Digital Commons Network^™

Pathway Pioneer: A Web-Based Graphical Tool For The Organization And Flux Analysis Of Metabolic Networks, Sumit Kumar Singh

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Every so often the field of genome-scale metabolic networks undergoes radical changes, each bringing its own complexity and challenges. The existing visualization tools, owing to their inability to assist in generating layouts suitable for easy readability and conceptualization, hinder further advancement. The lack of in-depth comprehensible representation of the intricacies of interaction and arrangements within the network topology prevents researchers from being able to advance at a faster speed despite the growing number of networks and systems. The far and wide diverse standards, layout schemas and network formats of the biological realm contribute to the existing challenges of developing visualization …

Pathway Pioneer: A Web-Based Metabolic Network Layout Extension, Harsh Dosi

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

The number and complexity of genome-scale metabolic networks have seen a rapid growth in the past 10 years. Today, more than 450 genome-scale metabolic reconstructions of biological systems are characterized and existing models are extended. With the growing influence of these reconstructions on biomedical and biological research, the field has observed a shift from an inward focus on method development to an outward focus on application development.

Static state analysis of metabolic networks in textual format is too cumbersome and time consuming. In addition, visualization and arrangement of these networks to facilitate their analysis is an open research problem. A …

Father-Child Play Behaviors And Child Emotion Regulation, Amanda Hagman

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Most of us have learned ways to manage how, when, and to what extent we experience emotions. These emotion regulation skills are habitual and may seem innate, but for infants and young children these abilities are basic, limited, and unrefined. Developing emotion regulation skills is an important learning task for infants and toddlers; the role of fathers in emotion regulation learning is a growing area of research. This research takes a closer look at early childhood and how father-child interactions may contribute to child emotion regulation.

Theory suggests that during interactions with their parents, children learn emotion regulation skills, but …

Should Ranchers Value Sagebrush? Why We Need Sagebrush, Beth Burritt, Thomas Monaco, Eric Thacker

All Current Publications

This fact sheet describes the value of sagebrush to ranchers. Big sagebrush is beneficial to grasses and forbs growing under its canopy by supplying them water, nutrients,organic matter and protection from overgrazing. It provides food and cover for a number of birds, reptiles, small mammals and beneficial insects. It can provide winter forage for both wildlife and livestock. Lastly, it is an important plant for revegetation efforts in the West.

Nutritional Value And Toxins In Various Noxious Weeds, Beth Burritt, Rae Ann Hart

All Current Publications

Teaching animals to eat noxious weeds may be a solution to reducing noxious weeds. Grazing animals often avoid eating weeds due to novelty even though weeds are often as nutritious as many of our planted pasture and rangelands species. This fact sheet provides livestock producers with the nutritive values of many common weeds. These values were summarized from a variety of peer-reviewed journal articles.

Genotypic Variation In A Foundation Tree (Populus Tremula L.) Explains Community Structure Of Associated Epiphytes, Chantel Davies, Christopher J. Ellis, Glenn R. Iason, Richard A. Ennos

Aspen Bibliography

Community genetics hypothesizes that within a foundation species, the genotype of an individual significantly influences the assemblage of dependent organisms. To assess whether these intra-specific genetic effects are ecologically important, it is required to compare their impact on dependent organisms with that attributable to environmental variation experienced over relevant spatial scales. We assessed bark epiphytes on 27 aspen (Populus tremula L.) genotypes grown in a randomized experimental array at two contrasting sites spanning the environmental conditions from which the aspen genotypes were collected. We found that variation in aspen genotype significantly influenced bark epiphyte community composition, and to the …

Mechanical Mastication Of Utah Juniper Encroaching Sagebrush Steppe Increases Inorganic Soil N, Kert R. Young, Bruce A. Roundy, Dennis L. Eggett

Articles

Juniper (Juniperus spp.) has encroached on millions of hectares of sagebrush (Artemisia spp.) steppe. Juniper mechanical mastication increases cover of understory species but could increase resource availability and subsequently invasive plant species. We quantified the effects of juniper mastication on soil resource availability by comparing total C, total N, C : N ratio, Olsen extractable P, sulfate S, and pH using soil samples and inorganic N (NO₃^-+NH₄⁺) using ion exchange membranes. We compared resource availability in paired masticated and untreated areas in three juniper-dominated sagebrush and bunchgrass ecosystems in the Utah portion …

The Utah Statesman, April 24, 2014, Utah State University

The Utah Statesman

Weekly student newspaper of Utah State University in Logan.

The Utah Statesman, April 22, 2014, Utah State University

The Utah Statesman

Weekly student newspaper of Utah State University in Logan.

