Ecology and Evolutionary Biology Commons^™

Changing Attitudes Towards Animals In The Wild And Speciesism, Oscar Horta

Animal Sentience

I argue that despite Ng’s claim that we should postpone the defense of those animals that live in the wild, we do have reasons to start spreading concern for them now. We can do it by (i) changing public attitude by heightening awareness of speciesism, by which we will also challenge animal exploitation; and (ii) by disseminating information about the situation of animals in the wild.

Automated Detection Of Deep-Sea Animals, Dallas J. Hollis, Duane Edgington, Danelle Cline

STAR Program Research Presentations

The Monterey Bay Aquarium Research Institute routinely deploys remotely operated underwater vehicles equipped with high definition cameras for use in scientific studies. Utilizing a video collection of over 22,000 hours and the Video Annotation and Reference System, we have set out to automate the detection and classification of deep-sea animals. This paper serves to explore the pitfalls of automation and suggest possible solutions to automated detection in diverse ecosystems with varying field conditions. Detection was tested using a saliency-based neuromorphic selective attention algorithm. The animals that were not detected were then used to tune saliency parameters. Once objects are detected, …

On-Farm Qualitative Behaviour Assessment Of Dairy Goats In Different Housing Conditions, Lilia Grosso, Monica Battini, Françoise Wemelsfelder, Sara Barbieri, Michela Minero, Emanuela Dalla Costa, Silvana Mattiello

Sentience Collection

This study reports the results of the first investigation on the use of Qualitative Behaviour Assessment (QBA) in dairy goats, using a fixed-list of descriptors specifically developed for this species. It aimed to verify whether QBA can be reliably used by observers with different backgrounds to differentiate between the emotional states of goats kept under different environmental conditions. Two trained observers simultaneously assessed 16 dairy goat farms (8 “Housed” (H) farms, where animals were observed in free stall pens, and 8 “Pasture” (P) farms, where animals were observed in open ranges), using a list of 16 QBA descriptors that were …

Impacts Of Habitat Fragmentation On The Cranial Morphology Of A Threatened Desert Fish (Cyprinodon Pecosensis), Michael Chaise Gilbert

Masters Theses & Specialist Projects

Drastic alterations to the North American Southwest’s hydrology have highly influenced resident fish communities. In New Mexico and Texas, the Pecos River has been severely altered as a result of water manipulation, isolating backwaters and various habitats that were once connected to the main river. Cyprinodon pecosensis (Pecos pupfish) has been highly impacted due to the effects of anthropogenic water manipulation, as well as species introductions. Cyprinodon pecosensis populations have become isolated and scattered, residing in sinkholes, remnant lakes, and static backwaters, thus creating numerous micropopulations. The purpose of this study was to assess the morphological variation in cranial features …

The Maintenance Of Phenotypic Divergence Through Sexual Selection: An Experimental Study In Barn Swallows Hirundo Rustica, Rebecca Safran, Yoni Vortman, Brittany R. Jenkins, Joanna K. Hubbard, Matt Wilkins, Rachel J. Bradley, Arnon Lotem

School of Biological Sciences: Faculty Publications

Previous studies have shown that sexual signals can rapidly diverge among closely related species. However, we lack experimental studies to demonstrate that differences in trait-associated reproductive performance maintain sexual trait differences between closely related populations, in support for a role of sexual selection in speciation. Populations of Northern Hemisphere distributed barn swallows Hirundo rustica are closely related, yet differ in two plumage-based traits: ventral color and length of the outermost tail feathers (streamers). Here we provide experimental evidence that manipulations of these traits result in different reproductive consequences in two subspecies of barn swallow: (H. r. erythrogaster in North …

Endless Symbioses Most Intricate, W. John Hayden

Biology Faculty Publications

Orchids, such as our Wildflower of the Year for 2016, Downy Rattlesnake Plantain (Goodyera pubescens) (Fig. 1), exemplify the interconnectedness of life on Earth. As would be the case for many kinds of plants, pollination comes readily to mind as a prominent example of mutualistic symbiosis. Downy Rattlesnake Plantain is pollinated by bumblebees and other native bees. The bees gain nectar and the orchid gets an efficient means to move pollen from one flower to another; each organism gains benefit from the interaction, the very definition of mutualism. Pollination by bees is widespread among the orchids, but there …

Proximate And Evolutionary Causes Of Sexual Size Dimorphism In The Crab Spider Mecaphesa Celer, Marie Claire Chelini

