Biology Commons^™

Coevolution Of Cyanogenic Bamboos And Bamboo Lemurs On Madagascar, Daniel J. Ballhorn, Fanny Patrika Rakotoarivelo, Stefanie Kautz

Biology Faculty Publications and Presentations

Feeding strategies of specialist herbivores often originate from the coevolutionary arms race of plant defenses and counter-adaptations of herbivores. The interaction between bamboo lemurs and cyanogenic bamboos on Madagascar represents a unique system to study diffuse coevolutionary processes between mammalian herbivores and plant defenses. Bamboo lemurs have different degrees of dietary specialization while bamboos show different levels of chemical defense. In this study, we found variation in cyanogenic potential (HCNp) and nutritive characteristics among five sympatric bamboo species in the Ranomafana area, southeastern Madagascar. The HCNp ranged from 209±72 μmol cyanide* g^-1 dwt in Cathariostachys madagascariensis to no cyanide …

Bioturbation By The Fungus-Gardening Ant, Trachymyrmex Septentrionalis, Walter R. Tschinkel, Jon N. Seal

Biology Faculty Publications and Presentations

Soil invertebrates such as ants are thought to be important manipulators of soils in temperate and tropical ecosystems. The fungus gardening ant, Trachymyrmex septentrionalis, is an important agent of biomantling, that is, of depositing soil excavated from below onto the surface, and has been suggested as an agent of bioturbation (moving soil below ground) as well. The amount of bioturbation by this ant was quantified by planting queenright colonies in sand columns consisting of 5 layers of different colored sand. The amount of each color of sand deposited on the surface was determined from April to November 2015. In November, …

Genomics-Informed Isolation And Characterization Of A Symbiotic Nanoarchaeota System From A Terrestrial Geothermal Environment, Louie Wurch, Richard J. Giannone, Bernard S. Belisle, Carolyn Swift, Sagar Utturkar, Robert L. Hettich, Anna-Louise Reysenbach, Mircea Podar

Biology Faculty Publications and Presentations

Biological features can be inferred, based on genomic data, for many microbial lineages that remain uncultured. However, cultivation is important for characterizing an organism’s physiology and testing its genome-encoded potential. Here we use single-cell genomics to infer cultivation conditions for the isolation of an ectosymbiotic Nanoarchaeota (‘Nanopusillus acidilobi’) and its host (Acidilobus, a crenarchaeote) from a terrestrial geothermal environment. The cells of ‘Nanopusillus’ are among the smallest known cellular organisms (100–300 nm). They appear to have a complete genetic information processing machinery, but lack almost all primary biosynthetic functions as well as respiration and …

Understanding Tradeoffs Between Food And Predation Risks In A Specialist Mammalian Herbivore, Jamie L. Utz, Lisa A. Shipley, Janet L. Rachlow, Tamara Johnstone-Yellin, Meghan Camp, Jennifer Sorenson Forbey

Biology Faculty Publications and Presentations

Understanding habitat use by animals requires understanding the simultaneous tradeoffs between food and predation risk within a landscape. Quantifying the synergy between patches that provide quality food and those that are safe from predators at a scale relevant to a foraging animal could better reveal the parameters that influence habitat selection. To understand more thoroughly how animals select habitat components, we investigated tradeoffs between diet quality and predation risk in a species endemic to sagebrush Artemisia spp. communities in North America, the pygmy rabbitBrachylagus idahoensis. This species is a rare example of a specialist herbivore that relies almost entirely …

Recumbence Behavior In Zoo Elephants: Determination Of Patterns And Frequency Of Recumbent Rest And Associated Environmental And Social Factors, Matthew Robert Holdgate, Cheryl L. Meehan, Jennifer N. Hogan, Lance J. Miller, Jeff Rushen, Anne-Marie De Passillé, Josesph Soltis, Jeff Andrews, David J. Shepherdson

Biology Faculty Publications and Presentations

Resting behaviors are an essential component of animal welfare but have received little attention in zoological research. African savanna elephant (Loxodonta africana) and Asian elephant (Elephas maximus) rest includes recumbent postures, but no large-scale investigation of African and Asian zoo elephant recumbence has been previously conducted. We used anklets equipped with accelerometers to measure recumbence in 72 adult female African (n = 44) and Asian (n = 28)elephants housed in 40 North American zoos. We collected 344 days of data and determined associations between recumbence and social, housing, management, and demographic factors. African elephants were recumbent less (2.1 hours/day, S.D. …

