2020-2021 Open Access Publishing Fund

Permanent URI for this collectionhttp://hdl.handle.net/10342/9396

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Open Access
Energy Status Differentially Modifies Feeding Behavior and POMCARC Neuron Activity After Acute Treadmill Exercise in Untrained Mice
(2021-06-18) Landry, Taylor; Shookster, Daniel; Chaves, Alec B.; Free, Katrina; Nguyen, Tony; Huang, Hu
Open Access
The smells of eternity: Aromatic oils and resins in the Phoenician mortuary record
(2021-09-30) Dixon, Helen
This chapter surveys and analyses the aromatic substances associated with burial and the preservation of the dead in the Iron Age Phoenician Levant (c. 1100–300 bce), as part of an exploration of the lost smellscapes of the ancient world. First, Phoenician vocabulary related to smelling and pungent substances is outlined and investigated. Then, a review of coastal Levantine archaeological and textual evidence, along with comparanda from the wider Mediterranean world, is used to establish the range of smells and substances that would have been associated with mortuary practice at this time. While oleo-resins in use in the burial record overlap to some degree with those used in everyday life—in perfumes, religious practice, and other uses of scented oils and incense—the unique constellations of aromatics used to inter the dead highlight the importance of these deeply mnemonic sensory elements in our understanding of the Iron Age past.
Open Access
A shallow water ferrous-hulled shipwreck reveals a distinct microbial community.
(2020-08-19) Price, K. A.; Garrison, C. E.; Richards, N.; Field, Erin K.
Shipwrecks act as artificial reefs and provide a solid surface in aquatic systems for many different forms of life to attach to, especially microbial communities, making them a hotspot of biogeochemical cycling. Depending on the microbial community and surrounding environment, they may either contribute to the wreck’s preservation or deterioration. Even within a single wreck, preservation and deterioration processes may vary, suggesting that the microbial community may also vary. This study aimed to identify the differences through widespread sampling of the microbial communities associated with the Pappy Lane shipwreck (NC shipwreck site #PAS0001), a shallow water ferrous-hulled shipwreck in Pamlico Sound, North Carolina to determine if there are differences across the wreck as well as from its surrounding environment. Loose shipwreck debris, drilled shipcores, surrounding sediment, and seawater samples were collected from the Pappy Lane shipwreck to characterize the microbial communities on and around the shipwreck. Results indicated that the shipwreck samples were more similar to each other than the surrounding sediment and aquatic environments suggesting they have made a specialized niche associated with the shipwreck. There were differences between the microbial community across the shipwreck, including between visibly corroded and non-corroded shipwreck debris pieces. Relative abundance estimates for neutrophilic iron-oxidizing bacteria (FeOB), an organism that may contribute to deterioration through biocorrosion, revealed they are present across the shipwreck and at highest abundance on the samples containing visible corrosion products. Zetaproteobacteria, a known class of marine iron-oxidizers, were also found in higher abundance on shipwreck samples with visible corrosion. A novel Zetaproteobacteria strain, Mariprofundus ferrooxydans O1, was isolated from one of the shipwreck pieces and its genome analyzed to elucidate the functional potential of the organism. In addition to iron oxidation pathways, the isolate has the genomic potential to perform carbon fixation in both high and low oxygen environments, as well as perform nitrogen fixation, contributing to the overall biogeochemical cycling of nutrients and metals in the shipwreck ecosystem. By understanding the microbial communities associated with shallow water ferrous-hulled shipwrecks, better management strategies and preservation plans can be put into place to preserve these artificial reefs and non-renewable cultural resources.
Open Access
Long-term nutrient enrichment of an oligotroph-dominated wetland increases bacterial diversity in bulk soils and plant rhizospheres.
(2020-05-20) Bledsoe, R. B.; Goodwillie, C.; Peralta, A. L.