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

Animal species’ body sizes result from the balance between selection for survival and selection for reproduction. In species with sexual size dimorphism (SSD), this balance differs between females and males, resulting in distinct sizes despite similar constraints. I used an integrative approach to understand how sexual section, and differences in developmental trajectories and metabolic physiology, resulted in the female biased SSD of the crab spider Mecaphesa celer (Thomisidae). SSD in spiders is often assumed to be a consequence of selection for early male maturation, which should provide males with additional mating opportunities. My results allow us to discard mate …

Why We Should Not Postpone Awareness Of Wild Animal Suffering, Catia Faria

Animal Sentience

Ng (2016) restates his case for the importance of wild animal suffering (1995). Nevertheless, he suggests that the most effective way to reduce nonhuman suffering overall is to give short-term priority to the suffering of farmed animals. It is not clear that Ng puts forward a successful case. Our current efforts to prevent animal suffering overall should also include raising awareness of wild animal suffering now as well as promoting research on safe and feasible ways to prevent wild animal suffering in the future.

From Tolerance To Transmission: Linking Within-Individual To Community-Level Disease Processes, Sarah Catherine Burgan

USF Tampa Graduate Theses and Dissertations

Hosts have two main strategies for coping with infections: resistance and tolerance. Resistance is aimed at preventing or eliminating parasites, whereas the goal of tolerance is to maintain performance regardless of parasite burden. The balance between resistance and tolerance within a host may mediate host competence, or the propensity of a host to infect other hosts or vectors. Hosts with high tolerance and low resistance to an infection, for instance, may be highly competent and possess the greatest potential to act as superspreaders. These superspreading hosts will contribute disproportionately to transmission, thus posing the greatest risk to other hosts within …

Scorpions Of The Horn Of Africa (Arachnida, Scorpiones). Part V. Two New Species Of Neobuthus Hirst, 1911 (Buthidae), From Ethiopia And Eritrea, Graeme Lowe, František Kovařík

Euscorpius

New information about the taxonomy and distribution of the genus Neobuthus Hirst, 1911 (Scorpiones: Buthidae) is presented, based on materials recently collected from Ethiopia and Eritrea. Emended diagnoses are provided for the genus Neobuthus, and for the species N. awashensis Kovařík et Lowe, 2012 and N. cloudsleythompsoni Lourenço, 2001. New records are given for N. awashensis in Ethiopia. We redescribe N. cloudsleythompsoni, and we describe two additional new species: N. eritreaensis sp. n. (the first record of the genus from Eritrea) and N. kutcheri sp. n. (southern Ethiopia, Somali State). We include a key …

The Importance Of Ants In Cave Ecology, With New Records And Behavioral Observations Of Ants In Arizona Caves, Robert B. Pape

International Journal of Speleology

The importance of ants as elements in cave ecology has been mostly unrecognized. A global list of ant species recorded from caves, compiled from a review of existing literature, is presented. This paper also reviews what is currently known about ants occurring in Arizona (USA) caves. The diversity and distribution represented in these records suggests ants are relatively common cave visitors (trogloxenes). A general utilization of caves by ants within both temperate and tropical latitudes may be inferred from this combined evidence. Observations of ant behavior in Arizona caves demonstrate a low level and sporadic, but persistent, use of these …

Range-Wide Patterns Of Geographic Variation In Songs Of Golden-Crowned Sparrows (Zonotrichia Atricapilla), Daizaburo Shizuka, M Ross Lein, Glen Chilton

School of Biological Sciences: Faculty Publications

Discrete geographic variation, or dialects, in songs of songbirds arise as a consequence of complex interactions between ecology and song learning. Four of the five species of Zonotrichia sparrows, including the model species White-crowned Sparrow (Z. leucophrys), have been studied with respect to the causes and consequences of geographic variation in song. Within White-crowned Sparrows, subspecies that migrate farther have larger range size of dialects. Here, we assessed geographic patterns of song variation in the fifth species of this genus, the Golden-crowned Sparrow (Z. atricapilla). We analyzed field-recorded songs from 2 sampling periods (1996–1998 and 2006–2013) …

Optimizing Methods For Extraction Of Organic Compounds From Molluscan Shells, Kaydee Jo West

USF Tampa Graduate Theses and Dissertations

Mollusk shells contain proteins within and between the crystals of calcium carbonate. These organic molecules play an important role in biomineralization and shell function, and their stable isotope ratios of carbon and nitrogen are also thought to record important ecological information about the animal's diet and nutrient sources. These proteins can be preserved for millions of years, offering potential insight into pre-anthropogenic ecological conditions. However, shell organics in older shells are typically recovered in reduced abundances due to leaching and remaining organics are often converted from insoluble proteins to soluble, free amino acids, making them difficult to detect and recover. …

