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Serial femtosecond crystallography (SFX) with an X-ray free-electron laser (XFEL) has enabled the determination of protein structures and protein reaction intermediates in millisecond to microsecond time resolutions. Mix-and-Inject crystallography (MISC) at XFELs enables fast mixing in the magnitude of milliseconds in order to achieve desired reaction time points. For these

Serial femtosecond crystallography (SFX) with an X-ray free-electron laser (XFEL) has enabled the determination of protein structures and protein reaction intermediates in millisecond to microsecond time resolutions. Mix-and-Inject crystallography (MISC) at XFELs enables fast mixing in the magnitude of milliseconds in order to achieve desired reaction time points. For these experiments, numerical simulations of a hydrodynamic flow mixer capable of fast mixing by diffusion has been developed using both COMSOL Multiphysics 5.6 and QuickerSims Computational Fluid Dynamics (CFD) Toolbox for MATLAB. These simulation programs were compared by calculations of mixing times and concentration flow profiles. Mixing times in the range of 1-10 ms were calculated in COMSOL under certain flow rate conditions whereas mixing times in the range of 6-15 ms were calculated with QuickerSims. From these mixing times, reaction intermediates can be varied from sub-millisecond to several hundred millisecond time points for a MISC experiment. Explanations for the discrepancies between the two models were attributed to variations in parameter definitions and meshing. Further analysis on the mixing characteristics were investigated by calculating an analytical solution to the convection-diffusion equation for fluid flow in a two-dimensional rectangular channel. The concentration profile along the width of the channel for the analytical solution was compared with the numerical solution obtained with COMSOL and QuickerSims. Upon comparison, it was determined that the diffusion coefficient may not be a significant factor for the disagreement between the two hydrodynamic flow models.

ContributorsGuzman, Manuel Alexander (Author) / Ros, Alexandra (Thesis director) / Williams, Peter (Committee member) / Hayes, Mark (Committee member) / School of Mathematical and Statistical Sciences (Contributor) / School of Molecular Sciences (Contributor) / Barrett, The Honors College (Contributor)
Created2021-05
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Ants are widespread species of eusocial insects, and myrmecophily describes the species which are associated with ants. Many mites are myrmecophilous species and interact with hosts in many ways such as phoresis or parasitism. The relationship between ants and mites are interesting as parasitic species could be used to control

Ants are widespread species of eusocial insects, and myrmecophily describes the species which are associated with ants. Many mites are myrmecophilous species and interact with hosts in many ways such as phoresis or parasitism. The relationship between ants and mites are interesting as parasitic species could be used to control the spread of invasive ant species. For this project, I reviewed the existing literature on myrmecophilous mites around the world and compiled a database of ant-mite associations, which I then used to characterize factors such as host specificity, attachment sites, and biogeographical patterns. This work demonstrates that existing research on myrmecophilous mites has been both geographically and taxonomically biased and highlights the need for much more comprehensive surveys of mites living in association with ants.

ContributorsLin, Chan-An (Author) / Taylor, Jesse (Thesis director) / Rabeling, Christian (Committee member) / School of Molecular Sciences (Contributor) / Barrett, The Honors College (Contributor)
Created2021-05
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As much as SARS-CoV-2 has altered the way humans live since the beginning of 2020, this virus's deadly nature has required clinical testing to meet 2020's demands of higher throughput, higher accuracy and higher efficiency. Information technology has allowed institutions, like Arizona State University (ASU), to make strategic and operational

As much as SARS-CoV-2 has altered the way humans live since the beginning of 2020, this virus's deadly nature has required clinical testing to meet 2020's demands of higher throughput, higher accuracy and higher efficiency. Information technology has allowed institutions, like Arizona State University (ASU), to make strategic and operational changes to combat the SARS-CoV-2 pandemic. At ASU, information technology was one of the six facets identified in the ongoing review of the ASU Biodesign Clinical Testing Laboratory (ABCTL) among business, communications, management/training, law, and clinical analysis. The first chapter of this manuscript covers the background of clinical laboratory automation and details the automated laboratory workflow to perform ABCTL’s COVID-19 diagnostic testing. The second chapter discusses the usability and efficiency of key information technology systems of the ABCTL. The third chapter explains the role of quality control and data management within ABCTL’s use of information technology. The fourth chapter highlights the importance of data modeling and 10 best practices when responding to future public health emergencies.