Bayesian Methods For Comparing Species Physiological And Ecological Response Curves, Michael B. Ashcroft, Angélica Casanova-Katny, Kerrie Mengersen, Todd N. Rosenstiel, Johanna D. Turnbull, Jane Wasley, Melinda J. Waterman, Gustavo E. Zúñiga, Sharon A. Robinson

Biology Faculty Publications and Presentations

Many ecological questions require information on species' optimal conditions or critical limits along environmental gradients. These attributes can be compared to answer questions on niche partitioning, species coexistence and niche conservatism. However, these comparisons are unconvincing when existing methods do not quantify the uncertainty in the attributes or rely on assumptions about the shape of species' responses to the environmental gradient. The aim of this study was to develop a model to quantify the uncertainty in the attributes of species response curves and allow them to be tested for substantive differences without making assumptions about the shape of the responses. …

Walking Behavior Of Zoo Elephants: Associations Between Gps-Measured Daily Walking Distances And Environmental Factors, Social Factors, And Welfare Indicators, Matthew Robert Holdgate, Cheryl L. Meehan, Jennifer N. Hogan, Lance J. Miller, Josesph Soltis, Jeff Andrews, David J. Shepherdson

Biology Faculty Publications and Presentations

Research with humans and other animals suggests that walking benefits physical health. Perhaps because these links have been demonstrated in other species, it has been suggested that walking is important to elephant welfare, and that zoo elephant exhibits should be designed to allow for more walking. Our study is the first to address this suggestion empirically by measuring the mean daily walking distance of elephants in North American zoos, determining the factors that are associated with variations in walking distance, and testing for associations between walking and welfare indicators. We used anklets equipped with GPS data loggers to measure outdoor …

Early-Onset Alzheimer’S: Should You Worry?, Troy Rohn

Biology Faculty Publications and Presentations

You have forgotten where you put your car keys, or you can’t seem to remember the name of your colleague you saw in the grocery store the other day. You fear the worst, that maybe these are signs of Alzheimer’s disease.

Proteolytic Cleavage Of Apolipoprotein E In The Down Syndrome Brain, Ryan J. Day, Katie L. Mccarty, Kayla E. Ockerse, Elizabeth Head, Troy T. Rohn

Biology Faculty Publications and Presentations

Down syndrome (DS) is one of the most common genetic causes of intellectual disability and is characterized by a number of behavioral as well as cognitive symptoms. Many of the neuropathological features of early-onset Alzheimer’s disease (AD) including senile plaques and neurofibrillary tangles (NFTs) are also present in people with DS as a result of triplication of the amyloid precursor gene on chromosome 21. Evidence suggests that harboring one or both apolipoprotein E4 (APOE4) alleles may increase the risk for AD due to the proteolytic cleavage of apoE4 and a subsequent loss of function. To investigate a role …

Mid- And Long-Term Effects Of Wildfire And Debris Flows On Stream Ecosystem Metabolism, Quenton M. Tuckett, Peter Koetsier

Biology Faculty Publications and Presentations

Wildfire is an important and prevalent agent of disturbance in vegetated landscapes across much of the Earth’s surface, including forested watersheds in the arid western USA. Between 1992 and 2003, >40% of the watersheds in the upper reaches of the Boise River watershed in central Idaho burned. The purpose of our study was to investigate the legacy effects of wildfire on stream ecosystems by analyzing the relationship between wildfire and resulting debris flows and their joint effects on stream ecosystem metabolism in 31 streams. The watersheds of ∼½ of these streams burned within the last 11 y, and some of …

Quantifying Wing Shape And Size Of Saturniid Moths With Geometric Morphometrics, Minjia Zhong, Geena M. Hill, Jesse R. Barber, Akito Y. Kawahara

Biology Faculty Publications and Presentations

Butterflies and moths exhibit a spectacular diversity of w in g sh ape and size. The extent of wing variation is particularly evident in wild silk moths (Saturniidae), which have large wing shape and size variation. Some species have jagged wing margins, rounded forewing apical lobes, or narrow hind wings with long tails, while others lack these traits entirely. Surprisingly, very little work has been done to formally quantify wing variation within the family. We analyzed the hind wing shape and size of 76 saturniid species representing 52 genera across five subfamilies using geometric morphometrics. We identified fifteen landmarks that …