Range-Wide Patterns Of Geographic Variation In Songs Of Golden-Crowned Sparrows (Zonotrichia Atricapilla), Daizaburo Shizuka, Glen Chilton, M Ross Lein

Papers in Behavior in Biological Sciences

Discrete geographic variation, or dialects, in songs of songbirds arise as a consequence of complex interactions between ecology and song learning. Four of the five species of Zonotrichia sparrows, including the model species White-crowned Sparrow (Z. leucophrys), have been studied with respect to the causes and consequences of geographic variation in song. Within White-crowned Sparrows, subspecies that migrate farther have larger range size of dialects. Here, we assessed geographic patterns of song variation in the fifth species of this genus, the Golden-crowned Sparrow (Z. atricapilla). We analyzed field-recorded songs from 2 sampling periods (1996–1998 and 2006–2013) covering most of its …

Marine Mammal Behavior: A Review Of Conservation Implications, Philippa Brakes, Sasha R. X. Dall

Social Behavior Collection

The three orders which comprise the extant marine mammals exhibit a wide range of behaviors, varying social structures, and differences in social information use. Human impacts on marine mammals and their environments are ubiquitous; from chemical and noise pollution, to marine debris, prey depletion, and ocean acidification. As a result, no marine mammal populations remain entirely unaffected by human activities. Conservation may be hindered by an inadequate understanding of the behavioral ecology of some of these species. As a result of social structure, social information use, culture, and even behavioral syndromes, marine mammal social groups, and populations can be behaviorally …

Freshwater Metaviromics And Bacteriophages: A Current Assessment Of The State Of The Art In Relation To Bioinformatic Challenges, Katherine Bruder, Kema Malki, Alexandria Cooper, Emily Sible, Jason W. Shapiro, Siobhan C. Watkins, Catherine Putonti

Bioinformatics Faculty Publications

Advances in bioinformatics and sequencing technologies have allowed for the analysis of complex microbial communities at an unprecedented rate. While much focus is often placed on the cellular members of these communities, viruses play a pivotal role, particularly bacteria-infecting viruses (bacteriophages); phages mediate global biogeochemical processes and drive microbial evolution through bacterial grazing and horizontal gene transfer. Despite their importance and ubiquity in nature, very little is known about the diversity and structure of viral communities. Though the need for culture-based methods for viral identification has been somewhat circumvented through metagenomic techniques, the analysis of metaviromic data is marred with …

The North American Grouse: Their Biology And Behavior, Paul A. Johnsgard

Zea E-Books Collection

The ten currently recognized species of grouse in North America have played an important role in America’s history, from the famous but ill-fated heath hen, a primary source of meat for the earliest New England immigrants, to the ruffed grouse, currently one of the most abundant and soughtafter upland game birds in more than 40 states and provinces. This book summarizes the ecology, reproductive biology, and social behavior of all ten of the extant North American grouse species. It also describes the current status of grouse populations, some of which are perilously close to extinction. The social behavior of grouse …

Status And Management Of Non-Native Plant Invasion In Three Of The Largest National Parks In The United States, Scott R. Abella, Nicholas A. Fisichelli, Sarah M. Schmid, Teague M. Embrey, Debra Hughson, Jane Cipra

Life Sciences Faculty Research

Globally, invasion by non-native plants threatens resources that nature reserves are designated to protect. We assessed the status of non-native plant invasion on 1,662, 0.1-ha plots in Death Valley National Park, Mojave National Preserve, and Lake Mead National Recreation Area. These parks comprise 2.5 million ha, 23% of the national park land in the contiguous USA. At least one non-native species inhabited 82% of plots. Thirty-one percent of plots contained one non-native species, 30% two, 17% three, and 4% four to ten non-native species. Red brome (Bromus rubens), an ‘ecosystem engineer’ that alters fire regimes, was most widespread, …

Description Of Mesocriconema Ericaceum N. Sp. (Nematoda: Criconematidae) And Notes On Other Nematode Species Discovered In An Ericaceous Heath Bald Community In Great Smoky Mountains National Park, Usa, Thomas O. Powers, Peter Mullin, Rebecca Higgins, Timothy Harris, Kirsten S. Powers