ContributorsLeung, Michael (Co-author) / Kandan, Mani (Co-author) / Knox, Garrett (Co-author) / Woo, Sabrina (Co-author) / Compton, Carolyn (Thesis director) / Dudley, Sean (Committee member) / School of Molecular Sciences (Contributor) / Barrett, The Honors College (Contributor)
Created2021-05
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Apolipoprotein (ApoE) plays an important role in the transport of lipids in the brain for normal functioning. There are three different isoforms of ApoE which are coded for by three alleles (E2, E3, E4). Patients carrying at least one copy of ApoE E4 are known to be at higher

Apolipoprotein (ApoE) plays an important role in the transport of lipids in the brain for normal functioning. There are three different isoforms of ApoE which are coded for by three alleles (E2, E3, E4). Patients carrying at least one copy of ApoE E4 are known to be at higher risk for developing Alzheimer’s disease (AD) and earlier onset of symptoms. This is due to the buildup of amyloid plaques and neurofibrillary tangles of the brain from the accumulation of tau proteins, which are associated with the progression of Alzheimer’s disease. However, findings on ApoE E2 have shown that it may be a protective allele since it is linked to a decreased risk of formation of amyloid plaques and neurofibrillary tangles. To study this phenomenon within the context of a local population group, polymerase chain reaction and gel electrophoresis were conducted on extracted DNA samples. The principal goal in this research study was to genotype ApoE variants using single nucleotide polymorphism (SNP) specific primers, and polymerase chain reaction to analyze the frequency in the Tempe population to determine future healthcare needs.

ContributorsBernal, Miranda (Author) / School of Molecular Sciences (Contributor) / Barrett, The Honors College (Contributor)
Created2021-05
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For immigrants around the world, the United States represents hope for a new life and new opportunities. Colleen Vesely, Bethany Letiecq, and Rachael Goodman, in their article “Parenting Across Two Worlds: Low-Income Latina Immigrants’ Adaptation to Motherhood in the United States” provide examples of how real-world Latinx immigrant mothers view

For immigrants around the world, the United States represents hope for a new life and new opportunities. Colleen Vesely, Bethany Letiecq, and Rachael Goodman, in their article “Parenting Across Two Worlds: Low-Income Latina Immigrants’ Adaptation to Motherhood in the United States” provide examples of how real-world Latinx immigrant mothers view their experience in the United States. Many of the stories they include tell idealized versions of the American dream, what all people hope for when they immigrate to America. The immigrants they interviewed commonly talk about how they want to create a better life for their children and how by creating a better life for them it made the entire struggle worth it. Vesely, Letiecq, and Goodman do not just focus on the positives of immigration, they also explore the different barriers they must overcome in order to even try and achieve the ideal immigration experience they dream of. Cristina Henríquez perfectly embodies both the hopes and struggles of immigrants in her novel The Book of Unknown Americans (2015) by using the viewpoints of multiple immigrants to tell their specific immigration stories. This project uses Vesely, Letiecq, and Goodman’s article about the challenges of Latinx immigrant mothers’ experiences in the United States as a basis for my argument. In this thesis I postulate that motherhood, as it others women, has a negative impact on the ability of these Latinx immigrant mothers to create a place for themselves and feel a sense of belonging as depicted in Cristina Henríquez’s The Book Unknown of Americans (2015).

