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Articles 31 - 56 of 56
Full-Text Articles in Life Sciences
Geographic Population Structure And Taxonomic Identity Of Rhinichthys Osculus, The Santa Ana Speckled Dace, As Elucidated By Nuclear Dna Intron Sequencing, Liane Raynette Greaver
Geographic Population Structure And Taxonomic Identity Of Rhinichthys Osculus, The Santa Ana Speckled Dace, As Elucidated By Nuclear Dna Intron Sequencing, Liane Raynette Greaver
Electronic Theses, Projects, and Dissertations
Rhinichthys osculus (Cyprinidae), the speckled dace, is the most widely distributed freshwater fish in the western United States. The southern California populations of R. osculus are identified as the Santa Ana speckled dace (SASD), though the SASD has not yet been formally recognized as a distinct taxon. Current mtDNA analysis performed in the Metcalf Lab has shown a reciprocally monophyletic relationship among three California regions; southern, central coast, and Owens Valley. Similarly, microsatellite genotyping has shown significant levels of geographic population structure. The purpose of this study was to provide nuclear DNA sequence data to determine the taxonomic status of …
Rescue And Reestablishment Of Chicken Models For Spontaneously Occurring Hashimoto’S Thyroiditis And Systemic Sclerosis/Scleroderma, Joseph Zolton Hiltz
Rescue And Reestablishment Of Chicken Models For Spontaneously Occurring Hashimoto’S Thyroiditis And Systemic Sclerosis/Scleroderma, Joseph Zolton Hiltz
Graduate Theses and Dissertations
The loss of biodiversity is a topic gaining popularity both in the political and scientific forums. Nearly 30 years ago researchers and politicians congregated in Rio de Janeiro (1992) to attend the first Earth Summit. It was the first meeting of its kind discussing the tangible pressing consequences of biodiversity loss as well as the potential long term ramifications. Many of the countries represented at this summit implemented short and long term plans in order to accurately measure losses of biodiversity as well as establishing organizations to help diagnose and remedy the current problems at hand. These new organizations and …
Mixing It Up: The Impact Of Episodic Introgression On The Evolution Of High-Latitude Mesocarnivores, Jocelyn P. Colella
Mixing It Up: The Impact Of Episodic Introgression On The Evolution Of High-Latitude Mesocarnivores, Jocelyn P. Colella
Biology ETDs
At high latitudes, climatic oscillations have triggered repeated episodes of organismal divergence by geographically isolating populations. For terrestrial species, extended isolation in glacial refugia – ice-free regions that enable terrestrial species persistence through glacial maxima – is hypothesized to stimulate allopatric divergence. Alternatively, upon glacial recession, divergent populations expanded from independent glacial refugia and often contacted other diverging populations. In the absence of reproductive isolating mechanisms, this biogeographic process may trigger hybridization and ultimately, gene flow between divergent taxa. My dissertation research aims to understand how these episodic periods of isolation and contact have impacted the evolution of high latitude …
Cisco Science: Using Omics To Answer A Range Of Key Questions, Hannah Lachance
Cisco Science: Using Omics To Answer A Range Of Key Questions, Hannah Lachance
Graduate College Dissertations and Theses
Coregonines, including cisco (Coregonus artedi), kiyi (Coregonus kiyi), and bloater (Coregonus hoyi), are a focus for prey fish conservation and restoration efforts throughout the Laurentian Great Lakes. However, fundamental questions about coregonine ecology and genetics remain. For example, we know little about how the early life stages of coregonines respond to environmental change at either the genotypic or phenotypic level. We also have limited knowledge about how to identify different species at the larval stage and the genetic relationships among species, which makes the different species difficult to study at the larval stage. To increase the probability for success in …
Understanding The Impacts Of Current And Future Environmental Variation On Central African Amphibian Biodiversity, Courtney A. Miller
Understanding The Impacts Of Current And Future Environmental Variation On Central African Amphibian Biodiversity, Courtney A. Miller
University of New Orleans Theses and Dissertations
Global climate change is projected to impact multiple levels of biodiversity by imposing strong selection pressures on existing populations, triggering shifts in species distributions, and reorganizing entire communities. The Lower Guineo-Congolian region in central Africa, a reservoir for amphibian diversity, is predicted to be severely affected by future climate change through rising temperatures and greater variability in rainfall. Geospatial modelling can be used to assess how environmental variation shapes patterns of biological variation – from the genomic to the community level – and use these associations to predict patterns of biological change across space and time. The overall goal of …
