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Identification Of Clinically-Relevant Sequence Variants Within The Human Reference Genome, Lisa A. Lansdon 2020 Children's Mercy Kansas City

Identification Of Clinically-Relevant Sequence Variants Within The Human Reference Genome, Lisa A. Lansdon

Research Days

No abstract provided.


Use Of Embark Database And An Active Learning Protocol In A High School Classroom, Landon Goodreau 2020 University of Mississippi

Use Of Embark Database And An Active Learning Protocol In A High School Classroom, Landon Goodreau

Honors Theses

With advances in technology, personal genome sequencing has become more affordable than ever before. With this wealth of genetic information come new individualized approaches to medicine and pharmacology, along with moral, legal, and ethical issues to carefully consider. Yet studies suggest that most members of the general public do not have the genetic literacy required to understand the implications of genomic data. It is important that today’s students are able to grasp concepts relating to their own genome to make informed medical decisions in the future. Here I describe an active learning-based activity designed to enhance high school students ...


Multi-Generational Effects Of ∆9-Tetrahydrocannabinol Exposure On Gene Expression In Liver Tissue, Kayla Lovitt 2020 University of Mississippi

Multi-Generational Effects Of ∆9-Tetrahydrocannabinol Exposure On Gene Expression In Liver Tissue, Kayla Lovitt

Honors Theses

Cannabis is the most commonly used, cultivated, and trafficked illicit drug worldwide. Increased availability and acceptance of cannabis and cannabinoid-containing products provide the necessity for understanding how these substances influence aging. In this study, zebrafish (Danio rerio) were exposed to concentrations of Δ9-tetrahydrocannabinol (THC) (0.08, 0.4, 2 µM) during embryonic-larval development, the effects on aging were measured 30 months later and in the offspring of the exposed fish (F1 generation. We observed results indicating a biphasic and hormetic effect. Treatment with the lowest concentration of THC significantly increased egg production, while higher concentrations resulted in impaired ...


Evolutionary And Ecological Determinism Of Host Specificity In Arthropod Parasites, Joseph Levey 2020 University of Nebraska-Lincoln

Evolutionary And Ecological Determinism Of Host Specificity In Arthropod Parasites, Joseph Levey

UCARE Research Products

Understanding why some diseases infect more species than others is crucial for predicting where and when disease will spread, which can inform the management of wildlife, agriculture, and human health. Currently, large scale patterns of host-parasite dynamics are being studied to understand where to look for and how to manage emerging human diseases (Leroy 2005; Benelli 2018). Previous research has used the Global Mammal Parasite Database (GMPD) to look at host breadth—the number and diversity of species a pathogen can infect—for various groups of parasites, e.g. helminths, arthropods, fungi, etc., from a host-centric perspective (Stephens et al ...


Genetic Studies Of Wildlife, Brittaney L. Buchanan 2020 University of Nebraska-Lincoln

Genetic Studies Of Wildlife, Brittaney L. Buchanan

Dissertations & Theses in Natural Resources

Genetic techniques are being more frequently used to understand the biology and management of wildlife species. The wild turkey is one species of genetic interest because the correct identification of individuals to the subspecies level is difficult using traditional methods. Currently phenotypic differences in plumage, especially the upper tail coverts, are used to assign individuals to subspecies. To hunters wanting to complete a “grand slam,” identification of birds’ subspecies is important. This study focuses on the five extant subspecies: Eastern (M. g. silvestris), Osceola (M. g. osceola), Rio Grande (M. g. intermedia), Merriam’s (M. g. merriami), and Gould’s ...


A Basic Ddradseq Two‐Enzyme Protocol Performs Well With Herbarium And Silica‐Dried Tissues Across Four Genera, Ingrid E. Jordon-Thaden, James B. Beck, Catherine A. Rushworth, Michael D. Windham, Nicolas Diaz, Jason T. Cantley, Christopher T. Martine, Carl J. Rothfels 2020 University of Wisconsin-Madison

A Basic Ddradseq Two‐Enzyme Protocol Performs Well With Herbarium And Silica‐Dried Tissues Across Four Genera, Ingrid E. Jordon-Thaden, James B. Beck, Catherine A. Rushworth, Michael D. Windham, Nicolas Diaz, Jason T. Cantley, Christopher T. Martine, Carl J. Rothfels

Faculty Journal Articles

Premise

The ability to sequence genome‐scale data from herbarium specimens would allow for the economical development of data sets with broad taxonomic and geographic sampling that would otherwise not be possible. Here, we evaluate the utility of a basic double‐digest restriction site–associated DNA sequencing (ddRADseq) protocol using DNAs from four genera extracted from both silica‐dried and herbarium tissue.

