RNeXML: a package for reading and writing richly annotated phylogenetic, character, and trait data in R

NeXML is a powerful and extensible exchange standard recently proposed to better meet the expanding needs for phylogenetic data and metadata sharing. Here we present the RNeXML package, which provides users of the R programming language with easy-to-use tools for reading and writing NeXML documents, including rich metadata, in a way that interfaces seamlessly with the extensive library of phylogenetic tools already available in the R ecosystem

Junior Recital:Scott Grobstein, Bass

Kemp Recital Hall Saturday Afternoon March 25, 2000 3:00 p.m

Jejunal Diverticulitis: A Rare Case of Severe Peritonitis

A 25-year-old African American female with no prior medical/surgical history presented with abdominal pain and fever. A computed tomography scan of the abdomen and pelvis showed jejunal wall thickening with an air-fluid-filled mass in the adjacent mesentery. At laparotomy, a segmental jejunal resection with the abscess cavity followed by primary anastomosis was performed. Pathological evaluation of the specimen revealed a large mesenteric abscess contiguous with a perforated solitary jejunal diverticulum. We provide a discussion of jejunal diverticulitis as an unusual cause of peritonitis

Context dependent species interaction outcomes in ant-plant protection mutualisms

We often study the outcomes of species interactions, whether they be predation, competition, or mutualism, at one site in a single year. However, we increasingly recognize that species interaction outcomes are not static, but context dependent by varying along many ecological axes. Here, I asked to what extent and along what axes are ant-plant protection interactions, in which plants provide rewards for ants that in turn defend plants from herbivores, context dependent. First, a meta-analytic summary of published studies on ant-plant protection interactions revealed that interaction outcomes are on average mutualistic, and context dependency occurred due to plant reward type (domatia vs food bodies vs extrafloral nectaries), ant species richness, and latitude. Second, in a case study in the Sonoran Desert, extrafloral nectar production caused context dependent mutualistic and antagonistic ant-plant interactions, despite largely commensalistic interaction outcomes. These results suggest some ecological axes resulting in context dependency in mutualisms

VARIATION IN SPECIES INTERACTIONS AND THEIR EVOLUTIONARY CONSEQUENCES

Species interactions restrict or promote population growth, structure communities, and contribute to evolution of diverse taxa. I seek to understand how multiple species interactions are maintained, how human altered species interactions influence evolution, and explore factors that contribute to variation in species interactions. In Chapter 1, I examine how plants interact with multiple guilds of mutualists, many of which are costly interactions. The evolution of traits used to attract different mutualist guilds may be constrained due to ecological or genetic mechanisms. I asked if two sets of plant traits that mediate interactions with two guilds of mutualists, pollinators and ant bodyguards, were positively or negatively correlated across 36 species of Gossypium (cotton). Traits to attract pollinators were positively correlated with traits to attract ant bodyguards. Rather than interaction with one mutualist guild limiting interactions with another mutualist guild, traits have evolved to increase attraction of multiple mutualist guilds simultaneously. In Chapters 2 and 3, motivated by the fact that agriculture covers nearly 50% of the global vegetated land surface, I explore the consequences of changes in plant mutualist and antagonist guilds in agriculture for selection on plant traits. I first explore how agriculture alters abundance and community structure of mutualist pollinators and antagonist seed predators of wild Helianthus annuus texanus. Mutualists were more abundant near crops, whereas antagonists were more abundant far from crops near natural habitat. In addition, mutualist pollinator communities were more diverse near sunflower crops. Plant mutualists and antagonists respond differently to agriculture. Next, I explore how these changes in abundance and community structure of mutualists and antagonists influenced natural selection on H. a. texanus floral traits. Natural selection on heritable floral traits differed near versus far from crop sunflowers, and overall selection was more heterogeneous near crop sunflowers. Furthermore, mutualist pollinators and antagonist seed predators mediated these differences in selection. Finally, in Chapter 4, I ask if variation in interaction outcomes differs across types of species interactions. Furthermore, I examined the relative importance of factors that create context-dependency in species interactions. Using meta-analysis of 353 papers, we found that mutualisms were more likely to change sign of the interaction outcome when compared across contexts than competition, and predation was the least likely to change sign. Overall, species identity caused the greatest variation in interaction outcomes: whom you interact with is more important for context-dependency than where or when the interaction occurs. Additionally, the most important factors driving context-dependency differed significantly among species interaction types. Altogether, my work makes progress in understanding how species maintain interactions with multiple guilds of mutualists, how agriculture alters species interactions and subsequent natural selection, and the variation in species interaction outcomes and their causes

Eosinophilic Cholangitis and Cholangiopathy: A Sheep in Wolves Clothing

Background. Eosinophilic cholangitis (EC) is a rare benign disorder of the biliary tract which can cause biliary obstruction. Similar to other disease processes involving the bile ducts, this disorder can pose a difficult diagnostic challenge as it can mimic cholangiocarcinoma. Methods. A systematic search of the scientific literature was carried out using PubMed to access all publications related to EC. Search keywords that were utilized included “eosinophilic cholangitis,” “etiology,” “treatment,” and “obstructive jaundice.” Results. Twenty-three cases of EC have been reported. Nineteen patients (82.6%) who presented with EC remain disease-free; 15 of these 19 patients (78.9%) with followup time remain disease-free at a mean of 9.7 months (range, 2–24 months). Conclusion. EC is a rare form of biliary obstruction which can masquerade as a malignancy. Unlike cholangiocarcinoma, EC occurs more commonly in younger patients and in men. Most patients will require surgical treatment

Ranchers Feeding Kids: A Multi-Partner Approach to Programming

School districts face challenges to balance budgets and provide healthy meals. Oregon State University Extension agents joined with community partners to form Ranchers Feeding Kids (RFK). The program started with ranchers donating cattle that were harvested and processed for local schools\u27 lunch programs. An educational event taught youth about livestock production, its importance to the local economy, and beef\u27s health benefits. In 4 years, the program has grown to include 32 schools in 13 different school districts, providing over 5,500 students with meals. Forty donated cattle, with a value of over $40,000, have provided 30,000 pounds of beef to schools

Transitioning to an Active Learning Environment for Calculus at the University of Florida

In this note, we describe a large-scale transition to an active learning format in first-semester calculus at the University of Florida. Student performance and attitudes are compared across traditional lecture and flipped sections

Avoiding the road to nowhere: Policy insights on scaling up and sustaining digital health

The Principles for Digital Development, launched in 2017, outline 9 items to consider in designing digital health programs to mitigate predictable and preventable factors contributing to program failure (Principles for Digital Development 2020). These items include design with the user, understanding the existing ecosystem, scale design, building for sustainability, being data-driven, using open standards/data/source/ innovation, reuse, and improvement, addressing privacy and security, and being collaborative. This commentary has sought to be more specific than the broader principles and give a range of examples to provide a clearer path to action. As researchers and implementers, we draw on experiences of designing, implementing, and evaluating digital health solutions at a scale in several settings across Asia and Africa, while providing examples from India and South Africa to illustrate ten considerations to support the scale and sustainability of digital health solutions in LMICs. These can be categorized as (1) drivers of equity and unforeseen innovation; (2) foundations for a digital health ecosystem; and(3) elements for systems integration as detailed in Figur