Population Genetics And Bumble Bee Conservation: Saving Species By Thinking Small, Cady Greenslit
Population Genetics And Bumble Bee Conservation: Saving Species By Thinking Small, Cady Greenslit
Lawrence University Honors Projects
Pollinators have experienced a severe decline over the last few decades, and this includes bumble bee populations (g. Bombus). Bumble bees are important native pollinators, and here I investigate the health of local populations with molecular tools. The field of conservation genetics has created useful methodology for investigating the health and informing management strategies of threatened populations. This work investigates and describes the applications of population genetics, which uses span across the board. These applications are then brought back into the context of bumble bee conservation, and how they fit into the experimental plan I originally designed. I designed …
Genetic Differentiation Between Two Species Of Buckwheat (Eriogonum), Paul G. Wolf, Jenessa B. Lemon
Genetic Differentiation Between Two Species Of Buckwheat (Eriogonum), Paul G. Wolf, Jenessa B. Lemon
Browse all Datasets
Discovering the extent of genetic differentiation between closely related taxa facilitates decisions regarding species protection under the Endangered Species Act. Here, we analyze genotype data to explore the relatedness of two buckwheat species: Eriogonum soredium Reveal- a narrow endemic under consideration for protection, and a widespread close relative, Eriogonum shockleyi S. Watson. Eriogonum soredium grows only on Ordovician limestone outcroppings in west central Utah, whereas the range of E. shockleyi is broad, spanning the western United States from Colorado to California, and Idaho to Arizona. Eriogonum shockleyi is suspected of hybridizing with other buckwheats throughout this range. We detected higher …
Evidence For The Genetic Basis And Inheritance Of Ocean And River-Maturing Ecotypes Of Pacific Lamprey (Entosphenus Tridentatus) In The Klamath River, California, Keith A. Parker
Cal Poly Humboldt theses and projects
Surveys of genetic variation have improved our understanding of the relationship between fitness-related phenotypes and their underlying genetic basis. However, how this information can be used to inform conservation has been unclear in many cases. The objective of this study was to combine next-generation genetic sequencing with traditional ecological knowledge to evaluate imperiled anadromous Pacific lamprey (Entosphenus tridentatus) and apply the findings to conservation in the context of resolving Native American traditional food security issues. In the Klamath River of California, a previously identified Pacific lamprey ocean-maturing ecotype was distinguished by a relatively advanced maturity of female fish …
Analysis Of Population Structure In A California Newt (Taricha Torosa) Metapopulation, Jessica Vincent
Analysis Of Population Structure In A California Newt (Taricha Torosa) Metapopulation, Jessica Vincent
Mahurin Honors College Capstone Experience/Thesis Projects
As anthropogenic influences take an ever-increasing toll on the environment, understanding how environmental change affects species is paramount. Concern regarding decline in amphibian populations has spurred research examining the effects of habitat change on the dynamics of populations at landscape levels. One important goal is to understand how gene flow among populations is affected by changes in habitat. Biologists need to consider the relationship between gene flow and habitat alterations so that movements among individual breeding ponds can be maintained over time, reducing risk of local extinction events. This study focuses on patterns of gene flow among thirteen populations of …
The Population Genetics Of Morro Bay Eelgrass (Zostera Marina), Julia Gardner Harencar
The Population Genetics Of Morro Bay Eelgrass (Zostera Marina), Julia Gardner Harencar
Master's Theses
Seagrass populations are in decline worldwide. Zostera marina (eelgrass), one of California’s native seagrasses, is no exception to this trend. In the last 8 years, Morro Bay, California has lost 95% of its eelgrass. Eelgrass is an ecosystem engineer, providing important ecosystem services such as sediment stabilization, nutrient cycling, and nursery habitats for fish. The failure of recent restoration efforts necessitates a better understanding of the causes of eelgrass decline in this estuary. Previous research on eelgrass in California has demonstrated a link between population genetic diversity and eelgrass bed health, ecosystem functioning, and resilience to disturbance and extreme climatic …