Selection Of Food Patches By Sympatric Herbivores In Response To Concealment And Distance From A Refuge, Miranda M. Crowell, Lisa A. Shipley, Meghan J. Camp, Janet L. Rachlow, Jennifer S. Forbey, Timothy R. Johnson

Biology Faculty Publications and Presentations

Small herbivores face risks of predation while foraging and are often forced to trade off food quality for safety. Life history, behaviour, and habitat of predator and prey can influence these trade-offs. We compared how two sympatric rabbits (pygmy rabbit, Brachylagus idahoensis; mountain cottontail, Sylvilagus nuttallii) that differ in size, use of burrows, and habitat specialization in the sagebrush-steppe of western North America respond to amount and orientation of concealment cover and proximity to burrow refuges when selecting food patches. We predicted that both rabbit species would prefer food patches that offered greater concealment and food patches that …

Friend Or Foe—Light Availability Determines The Relationship Between Mycorrhizal Fungi, Rhizobia And Lima Bean (Phaseolus Lunatus L.), Daniel J. Ballhorn, Martin Schädler, Jacob D. Elias, Jess A. Millar, Stefanie Kautz

Biology Faculty Publications and Presentations

Plant associations with root microbes represent some of the most important symbioses on earth. While often critically promoting plant fitness, nitrogen-fixing rhizobia and arbuscular mycorrhizal fungi (AMF) also demand significant carbohydrate allocation in exchange for key nutrients. Though plants may often compensate for carbon loss, constraints may arise under light limitation when plants cannot extensively increase photosynthesis. Under such conditions, costs for maintaining symbioses may outweigh benefits, turning mutualist microbes into parasites, resulting in reduced plant growth and reproduction. In natural systems plants commonly grow with different symbionts simultaneously which again may interact with each other. This might add complexity …

Variable Shifts In The Autumn Migration Phenology Of Soaring Birds In Southern Spain, Micah N. Scholer, Beatriz Martín, Miguel Ferrer, Alejandro Onrubia, Marc J. Bechard, Greg S. Kaltenecker, Jay D. Carlisle

Biology Faculty Publications and Presentations

While alteration of the migratory habits of birds is widely regarded as one of the most evident ecological effects of climate change, studies reporting shifts in migration phenology for long-lived, long-distance migrants have been few. Using time series of count data collected in southern Spain during autumn migration, we examined the magnitude and direction of phenological shifts for six common species of soaring birds. Many current methods for investigating phenological change rely on continuous data sets; however, these data may be unavailable for a variety of reasons. We used a cross-correlation analysis, which allowed us to compare recent data on …

Seasonal And Sex Differences In Responsiveness To Adrenocorticotropic Hormone Contribute To Stress Response Plasticity In Red-Sided Garter Snakes (Thamnophis Sirtalis Parietalis), Catherine A. Dayger, Deborah I. Lutterschmidt

Biology Faculty Publications and Presentations

Like many vertebrates, hormonal responses to stress vary seasonally in red-sided garter snakes (Thamnophis sirtalis parietalis). For example, males generally exhibit reduced glucocorticoid responses to a standard stressor during the spring mating season. We asked whether variation in adrenal sensitivity to adrenocorticotropic hormone (ACTH) explains why glucocorticoid responses to capture stress vary with sex, season, and body condition in red-sided garter snakes. We measured glucocorticoids at 0, 1, and 4 hours after injection with ACTH (0.1 IU/g body mass) or vehicle in males and females during the spring mating season and fall pre-hibernation period. Because elevated glucocorticoids can influence sex …

Paths Of Heritable Mitochondrial Dna Mutation And Heteroplasmy In Reference And Gas-1 Strains Of Caenorhabditis Elegans, Riana I. Wernick, Suzanne Estes, Dana K. Howe, Dee R. Denver