Data From: Genotyping-By-Sequencing For Populus Population Genomics: An Assessment Of Genome Sampling Patterns And Filtering Approaches, Paul G. Wolf, Martin P. Schilling, Aaron M. Duffy, Hardeep S. Rai, Carol A. Rowe, Karen E. Mock, Bryce A. Richardson

Browse all Datasets

Continuing advances in nucleotide sequencing technology are inspiring a suite of genomic approaches in studies of natural populations. Researchers are faced with data management and analytical scales that are increasing by orders of magnitude. With such dramatic advances comes a need to understand biases and error rates, which can be propagated and magnified in large-scale data acquisition and processing. Here we assess genomic sampling biases and the effects of various population-level data filtering strategies in a genotyping-by-sequencing (GBS) protocol. We focus on data from two species of Populus, because this genus has a relatively small genome and is emerging …

The Utah Statesman, April 17, 2014, Utah State University

The Utah Statesman

Weekly student newspaper of Utah State University in Logan.

The Utah Statesman, April 15, 2014, Utah State University

The Utah Statesman

Weekly student newspaper of Utah State University in Logan.

The Utah Statesman, April 10, 2014, Utah State University

The Utah Statesman

Weekly student newspaper of Utah State University in Logan.

The Utah Statesman, April 8, 2014, Utah State University

The Utah Statesman

Weekly student newspaper of Utah State University in Logan.

Curriculum Subcommittee Agenda, April 3, 2014, Utah State University

Educational Policies Committee

Department of Agricultural Systems Technology and Education

• Prefix Change

School of Applied Sciences, Technology and Education

• USU-Eastern Non-Credit Courses for Northstar to Banner Conversion

Department of Art and Design

• New Course
• Prerequisite Change
• Course Description Change
• Prerequisite Change, Course Description Change
• Title Change, Course Description Change
• Course Number Change, Prerequisite Change
• Course Number Change, Title Change
• Course Number Change, Title Change, Prerequisite Change, Course Description Change
• Delete Course

Department of Psychology

• New Course

Department of Biological Engineering

• New Course
• Title Change
• Prerequisite Change

Department of Civil and Environmental Engineering

• Prerequisite Change

Department of Mechanical and Aerospace Engineering

• Prerequisite Change
• Title …

The Utah Statesman, April 3, 2014, Utah State University

The Utah Statesman

Weekly student newspaper of Utah State University in Logan.

Curriculum Subcommittee Minutes, April 3, 2014, Utah State University

Educational Policies Committee

Department of Agricultural Systems Technology and Education

• Prefix Change

School of Applied Sciences, Technology and Education

• USU-Eastern Non-Credit Courses for Northstar to Banner Conversion

Department of Art and Design

• New Course
• Prerequisite Change
• Course Description Change
• Prerequisite Change, Course Description Change
• Title Change, Course Description Change
• Course Number Change, Prerequisite Change
• Course Number Change, Title Change
• Course Number Change, Title Change, Prerequisite Change, Course Description Change
• Delete Course

Department of Psychology

• New Course

Department of Biological Engineering

• New Course
• Title Change
• Prerequisite Change

Department of Civil and Environmental Engineering

• Prerequisite Change

Department of Mechanical and Aerospace Engineering

• Prerequisite Change
• Title …

Utah State Magazine, Spring 2014, Utah State University

Utah State Magazine

The quarterly magazine for friends and alumni of Utah State University.

Creating An Electronic Analog Of A Stomatal Network, David Berg

Physics Capstone Projects

Stomata are microscopic variable aperture pores on the surfaces of leaves. In response to different environmental stimuli, they control the exchange rate of both water vapor and carbon dioxide between the air and the leaf interior, making their role an important determination of the status of plant life on Earth. This study is based on a recently developed stomatal model in which the aperture size is governed by vapor phase humidity. The study describes an electronic analog of the stomatal unit; in it, current models water flow, a transistor represents the variable resistance of the stomatal aperture, capacitor voltages represent …

A Functional Framework For Improved Management Of Western North American Aspen (Populus Tremuloides Michx.), Paul C. Rogers, Simon M. Landhausser, Bradley D. Pinno, Ronald J. Ryel

Wildland Resources Faculty Publications

Quaking or trembling aspen (Populus tremuloides Michx.) forests occur in highly diverse setting across North America. However, management of distinct communities has long relied on a single aspen to-conifer successional model. We examine a variety of aspen dominated stand types in the western portion of its range as ecological systems; avoiding an exclusive focus on seral dynamics or single species management. We build a case for a large-scale functional aspen typology based on existing literature. Aspen functional types are defined as aspen communities that differ markedly in their physical and biological processes. The framework presented here describes two “functional types” …

Herbivory Strains Resilience In Drought-Prone Aspen Landscapes Of The Western United States, Paul C. Rogers

Aspen Bibliography

Aims: Aspen forests around the northern hemisphere provide rich biodiversity compared to surrounding vegetation types. In both North America and Europe, however, aspen are threatened by a variety of human impacts: clear-felling, land development, water diversions, fire suppression, and both wild and domestic ungulate herbivory. We conducted a landscape assessment of quaking aspen (Populus tremuloides) for the purpose of identifying key components of resilience. Specifically, we strove to test novel measures linking plant-animal interactions, compare crucial functional differences in aspen types, and make appropriate restorative recommendations based on the outcome of these assessments. Location: The Book Cliffs region of eastern …

Holistic Management, A Lifelong Management Goal, Jesse Russell, D. R. Zobell

All Current Publications

There are many misconceptions concerning farmers and ranchers, and not understood by those living in urban areas. However they are looked upon, the successful managers in today’s production agriculture must have a firm knowledge of many different resources. Some of these resources include but are not limited to; soil, grasses and/or other crops, cattle and/or other production animals and their biological processes, labor resources. In order to be profitable these operators must be able to manage their finances as well.