Department of Plant Pathology: Faculty Publications

A new species of Mesocriconema and a unique assemblage of plant-parasitic nematodes was discovered in a heath bald atop Brushy Mountain in Great Smoky Mountains National Park. Mesocriconema ericaceum n. sp., a species with males, superficially resembles M. xenoplax. DNA barcoding with the mitochondrial COI gene provided evidence of the new species as a distinct lineage. SEM revealed significant variability in arrangement of labial submedian lobes, plates, and anterior and posterior annuli. Three other nematodes in the family Criconematidae were characterized from the heath bald. Ogma seymouri, when analyzed by statistical parsimony, established connections with isolates from north-eastern Atlantic …

Molecular Tracking Of Individual Host Use In The Shiny Cowbird – A Generalist Brood Parasite, Ma Alicia De La Colina, Mark E. Hauber, Bill M. Strausberger, Juan Carlos Reboreda, Bettina Mahler

Publications and Research

Generalist parasites exploit multiple host species at the population level, but the individual parasite’s strategy may be either itself a generalist or a specialist pattern of host species use. Here, we studied the relationship between host availability and host use in the individual parasitism patterns of the Shiny Cowbird Molothrus bonariensis, a generalist avian obligate brood parasite that parasitizes an extreme range of hosts. Using five microsatellite markers and an 1120-bp fragment of the mtDNA control region, we reconstructed full-sibling groups from 359 cowbird eggs and chicks found in nests of the two most frequent hosts in our study area, …

Offspring Size-Number Tradeoffs And Food Quality Feedbacks Impact Population Dynamics In A Daphnia-Algae System, Ryan Wenkus

College of Science and Health Theses and Dissertations

Population fluctuations can be affected by a number of extrinsic and intrinsic factors, but few manipulative experiments have been conducted that can isolate these effects in consumer-resource systems. Extrinsic factors such as weather patterns or food availability can impact consumer growth and reproduction. Additionally, intrinsic factors relating to life history can have significant impacts on population growth rates. A fundamental principle of life history theory is that individuals are limited by trade-offs between survival and reproduction, and there are a variety of combinations, given environment and physiological limitations, that should maximize lifetime reproductive output. Reproductive strategies vary between species, but …

Population Dynamics And Community Composition Of Ammonia Oxidizers In Salt Marshes After The Deepwater Horizon Oil Spill, Anne E. Bernhard, Roberta Sheffer, Anne E. Giblin, John M. Marton, Brian J. Roberts

Biology Faculty Publications

The recent oil spill in the Gulf of Mexico had significant effects on microbial communities in the Gulf, but impacts on nitrifying communities in adjacent salt marshes have not been investigated. We studied persistent effects of oil on ammonia-oxidizing archaeal (AOA) and bacterial (AOB) communities and their relationship to nitrification rates and soil properties in Louisiana marshes impacted by the Deepwater Horizon oil spill. Soils were collected at oiled and unoiled sites from Louisiana coastal marshes in July 2012, 2 years after the spill, and analyzed for community differences based on ammonia monooxygenase genes (amoA). Terminal Restriction Fragment …

Pollutants And Foraminiferal Assemblages In Torrecillas Lagoon: An Environmental Micropaleontology Approach, Michael Martinez-Colon

USF Tampa Graduate Theses and Dissertations

Torrecillas Lagoon in the North Coast of Puerto Rico has experienced extensive anthropogenic influence over the past 400 years. Elevated concentrations of Potential Toxic Elements (PTEs) have been reported in surficial sediments. The main goal of this dissertation was to implement in Puerto Rico the use of benthic foraminifers as a bioindicators of PTEs and to compare the impact of Cu(II) on field samples with results of experimental work using cultures.

Analyses included geochemical assessment for bulk and carbonate- soluble bioavailable concentrations of PTEs in surface, core and pore-water samples, as well as analyses of grain-size, Percent Total Organic Carbon …

Identification, Characterization, And Life Cycle Of Intein-Associated Homing Endonucleases, Joshua J. Skydel

Honors Scholar Theses

Inteins are molecular parasites that have been identified in unicellular organisms from the three domains of life. The intein self-excises following translation of the host gene, and therefore incurs a fitness cost for its carrier. The symbiotic state of the intein to its host is dependent on the presence or absence of a homing endonuclease domain, which facilitates horizontal transfer of the molecule. Identification of this domain provides information on the evolutionary history of the intein, as well as patterns of horizontal gene transfer in microbial communities. I have therefore developed Hidden Markov Models (HMMs) to identify homing endonuclease domains …

Rapidly Restoring Biological Soil Crusts And Ecosystem Functions In A Severely Disturbed Desert Ecosystem, Lindsay P. Chiquoine, Scott R. Abella, Matthew A. Bowker

