-irrigated crop fields to further understand these impacts. The data were collected during two intensive observation periods (IOPs) in early June (IOP 1: 30 May – 13 June of 2018) and late July (IOP 2: 16 July – 30 July of 2018). The data analyzed include latent (LE) and sensible …

Remediating Contaminated Groundwater With An Aerated, Direct-Push, Oxidant Delivery System, James Reece, Mark Christenson, Ann Kambhu, Yusong Li, Clifford Harris, Steve D. Comfort

School of Natural Resources: Faculty Publications

One of the biggest challenges to treating contaminated aquifers with chemical oxidants is achieving uniform coverage of the target zone. In an effort to maximize coverage, we report the design and installation of a novel aerated, slow-release oxidant delivery system that can be installed by direct-push equipment. By continuously bubbling air beneath a slow-release oxidant in situ, an airlift pump is created that causes water and oxidant to be dispersed from the top of the outer screen and drawn in at the bottom. This continuous circulation pattern around each drive point greatly facilitates the spreading of the oxidant as it …

Harmful Algal Blooms Threaten The Health Of Peri-Urban Fisher Communities: A Case Study In Kisumu Bay, Lake Victoria, Kenya, Amber Roegner, Lewis Sitoki, Chelsea Weirich, Jessica Corman, Dickson Owage, Moses Umami, Ephraim Odada, Jared Miruka, Zachary Ogari, Woutrina Smith, Eliska Rejmankova, Todd R. Miller

School of Natural Resources: Faculty Publications

Available guidance to mitigate health risks from exposure to freshwater harmful algal blooms (HABs) is largely derived from temperate ecosystems. Yet in tropical ecosystems, HABs can occur year-round, and resource-dependent populations face multiple routes of exposure to toxic components. Along Winam Gulf, Lake Victoria, Kenya, fisher communities rely on lake water contaminated with microcystins (MCs) from HABs. In these peri-urban communities near Kisumu, we tested hypotheses that MCs exceed exposure guidelines across seasons, and persistent HABs present a chronic risk to fisher communities through ingestion with minimal water treatment and frequent, direct contact. We tested source waters at eleven communities …

Population Demographics, Distribution, And Environmental History Of Asian Carp In A Great Plains River, Jake Werner

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

Silver Carp Hypophthalmichthys molitrix, Bighead Carp H. nobilis, and Black Carp Mylopharyngodon piceus, collectively known as Asian carp, are a group of invasive fishes in the U.S.A. that have garnered much attention over the last couple decades. Most research devoted to this group of fishes has been focused in the Mississippi River basin with little investigation in the Missouri River drainage, particularly in tributary systems. The Kansas River is a major tributary to the Missouri River that has multiple anthropogenic barriers creating varying levels of connectivity within the Kansas River itself, and with the Missouri River. Information …

Linking Mosquito Surveillance To Dengue Fever Through Bayesian Mechanistic Modeling, Clinton B. Leach, Jennifer A. Hoeting, Kim M. Pepin, Alvaro E. Eiras, Mevin B. Hooten, Colleen T. Webb

United States Department of Agriculture Wildlife Services: Staff Publications

Our ability to effectively prevent the transmission of the dengue virus through targeted control of its vector, Aedes aegypti, depends critically on our understanding of the link between mosquito abundance and human disease risk. Mosquito and clinical surveillance data are widely collected, but linking them requires a modeling framework that accounts for the complex non-linear mechanisms involved in transmission. Most critical are the bottleneck in transmission imposed by mosquito lifespan relative to the virus’ extrinsic incubation period, and the dynamics of human immunity. We developed a differential equation model of dengue transmission and embedded it in a Bayesian hierarchical …