Differentiating The Neches River Rose Mallow (Hibiscus Dasycalyx) From Its Congeners By Means Of Phylogenetics And Population Genetics, Julia Norrell
Differentiating The Neches River Rose Mallow (Hibiscus Dasycalyx) From Its Congeners By Means Of Phylogenetics And Population Genetics, Julia Norrell
Biology Theses
This study used molecular phylogenetic methods to attempt to resolve the taxonomic status of the federally threatened East Texas-endemic wildflower, the Neches River Rose Mallow (Hibiscus dasycalyx). Hibiscus dasycalyx co-occurs with two other closely related congeners that are currently not of conservation concern: the halberdleaf rose mallow (H. laevis); and the crimson-eyed rose mallow (H. moscheutos). This study assessed the phylogeny of these three Hibiscus species, and attempted to determine if there is possible hybridization occurring between them. To this end, Restriction Site Associated DNA Sequencing (RAD-Seq), a Next Generation Sequencing method, was used …
Iron Metabolism Genes In Browsing And Grazing Rhinoceroses: Implications For Iron Overload Disorder, Lorien Salyer
Iron Metabolism Genes In Browsing And Grazing Rhinoceroses: Implications For Iron Overload Disorder, Lorien Salyer
Undergraduate Honors Thesis Projects
Iron overload disorder is a serious condition that affects many animals of conservation interest, including rhinoceroses. Iron overload disorder is only found in browsing rhinos (African black, Diceros bicornis, and Sumatran, Dicerorhinus sumatrensis) but not in grazing species (African white, Ceratotherium simum, and greater one-horned, Rhinoceros unicornis). Iron overload is connected with many of the other health issues seen in captive browsing rhinoceroses, so it is vitally important that the iron metabolism process is studied to improve the existing husbandry procedures of these critically endangered animals. The objective of this study was to characterize genes related to …
Global Genetic Connectivity And Diversity In A Shark Of High Conservation Concern, The Oceanic Whitetip, Carcharhinus Longimanus, Cassandra L. Ruck
Global Genetic Connectivity And Diversity In A Shark Of High Conservation Concern, The Oceanic Whitetip, Carcharhinus Longimanus, Cassandra L. Ruck
HCNSO Student Theses and Dissertations
The oceanic whitetip shark, Carcharhinus longimanus, is a circumtropical pelagic shark of high conservation concern (IUCN Red List: “Critically Endangered” in the Western North and Western Central Atlantic and “Vulnerable” globally). I present the first, population genetic assessment of the oceanic whitetip shark on a global scale, based on analysis of two mitochondrial genome regions (entire 1066-1067 bp control region and 784 bp partial ND4 gene), and nine nuclear microsatellite loci. No population structure was detected within the Western Atlantic. However, highly significant population structure was detected between Western Atlantic and Indo-Pacific Ocean sharks across all markers. Additionally, a …
Genetic Analyses Determine Connectivity Among Cave And Surface Populations Of The Jamaican Endemic Freshwater Crab Sesarma Fossarum In The Cockpit Country, Manuel Stemmer, Christoph D. Schubart
Genetic Analyses Determine Connectivity Among Cave And Surface Populations Of The Jamaican Endemic Freshwater Crab Sesarma Fossarum In The Cockpit Country, Manuel Stemmer, Christoph D. Schubart
International Journal of Speleology
The Jamaican freshwater crab Sesarma fossarum (Decapoda: Brachyura: Sesarmidae) is endemic to western central Jamaica where it occurs in cave and surface streams of karst regions. In the present study, we examine the population genetic structure of the species, providing evidence for intraspecific differentiation and genetic substructure among twelve sampled populations. Interestingly, crabs from caves appear genetically undistinguishable from representatives of nearby surface waters, despite previously observed and described morphometric differentiation. In contrast, genetic isolation takes place among populations from rivers and caves belonging to different watersheds. In one case, even populations from different tributaries of the same river were …
Genetic Diversity And Population Structure Of Brook Trout (Salvelinus Fontinalis) In A Remote Adirondack Watershed, Spencer A. Bruce
Genetic Diversity And Population Structure Of Brook Trout (Salvelinus Fontinalis) In A Remote Adirondack Watershed, Spencer A. Bruce
Legacy Theses & Dissertations (2009 - 2024)
In conservation genetics, the importance of understanding how historical and contemporary processes have contributed to geographic patterns of genetic structure is key to preserving diversity. In New York State there are currently eleven remaining known populations of native brook trout (Salvelnius fontinalis) that inhabit the watersheds for which they are named. These populations are known as "heritage strains", and are currently managed under regulations set by the New York State Department of Environmental Conservation.