In nutrient-limited conditions, plants rely on rhizosphere microbial members to facilitate nutrient acquisition, and in return, plants provide carbon resources to these root-associated microorganisms. However, atmospheric nutrient deposition can affect plant-microbe relationships by changing soil bacterial composition and by reducing cooperation between microbial taxa and plants. To examine how long-term nutrient addition shapes rhizosphere community composition, we compared traits associated with bacterial (fast-growing copiotrophs, slow-growing oligotrophs) and plant (C3 forb, C4 grass) communities residing in a nutrient-poor wetland ecosystem. Results revealed that oligotrophic taxa dominated soil bacterial communities and that fertilization increased the presence of oligotrophs in bulk and rhizosphere communities. Additionally, bacterial species diversity was greatest in fertilized soils, particularly in bulk soils. Nutrient enrichment (fertilized versus unfertilized) and plant association (bulk versus rhizosphere) determined bacterial community composition; bacterial community structure associated with plant functional group (grass versus forb) was similar within treatments but differed between fertilization treatments. The core forb microbiome consisted of 602 unique taxa, and the core grass microbiome consisted of 372 unique taxa. Forb rhizospheres were enriched in potentially disease-suppressive bacterial taxa, and grass rhizospheres were enriched in bacterial taxa associated with complex carbon decomposition. Results from this study demonstrate that fertilization serves as a strong environmental filter on the soil microbiome, which leads to distinct rhizosphere communities and can shift plant effects on the rhizosphere microbiome. These taxonomic shifts within plant rhizospheres could have implications for plant health and ecosystem functions associated with carbon and nitrogen cycling.
Open Access
Identifying the key barriers to promote sustainable construction in the United States: A principal component analysis
(2020-06-22) Karji, A.; Namian, M.; Tafazzoli, M.
The need to build more facilities has intensified the inherited adverse impacts of the construction industry on the triple bottom lines of sustainability (i.e., people, planet, and profit). The current practice of sustainability in the construction industry is far from reaching the targeted green goals. In order to foster these endeavors, this study aims to explore sustainable construction barriers in the United States. To achieve the objective, first, 12 sustainability barriers were identified based on an excessive and comprehensive literature review and solicitation of experts’ opinions to validate the barriers. Next, a questionnaire survey was developed and distributed among 135 industry professionals to evaluate the relative importance of factors. To offer a practical solution, principal component analysis (PCA) was used to analyze the data and find the most effective barriers. The results show that four major barriers, including (1) pre-construction constraints, (2) managerial constraints, (3) legislative constraints, and (4) financial and planning constraints are the most influential challenges that the industry faces to foster sustainable construction. Practical solutions are suggested to tackle sustainable construction barriers. The findings of this study are beneficial to the architecture, engineering, and construction (AEC) industry members along with owners and policymakers.
Open Access
Oculomotor behavior as a biomarker for differentiating pediatric patients with mild traumatic brain injury and age matched controls.
(2020-11-12) Hunfalvay, M.; Murray, N. P.; Roberts, C.; Tyagi, A.; Barclay, K. W.; Carrick, F. R.
Importance: Children have the highest incidence of mild traumatic brain injury (mTBI) in the United States. However, mTBI, specifically pediatric patients with mTBI, are notoriously difficult to detect, and with a reliance on traditional, subjective measurements of eye movements, the subtle but key oculomotor deficits are often missed. Objective: The purpose of this project is to determine if the combined measurement of saccades, smooth pursuit, fixations and reaction time represent a biomarker for differentiating pediatric patients with mild traumatic brain injury compared to age matched controls. Design: This study used cross-sectional design. Each participant took part in a suite of tests collectively labeled the “Brain Health EyeQ” to measure saccades, smooth pursuit, fixations and reaction time. Participants: The present study recruited 231 participants – 91 clinically diagnosed with a single incident mTBI in the last 2 days as assessed by both the Glasgow Coma Scale (GCS) and Graded Symptoms Checklist (GSC), and 140 age and gender-matched controls (n = 165 male, n = 66 female, M age = 14.20, SD = 2.78). Results: One-way univariate analyses of variance examined the differences in performance on the tests between participants with mTBI and controls. ROC curve analysis examined the sensitivity and specificity of the tests. Results indicated that together, the “Brain Health EyeQ” tests were successfully able to identify participants with mTBI 75.3% of the time, providing further validation to a growing body of literature supporting the use of eye tracking technology for mTBI identification and diagnosis.
