Evolution Commons^™

Co-Occurrence Of Manganese Oxidase Genes Indicates Lateral Transfer Between Classes Of Proteobacteria, Jacob Olichney

Student Scholar Showcase

Pseudomonas putida GB-1 is a model organism for the study of manganese oxidation in bacteria, however, the frequency of co-localization of multiple known and suspected manganese oxidizing proteins, as well as their occurrence between species, is unknown. Eight different genes isolated from known manganese oxidizing bacteria (MnxG, MopA, McoA, PputGB1_2552, PputGB1_2553, MoxA, MofA, and Bacillus MnxG) were tested individually using BioPython and BLAST (Basic Local Alignment Search Tool) on multiple genomic databases. BLAST searches had an expect value cutoff of 1e-50, limiting gene homologs to those with high sequence similarity. The abundance of homologous genes across classes of proteobacteria point …

Comparing Feeding Accuracy Between High And Low Predation Trinidad Guppies, Lydia J. Bonnell

Honors College Theses

Efficient feeding accuracy could increase an organism’s survival. Although local adaptation in Trinidad guppies is common, the effects on accuracy are unknown. Guppies were wild caught in 2015 and 2017, filmed while capturing prey. Accuracy wasn’t different within samples but differed across samples, possibly due to the prey types used.

Documenting Evolution: Comparing And Contrasting Late Mesozoic And Late Cenozoic Molluscan Patterns, Joshua Slattery

USF Tampa Graduate Theses and Dissertations

Despite major advances, evolutionary theory still has numerous shortcomings in terms of fully understanding the controls on speciation and diversification. A major factor limiting our knowledge is how biology and paleobiology view speciation from separate micro- and macro-evolutionary perspectives, respectively. Biologists typically examine microevolutionary changes within species from various biogeographic, behavioral, morphological, and genetic perspectives, which contrasts to the macroevolutionary approach of most paleobiologists, who have examined the same phenomena at larger scales but with the standpoint of time, have also concentrated on aspects of global or regional diversification (e.g., richness, origination rates, and extinction rates) over the long-term. Noticeably …

A Phylogenetic Analysis Of Bostrichoidea (Coleoptera) And Revisions Of The Southern African Spider Beetle Genera Meziomorphum And Eutaphroptinus (Ptinidae: Coleoptera), Olivia M. Gearner

Masters Theses & Specialist Projects

Proposals for the internal relationships and classification of the bostrichoids are currently poorly supported, and almost all are based on morphology alone. This study improves upon on previous phylogenetic analyses of the group by including more taxa using the standard genes for many phylogenetic analyses. Cytochrome C oxidase subunit 1 (CO1), 28S small subunit rRNA, and 16S small subunit rRNA mitochondrial genes were sequenced or obtained from Genbank, then analyzed using parsimony and Bayesian analyses. Topologies differed depending on genes used. A three gene tree and a two gene (28S and CO1) tree both supported relationships in which a basal …

Plant Mitochondrial Genome Evolution And Structure Has Been Shaped By Double-Strand Break Repair And Recombination, Emily Wynn

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

Plant mitochondrial genomes are large but contain a small number of genes. These genes have very low mutation rates, but genomes rearrange and expand at significant rates. We propose that much of the apparent complexity of plant mitochondrial genomes can be explained by the interactions of double-strand break repair, recombination, and selection. One possible explanation for the disparity between the low mutation rates of genes and the high divergence of non-genes is that synonymous mutations in genes are not truly neutral. In some species, rps14 has been duplicated in the nucleus, allowing the mitochondrial copy to become a pseudogene. By …

Arterial Distribution Of The Human Aorta: An Examination Of The Evolutionary, Developmental, And Physiological Bases Of Asymmetry., Brandon Oddo, Cooker Storm

Seaver College Research And Scholarly Achievement Symposium

The study of anatomy contends that “form follows function”; a disciplinary theme purporting that anatomical structures (i.e., cells, tissues, and organs) have a shape that serves its proper function. With this in mind, it is unclear why human arterial distribution off the aortic arch is asymmetrical, while the corresponding venous anatomy is symmetrical. We investigated the evolutionary, developmental, and physiological bases for the asymmetry of aortic arch branches in humans. First, we investigated the cardiovascular anatomy of ancestral species to determine if, and at what level, anatomical divergence (from aortic symmetry to asymmetry) occurs. Second, we examined the formation of …

Genomics Based Approaches To Fungal Evolution, Aaron J. Robinson, Donald O. Natvig

Biology ETDs

Advances in DNA sequencing and data analysis make it possible to address questions in population genetics and evolution at the genomic level. Fungi are excellent subjects for such studies, because they are found in diverse environments, have short generation times, can be maintained in culture and have relatively small genomes. My research employed genetic approaches using a variety of sequencing technologies and methods of analysis to explore questions in fungal evolution.