Genetic Structure Of The Florida Key Tree Cactus, Pilosocereus Robinii, Using Restriction Site Associated Dna (Rad) Markers, Tonya D. Fotinos
Genetic Structure Of The Florida Key Tree Cactus, Pilosocereus Robinii, Using Restriction Site Associated Dna (Rad) Markers, Tonya D. Fotinos
FIU Electronic Theses and Dissertations
Rare plant conservation efforts must utilize current genetic methods to ensure the evolutionary potential of populations is preserved. One such effort involves the Key Tree Cactus, Pilosocereus robinii, which is an endangered columnar cactus native to the Florida Keys. The populations have precipitously declined over the past decade because of habitat loss and increasing soil salinity from rising sea levels and storm surge. Next-generation DNA sequencing was used to assess the genetic structure of the populations. Twenty individuals representative of both wild and extirpated cacti were chosen for Restriction Site Associated DNA (RAD) analysis. Samples processed using the HindIII …
Parentage Analysis And Conservation Genetics Educational Material For The Eastern Hellbender Salamander, Cryptobranchus Alleganiensis Alleganiensis, Sarah A. Chudyk
Parentage Analysis And Conservation Genetics Educational Material For The Eastern Hellbender Salamander, Cryptobranchus Alleganiensis Alleganiensis, Sarah A. Chudyk
Master's Projects
Populations of the Eastern hellbender salamander, Cryptobranchus alleganiensis alleganiensis, are declining, making this a species of special concern in New York State and under consideration for Federal Endangered Species listing. As a result of this decline, the New York State Department of Environmental Conservation and the Buffalo Zoo initiated a headstarting program with an egg mass found in the Allegheny River drainage. The juveniles being raised by the Zoo will be released back into the watershed and so understanding the genetic diversity and parentage of these hellbenders will inform the reintroduction efforts. Furthermore, in order to determine how to …
Development Of 11 Polymorphic Microsatellite Markers For Xylocarpus Granatum (Meliaceae) Using Next-Generation Sequencing Technology, Yuki Tomizawa, Yoshimi Shinmura, Alison K S Wee, Koji Takayama, Takeshi Asakawa, Orlex Baylen Yllano, Severino G. Salmo Iii, Erwin Riyanto Ardli, Nguyen Xuan Tung, Norhaslinda Binti Malekal, Onrizal Onrizal, Sankararamasubramanian H. Meenakshisundaram, Sarawood Sungkaew, Mohd Nazre Saleh, Bayu Adjie, Khin Khin Soe, Emiko Oguri, Noriaki Murakami, Yasuyuki Watano, Shigeyuki Baba, Edward L. Webb, Tadashi Kajita
Development Of 11 Polymorphic Microsatellite Markers For Xylocarpus Granatum (Meliaceae) Using Next-Generation Sequencing Technology, Yuki Tomizawa, Yoshimi Shinmura, Alison K S Wee, Koji Takayama, Takeshi Asakawa, Orlex Baylen Yllano, Severino G. Salmo Iii, Erwin Riyanto Ardli, Nguyen Xuan Tung, Norhaslinda Binti Malekal, Onrizal Onrizal, Sankararamasubramanian H. Meenakshisundaram, Sarawood Sungkaew, Mohd Nazre Saleh, Bayu Adjie, Khin Khin Soe, Emiko Oguri, Noriaki Murakami, Yasuyuki Watano, Shigeyuki Baba, Edward L. Webb, Tadashi Kajita
Environmental Science Faculty Publications
Human impacts have seriously damaged mangroves, and conservation of mangroves will require information on local and regional population genetic structures. Here, we report the development and polymorphism of eleven novel microsatellite markers, developed using next- generation sequencing on 56 samples of widespread man- grove species Xylocarpus granatum (Meliaceae) from nine populations across the Indo-West Pacific region. All loci were found to be polymorphic, with the number of alleles per locus ranging from four to 19. In a population from Sabah (Malaysia), the mean observed and expected heterozygosity per locus was 0.59 and 0.58, respectively. No null allele, significant linkage disequilibrium …