Open Access
Multihazard hurricane fragility model for wood structure homes considering hazard parameters and building attributes interaction.
(2020-09-22) Massarra, C. C.; Friedland, C. J.; Marx, B. D.; Dietrich, J. C.
Predicting building damage as a function of hurricane hazards, building attributes, and the interaction between hazard and building attributes is a key to understanding how significant interaction reflects variation hazard intensity effect on damage based on building attribute levels. This paper develops multihazard hurricane fragility models for wood structure homes considering interaction between hazard and building attributes. Fragility models are developed for ordered categorical damage states (DS) and binary collapse/no collapse. Exterior physical damage and building attributes from rapid assessment in coastal Mississippi following Hurricane Katrina (2005), high-resolution numerical hindcast hazard intensities from the Simulating WAves Nearshore and ADvanced CIRCulation (SWAN+ADCIRC) models, and base flood elevation values are used as model input. Leave-one-out cross-validation (LOOCV) is used to evaluate model prediction accuracy. Eleven and forty-nine combinations of global damage response variables and main explanatory variables, respectively, were investigated and evaluated. Of these models, one DS and one collapse model met the rejection criteria. These models were refitted considering interaction terms. Maximum 3-s gust wind speed and maximum significant wave height were found to be factors that significantly affect damage. The interaction between maximum significant wave height and number of stories was the significant interaction term for the DS and collapse models. For every 0.3 m (0.98 ft) increase in maximum significant wave height, the estimated odds of being in a higher rather than in a lower damage state for DS model were found to be 1.95 times greater for one- rather than for two-story buildings. For every 0.3 m (0.98 ft) increase in maximum significant wave height, the estimated odds of collapse were found to be 2.23 times greater for one- rather than for two-story buildings. Model prediction accuracy was 84% and 91% for DS and collapse models, respectively. This paper does not consider the full hazard intensity experienced in Hurricane Katrina; rather, it focuses on single-family homes in a defined study area subjected to wind, wave, and storm surge hazards. Thus, the findings of this paper are not applicable for events with hazards that exceed those experienced in the study area, from which the models were derived.
Open Access
Screening of biocatalysts for synthesis of the Wieland-Miescher ketone.
(2020-09-16) Patel, M. P.; Green, N. T.; Burch, J. K.; Kew, K. A.; Hughes, R. M.
Lipases, a versatile class of biocatalysts, have been shown to function in non-aqueous media/organic solvents and to possess “promiscuous” catalytic activity for a wide range of organic transformations. In this study, we explored the biocatalytic properties of a library of commercially available lipases by screening them for catalysis of a one-pot synthesis of Wieland–Miescher ketone, an important intermediate in the synthesis of biologically active compounds such as steroids and terpenoids, from methyl vinyl ketone and 2-methyl-1,3-cyclohexanedione. As a direct outgrowth of this screen, we created an optimized procedure for Wieland–Miescher ketone (WMK) synthesis using crude lipase preparations, characterizing both reaction yield and enantiomeric excess. We also identified principal components of the crude lipase mixture through proteomics and present evidence for a non-lipolytic origin of the observed catalysis. Finally, using the optimized conditions developed in this study, we propose a general absorbance-based screening methodology for assessing biocatalytic potential of crude enzyme preparations for synthesis of WMK.
Open Access
Long-term nutrient enrichment, mowing, and ditch drainage interact in the dynamics of a wetland plant community.
(2020-10-16) Goodwillie, C.; McCoy, M. W.; Peralta, A. L.