Biology Faculty Publications and Presentations

Heteroplasmy—the presence of more than one mitochondrial DNA (mtDNA) sequence type in a cell, tissue, or individual—impacts human mitochondrial disease and numerous aging-related syndromes. Understanding the trans-generational dynamics of mtDNA is critical to understanding the underlying mechanisms of mitochondrial disease and evolution. We investigated mtDNA mutation and heteroplasmy using a set of wild-type (N2 strain) and mitochondrial electron transport chain (ETC) mutant (gas-1) mutant Caenorhabditis elegans mutation-accumulation (MA) lines. The N2 MA lines, derived from a previous experiment, were bottlenecked for 250 generations. The gas-1 MA lines were created for this study, and bottlenecked in the laboratory for …

Responses Of Female Burrowing Owls To Alterations In Clutch Size: Are Burrowing Owls Determinate Or Indeterminate Egg-Layers?, Jamie L. Wade, James R. Belthoff

Biology Faculty Publications and Presentations

Bird species, including raptors, can often be categorized into two groups depending upon their response to alterations in clutch size while laying. For some, clutch size is predetermined prior to the start of laying (i.e., determinate species). In contrast, the clutch size of indeterminate layers can be influenced by external factors present at the time of laying. Using field experiments, our objective was to examine the egg-laying responses of female Western Burrowing Owls (Athene cunicularia hypugaea) to manipulations of clutch size. To assess whether Burrowing Owls are determinate or indeterminate egg-layers, we altered female clutch size by removing …

Nestin-Positive/Sox2−Negative Cells Mediate Adult Neurogenesis Of Nigral Dopaminergic Neurons In Mice, Joshua E. Albright, Iva Stojkovska, Abir A. Rahman, Connor J. Brown, Brad E. Morrison

Biology Faculty Publications and Presentations

The primary clinical motor symptoms of Parkinson’s disease (PD) result from loss of dopaminergic (DA) neurons in the substantia nigra (SN). Consequently, neurogenesis of this group of neurons in the adult brain has drawn considerable interest for the purpose of harnessing endogenous neurogenerative potential as well as devising better strategies for stem cell therapy for PD. However, the existence of adult neurogenesis for DA neurons within the SN remains controversial. To overcome technical and design limitations associated with previous studies, our group has developed a novel genetic mouse model for assessing adult nigral DA neurogenesis. This system utilizes transgenic mice …

Microbes As Engines Of Ecosystem Function: When Does Community Structure Enhance Predictions Of Ecosystem Processes?, Emily B. Graham, Joseph E. Knelman, Andreas Schindlbacher, Steven Siciliano, Riqing Yu, And 45 Additional Authors

Biology Faculty Publications and Presentations

Microorganisms are vital in mediating the earth's biogeochemical cycles; yet, despite our rapidly increasing ability to explore complex environmental microbial communities, the relationship between microbial community structure and ecosystem processes remains poorly understood. Here, we address a fundamental and unanswered question in microbial ecology: 'When do we need to understand microbial community structure to accurately predict function?' We present a statistical analysis investigating the value of environmental data and microbial community structure independently and in combination for explaining rates of carbon and nitrogen cycling processes within 82 global datasets. Environmental variables were the strongest predictors of process rates but left …

Is Protection Against Florivory Consistent With The Optimal Defense Hypothesis?, Adrienne L. Godschalx, Lauren Stady, Benjamin Watzig, Daniel J. Ballhorn

Biology Faculty Publications and Presentations

Background: Plant defense traits require resources and energy that plants may otherwise use for growth and reproduction. In order to most efficiently protect plant tissues from herbivory, one widely accepted assumption of the optimal defense hypothesis states that plants protect tissues most relevant to fitness. Reproductive organs directly determining plant fitness, including flowers and immature fruit, as well as young, productive leaf tissue thus should be particularly well-defended. To test this hypothesis, we quantified the cyanogenic potential (HCNp)—a direct, chemical defense—systemically expressed in vegetative and reproductive organs in lima bean (Phaseolus lunatus), and we tested susceptibility of these …

Aryl Hydrocarbon Receptor Activation By Tcdd Modulates Expression Of Extracellular Matrix Remodeling Genes During Experimental Liver Fibrosis, Cheri L. Lamb, Giovan Cholico, Daniel E. Perkins, Michael T. Fewkes, Julia T. Oxford, Trevor J. Lujan, Erica E. Morrill, Kristen A. Mitchell