Genome Empowerment For The Puerto Rican Parrot – Amazona Vittata, Stephen J. O'Brien
Genome Empowerment For The Puerto Rican Parrot – Amazona Vittata, Stephen J. O'Brien
Biology Faculty Articles
A unique community-funded project in Puerto Rico has launched whole-genome sequencing of the critically endangered Puerto Rican Parrot (Amazona vittata), with interpretation by genome bioinformaticians and students, and deposition into public online databases. This is the first article that focuses on the whole genome of a parrot species, one endemic to the USA and recently threatened with extinction. It provides invaluable conservation tools and a vivid example of hopeful prospects for future genome assessment of so many new species. It also demonstrates inventive ways for smaller institutions to contribute to a field largely considered the domain of large …
Conservation Genetics Of The Endangered Eastern Freshwater Cod, Maccullochella Ikei, Catherine Jane Nock
Conservation Genetics Of The Endangered Eastern Freshwater Cod, Maccullochella Ikei, Catherine Jane Nock
Dr Catherine J Nock
Fragmentation over evolutionary time scales following vicariant and dispersal events has long been recognised as a dominant process in biological diversification and speciation; while anthropogenic habitat fragmentation in recent times is considered a threat to the long-term persistence of species and ecosystems. The eastern freshwater cod Maccullochella ikei is Australia’s largest endangered freshwater fish species. Abundant in the Clarence and Richmond River systems at the time of European settlement, populations crashed in the early 1900s causing local extinctions and range reduction. Recovery efforts, including a prohibition on fishing for M. ikei and hatchery breeding programs, were initiated in an attempt …
Steps Toward Butternut (Juglans Cinerea L.) Restoration, Sunshine L. Brosi
Steps Toward Butternut (Juglans Cinerea L.) Restoration, Sunshine L. Brosi
Doctoral Dissertations
Butternut (Juglans cinerea L.), a lesser-known relative of black walnut (Juglans nigra L.), is a native tree species beneficial for wildlife, valuable for timber, and part of the great diversity of species in the eastern forests of North America. Populations of butternut are being devastated by butternut canker disease, caused by the fungus Sirococcus clavigignenti-juglandacearum (V.M.G. Nair, Kostichka, & Kuntz), which is thought to be introduced to North America. The disease causes multiple branch and stem cankers that eventually girdle trees. Small population sizes, lack of sprouting, and shade intolerance exacerbates the disease and results in permanent losses of butternut …
Genetic Variation In Past And Current Landscapes: Conservation Implications Based On Six Endemic Florida Scrub Plants, Eric S. Menges, Rebecca W. Dolan, Robert Pickert, Rebecca Yahr, Doria R. Gordon
Genetic Variation In Past And Current Landscapes: Conservation Implications Based On Six Endemic Florida Scrub Plants, Eric S. Menges, Rebecca W. Dolan, Robert Pickert, Rebecca Yahr, Doria R. Gordon
Rebecca W. Dolan
If genetic variation is often positively correlated with population sizes and the presence of nearby populations and suitable habitats, landscape proxies could inform conservation decisions without genetic analyses. For six Florida scrub endemic plants (Dicerandra frutescens, Eryngium cuneifolium, Hypericum cumulicola, Liatris ohlingerae, Nolina brittoniana, and Warea carteri), we relate two measures of genetic variation, expected heterozygosity and alleles per polymorphic locus (APL), to population size and landscape variables. Presettlement areas were estimated based on soil preferences and GIS soils maps. Four species showed no genetic patterns related to population or landscape factors. The other two species showed significant but inconsistent …
