Digital Commons Network^™

Seaflow Data V1, High-Resolution Abundance, Size And Biomass Of Small Phytoplankton In The North Pacific, François Ribalet, Chris Berthiaume, Annette Hynes, Jarred Swalwell, Michael Carlson, Sophie Clayton, Gwenn Hennon, Camille Poirier, Eric Shimabukuro, Angelicque White, E. Virginia Armhurst

OES Faculty Publications

SeaFlow is an underway flow cytometer that provides continuous shipboard observations of the abundance and optical properties of small phytoplankton (μm in equivalent spherical diameter, ESD). Here we present data sets consisting of SeaFlow-based cell abundance, forward light scatter, and pigment fluorescence of individual cells, as well as derived estimates of ESD and cellular carbon content of picophytoplankton, which includes the cyanobacteria Prochlorococcus, Synechococcus and small-sized Crocosphaera (μm ESD), and picophytoplankton and nanophytoplankton (2–5 μm ESD). Data were collected in surface waters (≈5 m depth) from 27 oceanographic cruises carried out in the Northeast Pacific Ocean between 2010 and 2018. …

Closing The Oxygen Mass Balance In Shallow Coastal Ecosystems, Matthew H. Long, Jennie E. Rheuban, Daniel C. Mccorkle, David J. Burdige, Richard C. Zimmerman

OES Faculty Publications

The oxygen concentration in marine ecosystems is influenced by production and consumption in the water column and fluxes across both the atmosphere-water and benthic-water boundaries. Each of these fluxes has the potential to be significant in shallow ecosystems due to high fluxes and low water volumes. This study evaluated the contributions of these three fluxes to the oxygen budget in two contrasting ecosystems, a Zostera marina (eelgrass) meadow in Virginia, U.S.A., and a coral reef in Bermuda. Benthic oxygen fluxes were evaluated by eddy covariance. Water column oxygen production and consumption were measured using an automated water incubation system. Atmosphere-water …

Fauna Of The Kemp Caldera And Its Upper Bathyal Hydrothermal Vents (South Sandwich Arc, Antarctica), Katrin Linse, Jonathan T. Copley, Douglas P. Connelly, Robert D. Larter, David A. Pearce, Nick V. C. Polunin, Alex D. Rogers, Chong Chen, Andrew Clarke, Adrian G. Glover, Alastair G. C. Graham, Veerle A. I. Huvenne, Leigh Marsh, William D. K. Reid, C. Nicolai Roterman, Christopher J. Sweeting, Katrin Zwirglmaier, Paul A. Tyler

Marine Science Faculty Publications

Faunal assemblages at hydrothermal vents associated with island-arc volcanism are less well known than those at vents on mid-ocean ridges and back-arc spreading centres. This study characterizes chemosynthetic biotopes at active hydrothermal vents discovered at the Kemp Caldera in the South Sandwich Arc. The caldera hosts sulfur and anhydrite vent chimneys in 1375–1487 m depth, which emit sulfide-rich fluids with temperatures up to 212°C, and the microbial community of water samples in the buoyant plume rising from the vents was dominated by sulfur-oxidizing Gammaproteobacteria. A total of 12 macro- and megafaunal taxa depending on hydrothermal activity were collected in these …

A Role For Contrast Gain Control In Skin Appearance, Richard Russell, Carlota Batres, Alex L. Jones, Aurélie Porcheron

Psychology Faculty Publications

Apparent contrast can be suppressed or enhanced when presented within surrounding images. This contextual modulation is typically accounted for with models of contrast gain control. Similarly, the appearance of one part of a face is affected by the appearance of the other parts of the face. These influences are typically accounted for with models of face-specific holistic processing. Here we report evidence that facial skin appearance is modulated by adjacent surfaces. In four experiments we measured the appearance of skin evenness and wrinkles in images with increased or decreased contrast between facial skin and adjacent image regions. Increased contrast with …

