Biology Commons^™

Poor Compliance With An Antibiotic Directive—A Call For Intensified Monitoring, Frederik Novak, Jens T. Hørlück, Jacob D. Redder, Paul Denton, Merete Storgaard

Biology Faculty Publications

Background

In April 2017, the Central Denmark Region Antibiotic Stewardship Committee issued a directive to reduce the general use of piperacillin-tazobactam and prescribe narrow-spectrum antibiotics for mild and moderate pneumonia. The directive was distributed to all regional hospital clinicians.

Methods

Electronic medical records were used to obtain de-identified details of all antibiotics administered (together with diagnosis codes) to all in-hospital patients (pre-directive and post-directive) in the nine regional hospitals. Average moving range statistical process control charts were used to analyze pre-directive and post-directive variation in antibiotic usage patterns.

Results

Upon the distribution of the directive, a period of decline of …

Microscopic And Genetic Characterization Of Bacterial Symbionts With Bioluminescent Potential In Pyrosoma Atlanticum, Alexis Berger, Patricia L. Blackwelder, Tamara Frank, Tracey Sutton, Nina Pruzinsky, Natalie Slayden, Jose V. Lopez

Biology Faculty Articles

The pelagic tunicate pyrosome, Pyrosoma atlanticum, is known for its brilliant bioluminescence, but the mechanism causing this bioluminescence has not been fully characterized. This study identifies the bacterial bioluminescent symbionts of P. atlanticum collected in the northern Gulf of Mexico using several methods such as light and electron microscopy, as well as molecular genetics. The bacteria are localized within the pyrosome light organs. Greater than 50% of the bacterial taxa present in the tunicate samples were the bioluminescent symbiotic bacteria Vibrionaceae as determined by utilizing current molecular genetics methodologies. A total of 396K MiSeq16S rRNA reads provided total pyrosome …

What Questions Are On The Minds Of Stem Undergraduate Students And How Can They Be Addressed?, Clara L. Meaders, Michelle K. Smith, Timothy Boester, Anne Bracy, Brian A. Couch, Abby G. Drake, Saima Farooq, Bashir Khoda, Cynthia Kinsland, A. Kelly Lane, Sarah E. Lindahl, William H. Livingston, Ayesha Maliwal Bundy, Amber Mccormick, Anya I. Morozov, Jennifer L. Newell-Caito, Katharine J. Ruskin, Mark A. Sarvary, Marilyne Stains, Justin R. St. Juliana, Stephanie R. Thomas, Cindy Van Es, Erin L. Vinson, Maren N. Vitousek, Mackenzie R. Stetzer

School of Biological Sciences: Faculty Publications

Addressing common student questions in introductory STEM courses early in the term is one way that instructors can ensure that their students have all been presented with information about how to succeed in their courses. However, categorizing student questions and identifying evidence-based resources to address student questions takes time, and instructors may not be able to easily collect and respond to student questions at the beginning of every course. To help faculty effectively anticipate and respond to student questions, we 1) administered surveys in multiple STEM courses to identify common student questions, 2) conducted a qualitative analysis to determine categories …

Data From: Recovery From Discrete Wound Severities In Side-Blotched Lizards (Uta Stansburiana): Implications For Energy Budget, Locomotor Performance, And Oxidative Stress, Susannah S. French, Spencer B. Hudson

Browse all Datasets

Wounding events (predation attempts, competitive combat) result in injuries and/or infections that induce integrated immune responses for the recovery process. Despite the survival benefits of immunity in this context, the costs incurred may require investment to be diverted from traits contributing to immediate and/or future survival, such as locomotor performance and oxidative status. Yet, whether trait constraints manifest likely depends on wound severity and the implications for energy budget. For this study, food intake, body mass, sprint speed, and oxidative indices (reactive oxygen metabolites, antioxidant capacity) were monitored in male side-blotched lizards (Uta stansburiana) healing from cutaneous wounds of discrete …

Culturable Root Endophyte Communities Are Shaped By Both Warming And Plant Host Identity In The Rocky Mountains, Usa, Kelly G. Lyons, M. Mann, Molly Lenihan, Olivia Roybal, Kelly Carroll, Kyle Reynoso, S. N. Kivlin, D. L. Taylor, J. A. Rudgers

