Matching Items (49)
Description
The Cape Floral Region (CFR) in southwestern South Africa is one of the most diverse in the world, with >9,000 plant species, 70% of which are endemic, in an area of only ~90,000 km2. Many have suggested that the CFR's heterogeneous environment, with respect to landscape gradients, vegetation, rainfall, elevation, and soil fertility, is responsible for the origin and maintenance of this biodiversity. While studies have struggled to link species diversity with these features, no study has attempted to associate patterns of gene flow with environmental data to determine how CFR biodiversity evolves on different scales. Here, a molecular population genetic data is presented for a widespread CFR plant, Leucadendron salignum, across 51 locations with 5-kb of chloroplast (cpDNA) and 6-kb of unlinked nuclear (nuDNA) DNA sequences in a dataset of 305 individuals. In the cpDNA dataset, significant genetic structure was found to vary on temporal and spatial scales, separating Western and Eastern Capes - the latter of which appears to be recently derived from the former - with the highest diversity in the heart of the CFR in a central region. A second study applied a statistical model using vegetation and soil composition and found fine-scale genetic divergence is better explained by this landscape resistance model than a geographic distance model. Finally, a third analysis contrasted cpDNA and nuDNA datasets, and revealed very little geographic structure in the latter, suggesting that seed and pollen dispersal can have different evolutionary genetic histories of gene flow on even small CFR scales. These three studies together caution that different genomic markers need to be considered when modeling the geographic and temporal origin of CFR groups. From a greater perspective, the results here are consistent with the hypothesis that landscape heterogeneity is one driving influence in limiting gene flow across the CFR that can lead to species diversity on fine-scales. Nonetheless, while this pattern may be true of the widespread L. salignum, the extension of this approach is now warranted for other CFR species with varying ranges and dispersal mechanisms to determine how universal these patterns of landscape genetic diversity are.
ContributorsTassone, Erica (Author) / Verrelli, Brian C (Thesis advisor) / Dowling, Thomas (Committee member) / Cartwright, Reed (Committee member) / Rosenberg, Michael S. (Committee member) / Wojciechowski, Martin (Committee member) / Arizona State University (Publisher)
Created2013
Description
As an evolutionary force, hybridization outcomes include introgression, admixture, speciation, and reproductive isolation. While hybridization has been studied in several primates, the marmoset genus Callithrix is an important, but little studied example of Neotropical hybridization. Varying degrees of reproductive isolation exist between Callithrix species, and hybridization occurs at species borders or regions containing introduced and native species. Interbreeding between Callithrix species carries important implications for biodiversity and genetic integrity within the genus. However, species origins and levels of genetic admixture in marmoset hybrid zones are generally unknown, and few population genetic studies of individual Callithrix species exist. Using the mitochondrial control region and 44 microsatellite markers, this work explored the genetic diversity and species origins of two C. penicillata and C. jacchus hybrid zones, as well as genetic diversity and divergence in the parental species. Both marker types showed that C. penicillata is more genetically diverse than C. jacchus. Based on mtDNA, C. jacchus seems to have experienced a past population expansion and C. penicillata evolved under constant population size. The data revealed the existence of a previously undocumented natural hybrid zone along the São Francisco River in NE Brazil and confirmed species origins of an anthropogenic zone in Rio de Janeiro state. The data also showed much lower levels of admixture and genetic diversity within the natural hybrid zone than in the anthropogenic zone. Further, the data suggested that the São Francisco River is an important geographic barrier to gene flow in the natural hybrid zone. On the other hand, admixture patterns within the anthropogenic hybrid zone suggested collapse of reproductive barriers, and the formation of a hybrid marmoset swarm. Thus, this work suggested different evolutionary dynamics in anthropogenic vs. natural animal hybrid zones. Restriction Associated DNA sequencing (RADseq) identified a large number of single nucleotide polymorphisms within C. jacchus and C. penicillata genomes. These preliminary data were used to measure intraspecific genomic diversity and interspecific divergence. In the future, RADseq will be used to study genus-wide diversity of Callithrix species, examine past and present marmoset demographic history, and applied to the evolutionary study of marmoset hybridization.
