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Description
Although extracellular throughout their lifecycle, trypanosomes are able to persist despite strong host immune responses through a process known as antigenic variation involving a large, highly diverse family of surface glycopro- tein (VSG) genes, only one of which is expressed at a time. Previous studies have used mathematical models to investigate the relationship between VSG switching and the dynamics of trypanosome infections, but none have explored the role of multiple VSG expression sites or the contribution of mosaic gene conversion events involving VSG pseudogenes.
ContributorsKoury, Michael Andrew (Author) / Taylor, Jesse (Thesis director) / Gumel, Abba (Committee member) / Department of Physics (Contributor) / School of Mathematical and Statistical Sciences (Contributor) / Barrett, The Honors College (Contributor)
Created2020-05
Description
Biogeography places the geographical distribution of biodiversity in an evolutionary context. Ants (Hymenoptera: Formicidae), being a group of ubiquitous, ecologically dominant, and diverse insects, are useful model systems to understand the evolutionary origins and mechanisms of biogeographical patterns across spatial scales. On a global scale, ants have been used to test hypotheses on the origin and maintenance of the remarkably consistent latitudinal diversity gradient where biodiversity peaks in the equatorial tropics and decreases towards the poles. Additionally, ants have been used to posit and test theories of island biogeography such as the mechanisms of the species-area relationship, being the increase of biodiversity with cumulative land area. However, there are still unanswered questions about ant biogeography such as how specialized life histories contribute to their global biogeographical patterns. Furthermore, there remain island systems in the world’s biodiversity hotspots that harbor much less ant species than predicted by the species-area relationship, which potentially suggests a place ripe for discovery. In this dissertation, I use natural history, taxonomic, geographic, and phylogenetic data to study ant biodiversity and biogeography across spatial scales. First, I study the global biodiversity and biogeography of a specialized set of symbiotic interactions between ant species, here referred to as myrmecosymbioses, with an emphasis on social parasitism where one species exploits the parental care behavior and social colony environment of another species. In addition to characterizing a new myrmecosymbiosis, I use a global biogeographic and phylogenetic dataset to show that ant social parasitism is distributed along an inverse latitudinal diversity gradient where species richness and independent evolutionary origins of social parasitism peak within the northern hemisphere where the least free-living ant diversity exists. Second, I study the unexplored ant fauna of the Vanuatuan archipelago in the South Pacific. Using approximately 10,000 Vanuatuan ant specimens coupled with phylogenomics, I fill in a historical knowledge gap of South Pacific ant biogeography and demonstrate that the Vanuatuan ant fauna is a novel biodiversity hotspot. With these studies, I provide insights into how specialized life histories and unique island biotas shape the global distribution of biodiversity in different ways, especially in the ants.
ContributorsGray, Kyle William (Author) / Rabeling, Christian (Thesis advisor) / Martins, Emilia (Committee member) / Taylor, Jesse (Committee member) / Pratt, Stephen (Committee member) / Wojciechowski, Martin (Committee member) / Arizona State University (Publisher)
Created2023
Description
Human preterm labor is the single most significant issue in modern obstetrics andgynecology, affecting ten percent of pregnancies, constituting the leading cause of infant death, and contributing significantly to chronic childhood disease. Obstetricians and reproductive scientists are faced with the major challenge of trying to increase the understanding of the complex molecular and cellular signals that regulate uterine activity during human pregnancy and labor. Even though preterm labor accounts for a large portion of perinatal mortality and morbidity, there still is not an effective therapeutic strategy for the treatment or prevention of preterm labor. This dissertation presents tyramine as an alternative modulator of uterine activity. In this dissertation the aims were as follows: 1) to investigate the localization of tyramine and trace amine associated receptor 1 (TAAR1) in the mouse uterine horn using immunohistochemistry as well as confirm the presence of tyramine in the uterine tissue using high performance liquid chromatography, 2) identify which TAAR 1-9 subtypes were present in the mouse uterine horn using RT-qPCR, 3) investigate ultrastructural differences in the mouse uterine horn following tyramine and dopamine treatment using transmission electron microscopy and 4) investigate pinopod ultrastructure as well as pinopod ultrastructural differences following tyramine and dopamine treatment. The research presented in this dissertation showed: 1) tyramine has very specific localization in the mouse endometrium, mainly in the uterine glands, TAAR1 is localized all throughout the perimetrium, myometrium and endometrium, and that tyramine was confirmed and quantified using HPLC, 2) TAAR 1- 9 genes are expressed in trace levels in the mouse uterine horn, 3) tyramine influences changes in endometrial ultrastructure, and 4) tyramine influences changes in pinopod ultrastructure. Ultimately these findings can help with identifying novel treatment options not only for spontaneous preterm labor contractions but also for other uterine related disorders.