Biology Faculty Research

Understanding the biogeographic patterns of root-associated fungi and their sensitivity to temperature may improve predictions of future changes in terrestrial biodiversity and associated ecosystem processes, but data are currently limited. Anticipating change will require combining observational data, which predict how climatic factors limit current species distributions, with direct manipulations of climate, which can isolate responses to specific climate variables. Root endophytes are common symbionts of plants, particularly in arctic and alpine environments, yet their responses to climate warming are not resolved. Here, we directly cultured endophytic fungi from roots collected along altitudinal gradients in replicated mountain watersheds and from a …

Methodological Advances For Studying Gamma Motor Neurons, Katherine A. Wilkinson

Faculty Publications, Biological Sciences

The muscle spindle is an important sense organ for motor control and proprioception. Specialized intrafusal fibers are innervated by both stretch sensitive afferents and γ motor neurons that control the length of the spindle and tune the sensitivity of the muscle spindle afferents to both dynamic movement and static length. γ motor neurons share many similarities with other skeletal motor neurons, making it challenging to identify and specifically record or stimulate them. This short review will discuss recent advances in genetic and molecular biology techniques, electrophysiological recording, optical imaging, computer modelling, and stem cell culture techniques that have the potential …

Comparative Effects Of Chemical And Physical Sunscreen On Fertilization Of Purple Sea Urchins (Strongylocentrotus Purpuratus), Marilla Lippert, Maurice Codespoti Goodman, Nikki Adams

Biological Sciences

Organic compound-based “chemical” sunscreens dominate the commercial sunscreen market, but recent research has revealed the ingredients of these products are detrimental to the health of marine organisms. This revelation has led to increased popularity of mineral-based “physical” sunscreens, primarily containing zinc-oxide (ZnO), as environmentally safe alternatives. While they are marketed as environmentally safe, these claims are largely untested, and it is important to consider potential effects of ZnO-based sunscreens on the development of marine organisms. Though Zn is a necessary micronutrient in the ocean, excess Zn is released into marine environments from anthropogenic sources has negative effects on marine life. …

Blockade Of Erk1/2 Activation With U0126 Or Pep7 Reduces Sodium Appetite And Angiotensin Ii-Induced Pressor Responses In Spontaneously Hypertensive Rats, G. M.F. Andrade-Franzé, E. D. Pereira, G. L.C. Yosten, W. K. Samson, J. V. Menani, L. A. De Luca, C. A.F. Andrade

Biological Sciences Faculty Research & Creative Works

Spontaneously hypertensive rats (SHRs) have increased daily, or induced sodium intake compared to normotensive rats. In normotensive rats, angiotensin II (ANG II)-induced sodium intake is blocked by the inactivation of p42/44 mitogen-activated protein kinase, also known as extracellular signal-regulated protein kinase1/2 (ERK1/2). Here we investigated if inhibition of ERK1/2 pathway centrally would change sodium appetite and intracerebroventricular (icv) ANG II-induced pressor response in SHRs. SHRs (280−330 g, n = 07–14/group) with stainless steel cannulas implanted in the lateral ventricle (LV) were used. Water and 0.3 M NaCl intake was induced by the treatment with the diuretic furosemide + captopril (angiotensin …

Increased Expression Of Fatty Acid And Abc Transporters Enhances Seed Oil Production In Camelina, Guangqin Cai, Geliang Wang, Sang-Chul Kim, Jianwu Li, Yongming Zhou, Xuemin Wang

Biology Department Faculty Works

Background Lipid transporters play an essential role in lipid delivery and distribution, but their influence on seed oil production in oilseed crops is not well studied. Results Here, we examined the effect of two lipid transporters, FAX1 (fatty acid export1) and ABCA9 (ATP-binding cassette transporter subfamily A9) on oil production and lipid metabolism in the oilseed plant Camelina sativa. Overexpression (OE) of FAX1 and ABCA9 increased seed weight and size, with FAX1-OEs and ABCA9-OEs increasing seed length and width, respectively, whereas FAX1/ABCA9-OEs increasing both. FAX1-OE and ABCA9-OE displayed …