ContributorsMalukiewicz, Joanna (Author) / Stone, Anne C. (Thesis advisor) / Nash, Leanne (Committee member) / Rosenberg, Michael (Committee member) / Hedrick, Phil (Committee member) / Ruiz-Miranda, Carlo (Committee member) / Arizona State University (Publisher)
Created2013
Description
Malaria is a vector-borne parasitic disease affecting tropical and subtropical regions. Regardless control efforts, malaria incidence is still incredible high with 219 million clinical cases and an estimated 660,000 related deaths (WHO, 2012). In this project, different population genetic approaches were explored to characterize parasite populations. The goal was to create a framework that considered temporal and spatial changes of Plasmodium populations in malaria surveillance. This is critical in a vector borne disease in areas of low transmission where there is not accurate information of when and where a patient was infected. In this study, fragment analysis data and single nucleotide polymorphism (SNPs) from South American samples were used to characterize Plasmodium population structure, patterns of migration and gene flow, and discuss approaches to differentiate reinfection vs. recrudescence cases in clinical trials. A Bayesian approach was also applied to analyze the Plasmodium population history by inferring genealogies using microsatellites data. Specifically, fluctuations in the parasite population and the age of different parasite lineages were evaluated through time in order to relate them with the malaria control plan in force. These studies are important to understand the turnover or persistence of "clones" circulating in a specific area through time and consider them in drug efficacy studies. Moreover, this methodology is useful for assessing changes in malaria transmission and for more efficiently manage resources to deploy control measures in locations that act as parasite "sources" for other regions. Overall, these results stress the importance of monitoring malaria demographic changes when assessing the success of elimination programs in areas of low transmission.
ContributorsChenet, Stella M (Author) / Escalante, Ananias A (Thesis advisor) / Clark-Curtiss, Josephine (Committee member) / Rosenberg, Michael (Committee member) / Taylor, Jesse E (Committee member) / Arizona State University (Publisher)
Created2014
Description
A phylogenetic revision of the broad-nosed weevil genera Minyomerus Horn, 1876, and Piscatopus Sleeper, 1960 (Entiminae: Tanymecini) is presented. These genera are distributed throughout western North America, from Canada to Mexico and Baja California, primarily in arid and desert habitats, and feed on shrubs such as creosote (Larrea tridentata (DC.) Coville: Zygophyllaceae) and several Asteraceae. Piscatopus was considered monotypic, comprised solely of P. griseus Sleeper, 1960, whereas Minyomerus formerly was comprised of seven species: M. innocuus Horn, 1876 (designated as the type species for Minyomerus in Pierce, 1913), M. caseyi (Sharp, 1891), M. conicollis Green, 1920, M. constrictus (Casey, 1888), M. languidus Horn, 1876, M. laticeps (Casey, 1888), M. microps (Say, 1831). This revision includes comprehensive redescriptions of the previously described species in these genera and descriptions of ten new species: M. imberbus sp. nov., M. caponei sp. nov., M. reburrus sp. nov., M. cracens sp. nov., M. trisetosus sp. nov., M. puticulatus sp. nov., M. bulbifrons sp. nov., M. politus sp. nov., M. gravivultus sp. nov., and M. rutellirostris sp. nov. A cladistic analysis using 46 morphological characters of 22 terminal taxa (5 outgroup, 17 ingroup) was carried out in WinClada and yielded a single most-parsimonious cladogram (length = 82, consistency index = 65, retention index = 82). The monophyly of Minyomerus is supported by the preferred cladogram. The results of the cladistic analysis place Piscatopus griseus within the genus Minyomerus as sister to M. rutellirostris. Therefore, Piscatopus is demoted to a junior synonym of Minyomerus and its sole member P. griseus, is moved to Minyomerus as M. griseus (Sleeper), new combination. Additionally, the species M. innocuus Horn, 1876 is demoted to a junior synonym of M. microps (Say, 1831), based on the principle of priority, and M. microps is elevated to the rank of type for the genus. The species M. languidus, M. microps, and M. trisetosus are putatively considered parthenogenetic, and lack male specimens over a broad range of sampling events. The diversity in exterior and genitalic morphology, range of host plants, overlapping species distributions, and geographic extent suggests an origin during the Miocene (~15 mya).
