Life Sciences Commons^™

The Evolution Of Floral Symmetry Across The Plant Order Lamiales, Jinshun Zhong

Dissertations

Bilaterally symmetrical corollas have evolved independently numerous times from radially symmetrical ancestors and are thought to represent adaptation to specific pollinators. However, evolutionary losses of bilateral symmetry have occurred sporadically in different lineages. CYC2-like and RAD-like are genes needed for the normal development of bilateral symmetry in snapdragon corollas. However, exactly how changes in the floral symmetry patterning genes correlate with the origin and loss of floral bilateral remains poorly known. To address this question, a densely sampled phylogeny of CYC2-like genes across the order Lamiales was inferred and calibrated. The expression patterns of these genes in early diverging and …

Characterization Of The Role(S) Of Env Protein Of Human Endogenous Retrovirus-K In Multiple Human Cancers, Ming Li

Dissertations & Theses (Open Access)

Human endogenous retroviruses (HERVs) are remnants from ancient retroviral infections, and most of them are inactive in normal tissues. One family of HERV, HERV-K, is found to be associated with multiple human cancers including breast cancer, pancreatic cancer and melanoma, but the causal relationship between HERV-K and cancer is still unclear. Increased expression of HERV-K in melanoma cells correlates with malignant transformation, while a serological response to HERV-K in breast cancer or melanoma patients correlates with survival probability. However, the mechanism behind these observations remains obscure. Our laboratory reported that anti-HERV-K envelope (Env) protein antibodies show antitumor potential in targeting …

X-Linked Mtmr8 Diversity And Evolutionary History Of Sub-Saharan Populations, Damian Labuda, Vania Yotova, Jean-François Lefebvre, Claudia Moreau, Gerd Utermann, Scott M. Williams

Dartmouth Scholarship

The genetic diversity within an 11 kb segment of the MTMR8 gene in a sample of 111 sub-Saharan and 49 non-African X chromosomes was investigated to assess the early evolutionary history of sub-Saharan Africans and the out-of-Africa expansion. The analyses revealed a complex genetic structure of the Africans that contributed to the emergence of modern humans. We observed partitioning of two thirds of old lineages among southern, west/central and east African populations indicating ancient population stratification predating the out of Africa migration. Age estimates of these lineages, older than coalescence times of uniparentally inherited markers, raise the question whether contemporary …

Evaluation Of The Utility Of Deciduous Molar Morphological Variation In Great Ape Phylogenetic Analysis, Anna M. Hardin, Scott S. Legge

Scott Legge

Non-metric dental traits are well- established tools for anthropologists investigating population affiliation and movement in humans. Nonetheless, similar traits in the great apes have received considerably less attention. The present study provides data on non-metric trait variability in the deciduous molars of great apes from museum context. Twenty-eight traits are observed in the upper and lower deciduous molars in specimens of Pan troglodytes, Pan paniscus, Gorilla gorilla, and Gorilla beringei. These groups are compared based on trait frequencies and mean measures of divergence. This study demonstrates the variability of non-metric traits in the deciduous molars of chimpanzees and gorillas. These …

The Effects Of Anthropogenic Noise On The Foraging Efficiency Of A Gleaning Bat And The Activity Levels Of A Natural Bat Assemblage, Jessie Patrice Bunkley

Boise State University Theses and Dissertations

Anthropogenic noise is prevalent across many landscapes, posing a threat of disturbance to countless human and wildlife populations. Studies have revealed that a variety of organisms are negatively affected by an increasingly loud soundscape, including auditory predators such as bats. Bats that exhibit a gleaning hunting strategy passively listen for low frequency, prey-produced sounds. Anthropogenic noise often falls within the same spectral range as important prey cues, potentially masking these signals. I investigated the effects of two sources of anthropogenic noise, traffic and gas compressor station noise, on the foraging efficiency of the North American gleaning bat Antrozous pallidus in …

The Origin And Molecular Evolution Of Two Multigene Families: G-Protein Coupled Receptors And Glycoside Hydrolase Families, Seong-Il Eyun