A Baker's Dozen Of Top Antimicrobial Stewardship Intervention Publications In 2018, Elias B. Chahine, Spencer H. Durham, Krutika N. Mediwala, Daniel B. Chastain, Timothy P. Gauthier, Brandon K. Hill, Bruce M. Jones, Jamie J. Kisgen, Ashley H. Marx, Kayla R. Stover, Marylee V. Worley, Christopher M. Bland, P Brandon Bookstaver

Faculty Publications

With an increasing number of antimicrobial stewardship-related articles published each year, attempting to stay current is challenging. The Southeastern Research Group Endeavor (SERGE-45) identified antimicrobial stewardship-related peer-reviewed literature that detailed an actionable intervention for 2018. The top 13 publications were selected using a modified Delphi technique. These manuscripts were reviewed to highlight the actionable intervention used by antimicrobial stewardship programs to provide key stewardship literature for teaching and training as well as to identify potential intervention opportunities within one's institution.

Potential For Post-Fire Recovery Of Greater Sage-Grouse Habitat, Corinna Riginos, Thomas A. Monaco, Kari E. Veblen, Kevin Gunnell, Eric Thacker, David K. Dahlgren, Terry Messmer

Ecology Center Publications

In the western United States, fire has become a significant concern in the management of big sagebrush (Artemisia tridentata Nutt.) ecosystems. This is due to large‐scale increases in cover of the fire‐prone invasive annual cheatgrass (Bromus tectorum L.) and, concurrently, concerns about declining quantity and quality of habitat for Greater Sage‐grouse (Centrocercus urophasianus). The prevailing paradigm is that fire results in a loss of sage‐grouse habitat on timescales relevant to conservation planning (i.e., 1–20 yr), since sagebrush cover can take many more years to recover post‐fire. However, fire can have effects that improve sage‐grouse habitat, including …

Electrospray Photochemical Oxidation Of Proteins, Remilekun O. Lawal, Fabrizio Donnarumma, Kermit K. Murray

Faculty Publications

© 2019, American Society for Mass Spectrometry. Photooxidation of peptides and proteins by pulsed ultraviolet laser irradiation of an electrospray in the ion source of a mass spectrometer was demonstrated. A 193-nm excimer laser at 1.5-mJ pulse energy was focused with a cylindrical lens at the exit of a nanoelectrospray capillary and ions were sampled into a quadrupole time-of-flight mass spectrometer. A solution containing a peptide or protein and hydrogen peroxide was infused into the spray at a flow rate of 1 μL/min using a syringe pump. The laser creates OH radicals directly in the spray which modify biomolecules within …

Ronald P. Kiene: Major League Pitching Prospect, Avid Sports Fisherman, And Biogeochemist Who Probed The Mysteries Of The Oceanic Organosulfur Cycle, Ronald S. Oremland, Gary King, Pieter Visscher, Douglas G. Capone

Faculty Publications

No abstract provided.

Testing Predictability Of Disease Outbreaks With A Simple Model Of Pathogen Biogeography, Tad A. Dallas, Colin J. Carlson, Timothée Poisot

Faculty Publications

© 2019 The Authors. Published by the Royal Society under the terms of the Creative Commons Attribution License http://creativecommons.org/licenses/by/4.0/, which permits unrestricted use, provided the original author and source are credited. Predicting disease emergence and outbreak events is a critical task for public health professionals and epidemiologists. Advances in global disease surveillance are increasingly generating datasets that are worth more than their component parts for prediction-oriented work. Here, we use a trait-free approach which leverages information on the global community of human infectious diseases to predict the biogeography of pathogens through time. Our approach takes pairwise dissimilarities between countries’ pathogen …

Binding Site Matching In Rational Drug Design: Algorithms And Applications, Misagh Naderi, Jeffrey Mitchell Lemoine, Rajiv Gandhi Govindaraj, Omar Zade Kana, Wei Pan Feinstein, Michal Brylinski