Methods

DNAs from Draba, Boechera, Solidago, and Ilex were processed with a ddRADseq protocol. The effects of DNA degradation, taxon, and specimen age were assessed.

Results

Although taxon, preservation method, and specimen age affected data recovery, large phylogenetically ...


158— Optimization And Development Of The Luria-Delbrück Experiment For Geneseo Genetics Labs, Abigail Scheffler 2020 SUNY Geneseo

158— Optimization And Development Of The Luria-Delbrück Experiment For Geneseo Genetics Labs, Abigail Scheffler

GREAT Day

The classic genetics experiment by Salvador Luria and Max Delbruck showed that mutations are present prior to selection rather than arising in response to selective pressures. In this experiment, we used Escherichia coli as our model organism and the antibiotics streptomycin and rifampicin to show students in a laboratory setting how this hypothesis can be applied. Specifically, we optimized antibiotic concentrations and the amount of bacterial cells to use in order for the activity to run smoothly and consistently in a student laboratory. We found that the ideal conditions are 1000 cells/ml and 25 micrograms/ml of streptomycin. These ...


Biol 250: Curly Hair Trait: Homozygous Or Heterozygous, Kaysi Bing 2020 Longwood University

Biol 250: Curly Hair Trait: Homozygous Or Heterozygous, Kaysi Bing

Student Showcase for Research and Creative Inquiry

Research Aim: To connect the SNP rs17646946 AG genotype and curly hair

Hypothesis: People expressing a GG genotype at the SNP rs17646946 are most likely to have the curly hair trait


Advanced Phenotyping Of Otosclerosis In An Ontario Population And Two Large Newfoundland Families, Matthew B. Lucas 2020 The University of Western Ontario

Advanced Phenotyping Of Otosclerosis In An Ontario Population And Two Large Newfoundland Families, Matthew B. Lucas

Electronic Thesis and Dissertation Repository

Otosclerosis is a relatively common hearing loss disorder characterized by abnormal bone growth in the otic capsule leading to stapes fixation. In approximately half of cases, otosclerosis is inherited as an autosomal dominant trait. Typically, gene discovery efforts rely on surgical confirmation, audiometry and occasionally acoustic reflexes to identify affected cases of otosclerosis within families, requiring that the otosclerosis was at an advanced stage to be detected. This makes it difficult to identify individuals with early otosclerosis. The use of advanced phenotyping to identify cases of otosclerosis was tested in an Ontario otosclerotic population as well as in two large ...


Toxins Produced By Staphylococcus Aureus, Courtney Carlson 2020 Concordia University, St. Paul

Toxins Produced By Staphylococcus Aureus, Courtney Carlson

Research and Scholarship Symposium Posters

The focus of this study was to analyze the presence of toxin genes from Staphylococcus aureus, such as alpha toxin and toxic shock syndrome toxin-1 (TSST-1). The bacteria’s genomic DNA was amplified via Polymerase Chain Reaction (PCR) and visualized through DNA gel electrophoresis. Clinical isolates that were known to be positive for the specific toxin genes were used as positive controls.


No Association Between An Oxytocin Receptor Genetic Variant And Depressive Symptoms, Rachel Sisley, Grace Sullivan, Scott Stoltenberg Ph. D. 2020 University of Nebraska-Lincoln

No Association Between An Oxytocin Receptor Genetic Variant And Depressive Symptoms, Rachel Sisley, Grace Sullivan, Scott Stoltenberg Ph. D.

UCARE Research Products

• Depression has the greatest impact on daily functioning capability of all diseases and adversely effects individuals globally (Flint & Kendler, 2014). • Human capital value of these losses has been about $40 billion dollars annually (Kessler, 2012). • Analysis of the genetic and biological systems associated with depressive symptoms, such as the oxytocin system, could lead to identifying risk variants and possible treatment development. • Genetic Variation in OXTR is associated with a variation in depressive symptoms including low selfesteem, pessimism, and low self-efficacy, etc. (Conner et al., 2018). • The A allele of the SNP rs53576 is considered the risk allele as it’s associated with decreased pro-social behavior and increased loneliness and suicide attempts (Parris et. Al., 2018) • The exact mechanism has not been identified, but G/G homozygotes recorded to have higher oxytocin levels, associated with increased emotional responsiveness (Marsh et al., 2012; Tost et al., 2010) • We hypothesize that: (1) individuals possessing the A allele of the rs53576 SNP of OXTR will have more depressive symptoms on average. (2) Females will have more depressive symptoms on average. (3) There is an interaction between genotype and biological sex, as A allele females will have more depressive symptoms on average.