Biology Faculty Publications and Presentations

The aryl hydrocarbon receptor (AhR) is a soluble, ligand-activated transcription factor that mediates the toxicity of 2,3,7,8- tetrachlorodibenzo-p-dioxin (TCDD). Increasing evidence implicates the AhR in regulating extracellular matrix (ECM) homeostasis. We recently reported that TCDD increased necroinflammation and myofibroblast activation during liver injury elicited by carbon tetrachloride (CCl₄).However, TCDD did not increase collagen deposition or exacerbate fibrosis in CCl₄-treated mice, which raises the possibility that TCDD may enhance ECM turnover. The goal of this study was to determine how TCDD impacts ECM remodeling gene expression in the liver. Male C57BL/6 mice were treated for …

Small Unmanned Aerial Vehicles (Micro-Uavs, Drones) In Plant Ecology, Mitchell B. Cruzan, Ben G. Weinstein, Monica R. Grasty, Brendan F. Kohrn, Elizabeth C. Hendrickson, Tina M. Arredondo, Pamela G. Thompson

Biology Faculty Publications and Presentations

Premise of the study: Low-elevation surveys with small aerial drones (micro–unmanned aerial vehicles [UAVs]) may be used for a wide variety of applications in plant ecology, including mapping vegetation over small- to medium-sized regions. We provide an overview of methods and procedures for conducting surveys and illustrate some of these applications.

Methods: Aerial images were obtained by flying a small drone along transects over the area of interest. Images were used to create a composite image (orthomosaic) and a digital surface model (DSM). Vegetation classification was conducted manually and using an automated routine. Coverage of an individual species …

Free Mate Choice Enhances Conservation Breeding In The Endangered Giant Panda, Meghan S. Martin-Wintle, David J. Shepherdson, Guiquan Zhang, Hemin Zhang, Desheng Li, Xiaoping Zhou, Rengui Li, Ronald R. Swaisgood

Biology Faculty Publications and Presentations

Conservation breeding programmes have become an increasingly important tool to save endangered species, yet despite the allocation of significant resources, efforts to create self-sustaining populations have met with limited success. The iconic giant panda (Ailuropoda melanoleuca) embodies the struggles associated with ex situ species conservation. Here we show that behavioural mate preferences in giant pandas predict reproductive outcomes. Giant pandas paired with preferred partners have significantly higher copulation and birth rates. Reproductive rates increase further when both partners show mutual preference for one another. If managers were to incorporate mate preferences more fully into breeding management, the production of giant …

Modeling Trade-Offs Between Plant Fiber And Toxins: A Framework For Quantifying Risks Perceived By Foraging Herbivores, Meghan J. Camp, Lisa A. Shipley, Timothy R. Johnson, Jennifer Sorenson Forbey, Janet L. Rachlow, Miranda M. Crowell

Biology Faculty Publications and Presentations

When selecting habitats, herbivores must weigh multiple risks, such as predation, starvation, toxicity, and thermal stress, forcing them to make fitness trade-offs. Here, we applied the method of paired comparisons (PC) to investigate how herbivores make trade-offs between habitat features that influence selection of food patches. The method of PC measures utility and the inverse of utility, relative risk, and makes trade-offs and indifferences explicit by forcing animals to make choices between two patches with different types of risks. Using a series of paired-choice experiments to titrate the equivalence curve and find the marginal rate of substitution for one risk …

Moss In The Classroom: A Tiny But Mighty Tool For Teaching Biology, Erin E. Shortlidge, James R. Hashimoto

Biology Faculty Publications and Presentations

Here we present a mechanism to infuse ecology into the classroom using a broadly adaptable system. We developed a novel moss-based project that introduces research-based experiences for middle school students, and can be modified for integration into K-16 classrooms. The project is ecologically relevant, facilliating opportunities for students to experience intimate interactions with ecosystem subtleties by asking their own questions. We describe and suggest how students can develop, build, test, and assess microcosm experiments of their own design, learning the process of science by “doing science.” Details on project execution, representative examples of distinctive research-question-based projects are presented. We aim …

Genome Rearrangements Can Make And Break Small Rna Genes, Rahul Raghavan, Fenil R. Kacharia, Jess A. Millar, Christine Demko Sislak, Howard Ochman