Faculty Publications

© 2018 The Author(s) 2018. Published by Oxford University Press. All rights reserved. Interactions between proteins and small molecules are critical for biological functions. These interactions often occur in small cavities within protein structures, known as ligand-binding pockets. Understanding the physicochemical qualities of binding pockets is essential to improve not only our basic knowledge of biological systems, but also drug development procedures. In order to quantify similarities among pockets in terms of their geometries and chemical properties, either bound ligands can be compared to one another or binding sites can be matched directly. Both perspectives routinely take advantage of computational …

A Bayesian Adaptive Phase Ii Clinical Trial Design Accounting For Spatial Variation, Beibei Guo, Yong Zang

Faculty Publications

Conventional phase II clinical trials evaluate the treatment effects under the assumption of patient homogeneity. However, due to inter-patient heterogeneity, the effect of a treatment may differ remarkably among subgroups of patients. Besides patient’s individual characteristics such as age, gender, and biomarker status, a substantial amount of this heterogeneity could be due to the spatial variation across geographic regions because of unmeasured or unknown spatially varying environmental and social exposures. In this article, we propose a hierarchical Bayesian adaptive design for two-arm randomized phase II clinical trials that accounts for the spatial variation as well as patient’s individual characteristics. We …

Emergent Functional Behaviour Of Humic Substances Perceived As Complex Labile Aggregates Of Small Organic Molecules And Oligomers, Robert L. Cook

Faculty Publications

The structural organisation of humic substances (HS) has been a central question of earth sciences for several decades. The latest experimental results have led to the recognition of HS as complex mixtures of small molecules and oligomers. We investigate the correlation between the chemical composition of HS, perceived as labile aggregates, and the emergent functions. Computational modelling was used to help to understand the processes and mechanisms on the molecular scale that occur in different fractions of the HS, fulvic acids (FA) and humic acids (HA), as they interact with metal ions and organic pollutants. The importance of non-covalent interactions …

Avian Ecological Succession In The Amazon: A Long-Term Case Study Following Experimental Deforestation, Cameron L. Rutt, Vitek Jirinec

Faculty Publications

Approximately 20% of the Brazilian Amazon has now been deforested, and the Amazon is currently experiencing the highest rates of deforestation in a decade, leading to large-scale land-use changes. Roads have consistently been implicated as drivers of ongoing Amazon deforestation and may act as corridors to facilitate species invasions. Long-term data, however, are necessary to determine how ecological succession alters avian communities following deforestation and whether established roads lead to a constant influx of new species. We used data across nearly 40 years from a large-scale deforestation experiment in the central Amazon to examine the avian colonization process in a …

Effect Of F1 And F2 Generations On Genetic Variability And Working Steps Of Doubled Haploid Production In Maize, Evellyn Giselly De Oliveira Couto, Mayara Neves Cury, Massaine Bandeira E Souza, Ítalo Stefanine Correia Granato, Miriam Suzane Vidotti, Deoclécio Domingos Garbuglio, José Crossa, Juan Burgueño, Roberto Fritsche-Neto

Faculty Publications

For doubled haploid (DH) production in maize, F1 generation has been the most frequently used for haploid induction due to facility in the process. However, using F2 generation would be a good alternative to increase genetic variability owing to the additional recombination in meiosis. Our goals were to compare the effect of F1 and F2 generations on DH production in tropical germplasm, evaluating the R1-navajo expression in seeds, the working steps of the methodology, and the genetic variability of the DH lines obtained. Sources germplasm in F1 and F2 generations were crossed with the tropicalized haploid inducer LI-ESALQ. After harvest, …

“We Cannot Imagine”: Us Preservice Teachers’ Othering Of Trans And Gender Creative Student Experiences, Elizabeth E. Blair, Sherry L. Deckman

Publications and Research

Research suggests that teachers are not meeting the needs of trans and gender creative students. Thus, we ask: How do US preservice teachers (PSTs) discursively construct the experiences of trans and gender creative students? How are these constructions informed by and reinscribe broader gender normativities in educational contexts? We analyzed 549 PST authored, online discussion posts from an educational foundations course, finding PSTs lacked familiarity with and engaged in rhetorical distancing from trans and gender creative student experiences suggesting barriers to empathy that may obstruct teacher-student relationships and promotion of equity, which teacher education is called to address.