ContributorsJansen, Michael Andrew (Author) / Franz, Nico M (Thesis advisor) / Wojciechowski, Martin (Committee member) / Rosenberg, Michael (Committee member) / Arizona State University (Publisher)
Created2014
Description
Rhodoferax antarcticus strain ANT.BR, a purple nonsulfur bacterium isolated from a microbial mat in Ross Island, Antarctica, is the first described anoxygenic phototrophic bacterium that is adapted to cold habitats and is the first beta-proteobacterium to undergo complete genome sequencing. R. antarcticus has unique absorption spectra and there are no obvious intracytoplasmic membranes in cells grown phototrophically, even under low light intensity. Analysis of the finished genome sequence reveals a single chromosome (3,809,266 bp) and a large plasmid (198,615 bp) that together harbor 4,262 putative genes. The genome contains two types of Rubiscos, Form IAq and Form II, which are known to exhibit quite different kinetic properties in other bacteria. The presence of multiple Rubisco forms could give R. antarcticus high metabolic flexibility in diverse environments. Annotation of the complete genome sequence along with previous experimental results predict the presence of structural genes for three types of light-harvesting (LH) complexes, LH I (B875), LH II (B800/850), and LH III (B800/820). There is evidence that expression of genes for the LH II complex might be inhibited when R. antarcticus is under low temperature and/or low light intensity. These interesting condition-dependent light-harvesting apparatuses and the control of their expression are very valuable for the further understanding of photosynthesis in cold environments. Finally, R. antarcticus exhibits a highly motile lifestyle. The genome content and organization of all putative polar flagella genes are characterized and discussed.
ContributorsZhao, Tingting, M.S (Author) / Touchman, Jeffrey (Thesis advisor) / Rosenberg, Michael (Committee member) / Redding, Kevin (Committee member) / Stout, Valerie (Committee member) / Arizona State University (Publisher)
Created2011
Description
Collaborative learning is a common teaching strategy in classrooms across age groups and content areas. It is important to measure and understand the cognitive process involved during collaboration to improve teaching methods involving interactive activities. This research attempted to answer the question: why do students learn more in collaborative settings? Using three measurement tools, 142 participants from seven different biology courses at a community college and at a university were tested before and after collaborating about the biological process of natural selection. Three factors were analyzed to measure their effect on learning at the individual level and the group level. The three factors were: difference in prior knowledge, sex and religious beliefs. Gender and religious beliefs both had a significant effect on post-test scores.
ContributorsTouchman, Stephanie (Author) / Baker, Dale (Thesis advisor) / Rosenberg, Michael (Committee member) / Ganesh, Tirupalavanam G. (Committee member) / Arizona State University (Publisher)
Created2012
Description
The oceans play an essential role in global biogeochemical cycles and in regulating climate. The biological carbon pump, the photosynthetic fixation of carbon dioxide by phytoplankton and subsequent sequestration of organic carbon into deep water, combined with the physical carbon pump, make the oceans the only long-term net sink for anthropogenic carbon dioxide. A full understanding of the workings of the biological carbon pump requires a knowledge of the role of different taxonomic groups of phytoplankton (protists and cyanobacteria) to organic carbon export. However, this has been difficult due to the degraded nature of particles sinking into particle traps, the main tools employed by oceanographers to collect sinking particulate matter in the ocean. In this study DNA-based molecular methods, including denaturing gradient gel electrophoresis, cloning and sequencing, and taxon-specific quantitative PCR, allowed for the first time for the identification of which protists and cyanobacteria contributed to the material collected by the traps in relation to their presence in the euphotic zone. I conducted this study at two time-series stations in the subtropical North Atlantic Ocean, one north of the Canary Islands, and one located south of Bermuda. The Bermuda study allowed me to investigate seasonal and interannual changes in the contribution of the plankton community to particle flux. I could also show that small unarmored taxa, including representatives of prasinophytes and cyanobacteria, constituted a significant fraction of sequences recovered from sediment trap material. Prasinophyte sequences alone could account for up to 13% of the clone library sequences of trap material during bloom periods. These observations contradict a long-standing paradigm in biological oceanography that only large taxa with mineral shells are capable of sinking while smaller, unarmored cells are recycled in the euphotic zone through the microbial loop. Climate change and a subsequent warming of the surface ocean may lead to a shift in the protist community toward smaller cell size in the future, but in light of these findings these changes may not necessarily lead to a reduction in the strength of the biological carbon pump.