Evolutionary Dynamics And Structural Consequences Of De Novo Beneficial Mutations And Mutant Lineages Arising In A Constant Environment, Margie Kinnersley, Katja Schwartz, Dong Dong Yang, Gavin Sherlock, Frank Rosenzweig

Biological Sciences Faculty Publications

Background: Microbial evolution experiments can be used to study the tempo and dynamics of evolutionary change in asexual populations, founded from single clones and growing into large populations with multiple clonal lineages. High-throughput sequencing can be used to catalog de novo mutations as potential targets of selection, determine in which lineages they arise, and track the fates of those lineages. Here, we describe a long-term experimental evolution study to identify targets of selection and to determine when, where, and how often those targets are hit. Results: We experimentally evolved replicate Escherichia coli populations that originated from a mutator/nonsense suppressor ancestor …

G2pminer: A Genome To Phenome Literature Review Approach, John M.A. Wojahn, Stephanie J. Galla, Anthony E. Melton, Sven Buerki

Biology Faculty Publications and Presentations

There is a gap in the conceptual framework linking genes to phenotypes (G2P) for non-model organisms, as most non-model organisms do not yet have genomic resources readily available. To address this, researchers often perform literature reviews to understand G2P linkages by curating a list of likely gene candidates, hinging upon other studies already conducted in closely related systems. Sifting through hundreds to thousands of articles is a cumbersome task that slows down the scientific process and may introduce bias into a study. To fill this gap, we created G2PMineR, a free and open source literature mining tool developed specifically for …

Artificial Nightlight Alters The Predator–Prey Dynamics Of An Apex Carnivore, Jesse R. Barber

Biology Faculty Publications and Presentations

Artificial nightlight is increasingly recognized as an important environmental disturbance that influences the habitats and fitness of numerous species. However, its effects on wide‐ranging vertebrates and their interactions remain unclear. Light pollution has the potential to amplify land‐use change, and as such, answering the question of how this sensory stimulant affects behavior and habitat use of species valued for their ecological roles and economic impacts is critical for conservation and land‐use planning. Here, we combined satellite‐derived estimates of light pollution, with GPS‐data from cougars Puma concolor (n = 56), mule deer Odocoileus hemionus (n = 263) and locations of cougar‐killed …

The C. Neoformans Cell Wall: A Scaffold For Virulence, Christine Chrissian

Dissertations, Theses, and Capstone Projects

Cryptococcus neoformans is a globally distributed opportunistic fungal pathogen and the causative agent of life threatening cryptococcal meningoencephalitis in immunocompromised individuals, resulting in ~180,000 deaths each year worldwide. A primary virulence-associated trait of this organism is the production of melanin. Melanins are a class of diverse pigments produced via the oxidation and polymerization of aromatic ring compounds that have a characteristically complex, heterogenous, and amorphous structure. They are synthesized by representatives of all biological kingdoms and share a multitude of remarkable properties such as the ability to absorb ultraviolet (UV) light and protect against ionizing radiation. Melanin production in fungi …

Lianas Explore The Forest Canopy More Effectively Than Trees Under Drier Conditions, Jose A. Medina-Vega, Frans Bongers, Stefan A. Schnitzer, Frank J. Sterck

Biological Sciences Faculty Research and Publications

1. Lianas rely on trees for support and access to high-light positions in the forest canopy, but the implications for how lianas explore the canopy compared to trees remain understudied. We present an in situ forest canopy study to test the hypotheses that: (1) lianas favour leaf display over stem investment compared to trees and (2) lianas have greater potential to colonize non-shaded, high-light areas effectively than trees.
2. We compared branches of 16 liana species with those of 16 sympatric tree species in the canopy of two lowland tropical forests with contrasting rainfall regimes in Panama using 40–50 m tall canopy …

Can Public Online Databases Serve As A Source Of Phenotypic Information For Cannabis Genetic Association Studies?, Matthew L. Aardema, Rob Desalle

Department of Biology Faculty Scholarship and Creative Works

The use of Cannabis is gaining greater social acceptance for its beneficial medicinal and recreational uses. With this acceptance has come new opportunities for crop management, selective breeding, and the potential for targeted genetic manipulation. However, as an agricultural product Cannabis lags far behind other domesticated plants in knowledge of the genes and genetic variation that influence plant traits of interest such as growth form and chemical composition. Despite this lack of information, there are substantial publicly available resources that document phenotypic traits believed to be associated with particular Cannabis varieties. Such databases could be a valuable resource for developing …