He Said, She Said: The Impact Of Language In Advertising On The Development Of A Feminist Identity, Alicia Fletcher

Honors Theses - Providence Campus

Little kids are often told they can be anything they want to be. Firefighter, princess, football player, and dragon are among the more popular answers. One of the less popular answers is “Feminist.” Very rarely, if ever, do young children declare that when they grow up, they want to be Feminists. So, how did so many people grow up to be Feminists? At what point do people realize that they can be both firefighter and Feminist, orthodontist and Feminist, or seamstress and Feminist? Though there is no set timeline, it begins when people start to develop identities and fundamental beliefs …

Cime Newsletter : November 2019, Cime

Centre for Innovation in Medical Education (CIME) Archives

-Pakistan Air Force Lands Again @ CIME
-SeeMe in Singapore!
-SeeMe in Finland!
-Healthcare Assistants refresh their skills
-SimMan takes drugs!
-Body Mechanics in Patient Moving and Handling
-Training in techniques of Continuous Renal Replacement Therapy (CRRT) Needs Simulation

A New 30 Meter Resolution Global Shoreline Vector And Associated Global Islands Database For The Development Of Standardized Ecological Coastal Units, Roger Sayre, Suzanne Noble, Sharon Hamann, Rebecca Smith, Dawn Wright, Sean Breyer, Kevin Butler, Keith Van Graafeiland, Charlie Frye, Deniz Karagulle, Dabney Hopkins, Drew Stephens, Kevin Kelly, Zeenatul Basher, Devon Burton, Jill Cress, Karina Atkins, D. Paco Van Sistine, Beverly Friesen, Revecca Allee, Tom Allen, Peter Aniello, Irawan Asaad, Mark John Costello, Kathy Goodin, Peter Harris, Maria Kavanaugh, Helen Lillis, Elonora Manca, Frank Muller-Karger, Bjorn Nyberg, Rost Parsons, Jusrin Saarinen, Jack Steiner, Adam Reed

Political Science & Geography Faculty Publications

A new 30-m spatial resolution global shoreline vector (GSV) was developed from annual composites of 2014 Landsat satellite imagery. The semi-automated classification of the imagery was accomplished by manual selection of training points representing water and non-water classes along the entire global coastline. Polygon topology was applied to the GSV, resulting in a new characterisation of the number and size of global islands. Three size classes of islands were mapped: continental mainlands (5), islands greater than 1 km² (21,818), and islands smaller than 1 km² (318,868). The GSV represents the shore zone land and water interface boundary, and …

Svtools: Population-Scale Analysis Of Structural Variation, David E Larson, Haley J Abel, Colby Chiang, Abhijit Badve, Indraniel Das, James M Eldred, Ryan M Layer, Ira M Hall

Open Access Publications

SUMMARY: Large-scale human genetics studies are now employing whole genome sequencing with the goal of conducting comprehensive trait mapping analyses of all forms of genome variation. However, methods for structural variation (SV) analysis have lagged far behind those for smaller scale variants, and there is an urgent need to develop more efficient tools that scale to the size of human populations. Here, we present a fast and highly scalable software toolkit (svtools) and cloud-based pipeline for assembling high quality SV maps-including deletions, duplications, mobile element insertions, inversions and other rearrangements-in many thousands of human genomes. We show that this pipeline …

Toward A Human Rights Framework For The Regulation Of Human Germline Genome Modification, Andrea Boggio, Cesare P. R. Romano, Jessica Almqvist

History and Social Sciences Faculty Book Publications

In the conclusions, the book editors assess the existing national and international regulatory frameworks in the light of the five foundational principles that they identified by reading international bioethics law in conjunction with international human rights standards: (i) freedom of research; (ii) benefit sharing; (iii) solidarity; (iv) respect for dignity; and (v) the obligation to respect and to protect the rights and individual freedoms of others. Their analysis reveals four issues common to most national regulatory frameworks as well as the international framework: (i) The prohibition to create embryos for research embryos cannot be reconciled with the right to science …