ContributorsAmacher, Jessica (Author) / Neuer, Susanne (Thesis advisor) / Garcia-Pichel, Ferran (Committee member) / Lomas, Michael (Committee member) / Wojciechowski, Martin (Committee member) / Stout, Valerie (Committee member) / Arizona State University (Publisher)
Created2011
Description
Cities are hubs for economic and social development, but they are increasingly becoming hotspots of environmental problems and socio-economic inequalities. Because cities result from complex interactions among ecological, social and economic factors, environmental problems and socio-economic inequalities are often spatially interconnected, generating emergent environmental inequity issues due to the unfair distribution of environmental quality among socioeconomic groups. Since urban environmental quality is tightly related to the capacity of urban landscapes to provide ecosystem services, optimizing the allocation of ecosystem services within cities is a main goal for moving towards more equitable and sustainable cities. Nevertheless, we often lack the empirical data and specific methods for planning urban landscapes to optimize the provision of ecosystem services. Therefore, the development of knowledge and methods to optimize the provision of ecosystem services is essential for tackling urban environmental problems, reducing environmental inequities, and promoting sustainable cities. The main goal of this dissertation is to generate actionable knowledge for helping decision-makers to optimize the allocation of urban vegetation for reducing environmental inequities through the provision of ecosystem services. The research uses the city of Santiago de Chile as a case study from a Latin-American city. To achieve this goal, I framed my dissertation in four linked research chapters, each of them providing methodological approaches to help link environmental inequity problems with the development of urban planning interventions promoting an equitable provision of urban ecosystem services. These chapters are specifically aimed at providing actionable knowledge for: (1) Identifying the level, distribution, and spatial scales at which environmental inequities are more relevant; (2) Identifying the areas and administrative units where environmental inequities interventions should be prioritized; (3) Identifying optimal areas to allocate vegetation for increasing the provision of urban ecosystem services; (4) Evaluating the role that planned urban vegetation may have in the long-term provision of ecosystem services by natural remnants within the urban landscape. Thus, this dissertation contributes to urban sustainability science by proposing methods and frameworks to address urban environmental inequities through the provision of ecosystem services, but it also provides place-based information that can be readily used for planning urban vegetation in Santiago.
ContributorsFernández, Ignacio C., Ph.D (Author) / Wu, Jingle (Thesis advisor) / Perrings, Charles (Committee member) / Sala, Osvaldo (Committee member) / Simonetti, Javier (Committee member) / Arizona State University (Publisher)
Created2017
Description
A floristic analysis is essential to understanding the current diversity and structure
of community associations of plants in a region. Also, a region’s floristic analysis is key not only to investigating their geographical origin(s) but is necessary to their management and protection as a reservoir of greater biodiversity. With an area of 2,250,000 square kilometers, the country of Saudi Arabia covers almost four-fifths of the Arabian Peninsula. Efforts to document information on the flora of Saudi Arabia began in the 1700s and have resulted in several comprehensive publications over the last 25 years. There is no doubt that these studies have helped both the community of scientific researchers as well as the public to gain knowledge about the number of species, types of plants, and their distribution in Saudi Arabia. However, there has been no effort to use digital technology to make the data contained in various Saudi herbarium collections easily accessible online for research and teaching purposes. This research project aims to develop a “virtual flora” portal for the vascular plants of Saudi Arabia. Based on SEINet and the Symbiota software used to power it, a preliminary website portal was established to begin an effort to make information of Saudi Arabia’s flora available on the world- wide web. Data comprising a total of 12,834 specimens representing 175 families were acquired from different organizations and used to create a database for the designed website. After analyzing the data, the Fabaceae family (“legumes”) was identified as a largest family and chosen for further analysis. This study contributes to help scientific researchers, government workers and the general public to have easy, unlimited access to the plant information for a variety of purposes.