Biophysical Characteristics Of Lipid-Induced Aβ Oligomers Correlate To Distinctive Phenotypes In Transgenic Mice, Jhinuk Saha, Dexter N. Dean, Shailendra Dhakal, Kelli A. Stockmal, Sarah E. Morgan, Kristy D. Dillon, Munir F. Adamo, Yona Levites, Vijayaraghavan Rangachari

Faculty Publications

Alzheimer's disease (AD) is a progressive neurodegenerative disorder that affects cognition and memory. Recent advances have helped identify many clinical sub-types in AD. Mounting evidence point toward structural polymorphism among fibrillar aggregates of amyloid-β (Aβ) to being responsible for the phenotypes and clinical manifestations. In the emerging paradigm of polymorphism and prion-like propagation of aggregates in AD, the role of low molecular weight soluble oligomers, which are long known to be the primary toxic agents, in effecting phenotypes remains inconspicuous. In this study, we present the characterization of three soluble oligomers of Aβ42, namely 14LPOs, 16LPOs, and GM1Os with discreet …

From Coast To Coast To Coast: Ecology And Management Of Eelgrass Systems Across Canada, Sarah Joy Bittick

Biology Faculty Works

Seagrass meadows are among the most productive and diverse marine ecosystems, providing essential structure, functions, and services. They are also among the most impacted by human activities and in urgent need of better management and protection. In Canada, eelgrass (Zostera marina) meadows are found along the Atlantic, Pacific, and Arctic coasts, and thus occur across a wide range of biogeographic conditions. Here, we synthesize knowledge of eelgrass ecosystems across Canada’s coasts, highlighting commonalities and differences in environmental conditions, plant, habitat, and community structure, as well as current trends and human impacts. Across regions, eelgrass life history, phenology, and general species …

Modulation Of Bacterial Fitness And Virulence Through Antisense Rnas, Jess A. Millar, Rahul Raghavan

Biology Faculty Publications and Presentations

Regulatory RNAs contribute to gene expression control in bacteria. Antisense RNAs (asRNA) are a class of regulatory RNAs that are transcribed from opposite strands of their target genes. Typically, these untranslated transcripts bind to cognate mRNAs and rapidly regulate gene expression at the post-transcriptional level. In this article, we review asRNAs that modulate bacterial fitness and increase virulence. We chose examples that underscore the variety observed in nature including, plasmid- and chromosome-encoded asRNAs, a riboswitch-regulated as RNA, and as RNAs that require other RNAs or RNA binding proteins for stability and activity. We explore how as RNAs improve bacterial fitness …

Editor's Choice: Honoring Joel Asaph Allen, Luis A. Ruedas

Biology Faculty Publications and Presentations

Joel Asaph Allen (19 July 1838 to 29 August 1921; Fig. 1) was a formative figure in the early years of the American Society of Mammalogists (ASM). Prior to the constitution of the Society, Allen had been appointed by Hartley H. T. Jackson as a member of the Committee on the Organization of the Mammal Society (Hoffmeister 1969). By all accounts a retiring individual, he was elected to honorary membership in the Society at the first meeting of the ASM (Washington, DC, 3–4 April 1919—Hoffmeister 1969). Honorary Membership is “the highest honor that the Society bestows” (Genoways and Freeman 2001).

Biotic And Abiotic Drivers Of Plant–Pollinator Community Assembly Across Wildfire Gradients, Joseph A. Lamanna, Laura A. Burkle, R. Travis Belote, Jonathan A. Myers

Biological Sciences Faculty Research and Publications

1. Understanding how abiotic disturbance and biotic interactions determine pollinator and flowering-plant diversity is critically important given global climate change and widespread pollinator declines. To predict responses of pollinators and flowering-plant communities to changes in wildfire disturbance, a mechanistic understanding of how these two trophic levels respond to wildfire severity is needed.
2. We compared site-to-site variation in community composition (β-diversity), species richness and abundances of pollinators and flowering plants among landscapes with no recent wildfire (unburned), mixed-severity wildfire and high-severity wildfire in three sites across the Northern Rockies Ecoregion, USA. We used variation partitioning to assess the relative contributions …