ContributorsObayomi, SM Bukola (Author) / Baluch, Debra P (Thesis advisor) / Roberson, Robert (Thesis advisor) / Sweazea, Karen (Committee member) / Brent, Colin (Committee member) / Arizona State University (Publisher)
Created2023
Description
Genome-wide, single nucleotide polymorphisms (SNPs) and germination data were analyzed to better understand species delimitation and salt-tolerance within the legume genus Medicago. Molecular phylogenies revealed that the widely-used, genomic model line R108 and two deeply divergent accessions of Medicago truncatula are in fact more closely related to Medicago littoralis than to other accessions representing Medicago truncatula. This result was supported by germination data wherein the two accessions representing deeply divergent Medicago truncatula demonstrated salt-tolerance that was more similar to Medicago littoralis than to other accessions of Medicago truncatula. Molecular phylogenies revealed that two additional accessions representing deeply divergent Medicago truncatula appear to be more closely related to Medicago italica than to other accessions representing Medicago truncatula. The results of the present study elucidate complex evolutionary relationships and contribute to the present understanding of existing salt-tolerance within Medicago.
ContributorsHopkins, Andrew David (Author) / Wojciechowski, Martin (Thesis advisor) / Park, Yujin (Committee member) / Steele, Kelly (Committee member) / Arizona State University (Publisher)
Created2023
Description
The genus Buellia remains one of the largest, poorly resolved genera of crustose lichens world-wide. A global revision is challenging because of its enormous diversity .As a step towards a more comprehensive revision, three easily separated groups were examined. Buellia sulphurica is easily recognized by its vivid yellow color, caused by rhizocarpic acid, a secondary metabolite rarely reported from the genus. The species has been considered endemic to the Galapagos, but it is morphologically and anatomically almost identical to B. xanthinula, a taxon previously described from Brazil. Moreover, both have rhizocarpic acid. Additionally, a specimen from Georgia with a similar morphology and anatomy with identical secondary chemistry has been examined here. Based on this research, it is discussed whether all three taxa represent a single species. Another aspect of the research presented here focused on species of Buellia that parasitize other lichens. It is generally assumed that they are strongly host-specific. Parasitic specimens of Buellia recently collected in the Great Basin are morphologically similar to taxa previously reported from Northern Europe, South America, and North America. Preliminary studies, comparing the material with specimens of B. uberior, B. miriquidica, B. malmei and B. imshaugii, suggest that the Great Basin material is best recognized as representatives of distinct, currently undescribed species. Finally, as part of this thesis a group of specimens from the Galapagos containing xanthones has been examined. This heterogeneous group represents an assemblage of taxa that are not necessarily closely related, but easily recognized by their bright yellow to orange UV-fluorescence and orange spot test reaction with sodium hypochlorite. For this group, morphological and anatomical characters were documented, and their secondary chemistry analyzed with thin-layer chromatography. For all three groups, i.e., the Buellia xanthinula-group, the parasitic species, and the ones with xanthones, detailed descriptions are provided.
ContributorsParrinello, Christian (Author) / Bungartz, Frank (Thesis advisor) / Wojciechowski, Martin (Committee member) / Pigg, Kathleen (Committee member) / Arizona State University (Publisher)
Created2024
Description
Understanding the diversity, evolutionary relationships, and geographic distribution of species is foundational knowledge in biology. However, this knowledge is lacking for many diverse lineages of the tree of life. This is the case for the desert stink beetles in the tribe Amphidorini LeConte, 1862 (Coleoptera: Tenebrionidae) – a lineage of arid-adapted flightless beetles found throughout western North America. Four interconnected studies that jointly increase our knowledge of this group are presented. First, the darkling beetle fauna of the Algodones sand dunes in southern California is examined as a case study to explore the scientific practice of checklist creation. An updated list of the species known from this region is presented, with a critical focus on material now made available through digitization and global aggregation. This part concludes with recommendations for future biodiversity checklist authors. Second, the psammophilic genus Trogloderus LeConte, 1879 is revised. Six new species are described, and the first, multi-gene phylogeny for the genus is inferred. In addition, historical biogeographic reconstructions along with novel hypotheses of speciation patterns within the Intermountain Region are given. In particular, the Kaibab Plateau and Kaiparowitz Formation are found to have promoted speciation on the Colorado Plateau. The Owens Valley and prehistoric Bouse Embayment are similarly hypothesized to drive species diversification in southern California. Third, a novel phylogenomic analysis for the tribe Amphidorini is presented, based on 29 de novo partial transcriptomes. Three putative ortholog sets were discovered and analyzed to infer the relationships between species groups and genera. The existing classification of the tribe is found to be highly inadequate, though the earliest-diverging relationships within the tribe are still in question. Finally, the new phylogenetic framework is used to provide a genus-level revision for the Amphidorini, which previously contained six valid genera and 253 valid species. This updated classification includes more than 100 taxonomic changes and results in the revised tribe consisting of 16 genera, with three being described as new to science.