Critical Path For Project Development, Steven Douglas Kreis, Bryan Gibson, Jeff Jasper, Christopher W. Van Dyke, Candice Y. Wallace, Rachel Catchings, Sarah M. Mccormack

Kentucky Transportation Center Research Report

Overseeing the delivery of highway projects at the Kentucky Transportation Cabinet (KYTC) requires the successful coordination of activities and inputs from multiple external agencies and members of the agency’s Project Development team, who have varied disciplinary backgrounds. Despite the complexity of project delivery, the Cabinet presently does not estimate hours and project milestone dates until after it has selected a design consultant. Moving forward KYTC should explore requiring consultants to develop a critical path method (CPM) schedule. To facilitate this process, this report describes a methodology for producing CPMs for design contracts/projects based on procedures outlined in A Guide to …

The Empower Action Model: A Framework For Preventing Adverse Childhood Experiences By Promoting Health, Equity, And Well-Being Across The Life Span, Aditi Srivastav, Melissa Strompolis, Amy Moseley, Kelsay Shania Daniels

Faculty Publications

The empower action model addresses childhood adversity as a root cause of disease by building resilience across multiple levels of influence to promote health, equity, and well-being. The model builds on the current evidence around adverse childhood experiences and merges important frameworks within key areas of public health—the socio-ecological model, protective factors, race equity and inclusion, and the life course perspective. The socio-ecological model is used as the foundation for this model to highlight the multilevel approach needed for improvement in public health. Five key principles that build on the protective factors literature are developed to be applied at each …

Natal Environments Of Age‐0 Paddlefish In The Middle Mississippi River Inferred From Dentary Microchemistry, Neil P. Rude, Gregory Whitledge

Publications

Effective management and conservation of riverine fish species relies on identification of habitats that contribute recruits to fish populations. Paddlefish are an important commercial and recreational species inhabiting North American large rivers. However, despite knowledge of adult paddlefish movement patterns in large rivers, their principal natal environments and early life dispersal patterns remain unknown. Paddlefish dentary microchemistry can be used to identify natal environment of fish in large river networks such as the middle Mississippi River (MMR) and tributaries. The goals of this study were to (1) use dentary microchemistry (strontium:calcium ratios; Sr:Ca) to determine natal environment and potential drift …

Incorporating B Cell Activating Factor (Baff) Into The Membrane Of Rabies Virus (Rabv) Particles Improves The Speed And Magnitude Of Vaccine-Induced Antibody Responses., Joseph R Plummer, James P Mcgettigan

Department of Microbiology and Immunology Faculty Papers

B cell activating factor (BAFF) is a member of the tumor necrosis factor (TNF) superfamily of cytokines that links innate with adaptive immunity. BAFF signals through receptors on B cells, making it an attractive molecule to potentiate vaccine-induced B cell responses. We hypothesized that a rabies virus (RABV)-based vaccine displaying both antigen and BAFF on the surface of the same virus particle would target antigen-specific B cells for activation and improve RABV-specific antibody responses. To test this hypothesis, we constructed a recombinant RABV-based vector expressing virus membrane-anchored murine BAFF (RABV-ED51-mBAFF). BAFF was incorporated into the RABV particle and determined to …

Dynamics Of Trophoblast Differentiation In Peri-Implantation–Stage Human Embryos, Rachel C. West, Hao Ming, Deirdre M. Logsdon, Jiangwen Sun, Sandeep K. Rajput, Rebecca A. Kile, William B. Schoolcraft, R. Michael Roberts, Rebecca L. Krisher, Zongliang Jiang, Ye Yuan