Cell Cycle Progression Effects Of Albumin, Sharmeen Uddin

Dissertations, Theses, and Capstone Projects

Progression through G₁ phase of the cell cycle is controlled largely by growth factors in early G₁ and by nutrients in late G₁ indicating sufficient raw material for cell division. We previously mapped a late G₁ cell cycle checkpoint for lipids upstream from a mammalian target of rapamycin complex 1 (mTORC1)-mediated checkpoint and downstream from a mid-G₁ checkpoint known as the Restriction point. We therefore investigated a role for lipids in progression through late G₁ into S-phase. Quiescent BJ-hTERT human fibroblasts primed back into G1 with FBS treatment, were treated with a mixture of …

The Multifunctional Roles Of Polyphenols In Plant-Herbivore Interactions, Sukhman Singh, Ishveen Kaur, Rupesh R. Kariyat

School of Integrative Biological & Chemical Sciences (Formerly Dept. of Biology)

There is no argument to the fact that insect herbivores cause significant losses to plant productivity in both natural and agricultural ecosystems. To counter this continuous onslaught, plants have evolved a suite of direct and indirect, constitutive and induced, chemical and physical defenses, and secondary metabolites are a key group that facilitates these defenses. Polyphenols—widely distributed in flowering plants—are the major group of such biologically active secondary metabolites. Recent advances in analytical chemistry and metabolomics have provided an opportunity to dig deep into extraction and quantification of plant-based natural products with insecticidal/insect deterrent activity, a potential sustainable pest management strategy. …

Using Yeast Two-Hybrid System And Molecular Dynamics Simulation To Detect Venom Protein-Protein Interactions, Ying Jia, Paulina Kowalski, Ivan Lopez

School of Integrative Biological & Chemical Sciences (Formerly Dept. of Biology)

Proteins and peptides are major components of snake venom. Venom protein transcriptomes and proteomes of many snake species have been reported; however, snake venom complexity (i.e., the venom protein-protein interactions, PPIs) remains largely unknown. To detect the venom protein interactions, we used the most common snake venom component, phospholipase A2s (PLA2s) as a “bait” to identify the interactions between PLA2s and 14 of the most common proteins in Western diamondback rattlesnake (Crotalus atrox) venom by using yeast two-hybrid (Y2H) analysis, a technique used to detect PPIs. As a result, we identified PLA2s interacting with themselves, and lysing-49 PLA2 …

Molecular Characterization Of A Marine Turtle Tumor Epizootic, Profiling External, Internal And Postsurgical Regrowth Tumors, Kelsey Yetsko, Jessica A. Farrell, Nicholas B. Blackburn, Liam Whitmore, Maximilian R. Stammnitz, Jenny Whilde, Catherine B. Eastman, Devon Rollinson Ramia, Ana C. Leandro

School of Medicine Publications

Sea turtle populations are under threat from an epizootic tumor disease (animal epidemic) known as fibropapillomatosis. Fibropapillomatosis continues to spread geographically, with prevalence of the disease also growing at many longer-affected sites globally. However, we do not yet understand the precise environmental, mutational and viral events driving fibropapillomatosis tumor formation and progression.

Here we perform transcriptomic and immunohistochemical profiling of five fibropapillomatosis tumor types: external new, established and postsurgical regrowth tumors, and internal lung and kidney tumors. We reveal that internal tumors are molecularly distinct from the more common external tumors. However, they have a small number of conserved potentially …

Functional Influence Of 14-3-3 (Ywha) Proteins In Mammals, Elizabeth Barley, Santanu De

Mako: NSU Undergraduate Student Journal

The 14-3-3 (YWHA) proteins are homologous, ubiquitous, and conserved in most organisms ranging from plants to animals and play important roles in regulating key cellular events such as cell signaling, development, apoptosis, etc. These proteins consist of seven isoforms in mammals, termed under Greek alphabetization: beta (β), gamma (γ), epsilon (ε), eta (η), tau/theta (τ), sigma (σ), and zeta (ζ). Each of these isoforms can interact with a plethora of binding partners and has been shown to serve a distinct role in molecular crosstalk, biological processes, and disease susceptibility. Protein 14-3-3 isoforms are scaffolding proteins capable of forming homodimers and …