School of Biological Sciences: Dissertations, Theses, and Student Research

Multigene family is a group of genes that arose from a common ancestor by gene duplication. Gene duplications are a major driving force of new function acquisition. Multigene family thus has a fundamental role in adaptation. To elucidate their molecular evolutionary mechanisms, I chose two multigene families: chemosensory receptors and glycoside hydrolases. I have identified complete repertoires of trace amine-associated receptors (TAARs), a member of chemosensory receptors, from 38 metazoan genomes. An ancestral-type TAAR emerged before the divergence between gnathostomes (jawed vertebrates) and sea lamprey (jawless fish). Primary amine detecting TAARs (TAAR1-4) are found to be older and have evolved …

The Role Of Gnrh-Ii And Its Receptor In Testicular Function, Amy Desaulniers

Department of Animal Science: Dissertations, Theses, and Student Research

The second mammalian isoform of GnRH (GnRH-II) has been linked to regulation of cell proliferation, feed intake, and the interaction between energy balance and reproductive behavior. In contrast to the native form of GnRH (GnRH-I), GnRH-II is an inefficient modulator of gonadotropin secretion. Unlike many species, a functional receptor (GnRHR-II) specific to this ligand has been discovered in the pig that may be directly involved in testosterone production. Therefore, our objective was to identify the role of GnRH-II and its receptor in testicular function. First, there was 6-fold more GnRHR-II protein in the testis than anterior pituitary gland of boars. …

Examining The Link Between Personality And Laterality In A Feral Guppy Poecilia Reticulata Population, Eleanor Irving, Culum Brown

Sentience Collection

This study examined whether variation in the strength and direction of lateralization in a detour task was linked with variation in three common personality measurements: boldness, activity and sociability, in a population of wild guppies Poecilia reticulata. Additionally, the aim was to determine whether any consistent correlations between these behavioural traits, known as behavioural syndromes, were present in the study population. The results revealed that all three personality traits were highly repeatable over time in both sexes. Evidence of a complex syndrome in the form of a correlation between boldness, sociability and activity was found; however, this relationship was only …

Evolution And Allometry Of Calcaneal Elongation In Living And Extinct Primates, Doug M. Boyer, Erik R. Seiffert, Justin T. Gladman, Jonathan I. Bloch

Publications and Research

Specialized acrobatic leaping has been recognized as a key adaptive trait tied to the origin and subsequent radiation of euprimates based on its observed frequency in extant primates and inferred frequency in extinct early euprimates. Hypothesized skeletal correlates include elongated tarsal elements, which would be expected to aid leaping by allowing for increased rates and durations of propulsive acceleration at takeoff. Alternatively, authors of a recent study argued that pronounced distal calcaneal elongation of euprimates (compared to other mammalian taxa) was related primarily to specialized pedal grasping. Testing for correlations between calcaneal elongation and leaping versus grasping is complicated by …

Atrx Regulates H3.3 Incorporation And Gene Expression At G-Rich Ancestral Pseudoautosomal Genes, Michael A. Levy

Electronic Thesis and Dissertation Repository

Mutations in the ATRX gene cause alpha thalassaemia mental retardation, X linked, or can enable cancer progression. ATRX encodes a Swi2/Snf2 chromatin remodeling protein involved in deposition of the histone variant H3.3 at telomeres and pericentromeric heterochromatin. The aim of this study was to determine the role of ATRX in the regulation of gene expression. I identified the ancestral pseudoautosomal region (aPAR) genes as some of the most downregulated genes throughout forebrain development. The PARs are homologous regions located at the ends of the X and Y chromosomes, and are rich in repetitive sequences and GC content. However, mouse PAR …

The Genesis Of Malaria: The Origin Of Mosquitoes And Their Protistan Cargo, Plasmodium Falciparum, Alan L. Gillen, Frank Sherwin

Faculty Publications and Presentations

Malaria is caused by the parasite belonging to the genus Plasmodium; however, creation biologists maintain this organism was not always parasitic. Plasmodium is probably a degenerate form of algae. Mosquitoes, the vector of Plasmodium, were probably designed to be pollinators, not parasite vectors. In this article, we present both the evolutionary and creation explanation for the origin of malaria with a mention to its vector, the mosquito.