Key Resources Of Ranch Management, Cody Butler, D. R. Zobell

All Current Publications

There are five essentials for successful ranch management. These essentials consist of: 1) A lifelong approach to management needs, both integrative and holistic. 2) Strive for continuous improvement of key resources. 3) Assemble and use good analysis and decision-making tools. 4) Wage war on cost. 5) Place an emphasis on marketing.

Land Cover Dynamics Monitoring With Landsat Data In Kunming, China: A Cost-Effective Sampling And Modelling Scheme Using Google Earth Imagery And Random Forests, Ning Lu, Alexander J. Hernandez, R. Douglas Ramsey

Wildland Resources Faculty Publications

Changes in forest composition impact ecological services, and are considered important factors driving global climate change. A hybrid sampling method along with a modelling approach to map current and past land cover in Kunming, China is reported. MODIS land cover (2001–2011) data-sets were used to detect pixels with no apparent change. Around 3000 ‘no change points’ were systematically selected and sampled using Google Earth’s high-resolution imagery. Thirty-five per cent of these points were verified and used for training and validation. We used Random forests to classify multi-temporal Landsat imagery. Results show that forest cover has had a net decrease of …

Educational Policies Committee Program Proposal, College Of Agriculture And Applied Sciences, March 28, 2014 - Discontinuation Of The Interdepartmental Program In Toxicology Ms & Phd Degrees, Utah State University

Educational Policies Committee

This request is to discontinue the Interdepartmental Program in Toxicology, which offers MS and PhD degrees from the Departments of Animal, Dairy and Veterinary Sciences (ADVS); Plants, Soils, and Climate (PSC); Civil and Environmental Engineering (CEE); Biology (BIOL); and Chemistry & Biochemistry (CHEM).

Educational Policies Committee Program Proposal, College Of Agriculture And Applied Sciences, March 28, 2014 - Restructuring Of The Toxicology Graduate Programs, Utah State University

Educational Policies Committee

This request is to offer MS and PhD degrees in toxicology within the Department of Animal, Dairy and Veterinary Sciences (ADVS). This is not a request for new toxicology graduate degrees because these graduate programs currently exist at Utah State University in the form of the Interdepartmental Toxicology Program (ITP). This request proposes are structuring of the toxicology graduate programs starting with a discontinuation of the ITP program (a separate R401), and then continuation of the toxicology graduate programs under ADVS alone (this proposal).

Educational Policies Committee Program Proposal, College Of Engineering, March 28, 2014, Utah State University

Educational Policies Committee

This request is to discontinue the Interdepartmental Program inToxicology, which offers MS and PhD degrees from the Departments of Animal, Dairy and Veterinary Sciences (ADVS); Plants, Soils, and Climate (PSC); Civil and Environmental Engineering (CEE); Biology (BIOL); and Chemistry & Biochemistry (CHEM).

Educational Policies Committee Program Proposal, College Of Science, March 28, 2014, Utah State University

Educational Policies Committee

This request is to discontinue the Interdepartmental Program inToxicology, which offers MS and PhD degrees from the Departments of Animal, Dairy and Veterinary Sciences (ADVS); Plants, Soils, and Climate (PSC); Civil and Environmental Engineering (CEE); Biology (BIOL); and Chemistry & Biochemistry (CHEM). Enrollments in the program have declined since 1990 and all but two students in the program in the last decade have been in the Department of ADVS.

Diversion(S) Of The Lower Bear River In Gem Valley, Southeast Idaho, By A Tectono-Volcanic Valve, Susanne U. Jänecke, Robert Q. Oaks Jr.

Geosciences Faculty Publications

The lower Bear River of Utah and Idaho was once a tributary of the Snake River that flowed along the NE edge of the Great Basin. Similar biological communities in the upper Bear and Snake Rivers attest to this phase of its history. Basalt flows in Gem Valley, Idaho, diverted the lower Bear River southward into the Bonneville Basin during the late Pleistocene [1] [2] [3]. However, there is no consensus about the timing, location, and mechanism of this major diversion [4] [5]. Landscape and image analysis reveals previously unmapped active normal faults and characterizes Late Pleistocene to Holocene(?) volcanic …

The Utah Statesman, March 18, 2014, Utah State University

The Utah Statesman

Weekly student newspaper of Utah State University in Logan.