ContributorsRiggs, Charity Rose (Author) / Soares, Rebecca (Thesis director) / Agruss, David (Committee member) / School of Molecular Sciences (Contributor) / School of International Letters and Cultures (Contributor) / Barrett, The Honors College (Contributor)
Created2021-05
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Description

Colonialism is the practice of conquering lands of already established individuals for the<br/>greater good of Western civilization. These actions are often rooted in the idea that the ways of<br/>the indigenous people are almost primitive in comparison to the ways of the West. Many forms<br/>of modern-day oppression are rooted in the

Colonialism is the practice of conquering lands of already established individuals for the<br/>greater good of Western civilization. These actions are often rooted in the idea that the ways of<br/>the indigenous people are almost primitive in comparison to the ways of the West. Many forms<br/>of modern-day oppression are rooted in the disastrous acts against marginalized groups during<br/>colonial eras. In discourse relating to colonialism, it is necessary that the topic of the sexualization of<br/>Native groups are mentioned. Sexualization can be referred to as the act of sexualizing both<br/>humans and objects that are not intended to be innately sexual.<br/>Many literary texts were written during the nineteenth century expose the trends of<br/>sexualization towards indigenous peoples. More specifically, Heart of Darkness brings light to<br/>colonialism and provides insight into the European man’s sexualization for the Native woman.<br/>Within the text, the sexualization for the Native Congo woman is undeniably present all<br/>throughout the novel. Within the novella, the main character, Marlow, is infatuated with many<br/>aspects of the Native culture. He takes a particular interest in the land, when describing the land<br/>he uses verbiage such as “impenetrable” to describe lands that have yet to be discovered by<br/>Westerners. He describes the ways in which he no longer finds interest in lands that have been<br/>“penetrated”. These sexual undertones of virginity used to describe the Native land can be<br/>compared to that of a Native woman. Various aspects of the Native culture were sexualized in<br/>this similar manner, the sexual perspective they had on the Native women was so strong that<br/>they viewed all aspects of the Native sexually due to their linkage to the Native woman. This<br/>thesis serves to address the sexual connections made between the land and culture of the Congo<br/>to the Native woman. Many scholars praise the author for including a Native woman of power<br/><br/>within the text, however, this thesis contradicts these claims and analyzes the ways in which this<br/>The native woman is only powerful due to the European male gaze.<br/><br/>to how Africans within the congo were treated during their colonial era. The text provides<br/>insight into the unhealthy environments the Africans were forced to live in. They were forced to<br/>eat hippo meat and many physically looked as if they were on the verge of death while their<br/>white counterparts were dressed in luxury. Additionally, there was carelessness for the bodies<br/>of the Africans. Many were oversexualized and taken advantage of, due to the power systems<br/>placed upon them they were unable to deny any advances even if they wanted to. These systems<br/>of oppression are still in place, literary analysis of the remnants of colonialism can be found<br/>through twentieth and twenty-first-century texts.

ContributorsMitiku, Meron Degu (Author) / Agruss, David (Thesis director) / Soares, Rebecca (Committee member) / School of Molecular Sciences (Contributor) / Department of Psychology (Contributor) / Barrett, The Honors College (Contributor)
Created2021-05
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Description

Despite the fact that seizures are commonly associated with autism spectrum disorder (ASD), the effectiveness of treatments for seizures has not been well studied in individuals with ASD. This manuscript reviews both traditional and novel treatments for seizures associated with ASD. Studies were selected by systematically searching major electronic databases

Despite the fact that seizures are commonly associated with autism spectrum disorder (ASD), the effectiveness of treatments for seizures has not been well studied in individuals with ASD. This manuscript reviews both traditional and novel treatments for seizures associated with ASD. Studies were selected by systematically searching major electronic databases and by a panel of experts that treat ASD individuals. Only a few anti-epileptic drugs (AEDs) have undergone carefully controlled trials in ASD, but these trials examined outcomes other than seizures. Several lines of evidence point to valproate, lamotrigine, and levetiracetam as the most effective and tolerable AEDs for individuals with ASD. Limited evidence supports the use of traditional non-AED treatments, such as the ketogenic and modified Atkins diet, multiple subpial transections, immunomodulation, and neurofeedback treatments. Although specific treatments may be more appropriate for specific genetic and metabolic syndromes associated with ASD and seizures, there are few studies which have documented the effectiveness of treatments for seizures for specific syndromes. Limited evidence supports l-carnitine, multivitamins, and N-acetyl-l-cysteine in mitochondrial disease and dysfunction, folinic acid in cerebral folate abnormalities and early treatment with vigabatrin in tuberous sclerosis complex. Finally, there is limited evidence for a number of novel treatments, particularly magnesium with pyridoxine, omega-3 fatty acids, the gluten-free casein-free diet, and low-frequency repetitive transcranial magnetic simulation. Zinc and l-carnosine are potential novel treatments supported by basic research but not clinical studies. This review demonstrates the wide variety of treatments used to treat seizures in individuals with ASD as well as the striking lack of clinical trials performed to support the use of these treatments. Additional studies concerning these treatments for controlling seizures in individuals with ASD are warranted.