The purpose of this article is to provide a reasonable explanation for the genesis of malaria. Microbiology and parasitology research based on the creation paradigm appears to provide some answers to these puzzling …

Socio-Ecology Of The Marsh Rice Rat (Oryzomys Palustris) And The Spatio-Temporal Distribution Of Bayou Virus In Coastal Texas, Tyla S. Holsomback, Christopher J. Van Nice, Rachel N. Clark, Alisa A. Abuzeineh, Jorge Salazar-Bravo

Faculty Publications

Along the southeastern coast of the United States of America (USA), the marsh rice rat (Oryzomys palustris) is the primary host for the hantavirus genotype Bayou. According to the socio-ecological model for a territorial, polygamous species, females should be distributed across space and time by habitat resources and predation risks, whereas males should space themselves according to the degree of female aggregation and reproductive synchrony. To investigate how females affect the male-male transmission paradigm of Bayou virus, rodents were captured, marked, released, and re-captured in two macrohabitat types across a 30-month period. Microhabitat cover variables were quantified around …

The Phylogeny And Biogeography Of The Monito Del Monte (Dromiciops Gliroides) And Its Relatives, Ariel Berthel

Honors College

Marsupials are a group of mammals that give birth to young that are not fully developed. These offspring must complete the remainder of their development outside of the womb attached to their mother’s teat. Marsupials only occur in South America and Australasia, with one species extending into North America. The marsupial known as the monito del monte, which is Spanish for ‘little monkey of the mountain,’ (Dromiciops gliroides) is a South American marsupial; however, it shares a key morphological feature of ankle bone morphology with Australasian marsupials. This shared, derived trait is what defines the cohort Australidelphia, to which the …

A Quantitative Method For Measuring And Visualizing Species' Relatedness In A Two-Dimensional Euclidean Space., Abu Sadat Md. Sayem

Electronic Thesis and Dissertation Repository

Representing DNA sequences graphically and evaluating, as well as displaying, species’ relationships have been considered to be an important aspect of molecular biology research. A novel approach is proposed in this thesis that combines three methods: a) Chaos Game Representation (CGR), to portray quantitative characteristics of a DNA sequence as a black-and -white image, b) Structural Similarity (SSIM) index, an image comparison method, to compute pair-wise distances between these images, and c) Multidimensional Scaling (MDS), to visually display each sequence as a point in a two-dimensional Euclidean space. The proposed method produces a visual representation called Genome Distance Map (GDM) …

A Pharm-Ecological Perspective Of Terrestrial And Aquatic Plant-Herbivore Interactions, Jennifer Sorensen Forbey, M. Denise Dearing, Elisabeth M. Gross, Colin M. Orians, Erik E. Sotka, William J. Foley

Biology Faculty Publications and Presentations

We describe some recent themes in the nutritional and chemical ecology of herbivores and the importance of a broad pharmacological view of plant nutrients and chemical defenses that we integrate as “Pharm-ecology”. The central role that dose, concentration, and response to plant components (nutrients and secondary metabolites) play in herbivore foraging behavior argues for broader application of approaches derived from pharmacology to both terrestrial and aquatic plant-herbivore systems. We describe how concepts of pharmacokinetics and pharmacodynamics are used to better understand the foraging phenotype of herbivores relative to nutrient and secondary metabolites in food. Implementing these concepts into the field …

Humans And Dolphins: An Exploration Of Anthropocentrism In Applied Environmental Ethics, Thomas I. White

Management Faculty Works

This article argues that one of the reasons that the unethical character of much human-dolphin contact is not more apparent to ethicists is that discussion of central issues has been colored with unintentional species bias. This article points out weaknesses in the traditional approach to discussing topics that bear on the question of whether dolphins have moral standing. It demonstrates that discussions of the cognitive abilities of dolphins by Steven Wise and Alasdair MacIntyre are unintentionally but fundamentally anthropocentric-largely because the authors are not familiar with enough of the scientific literature about dolphins to draw the conclusions that they do.