of community associations of plants in a region. Also, a region’s floristic analysis is key not only to investigating their geographical origin(s) but is necessary to their management and protection as a reservoir of greater biodiversity. With an area of 2,250,000 square kilometers, the country of Saudi Arabia covers almost four-fifths of the Arabian Peninsula. Efforts to document information on the flora of Saudi Arabia began in the 1700s and have resulted in several comprehensive publications over the last 25 years. There is no doubt that these studies have helped both the community of scientific researchers as well as the public to gain knowledge about the number of species, types of plants, and their distribution in Saudi Arabia. However, there has been no effort to use digital technology to make the data contained in various Saudi herbarium collections easily accessible online for research and teaching purposes. This research project aims to develop a “virtual flora” portal for the vascular plants of Saudi Arabia. Based on SEINet and the Symbiota software used to power it, a preliminary website portal was established to begin an effort to make information of Saudi Arabia’s flora available on the world- wide web. Data comprising a total of 12,834 specimens representing 175 families were acquired from different organizations and used to create a database for the designed website. After analyzing the data, the Fabaceae family (“legumes”) was identified as a largest family and chosen for further analysis. This study contributes to help scientific researchers, government workers and the general public to have easy, unlimited access to the plant information for a variety of purposes.
ContributorsAlbediwi, Albatool (Author) / Wojciechowski, Martin (Thesis advisor) / Franz, Nico (Committee member) / Makings, Elizabeth (Committee member) / Arizona State University (Publisher)
Created2017
Description
Aboveground net primary production (ANPP) and belowground net primary production (BNPP) may not be influenced equally by the same factors in arid grasslands. Precipitation is known to affect ANPP and BNPP, while soil fauna such as nematodes affect the BNPP through herbivory and predation. This study on black grama grass (Bouteloua eriopoda) in the Chihuahuan Desert investigates the effects of precipitation and nematode presence or absence on net primary production (NPP) as well as the partitioning between the aboveground and belowground components, in this case, the fraction of total net primary production occurring belowground (fBNPP). I used a factorial experiment to investigate the effects of both precipitation and nematode presence on the components of NPP. I used rainout shelters and an irrigation system to alter precipitation totals, while I used defaunated and re-inoculated soil for the nematode treatments. Precipitation treatment and seasonal soil moisture had no effect on the BNPP and a nonsignificant positive effect on the ANPP. The fBNPP decreased with increasing precipitation and seasonal soil moisture, though without a significant effect. No predator nematodes were found in any of the microcosms at the end of the experiment, though other functional groups of nematodes, including herbivores, were found in the microcosms. Total nematode numbers did not vary significantly between nematode treatments, indicating that the inoculation process did not last for the whole experiment or that nematodes had little plant material to eat and resulted in low population density. Nematode presence did not affect the BNPP, ANPP, or the fBNPP. There were no significant interactions between precipitation and nematode treatment. The results are inconclusive, possibly as a result of ecosystem trends during an unusually high precipitation year, as well as the very low NPP values in the experiment that correlated with low nematode community numbers.
ContributorsWiedenfeld, Amy (Author) / Sala, Osvaldo (Thesis advisor) / Gerber, Leah (Committee member) / Hall, Sharon (Committee member) / Arizona State University (Publisher)
Created2018