Life Sciences Faculty Research

Restoring biological soil crusts (biocrusts) in degraded drylands can contribute to recovery of ecosystem functions that have global implications, including erosion resistance and nutrient cycling. To examine techniques for restoring biocrusts, we conducted a replicated, factorial experiment on recently abandoned road surfaces by applying biocrust inoculation (salvaged and stored dry for two years), salvaged topsoil, an abiotic soil amendment (wood shavings), and planting of a dominant perennial shrub (Ambrosia dumosa). Eighteen months after treatments, we measured biocrust abundance and species composition, soil chlorophyll a content and fertility, and soil resistance to erosion. Biocrust addition significantly accelerated biocrust recovery on disturbed …

Effect Of The 2013-2015 California Drought On Small Mammal Abundance And Diversity In Chaparral, Oak Woodland And Riparian Habitats, Nicole Desideri

Biological Sciences

Long-term biodiversity surveys are a useful tool for assessing the impacts of stochastic events on wildlife and their communities. A recent stochastic event to affect the state of California is the historic 2013-2015 drought. This drought, described as a one-in-one-thousand year event, brought precipitation to a historic low; the statewide rainfall reaching 34% below average (Swain et al. 2014). While humans are feeling the impact of this water shortage, the effects on native ecosystems and wildlife populations are poorly documented. Baseline small mammal biodiversity data collected in 2011, before the drought, allows us the opportunity to study the impacts of …

Book Reviews: A Chorus Of Cranes: The Cranes Of North America And The World. Paul A. Johnsgard (With Photographs By Thomas D. Mangelsen, And Drawings And Maps By Paul A. Johnsgard)., John G. Sidle

The Prairie Naturalist

Once again, naturalist and author Paul A. Johnsgard invites us to dance and chorus with cranes, and to appreciate their beauty and links to another species, Homo sapiens. A Chorus of Cranes is about natural history but also is a plea for conservation, which is a common foreword, prologue, preface, and/or epilogue of many wildlife books. It is vintage Paul Johnsgard text from preface to epilogue, words that emerge after a long wade through countless papers and reports, and a prolonged career of observation and reflection in the field. He has beckoned us before to cherish cranes and the natural …

Resource Selection By Black-Backed Woodpeckers (Picoides Arcticus) And American Three-Toed Woodpeckers (P. Dorsalis) In South Dakota And Wyoming, Sean R. Mohren, Mark A. Rumble, Chadwick P. Lehman, Stanley H. Anderson

The Prairie Naturalist

Black-backed woodpeckers (Picoides arcticus, [BBWO]) and American three-toed woodpeckers (P. dorsalis, [ATTW]) are uncommon inhabitants of conifer forests and are sympatric in some areas, including the Black Hills. Both species exhibit genetic characteristics associated with isolated populations, are species of special management concern, and for which data are lacking concerning populations and habitats. We developed resource selection models of forest vegetation within 500 m radius plots (78.5 ha) for BBWOs and ATTWs to provide forest managers with stand-level information to estimate how forest management might affect habitat for these species in the Black Hills. Relative probability of selection by BBWOs …

Missing The Point, Christopher N. Jacques

The Prairie Naturalist

Greetings GPNSS members! I hope summer finds you well and enjoying the Great Plains in some way, whether that be getting your hands dirty with field work, a reprieve from the office, anxiously awaiting the crappie bite at your favorite lake, or taking a much needed vacation. For those who enjoy cooler temperatures, summer heat and humidity are challenging and even the most seasoned field biologists among us are tested when fighting the conditions doing what we are passionate about. I personally prefer the fall and winter seasons, though also look forward to summer because it offers me a break …

The Science Of Open Spaces: Theory And Practice For Conserving Large, Complex Systems. Charles G. Curtin., Michelle L. Hellman, Caleb P. Roberts, Hannah Birge, Zachary Warren, Craig R. Allen

The Prairie Naturalist

The phrase “open spaces,” may bring to mind expansive tracts of prairie, rangeland, or even desert, stretching lonely and unchanged to the horizon. Open spaces also could conjure open oceans or interstitial rural lands between urbanized hubs, dotted with farms, fields, and woodlands. In an abstract sense, open spaces could represent gaps in human understanding or blank spaces on a map. In his book The Science of Open Spaces, landscape ecologist Charles Curtin combines all these perspectives, expanding the definition of “open spaces” to multi-layered and multi-scaled complex systems that are “greater than the sum of their parts.” He populates …