Concentration Coding In The Accessory Olfactory System, Hannah Ada Arnson

All Theses and Dissertations (ETDs)

Understanding how sensory systems encode stimuli is a fundamental question of neuroscience. The role of every sensory system is to encode information about the identity and quantity of stimuli in the environment. Primary sensory neurons in the periphery are faced with the task of representing all relevant information for further processing by downstream circuits, ultimately leading to detection, classification and potential response. However, environmental variability potentially alters stimulus properties in non-relevant ways. Here, we address these problems using the mouse accessory olfactory system: AOS) as a model. The AOS is an independent olfactory system possessed by most terrestrial vertebrates, although …

Synthesizing Larval Competence Dynamics And Reef-Scale Retention Reveals A High Potential For Self-Recruitment In Corals, Joana Figueiredo, Andrew H. Baird, Sean R. Connolly

Marine & Environmental Sciences Faculty Articles

Many organisms have a complex life-cycle in which dispersal occurs at the propagule stage. For marine environments, there is growing evidence that high levels of recruitment back to the natal population (self-recruitment) are common in many marine organisms. For fish, swimming behavior is frequently invoked as a key mechanism allowing high self-recruitment. For organisms with weak-swimming larvae, such as many marine invertebrates, the mechanisms behind self-recruitment are less clear. Here, we assessed whether the combination of passive retention of larvae due to re-circulation processes near reefs, and the dynamics of settlement competence, can produce the high levels of self-recruitment previously …

Break Out: Urogenital Schistosomiasis And Schistosoma Haematobium Infection In The Post-Genomic Era, Paul J. Brindley, Peter J. Hotez

Microbiology, Immunology, and Tropical Medicine Faculty Publications

No abstract provided.

Sequencing Of The Sea Lamprey (Petromyzon Marinus) Genome Provides Insights Into Vertebrate Evolution, Jeramiah J. Smith, Shigehiro Kuraku, Carson Holt, Tatjana Sauka-Spengler, Ning Jiang, Michael S. Campbell, Mark D. Yandell, Tereza Manousaki, Axel Meyer, Ona E. Bloom, Jennifer R. Morgan, Joseph D. Buxbaum, Ravi Sachidanandam, Carrie Sims, Alexander S. Garruss, Malcolm Cook, Robb Krumlauf, Leanne M. Wiedemann, Stacia A. Sower, Wayne A. Decatur, Jeffrey A. Hall, Chris T. Amemiya, Nil R. Saha, Katherine M. Buckley, Jonathan P. Rast, Sabyasachi Das, Masayuki Hirano, Nathanael Mccurley, Peng Guo, Nicolas Rohner, Clifford J. Tabin, Paul Piccinelli, Greg Elgar, Magali Ruffier, Bronwen L. Aken, Stephen M.J. Searle, Matthieu Muffato, Miguel Pignatelli, Javier Herrero, Matthew Jones, C. Titus Brown, Yu-Wen Chung-Davidson, Kaben G. Nanlohy, Scot V. Libants, Chu-Yin Yeh, David W. Mccauley, James A. Langeland, Zeev Pancer, Bernd Fritzsch, Pieter J. De Jong, Baoli Zhu, Lucinda L Fulton, Brenda Theising, Paul Flicek, Marianne E. Bronner, Wesley C. Warren, Sandra W. Clifton, Richard K. Wilson, Weiming Li

Biology Faculty Publications

Lampreys are representatives of an ancient vertebrate lineage that diverged from our own ∼500 million years ago. By virtue of this deeply shared ancestry, the sea lamprey (P. marinus) genome is uniquely poised to provide insight into the ancestry of vertebrate genomes and the underlying principles of vertebrate biology. Here, we present the first lamprey whole-genome sequence and assembly. We note challenges faced owing to its high content of repetitive elements and GC bases, as well as the absence of broad-scale sequence information from closely related species. Analyses of the assembly indicate that two whole-genome duplications likely occurred …

(Review) Deep History: The Architecture Of Past And Present, Frederick S. Paxton

History Faculty Publications

The article reviews the book "Deep History: The Architecture of Past and Present," edited by Andrew Shryock and Daniel Lord Smail.