A Food Microbiology Classroom Activity To Draw Connections Between Microbes And Students’ Lives, David J. Westenberg, Jonathan Kopel

Biological Sciences Faculty Research & Creative Works

Fermented foods have been prepared for millennia and every society around the world has traditional fermented foods and/or beverages that are identified with that culture. This is an excellent opportunity to help students draw connections between their everyday lives and the microbial sciences. At the same time, this is also a great way to encourage cultural awareness and acceptance. This manuscript describes an active learning approach used in a general microbiology course to encourage students to learn about fermented foods from around the world and share their discoveries with their colleagues. As a group we also spend time discussing some …

Building Excellence In Scientific Teaching: How Important Is The Evidence For Evidence-Based Teaching When Training Stem Tas?, Lorelei E. Patrick, Hillary A. Barron, Julie C. Brown, Sehoya Cotner

Biological Sciences Faculty Publications

Evidence-based teaching practices (EBTP)—like inquiry-based learning, inclusive teaching, and active learning (AL)—have been shown to benefit all students, especially women, first-generation, and traditionally minoritized students in science fields. However, little research has focused on how best to train teaching assistants (TAs) to use EBTP or on which components of professional development are most important. We designed and experimentally manipulated a series of presemester workshops on AL, dividing subjects into two groups. The Activity group worked in teams to learn an AL technique with a workshop facilitator. These teams then modeled the activity, with their peers acting as students. In the …

Niche Partitioning Of Low-Light Adapted Prochlorococcus Subecotypes Across Oceanographic Gradients Of The North Pacific Subtropical Front, Anne W. Thompson, Kathleen Kouba, Nathan A. Ahlgren

Biology Faculty Publications and Presentations

The cyanobacterium Prochlorococcus is the most abundant photosynthetic cell on Earth and contributes to global ocean carbon cycling and food webs. Prochlorococcus is known for its extensive diversity that falls into two groups of ecotypes, the low‐light (LL) and high‐light (HL) adapted ecotypes. Previous work has shown niche partitioning of the very abundant HL adapted ecotypes and subecotypes across oceanographic gradients including temperature, nutrients, and day length. However, niche partitioning of subecotypes within the LL adapted ecotypes has not been studied as well because they are less abundant and less accessible than surface, HL populations. Through high‐throughput, cyanobacterial‐specific, sequencing of …

Mangrove Gastropods As Biomonitors For Heavy Metal Contamination, Farhathul Manas

Student Works (2020-2029)

A process called biomonitoring can be used to analyze the factors that affect the ecosystem. In this study, gastropods and sediments were used to observeits impact on the study sites under the Klang Islands Mangrove Forest Reserve (KIMFR): Pulau Klang (Klang Island), Pulau Carey (Carey Island) and Telok Gong representing the natural mangrove, agricultural and industrial environments, respectively. Environmental monitoring was performed using gastropods and sediments that were collected and tested for heavy metals including arsenic (As), lead (Pb), cadmium (Cd), and mercury (Hg). The inductive coupled plasma mass spectrometry (ICP-MS) was used for heavy metal testing in gastropods whereas …

Thermal Acclimation Of Tropical Coral Reef Fishes To Global Heat Waves, Jacob L. Johansen, Lauren E. Nadler, Adam Habary, Alyssa J. Bowden, Jodie Rummer

Marine & Environmental Sciences Faculty Articles

As climate-driven heat waves become more frequent and intense, there is increasing urgency to understand how thermally sensitive species are responding. Acute heating events lasting days to months may elicit acclimation responses to improve performance and survival. However, the coordination of acclimation responses remains largely unknown for most stenothermal species. We documented the chronology of 18 metabolic and cardiorespiratory changes that occur in the gills, blood, spleen, and muscles when tropical coral reef fishes are thermally stressed (+3.0°C above ambient). Using representative coral reef fishes (Caesio cuning and Cheilodipterus quinquelineatus) separated by >100 million years of evolution and …