ContributorsJohnston, Murray Andrew (Author) / Franz, Nico M (Thesis advisor) / Cartwright, Reed (Committee member) / Taylor, Jesse (Committee member) / Pigg, Kathleen (Committee member) / Arizona State University (Publisher)
Created2018
Description
The complex life cycle and widespread range of infection of Plasmodium parasites, the causal agent of malaria in humans, makes them the perfect organism for the study of various evolutionary mechanisms. In particular, multigene families are considered one of the main sources for genome adaptability and innovation. Within Plasmodium, numerous species- and clade-specific multigene families have major functions in the development and maintenance of infection. Nonetheless, while the evolutionary mechanisms predominant on many species- and clade-specific multigene families have been previously studied, there are far less studies dedicated to analyzing genus common multigene families (GCMFs). I studied the patterns of natural selection and recombination in 90 GCMFs with diverse numbers of gene gain/loss events. I found that the majority of GCMFs are formed by duplications events that predate speciation of mammal Plasmodium species, with many paralogs being neutrally maintained thereafter. In general, multigene families involved in immune evasion and host cell invasion commonly showed signs of positive selection and species-specific gain/loss events; particularly, on Plasmodium species is the simian and rodent clades. A particular multigene family: the merozoite surface protein-7 (msp7) family, is found in all Plasmodium species and has functions related to the erythrocyte invasion. Within Plasmodium vivax, differences in the number of paralogs in this multigene family has been previously explained, at least in part, as potential adaptations to the human host. To investigate this I studied msp7 orthologs in closely related non-human primate parasites where homology was evident. I also estimated paralogs’ evolutionary history and genetic polymorphism. The emerging patterns where compared with those of Plasmodium falciparum. I found that the evolution of the msp7 multigene family is consistent with a Birth-and-Death model where duplications, pseudogenization and gene lost events are common. In order to study additional aspects in the evolution of Plasmodium, I evaluated the trends of long term and short term evolution and the putative effects of vertebrate- host’s immune pressure of gametocytes across various Plasmodium species. Gametocytes, represent the only sexual stage within the Plasmodium life cycle, and are also the transition stages from the vertebrate to the mosquito vector. I found that, while male and female gametocytes showed different levels of immunogenicity, signs of positive selection were not entirely related to the location and presence of immune epitope regions. Overall, these studies further highlight the complex evolutionary patterns observed in Plasmodium.
ContributorsCastillo Siri, Andreina I (Author) / Rosenberg, Michael (Thesis advisor) / Escalante, Ananias (Committee member) / Taylor, Jesse (Committee member) / Collins, James (Committee member) / Arizona State University (Publisher)
Created2016
Description
Isolation-by-distance is a specific type of spatial genetic structure that arises when parent-offspring dispersal is limited. Many natural populations exhibit localized dispersal, and as a result, individuals that are geographically near each other will tend to have greater genetic similarity than individuals that are further apart. It is important to identify isolation-by-distance because it can impact the statistical analysis of population samples and it can help us better understand evolutionary dynamics. For this dissertation I investigated several aspects of isolation-by-distance. First, I looked at how the shape of the dispersal distribution affects the observed pattern of isolation-by-distance. If, as theory predicts, the shape of the distribution has little effect, then it would be more practical to model isolation-by-distance using a simple dispersal distribution rather than replicating the complexities of more realistic distributions. Therefore, I developed an efficient algorithm to simulate dispersal based on a simple triangular distribution, and using a simulation, I confirmed that the pattern of isolation-by-distance was similar to other more realistic distributions. Second, I developed a Bayesian method to quantify isolation-by-distance using genetic data by estimating Wright’s neighborhood size parameter. I analyzed the performance of this method using simulated data and a microsatellite data set from two populations of Maritime pine, and I found that the neighborhood size estimates had good coverage and low error. Finally, one of the major consequences of isolation-by-distance is an increase in inbreeding. Plants are often particularly susceptible to inbreeding, and as a result, they have evolved many inbreeding avoidance mechanisms. Using a simulation, I determined which mechanisms are more successful at preventing inbreeding associated with isolation-by-distance.