Genetic Variation In Past And Current Landscapes: Conservation Implications Based On Six Endemic Florida Scrub Plants, Eric S. Menges, Rebecca W. Dolan, Robert Pickert, Rebecca Yahr, Doria R. Gordon
Genetic Variation In Past And Current Landscapes: Conservation Implications Based On Six Endemic Florida Scrub Plants, Eric S. Menges, Rebecca W. Dolan, Robert Pickert, Rebecca Yahr, Doria R. Gordon
Scholarship and Professional Work - LAS
If genetic variation is often positively correlated with population sizes and the presence of nearby populations and suitable habitats, landscape proxies could inform conservation decisions without genetic analyses. For six Florida scrub endemic plants (Dicerandra frutescens, Eryngium cuneifolium, Hypericum cumulicola, Liatris ohlingerae, Nolina brittoniana, and Warea carteri), we relate two measures of genetic variation, expected heterozygosity and alleles per polymorphic locus (APL), to population size and landscape variables. Presettlement areas were estimated based on soil preferences and GIS soils maps. Four species showed no genetic patterns related to population or landscape factors. The …
Conservation Of The Pho Regulon In Pseudomonas Fluorescens Pf0-1, Russell D. Monds, Peter D. Newell, Julia A. Schwartzman, George A. O'Toole
Conservation Of The Pho Regulon In Pseudomonas Fluorescens Pf0-1, Russell D. Monds, Peter D. Newell, Julia A. Schwartzman, George A. O'Toole
Dartmouth Scholarship
The Pho regulon integrates the sensing of environmental inorganic phosphate (Pi) availability with coregulation of gene expression, mediating an adaptive response to Pi limitation. Many aspects of the Pho regulon have been addressed in studies of Escherichia coli; however, it is unclear how transferable this knowledge is to other bacterial systems. Here, we report work to discern the conservation of the Pho regulon in Pseudomonas fluorescens Pf0-1. We demonstrate by mutational studies that PhoB/PhoR and the Pst system have conserved functions in the regulation of Pi-induced phosphatase activities, as well as expression of other Pi-regulated genes. A genetic screen was …
Aphytophagy In The Miletinae (Lycaenidae): Phylogeny, Ecology, And Conservation, John Mathew
Aphytophagy In The Miletinae (Lycaenidae): Phylogeny, Ecology, And Conservation, John Mathew
Biological Sciences Theses & Dissertations
Less than 1% of all Lepidoptera are aphytophagous; of these, a considerable proportion is found in the family Lycaenidae. The aphytophagous Lycaenidae are believed to have arisen from a mutualistic template involving ant attendance. With this association firmly in place, it is a relatively simple shift to exploitation, either of the ants themselves, through active carnivory on the brood/trophallactic feeding from adults, or by carnivory on ant-tended homopterans, with little to no interference by the ants. Among lycaenids, aphytophagy has arisen several times; most spectacularly in the subfamily Miletinae, where all of the approximately 150 species are presumed or known …
Conservation And Restoration Of Pine Forest Genetic Resources In México, C. Sáenz-Romero, Amy E. Snively, R. Lindig-Cisneros
Conservation And Restoration Of Pine Forest Genetic Resources In México, C. Sáenz-Romero, Amy E. Snively, R. Lindig-Cisneros
Student Published Works
Deforestation rates in México are about 670,000 ha/year. This threatens the richness of forest genetic resources in México, causing the disappearance of locally adapted populations and rare and endangered pine species. México is one of the six megadiverse countries in the world, with half of the world’s Pinus species. Pinus is one of the most economically and ecologically important forest genera in México. We suggest that delineation of seed zones and the establishment of a network of Forest Genetic Resource Conservation Units (FGRCUs), linked with forest management and ecological restoration programs will protect this valuable resource. We estimate that FGRCUs …