Biology Faculty Publications and Presentations

Small RNAs (sRNAs) are short, transcribed regulatory elements that are typically encoded in the intergenic regions (IGRs) of bacterial genomes. Several sRNAs, first recognized in Escherichia coli, are conserved among enteric bacteria, but because of the regulatory roles of sRNAs, differences in sRNA repertoires might be responsible for features that differentiate closely related species. We scanned the E. coli MG1655 and Salmonella enterica Typhimurium genomes for nonsyntenic IGRs as a potential source of uncharacterized, species-specific sRNAs and found that genome rearrangements have reconfigured several IGRs causing the disruption and formation of sRNAs. Within an IGR that is present in …

Degradation By Cullin 3 And Effect On Wnk Kinases Suggest A Role Of Klhl2 In The Pathogenesis Of Familial Hyperkalemic Hypertension, Chong Zhang, Nicholas P. Meermeier, Andrew Terker, Katharina I. Blankenstein, Jeffrey D. Singer, Juliette Hadchouel, David Ellison, Chao-Ling Yang

Biology Faculty Publications and Presentations

Mutations in WNK1 and WNK4, and in components of the Cullin-Ring Ligase system, kelch-like 3 (KLHL3) and Cullin 3 (CUL3), can cause the rare hereditary disease, Familial Hyperkalemic Hypertension (FHHt). The disease is characterized by overactivity of the renal sodium chloride cotransporter (NCC), which is phosphorylated and activated by the WNK-stimulated Ste20-type kinases, SPAK and OSR1. WNK kinases themselves can be targeted for ubiquitination and degradataion by the CUL3-KLHL3 E3 ubiquitin ligase complex. It is unclear, however, why there are significant differences in phenotypic severity among FHHt patients with mutations in different genes. It was reported that kelch-like 2 (KLHL2), …

Saccular Transcriptome Profiles Of The Seasonal Breeding Plainfin Midshipman Fish (Porichthys Notatus), A Teleost With Divergent Sexual Phenotypes, Joshua J. Faber-Hammond, Manoj P. Samanta, Elizabeth A. Whitchurch, Dustin Manning, Joseph A. Sisneros, Allison B. Coffin

Biology Faculty Publications and Presentations

Acoustic communication is essential for the reproductive success of the plainfin midshipman fish (Porichthys notatus). During the breeding season, type I males use acoustic cues to advertise nest location to potential mates, creating an audible signal that attracts reproductive females. Type II (sneaker) males also likely use this social acoustic signal to find breeding pairs from which to steal fertilizations. Estrogen-induced changes in the auditory system of breeding females are thought to enhance neural encoding of the advertisement call, and recent anatomical data suggest the saccule (the main auditory end organ) as one possible target for this seasonal modulation. Here …

Reclaiming Lost Territory: The Response Of Owyhee Harvester Ants To Forager Intrusions By Neighboring Colonies, Brett D. Howell, Ian C. Robertson

Biology Faculty Publications and Presentations

Neighboring colonies of the Owyhee harvester ant, Pogonomyrmex salinus, often share nonoverlapping foraging boundaries in the areas between their nests. We found that interactions between neighbors along these foraging boundaries were infrequent but peaceful, and usually resulted in one or both individuals becoming agitated and scurrying away in opposite directions. Interactions between neighbors were necessary to maintain the foraging ranges of their respective colonies. An exclusion experiment showed that when one colony of a pair situated 5-7 m apart was denied access to its foraging range, individuals from the other colony would usually (i.e., in 7 out of 10 cases) …

Rapid And Repeatable Shifts In Life-History Timing Of Rhagoletis Pomonella (Diptera: Tephritidae) Following Colonization Of Novel Host Plants In The Pacific Northwestern United States, Monte Mattsson, Glen R. Hood, Jeffery L. Feder, Luis A. Ruedas

Biology Faculty Publications and Presentations

Host shifts of phytophagous insect specialists to novel plants can result in divergent ecological adaptation, generating reproductive isolation and potentially new species. Rhagoletis pomonellafruit flies in eastern North America underwent a host shift ~160 ya from native downy hawthorn (Crataegus mollis) to introduced, domesticated apple (Malus domestica). Divergent selection on diapause phenology related to the earlier fruiting time of apples versus downy hawthorns resulted in partial allochronic reproductive isolation between the fly races. Here, we test for how rapid and repeatable shifts in life-history timing are driving ecological divergence of R. pomonella in the Pacific …