ContributorsFurstenau, Tara N (Author) / Cartwright, Reed A (Thesis advisor) / Rosenberg, Michael S. (Committee member) / Taylor, Jesse (Committee member) / Wilson-Sayres, Melissa (Committee member) / Arizona State University (Publisher)
Created2015
Description
The distinguishing feature of the filamentous fungi is the hyphae - tube-like microscopic cells that exhibit polarized growth via apical extension and allow the fungus to interact with its environment. Fungi elongate at the hyphal apex, through the localized construction of new plasma membrane and cell wall through the exocytosis of secretory vesicles. One population of these vesicles have been identified as chitosomes, containing chitin synthase isoenzymes, which are responsible for the polymerization of N-acetylglucosamine from UDP N-acetylglucosamine into chitin, the primary fibrillar component of the fungal cell wall. The chitosomes, in addition to other vesicles, can be observed aggregating in the hyphal tip in most filamentous fungi. In the Ascomycota and Basidiomycota, this collection of vesicles exhibits discrete organization and has been termed a Spitzenkörper. Although accumulations of vesicles can be observed in the hyphal tip of many growing filamentous fungi, some debate continues as to what precisely defines a Spitzenkörper. This study reports the details of three separate projects: first, to document the effects of deleting a single chitin synthase, CHS-1 and CHS-6 in Neurospora crassa with regards to hyphal ultrastructure, cytoplasmic organization, and growth in comparison to the wild-type. Given the importance of chitin synthesis in fungal cell growth, deletion of a critical chitin synthase presumably impacts cell wall structure, fungal growth and cytoplasmic organization. Second, an examination of the ultrastructure of four zygomycetous fungi - Coemansia reversa, Mortierella verticillata, Mucor indicus, and Gilbertella persicaria has been conducted. Utilization of cryofixation and freeze-substitution techniques for electron microscopy has produced improved preservation of cytoplasmic ultrastructure, particularly at the hyphal apex, allowing detailed analysis of vesicle size, contents, and organization. Lastly, hyphal tip organization was reviewed in a broad range of fungi. Previous studies had either focused on a few select fungi or representative groups. Vesicle organization, composition and size do appear to vary among the classes of fungi, but some trends, like the vesicle crescent in the zygomycetous fungi have been documented.
ContributorsFisher, Karen Elizabeth (Author) / Roberson, Robert W. (Thesis advisor) / Chandler, Douglas (Committee member) / Riquelme, Meritxell (Committee member) / Stutz, Jeam (Committee member) / Wojciechowski, Martin (Committee member) / Arizona State University (Publisher)
Created2015
Description
According to the World Health Organization, obesity has nearly tripled since 1975 and forty-one million children under the age of 5 are overweight or obese (World Health Organization, 2018). Exercise is a potential intervention to prevent obesity-induced cardiovascular complications as exercise training has been shown to aid nitric oxide (NO) production as well as preserving endothelial function in obese mice (Silva et al., 2016). A soil-derived organic mineral compound (OMC) has been shown to lower blood sugar in diabetic mice (Deneau et al., 2011). Prior research has shown that, while OMC did not prevent high fat diet (HFD)-induced increases in body fat in male Sprague-Dawley rats, it was effective at preventing HFD-induced impaired vasodilation (M. S. Crawford et al., 2019). Six-weeks of HFD has been shown to impair vasodilation through oxidative-stress mediated scavenging of NO as well as upregulation of inflammatory pathways including inducible nitric oxide synthase (iNOS) and cyclooxygenase (Karen L. Sweazea et al., 2010). Therefore, the aim of the present study was to determine whether OMC alters protein expression of iNOS and endothelial NOS (eNOS) in the vasculature of rats fed a control or HFD with and without OMC supplementation. Six-week old male Sprague-Dawley rats were fed either a standard chow diet (CHOW) or a HFD composed of 60% kcal from fat for 10 weeks. The rats were administered OMC at doses of 0 mg/mL (control), 0.6 mg/mL, or 3.0 mg/mL added to their drinking water. Following euthanasia with sodium pentobarbital (200 mg/kg, i.p.), mesenteric arteries and the surrounding perivascular adipose tissue were isolated and prepared for Western Blot analyses. Mesenteric arteries from HFD rats had more uncoupled eNOS (p = 0.006) and iNOS protein expression (p = 0.027) than rats fed the control diet. OMC was not effective at preventing the uncoupling of eNOS or increase in iNOS induced by HFD. Perivascular adipose tissue (PVAT) showed no significant difference in iNOS protein expression between diet or OMC treatment groups. These findings suggest that OMC is not likely working through the iNOS or eNOS pathways to improve vasodilation in these rats, but rather, appears to be working through another mechanism.
ContributorsNelson, Morgan Allen (Author) / Sweazea, Karen L (Thesis advisor) / Katsanos, Christos S (Committee member) / Baluch, Debra P (Committee member) / Arizona State University (Publisher)
Created2020