ContributorsFrye, Richard E. (Author) / Rossignol, Daniel (Author) / Casanova, Manuel F. (Author) / Brown, Gregory L. (Author) / Martin, Victoria (Author) / Edelson, Stephen (Author) / Coben, Robert (Author) / Lewine, Jeffrey (Author) / Slattery, John C. (Author) / Lau, Chrystal (Author) / Hardy, Paul (Author) / Fatemi, S. Hossein (Author) / Folsom, Timothy D. (Author) / MacFabe, Derrick (Author) / Adams, James (Author) / Ira A. Fulton Schools of Engineering (Contributor)
Created2013-09-13
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Description

There is a growing body of scientific evidence that the health of the microbiome (the trillions of microbes that inhabit the human host) plays an important role in maintaining the health of the host and that disruptions in the microbiome may play a role in certain disease processes. An increasing

There is a growing body of scientific evidence that the health of the microbiome (the trillions of microbes that inhabit the human host) plays an important role in maintaining the health of the host and that disruptions in the microbiome may play a role in certain disease processes. An increasing number of research studies have provided evidence that the composition of the gut (enteric) microbiome (GM) in at least a subset of individuals with autism spectrum disorder (ASD) deviates from what is usually observed in typically developing individuals. There are several lines of research that suggest that specific changes in the GM could be causative or highly associated with driving core and associated ASD symptoms, pathology, and comorbidities which include gastrointestinal symptoms, although it is also a possibility that these changes, in whole or in part, could be a consequence of underlying pathophysiological features associated with ASD. However, if the GM truly plays a causative role in ASD, then the manipulation of the GM could potentially be leveraged as a therapeutic approach to improve ASD symptoms and/or comorbidities, including gastrointestinal symptoms.

One approach to investigating this possibility in greater detail includes a highly controlled clinical trial in which the GM is systematically manipulated to determine its significance in individuals with ASD. To outline the important issues that would be required to design such a study, a group of clinicians, research scientists, and parents of children with ASD participated in an interdisciplinary daylong workshop as an extension of the 1st International Symposium on the Microbiome in Health and Disease with a Special Focus on Autism (www.microbiome-autism.com). The group considered several aspects of designing clinical studies, including clinical trial design, treatments that could potentially be used in a clinical trial, appropriate ASD participants for the clinical trial, behavioral and cognitive assessments, important biomarkers, safety concerns, and ethical considerations. Overall, the group not only felt that this was a promising area of research for the ASD population and a promising avenue for potential treatment but also felt that further basic and translational research was needed to clarify the clinical utility of such treatments and to elucidate possible mechanisms responsible for a clinical response, so that new treatments and approaches may be discovered and/or fostered in the future.