In one study, I explored the genetics behind differences in thermotolerance between isolates of Neurospora discreta from Alaska and New Mexico. Isolates from the two states exhibited differences in …

Area And Distance From Mainland Affect In Different Ways Richness And Phylogenetic Diversity Of Snakes In Atlantic Forest Coastal Islands, José Thales Da Motta Portillo, Lilian Sayuri Ouchi-Melo, Lucas Batista Crivellari, Thiago Alves Lopes De Oliveira, Ricardo J. Sawaya, Leonardo Da Silva Duarte

Publications and Research

Aim: The Theory of Island Biogeography posits that ecological and evolutionary processes regulate species richness of isolated areas. We assessed the influences of an island area and distance from the mainland on species richness, phylogenetic diversity, and phylogenetic composition of snakes on coastal islands.

Location: Coastal islands of the megadiverse Atlantic Forest in southeastern Brazil.

Methods: We compiled the species composition of 17 coastal islands in southeastern Brazil. Species richness and phylogenetic diversity were calculated for each island. Phylogenetic composition was measured using principal coordinates of phylogenetic structure. We then employed generalized linear models to test the influence of …

Phylogeny And Evolution Of Swallows (Hirundinidae) With A Transcriptomic Perspective On Seasonal Migration, Clare Elisabeth Brown

LSU Doctoral Dissertations

Evolutionary biology seeks to understand the forces that have generated and shaped patterns of diversity. In this dissertation, I investigated phylogenetic relationships and the evolution of three traits—migration, nest-type, and geographic distribution—in the swallow family (Hirundinidae), a globally distributed group of about 85 species of aerial insectivorous birds. I first applied a dataset of several thousand ultraconserved element (UCE) loci to reconstructing the phylogeny of the New World genus Tachycineta. Three methods of phylogenetic inference produced topologically discordant trees, but post-inference analyses provided evidence that the tree produced by maximum likelihood analysis of a concatenated data matrix is the most …

An Endemic Species In A Protected Area: Euscorpius Carpathicus (L., 1767) In The Cozia National Park, Romania (Scorpiones: Euscorpiidae), Severus-Daniel Covaciu-Marcov, Sára Ferenţi

Euscorpius

In 2016-2018, we identified 48 distribution records of Euscorpius carpathicus in the Cozia National Park, from the Romanian Southern Carpathians. The Carpathian scorpion was found between 300 and 847 m a.s.l., in forested regions, being more numerous in the lower areas situated along the Olt River. E. carpathicus is a native species in the region; it populates natural areas with low human impact.

A Review Of Orthochirus From Turkey, Iraq, And Iran (Khoozestan, Ilam, And Lorestan Provinces), With Descriptions Of Three New Species (Scorpiones: Buthidae), František Kovařík, Ersen Aydın Yağmur, Victor Fet, Fenik S. Hussen

Euscorpius

Three new species, Orthochirus fomichevi sp. n. from Turkey and Iraq, O. gantenbeini sp. n. from Iran (Khoozestan Province), and O. navidpouri sp. n. from Iran (Khoozestan and Lorestan Provinces) are described, compared with other Orthochirus species from the region, and fully illustrated with color photos. Lectotype of O. mesopotamicus Birula, 1918 stat. n. from Iran (Khoozestan Province) is designated. Emended diagnoses are given for O. iranus Kovařík, 2004, O. iraqus Kovařík, 2004, O. mesopotamicus Birula, 1918 stat. n., and O. zagrosensis Kovařík, 2004. A key and a distribution map are included.

Trypanothacus Gen. N., A New Genus Of Burrowing Scorpion From The Arabian Peninsula (Scorpiones: Buthidae), Graeme Lowe, František Kovařík, Mark Stockmann, František Šťáhlavský

Euscorpius

We define a new fossorial buthid genus Trypanothacus gen. n., similar to Buthacus Birula, 1908, differing primarily in telson shape, with a bulbous vesicle and aculeus shorter than the vesicle, and in heavier dentition on metasomal segments II–III and IV. The new genus includes two species: T. barnesi sp. n. from Oman and T. buettikeri (Hendrixson, 2006) comb. n. from Saudi Arabia, the latter transferred from Buthacus. We provide detailed illustrations of both species from preserved materials, and in vivo habitus and natural habitat are shown for T. barnesi sp. n.. Information is also provided on ecology and captive rearing …

Scorpions Of Iran (Arachnida, Scorpiones). Part X. Alborz, Markazi And Tehran Provinces With A Description Of Orthochirus Carinatus Sp. N. (Buthidae), Shahrokh Navidpour, František Kovařík, Michael Soleglad, Victor Fet