Using Crispr/Cas9 Gene Editing To Remove Twist2 To Determine Its Role During Somite Development In Zebrafish, Caleb Holdener 2020 Belmont University

Using Crispr/Cas9 Gene Editing To Remove Twist2 To Determine Its Role During Somite Development In Zebrafish, Caleb Holdener

Belmont Undergraduate Research Symposium (BURS)

Embryonic Mesoderm is a precursor to various types of tissues, such as the somatic mesoderm. Somites are a segmented tissue that gives rise to the sclerotome in vertebrates. This sclerotome further develops into the axial skeleton (Stickney, Barresi, and Devoto 2000). Somites are easily observable under low power microscopy during fish development. In fish, great strides have been made in studying the developmental fate of somites (Stoiber, Haslett, and Sänger 1999; Stickney, Barresi, and Devoto 2000). Zebrafish have been studied in many labs due to their similarities with higher vertebrates. These advantages include their inexpensive cost of care, external fertilization ...


Utilizing Crispr/Cas9 Gene Editing Determine The Role Of Cnr1 During Zebrafish Development, Ellis Chase 2020 Belmont University

Utilizing Crispr/Cas9 Gene Editing Determine The Role Of Cnr1 During Zebrafish Development, Ellis Chase

Belmont Undergraduate Research Symposium (BURS)

The CRISPR-Cas 9 system is a process used to create mutations, insertions, or deletions within a desired gene. It can be used to create mutant organisms necessary to study the function and impact of a particular gene1. Cannabinoids are active chemicals found in cannabis, the most common of which being cannabinol (CBD)2. Cannabinoid receptors are an integral part of the endocannabinoid system, recognizing cannabinoid signals to promote physiological processes like pain sensation, memory, mood, and appetite3. Studying these cannabinoid receptors can provide insight into how cannabis can affect bodily processes.

Zebrafish are small translucent freshwater fish residing ...


Utilizing Crispr/Cas9 Gene Editing Determine The Role Of Cnr1 During Zebrafish Development, Camme Sells 2020 Belmont University

Utilizing Crispr/Cas9 Gene Editing Determine The Role Of Cnr1 During Zebrafish Development, Camme Sells

Belmont Undergraduate Research Symposium (BURS)

In a world where cannabinoids are being used more frequently as for medicinal purposes, the importance for research on cannabinoid biology is steadily increasing. The goal of this study was to gain a greater understanding of the effect cannabinoids have on developing zebrafish embryos. Work in this area of developmental biology could give way to an understanding of the safety of a human fetus during pregnancy with a mother who uses cannabis medicinal therapy. The CRISPR/Cas 9 system was utilized in this study to genetically edit the zebrafish embryo genome to remove the function of the Cannabinoid Receptor 1 ...


Twist1b Knockout Generation In Zebrafish Using Crispr-Cas9, Grace Hurley 2020 Belmont University

Twist1b Knockout Generation In Zebrafish Using Crispr-Cas9, Grace Hurley

Belmont Undergraduate Research Symposium (BURS)

The Twist gene is found in numerous organisms, including humans, mice and zebrafish (Yeo et al., 2009). It is a vital gene in development and is needed for the organism to survive (Yeo et al., 2009). Specifically, the Twist gene family aids in specialization and differentiation of mesodermal cells, telling somites, segmented blocks of mesoderm, what to become (Germanguz et al., 2007). Over time, the Twist gene has duplicated into paralogs, each having differences in their functions (Germanguz et al., 2007). Twist1b is a protein coding gene that is a paralog to the human Twist1 gene (ZFIN, 2020). In zebrafish ...


Evolutionary Ecology Of Host-Parasite Relationships: Role Of Host Ecology, Phylogeny, And Demographics In Shaping Parasite Evolution, Erika Taylor Gendron 2020 University of New Mexico

Evolutionary Ecology Of Host-Parasite Relationships: Role Of Host Ecology, Phylogeny, And Demographics In Shaping Parasite Evolution, Erika Taylor Gendron

Biology ETDs

Host-parasite systems exist across complex and ecologically heterogeneous landscapes, and may occur across taxonomically and ecologically disparate host species. Under these conditions, mechanisms underlying microevolutionary processes (i.e. gene flow, genetic drift) are not always clear, and may be mediated by numerous co-occurring factors specific to individual hosts. Host traits such as host immunology, demographics, phylogeny and ecology may act in concert to shape host-parasite relationships, and ultimately evolutionary processes. The research described herein used phylogeographic, phylogenomic, and population genetic methods to further understanding of how host traits impact the evolutionary ecology of trematode systems, using avian schistosomes (Digenea: Schistosomatidae ...