ContributorsFrye, Richard E. (Author) / Slattery, John (Author) / MacFabe, Derrick F. (Author) / Allen-Vercoe, Emma (Author) / Parker, William (Author) / Rodakis, John (Author) / Adams, James (Author) / Krajmalnik-Brown, Rosa (Author) / Bolte, Ellen (Author) / Kahler, Stephen (Author) / Jennings, Jana (Author) / James, Jill (Author) / Cerniglia, Carl E. (Author) / Midtvedt, Tore (Author) / Ira A. Fulton Schools of Engineering (Contributor)
Created2015-05-07
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Description

Background: Despite the high prevalence of seizure, epilepsy and abnormal electroencephalograms in individuals with autism spectrum disorder (ASD), there is little information regarding the relative effectiveness of treatments for seizures in the ASD population. In order to determine the effectiveness of traditional and non-traditional treatments for improving seizures and influencing other

Background: Despite the high prevalence of seizure, epilepsy and abnormal electroencephalograms in individuals with autism spectrum disorder (ASD), there is little information regarding the relative effectiveness of treatments for seizures in the ASD population. In order to determine the effectiveness of traditional and non-traditional treatments for improving seizures and influencing other clinical factor relevant to ASD, we developed a comprehensive on-line seizure survey.

Methods: Announcements (by email and websites) by ASD support groups asked parents of children with ASD to complete the on-line surveys. Survey responders choose one of two surveys to complete: a survey about treatments for individuals with ASD and clinical or subclinical seizures or abnormal electroencephalograms, or a control survey for individuals with ASD without clinical or subclinical seizures or abnormal electroencephalograms. Survey responders rated the perceived effect of traditional antiepileptic drug (AED), non-AED seizure treatments and non-traditional ASD treatments on seizures and other clinical factors (sleep, communication, behavior, attention and mood), and listed up to three treatment side effects.

Results: Responses were obtained concerning 733 children with seizures and 290 controls. In general, AEDs were perceived to improve seizures but worsened other clinical factors for children with clinical seizure. Valproic acid, lamotrigine, levetiracetam and ethosuximide were perceived to improve seizures the most and worsen other clinical factors the least out of all AEDs in children with clinical seizures. Traditional non-AED seizure and non-traditional treatments, as a group, were perceived to improve other clinical factors and seizures but the perceived improvement in seizures was significantly less than that reported for AEDs. Certain traditional non-AED treatments, particularly the ketogenic diet, were perceived to improve both seizures and other clinical factors. For ASD individuals with reported subclinical seizures, other clinical factors were reported to be worsened by AEDs and improved by non-AED traditional seizure and non-traditional treatments. The rate of side effects was reportedly higher for AEDs compared to traditional non-AED treatments.

Conclusion: Although this survey-based method only provides information regarding parental perceptions of effectiveness, this information may be helpful for selecting seizure treatments in individuals with ASD.

ContributorsFrye, Richard E. (Author) / Sreenivasula, Swapna (Author) / Adams, James (Author) / Ira A. Fulton Schools of Engineering (Contributor)
Created2011-05-18
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Though schizophrenia was categorized as a mental illness over 100 years ago, there is a plethora of knowledge that continues to perplex the scientific and medical community alike. This tragic mental disorder affects approximately 1% of the general population, and many of these individuals are homeless if left untreated. Each

Though schizophrenia was categorized as a mental illness over 100 years ago, there is a plethora of knowledge that continues to perplex the scientific and medical community alike. This tragic mental disorder affects approximately 1% of the general population, and many of these individuals are homeless if left untreated. Each schizophrenia patient has a different set of symptoms, so all of these patients experience a variety of positive and negative symptoms. Negative symptoms are called so as they are in absence, and some examples include apathy, anhedonia, lack of motivation, reduced social drive, and reduced cognitive functioning. Positive behavior, on the other hand, is a change in behavior or thoughts such as visual or auditory hallucinations, delusions, confused thoughts, disorganized speech, and trouble concentrating. Because schizophrenia patients do not share the exact same set of symptoms, research in schizophrenia requires a tremendous amount of medical resources. Over the last few years, new studies have started in the field of schizophrenia involving proteomics, or the study of proteins and their function. This new frontier gives doctors and scientists alike a new opportunity to improve the quality of life of schizophrenia patients by providing a potential method through which patients would receive individualized treatment based on their specific symptoms.

ContributorsPeterson, Rozabel (Author) / Brian, Jennifer (Thesis director) / School of Molecular Sciences (Contributor) / Barrett, The Honors College (Contributor)
Created2021-05