Fertilization studies have elucidated basic principles of the role of nutrients in shaping plant communities and demonstrated the potential effects of anthropogenic nutrient deposition. Yet less is known about how these effects are mediated by interacting ecological factors, particularly in nutrient-poor wetland habitats. In a long-term experiment in a coastal plain wetland, we examined how fertilization and mowing affected the diversity and composition of a plant community as it reestablished after major disturbance. A drainage ditch in proximity to the experimental plots allowed us also to consider the influence of hydrology and its interactions with nutrient addition. Fertilization decreased species richness, with wetland specialist species showing especially great losses, and several lines of evidence suggest that the effect was mediated by competition for light. Altered hydrology via ditch drainage had effects that were similar to fertilization, with more rapidly draining plots showing lower diversity and decreased abundance of wetland species. Plant community diversity and dynamics were influenced by complex interactions between fertilization, disturbance, and hydrology. The negative effect of fertilization on species richness was initially mitigated by mowing, but in later years was more evident in mowed than in unmowed plots. In the absence of disturbance, nutrient addition increased the rate of transition to primarily woody communities. Similarly, drained plots experienced increased rates of succession compared to wetter plots. Our results suggest that these interactions need to be considered to understand the potential effects of anthropogenic nutrient addition and hydrologic alterations to wetland ecosystems.
Open Access
Trends in illegal wildlife trade: Analyzing personal baggage seizure data in the Pacific Northwest.
(2020-06-10) Hitchens, R. T.; Blakeslee, April
The illegal import of wildlife and wildlife products is a growing concern, and the U.S. is one of the world’s leading countries in the consumption and transit of illegal wildlife and their derivatives. Yet, few U.S. studies have analyzed the illegal wildlife trade (IWT) on a national or local scale. Moreover, to our knowledge, no studies have specifically examined the trends associated with IWT moving through personal baggage. This work aimed to better understand the magnitude of illegal wildlife importation into U.S. ports of entry by determining trends associated with illegal wildlife products from personal baggage seizures, using the Pacific Northwest (PNW) as a specific case study. To identify the most influential factors determining the numbers and types of personal baggage seizures into PNW, we analyzed 1,731 records between 1999 and 2016 from the Fish and Wildlife Service’s (FWS) Law Enforcement Management Information System (LEMIS) database. We found five significant contributors: taxonomic classification of wildlife, categorical import date, wildlife product, source region, and the Convention on International Trade in Endangered Species of Wild Fauna and Flora (CITES) status. While wildlife seizures across taxonomic categories have generally decreased in the PNW since 2008, other findings provide a reason for concern. More specifically, mammals were identified as the largest animal group of seized wildlife, and temporal trends indicate increases in seizures for this and several other taxonomic groups. Many of the seizures originated from overseas, with East Asia serving as the largest source. Our PNW case study can be a model for how large-scale geographical seizure data can be used to inform about the major factors that have historically and presently contribute to IWT, with conservation implications globally.
Open Access
Can GPR4 be a potential therapeutic target for COVID-19?
(2021-01-21) Yang, L. V.; Oppelt, K. A.; Thomassen, M. J.; Marie, M. A.; Nik Akhtar, S.; McCallen, J. D.
Coronavirus disease 19 (COVID-19), caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), first emerged in late 2019 and has since rapidly become a global pandemic. SARS-CoV-2 infection causes damages to the lung and other organs. The clinical manifestations of COVID-19 range widely from asymptomatic infection, mild respiratory illness to severe pneumonia with respiratory failure and death. Autopsy studies demonstrate that diffuse alveolar damage, inflammatory cell infiltration, edema, proteinaceous exudates, and vascular thromboembolism in the lung as well as extrapulmonary injuries in other organs represent key pathological findings. Herein, we hypothesize that GPR4 plays an integral role in COVID-19 pathophysiology and is a potential therapeutic target for the treatment of COVID-19. GPR4 is a pro-inflammatory G protein-coupled receptor (GPCR) highly expressed in vascular endothelial cells and serves as a “gatekeeper” to regulate endothelium-blood cell interaction and leukocyte infiltration. GPR4 also regulates vascular permeability and tissue edema under inflammatory conditions. Therefore, we hypothesize that GPR4 antagonism can potentially be exploited to mitigate the hyper-inflammatory response, vessel hyper-permeability, pulmonary edema, exudate formation, vascular thromboembolism and tissue injury associated with COVID-19.