Euscorpius

Nine species of scorpions belonging to two families are reported from the Alborz, Markazi and Tehran Provinces of Iran. Of these, Compsobuthus kaftani Kovařík, 2003 is recorded from Tehran Province for the first time; Compsobuthus matthiesseni (Birula, 1905) is recorded from Alborz Province for the first time; Hottentotta saulcyi (Simon, 1880) is recorded for Alborz and Markazi Provinces for the first time; Iranobuthus krali Kovařík, 1997 is recorded for Tehran Province for the first time; Mesobuthus eupeus eupeus (C. L. Koch, 1839) is recorded from Alborz, Markazi and Tehran Provinces for the first time; Odontobuthus doriae (Thorell, 1876) is recorded …

The Legacy Of Natural Species And Substantial Form For Thomistic Evolution, James R. Hofmann

Forum Lectures

Exploration of theistic evolution within a Thomistic framework has taken on the label of Thomistic evolution. Although the conceptual boundaries of this approach are not precise, a historical trajectory of its scholastic methodology can be traced back to the views of Aquinas himself. An enduring central concept in this tradition has been the idea of substantial form. For Aquinas, distinct substantial forms were associated with the kinds of animals and plants that have no prior ancestry and are ascribed to God's production during the Genesis days of adornment. Later in the tradition, the early twentieth century Jesuit Erich Wasmann referred …

Scorpions Of The Horn Of Africa (Arachnida: Scorpiones). Part Xix. Pandiborellius Meidensis (Karsch, 1879) And Pandinurus Fulvipes Sp. N. (Scorpionidae) From Somaliland., František Kovařík, Graeme Lowe, Tomáš Mazuch

Euscorpius

The male of Pandiborellius meidensis (Karsch, 1879) is introduced for the first time and illustrated in detail with color photos, and sexual dimorphism and occurrence of the species are discussed. Pandinurus fulvipes sp. n. from Somaliland is described and fully complemented with color photos of live and preserved specimens, as well as of its habitat.

Chaerilus Alberti Sp. N. From Malaysia (Scorpiones: Chaerilidae), František Kovařík

Euscorpius

Chaerilus alberti sp. n. from Malaysia (Cameron Highlands) is described and fully illustrated with color photographs of preserved specimens, as well as of their habitat. Males of C. alberti sp. n. have a unique shape of chela which is stout with the manus swollen anteriorly. They are compared to other species from Southeast Asia, from all of which C. alberti sp. n. differs by the shape of pedipalp chela parallel or swollen posteriorly or medially. Pedipalp chela is illustrated with color photographs of 21 of these species.

Activation Of The Bile Acid Pathway And No Observed Antimicrobial Peptide Sequences In The Skin Of A Poison Frog, Megan L. Civitello, Robert Denton, Michael A. Zasloff, John H. Malone

Biology Publications

The skin secretions of many frogs have genetically-encoded, endogenous antimicrobial peptides (AMPs). Other species, especially aposematic poison frogs, secrete exogenously derived alkaloids that serve as potent defense molecules. The origins of these defense systems are not clear, but a novel bileacid derived metabolite, tauromantellic acid, was recently discovered and shown to be endogenous in poison frogs (Mantella, Dendrobates, and Epipedobates). These observations raise questions about the evolutionary history of AMP genetic elements, the mechanism and function of tauromatellic acid production, and links between these systems. To understand the diversity and expression of AMPs among frogs, we assembled skin transcriptomes of …

Phylogenetic History Of The Amy Gene Cluster In Catarrhines, Christian M. Gagnon

Theses and Dissertations

This study phylogenetically analyzed 30 AMY-related genes from 11 primates. The results show the gradual expansion of the AMY gene family which could have allowed primates to adapt to various ecological landscapes and maximize energy intake from starch-rich foods in periods of food scarcity.

The Morphology And Evolution Of The Primate Brachial Plexus, Brian M. Shearer

Dissertations, Theses, and Capstone Projects

Primate evolutionary history is inexorably linked to the evolution of a broad array of locomotor adaptations that have facilitated the clade’s invasion of new niches. Researchers studying the evolution of primates and of their individual locomotor adaptations have traditionally relied on bony morphology – a practical choice given the virtual non-existence of any other type of tissue in the fossil record. However, this focus downplays the potential importance of the many other structures involved in locomotion, such as muscle, cartilage, and neural tissue, which may each be influenced by separate selective forces because of their different roles in facilitating movement. …

A New Semidesert Microtityus Kjellesvig-Waering, 1966 (Scorpiones: Buthidae) From Southeast Cuba, Greater Antilles., Rolando Teruel

Euscorpius

A new species of the buthid scorpion genus Microtityus Kjellesvig-Waering, 1966, is herein described from specimens of both sexes collected at three nearby localities in the western part of the Guantánamo Bay Area, southeast Cuba. It belongs in the "jaumei" species-group of the subgenus Microtityus (Parvabsonus) Armas, 1974 and is very peculiar not only by its external morphology (very distinct from its other Cuban congeners), but also by the unusual habitat where it occurs in and seems to be restricted to (dry and hot cactus scrub on volcanic sandy plain). The present contribution reinforces the position of this genus as …