The Ecology And Evolutionary History Of Two Musk Turtles In The Southeastern United States, Grover Brown 2020 The University of Southern Mississippi

The Ecology And Evolutionary History Of Two Musk Turtles In The Southeastern United States, Grover Brown

Dissertations

Turtles are among one of the most imperiled vertebrate groups on the planet with more than half of all species worldwide listed as threatened, endangered or extinct by the International Union of the Conservation of Nature. The Southeastern United States is a global biodiversity hotspot for turtles, and it likely represents the last area on the planet of both high diversity and high abundance of turtle species. In the past century, there has been an exponential increase in the number of publications on turtles in the United States and Canada, however a recent review of the literature suggests that this ...


De Novo Sequencing And Analysis Of Salvia Hispanica Tissue-Specific Transcriptome And Identification Of Genes Involved In Terpenoid Biosynthesis, James Wimberley, Joseph Cahill, Hagop S. Atamian 2020 Chapman University

De Novo Sequencing And Analysis Of Salvia Hispanica Tissue-Specific Transcriptome And Identification Of Genes Involved In Terpenoid Biosynthesis, James Wimberley, Joseph Cahill, Hagop S. Atamian

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

Salvia hispanica (commonly known as chia) is gaining popularity worldwide as a healthy food supplement due to its low saturated fatty acid and high polyunsaturated fatty acid content, in addition to being rich in protein, fiber, and antioxidants. Chia leaves contain plethora of secondary metabolites with medicinal properties. In this study, we sequenced chia leaf and root transcriptomes using the Illumina platform. The short reads were assembled into contigs using the Trinity software and annotated against the Uniprot database. The reads were de novo assembled into 103,367 contigs, which represented 92.8% transcriptome completeness and a diverse set of ...


Content And Performance Of The Minimuga Genotyping Array, A New Tool To Improve Rigor And Reproducibility In Mouse Research, John Sebastian Sigmon, Christopher M. Sassetti, Martin T. Ferris, Leonard McMillan, Fernando Pardo-Manuel de Villena 2020 University of North Carolina

Content And Performance Of The Minimuga Genotyping Array, A New Tool To Improve Rigor And Reproducibility In Mouse Research, John Sebastian Sigmon, Christopher M. Sassetti, Martin T. Ferris, Leonard Mcmillan, Fernando Pardo-Manuel De Villena

University of Massachusetts Medical School Faculty Publications

The laboratory mouse is the most widely used animal model for biomedical research, due in part to its well annotated genome, wealth of genetic resources and the ability to precisely manipulate its genome. Despite the importance of genetics for mouse research, genetic quality control (QC) is not standardized, in part due to the lack of cost effective, informative and robust platforms. Genotyping arrays are standard tools for mouse research and remain an attractive alternative even in the era of high-throughput whole genome sequencing. Here we describe the content and performance of a new Mouse Universal Genotyping Array (MUGA). MiniMUGA, an ...


Molecular Differentiation Of Astragalus Species And Varieties From The Western United States: The Chloroplast Dna Bridge Between Evolution And Molecular Systematics, Marwa Neyaz, Daniel Cook, Rebecca Creamer 2020 New Mexico State University

Molecular Differentiation Of Astragalus Species And Varieties From The Western United States: The Chloroplast Dna Bridge Between Evolution And Molecular Systematics, Marwa Neyaz, Daniel Cook, Rebecca Creamer

Poisonous Plant Research (PPR)

Locoweeds are the most widespread poisonous plant problem in the world and have been reported in the Western United States since the 1800s, causing tremendous losses in livestock. Consumption of locoweeds by grazing animals stimulates the neurological disease, locoism, characterized by weight loss, ataxia, and lack of muscular coordination. The name locoweed is used for Astragalus and Oxytropis species known to contain swainsonine, the toxic principle produced by the plant endophytic fungus Undifilum. Astragalus includes 2,500-3,000 species and many varieties that have almost identical morphological characteristics that overlap among species, leading to improper identification. Therefore, the aim of ...


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