Characterization Of Innate Immunity In The Female Reproductive Tract For The Prevention Of Hiv Acquisition, Colleen Eade

Electronic Theses and Dissertations

Human immunodeficiency virus (HIV) infects 30 million people worldwide. In sub-Saharan Africa, the region most affected by HIV, women comprise 60% of the infected population. Heterosexual transmission is a major mode of viral acquisition, mandating further research of the process and prevention of HIV acquisition via the female reproductive tract (FRT). The FRT is a dynamic environment, protected by host immune mechanisms and commensal microbes. The disruption of either of these elements can increase susceptibility to HIV. Accordingly, one common risk factor for HIV acquisition is the microbial shift condition known as bacterial vaginosis (BV), which is characterized by the …

Platyrrhine Phylogenetics With A Focus On Callitrichine Life History Adaptations, Natalie Mae Jameson

Wayne State University Dissertations

The life history of a species is highly impacted by their reproductive strategy. In my dissertation I address the changing reproductive strategies in callitrichine New World monkeys and their genetic underpinnings using a phylogenetic approach. The necessity for a resolved phylogeny is universal to any comparative genomic study. Here we have constructed a reliable phylogenetic framework from which reproductive strategy could be studied in callitrichines. First, to determine the most recent common ancestor of Anthropoid primates we took a phylogenomic approach, using the publicly available whole genome sequences of 17 mammal species. With high confidence, we determined here that Tarsier …

An Incompatibility Between A Mitochondrial Trna And Its Nuclear-Encoded Trna Synthetase Compromises Development And Fitness In Drosophila, Colin D. Meiklejohn, Marissa A. Holmbeck, Mohammed A. Siddiq, Dawn N. Abt, David M. Rand, Kristi L. Montooth

School of Biological Sciences: Faculty Publications

Mitochondrial transcription, translation, and respiration require interactions between genes encoded in two distinct genomes, generating the potential for mutations in nuclear and mitochondrial genomes to interact epistatically and cause incompatibilities that decrease fitness. Mitochondrial-nuclear epistasis for fitness has been documented within and between populations and species of diverse taxa, but rarely has the genetic or mechanistic basis of these mitochondrial–nuclear interactions been elucidated, limiting our understanding of which genes harbor variants causing mitochondrial–nuclear disruption and of the pathways and processes that are impacted by mitochondrial–nuclear coevolution. Here we identify an amino acid polymorphism in the Drosophila melanogaster nuclear-encoded mitochondrial tyrosyl–tRNA …

The Role Of Retrotransposons In Gene Family Expansions: Insights From The Mouse Abp Gene Family, Václav Janoušek, Robert C. Karn, Christina M. Laukaitis

Scholarship and Professional Work - LAS

Background: Retrotransposons have been suggested to provide a substrate for non-allelic homologous recombination (NAHR) and thereby promote gene family expansion. Their precise role, however, is controversial. Here we ask whether retrotransposons contributed to the recent expansions of the Androgen-binding protein (Abp) gene families that occurred independently in the mouse and rat genomes. Results: Using dot plot analysis, we found that the most recent duplication in the Abp region of the mouse genome is flanked by L1Md_T elements. Analysis of the sequence of these elements revealed breakpoints that are the relicts of the recombination that caused the duplication, confirming that the …

‘‘Megavirales’’, A Proposed New Order For Eukaryotic Nucleocytoplasmic Large Dna Viruses, Philippe Colson, Xavier De Lamballerie, Natalya Yutin, Sassan Asgari, Yves Bigot, Dennis K. Bideshi, Xiao-Wen Cheng, Brian A. Federici, James L. Van Etten, Eugene V. Koonin, Bernard La Scola, Didier Raoult