Computer Science Faculty Publications

Single-cell RNA sequencing of cells from cultured human blastocysts has enabled us to define the transcriptomic landscape of placental trophoblast (TB) that surrounds the epiblast and associated embryonic tissues during the enigmatic day 8 (D8) to D12 peri-implantation period before the villous placenta forms. We analyzed the transcriptomes of 3 early placental cell types, cytoTB (CTB), syncytioTB (STB), and migratoryTB (MTB), picked manually from cultured embryos dissociated with trypsin and were able to follow sublineages that emerged from proliferating CTB at the periphery of the conceptus. A unique form of CTB with some features of STB was detectable at D8, …

Power Law Growth And Delayed Feedbacks In Socio‐Hydrological Systems, Anthony J. Parolari, Gabriele Manolia

Civil and Environmental Engineering Faculty Research and Publications

Water infrastructure dynamics result from coupled social and physical hydrological processes embedded in “socio‐hydrological systems” (SHSs). Freshwater fuels socioeconomic activity, which in turn exerts pressure on water resources through increased water demand and water quality degradation. Many factors emphasize the need for quantitative tools to predict the future of these systems, including SHS failures due to growing water scarcity from population growth and climate change. However, unfolding the interactions between social and hydrological factors continues to resist theoretical treatment, impeding progress toward a predictive framework. To resolve this issue, we propose and evaluate time delays as surrogates for the social …

Integrating Anthropogenic Factors Into Regional-Scale Species Distribution Models: A Novel Application In The Imperiled Sagebrush Biome, Juan M. Requena-Mullor, Kaitlin C. Maguire, Douglas J. Shinneman, Timothy Trevor Caughlin

Biology Faculty Publications and Presentations

Species distribution models (SDM) that rely on regional-scale environmental variables will play a key role in forecasting species occurrence in the face of climate change. However, in the Anthropocene, a number of local-scale anthropogenic variables, including wildfire history, land-use change, invasive species, and ecological restoration practices can override regional-scale variables to drive patterns of species distribution. Incorporating these human-induced factors into SDMs remains a major research challenge, in part because spatial variability in these factors occurs at fine scales, rendering prediction over regional extents problematic. Here, we used big sagebrush (Artemisia tridentata Nutt.) as a model species to …

Daily Eastern News: November 01, 2019, Eastern Illinois University

November

No abstract provided.

Natural Resource Condition Assessment, Tallgrass Prairie National Preserve, David S. Jones, Roy Cook, John Sovell, Christopher Herron, Jay Benner, Karin Decker, Andrew Beavers, Johannes Beebee, David Weinzimmer, Rob Schorr

United States National Park Service: Publications

Executive Summary

The National Park Service (NPS) Natural Resource Condition Assessment (NRCA) Program administered by the NPS Water Resources Division evaluates current conditions for important natural resources and resource indicators using primarily existing information and data. NRCAs also report on trends in resource condition when possible, identify critical data gaps, and characterize a general level of confidence for study findings. This NRCA complements historic resource assessments, is multi-disciplinary in scope, employs a hierarchical indicator framework, identifies and develops reference conditions/values for comparison against current conditions, and emphasizes spatial evaluation of conditions and GIS products.

Created in 1996, Tallgrass Prairie National …

Defining Components Of Early Functional Rehabilitation For Acute Achilles Tendon Rupture: A Systematic Review, Jennifer A Zellers, Marianne Christensen, Inge Lunding Kjær, Michael Skovdal Rathleff, Karin Grävare Silbernagel

Open Access Publications

Background: Early functional rehabilitation is frequently discussed in treating Achilles tendon rupture. A consistent definition of what constitutes early functional rehabilitation has not been established across the literature, despite studies supporting its efficacy. A standardized definition would be helpful to pool data across studies, allow for between-study comparisons, and ultimately work toward developing clinical guidelines.

Purpose: To define early functional rehabilitation (including when it is initiated and what it entails) when used to treat Achilles tendon rupture and to identify outcome measures for evaluating the effect of treatment.

Study Design: Systematic review; Level of evidence, 4.

Methods: Ovid MEDLINE, EMBASE, …