Nebraska Center for Virology: Faculty Publications

The nucleocytoplasmic large DNA viruses (NCLDVs) comprise a monophyletic group of viruses that infect animals and diverse unicellular eukaryotes. The NCLDV group includes the families Poxviridae, Asfarviridae, Iridoviridae, Ascoviridae, Phycodnaviridae, Mimiviridae and the proposed family ‘‘Marseilleviridae’’. The family Mimiviridae includes the largest known viruses, with genomes in excess of one megabase, whereas the genome size in the other NCLDV families varies from 100 to 400 kilobase pairs. Most of the NCLDVs replicate in the cytoplasm of infected cells, within so-called virus factories. The NCLDVs share a common ancient origin, as demonstrated by evolutionary reconstructions that trace approximately 50 genes encoding …

Global Taxonomic Diversity Of Living Reptiles, Daniel Pincheira-Donoso, Aaron M. Bauer, Shai Meiri, Peter Uetz

Study of Biological Complexity Publications

Reptiles are one of the most ecologically and evolutionarily remarkable groups of living organisms, having successfully colonized most of the planet, including the oceans and some of the harshest and more environmentally unstable ecosystems on earth. Here, based on a complete dataset of all the world’s diversity of living reptiles, we analyse lineage taxonomic richness both within and among clades, at different levels of the phylogenetic hierarchy. We also analyse the historical tendencies in the descriptions of new reptile species from Linnaeus to March 2012. Although (non-avian) reptiles are the second most species-rich group of amniotes after birds, most of …

Insight Into Human Brain Evolution Through Phylogenetic Analysis And Comparative Genomics, Amy Marie Boddy

Wayne State University Dissertations

As a species, humans are often considered to be unique among mammals, with respect to their large brain size and enhanced cognitive abilities. Humans are the most encephalized mammals, with a brain that is six times larger than expected relative to body mass. Presumably, it is this high degree of encephalization that underlies our advanced cognitive abilities, including the skills needed for complex language and culture. Understanding how large brains evolved can shed light on what makes the human brain unique and introduce possible mechanism for human specific neurodegenerative diseases. This study takes a both a phenotypic and molecular approach …

Animal Skeletal Remains Of The Theodosius Harbor: General Overview, Vedat Onar, Gülsün Pazvant, Hasan Alpak, Nazan Gezer İnce, Altan Armutak, Zeynep Sevi̇m Kiziltan

Turkish Journal of Veterinary & Animal Sciences

Archaeological excavations at the site of Yenikapı, the most important main station for Metro and Marmaray projects on the European side of İstanbul, were started in 2004 with the discovery of numerous shipwrecks, amphorae, and skeletal remains belonging to animals. The findings from the excavations conducted by the İstanbul Archaeological Museums of the General Directorate of Cultural Heritage and Museums proved that this site, known in the Ottoman period as 'Langa Bostanları', was actually the ancient harbor of Theodosius. The archeological material and animal skeletal residues, mostly of horse origin, were found side by side in excavations initiated in 2004 …

Sirt1 Regulation Of The Heat Shock Response In An Hsf1-Dependent Manner And The Impact Of Caloric Restriction, Rachel Rene Raynes

USF Tampa Graduate Theses and Dissertations

The heat shock response (HSR) is the cell's molecular reaction to protein damaging stress and is critical in the management of denatured proteins. Activation of HSF1, the master transcriptional regulator of the HSR, results in the induction of molecular chaperones called heat shock proteins (HSPs). Transcription of hsp genes is promoted by the hyperphosphorylation of HSF1, while the attenuation of the HSR is regulated by a dual mechanism involving negative feedback inhibition from HSPs and acetylation at a critical lysine residue within the DNA binding domain of HSF1, which results in a loss of affinity for DNA. SIRT1 is a …