Open Access
Hyaluronan regulates synapse formation and function in developing neural networks.
(2020-10-05) Wilson, E.; Knudson, W.; Newell-Litwa, K.
Neurodevelopmental disorders present with synaptic alterations that disrupt the balance between excitatory and inhibitory signaling. For example, hyperexcitability of cortical neurons is associated with both epilepsy and autism spectrum disorders. However, the mechanisms that initially establish the balance between excitatory and inhibitory signaling in brain development are not well understood. Here, we sought to determine how the extracellular matrix directs synapse formation and regulates synaptic function in a model of human cortical brain development. The extracellular matrix, making up twenty percent of brain volume, is largely comprised of hyaluronan. Hyaluronan acts as both a scaffold of the extracellular matrix and a space-filling molecule. Hyaluronan is present from the onset of brain development, beginning with neural crest cell migration. Through acute perturbation of hyaluronan levels during synaptogenesis, we sought to determine how hyaluronan impacts the ratio of excitatory to inhibitory synapse formation and the resulting neural activity. We used 3-D cortical spheroids derived from human induced pluripotent stem cells to replicate this neurodevelopmental window. Our results demonstrate that hyaluronan preferentially surrounds nascent excitatory synapses. Removal of hyaluronan increases the expression of excitatory synapse markers and results in a corresponding increase in the formation of excitatory synapses, while also decreasing inhibitory synapse formation. This increased excitatory synapse formation elevates network activity, as demonstrated by microelectrode array analysis. In contrast, the addition of purified hyaluronan suppresses excitatory synapse formation. These results establish that the hyaluronan extracellular matrix surrounds developing excitatory synapses, where it critically regulates synapse formation and the resulting balance between excitatory to inhibitory signaling.
Open Access
Research recruitment: A case study on women with substance use disorder.
(2021-03-12) Cook, Kristy J.; Larson, K.
Women with substance use disorder may evade research participation because of individual and societal factors. Limited information exists on recruitment of women with substance use disorder. The purpose of this study was to delineate recruitment challenges among women with substance use disorder and identify successful recruitment strategies. An exploratory case study was used to examine recruitment of women with substance use disorder. This case study was informed by a pilot study in 2017-2018, where data were generated from 25 direct observations and three key informants from a drug rehabilitation treatment agency. Analysis took an explanation-building approach, which incorporated chronological field notes from direct observations, memos from key informant conversations, and the extant literature to revise our initial proposition. Macro-level contextual factors influencing recruitment were: (a) establishment of a triage system, (b) reactivation of agency ethics committee, (c) scheduled accreditation site visits, (d) varied guidelines, and (e) required treatment regimen. Recruitment may benefit from multiple sites, staff training in protocol, increased researcher presence, and the opportunity for women’s voices to be heard. This study advances knowledge of macro-level challenges faced during recruitment of women with substance use disorder in southeast USA. Indirect and direct recruitment, when combined, could maximize participation.
Open Access
A comparison of two keyboarding instruction methods over 2 years for elementary students.
(2021-07) Donica, Denise; Giroux, P.; Kim, Y. J.; Branson, Sydney
Background: As computer and digital device use continues to grow in prevalence for school and work tasks, it is important for elementary-aged students to develop efficient keyboarding skills to support future academic and vocational success. Method: A quasi-experimental pre-test and post-test study design was used to compare the effect of two different keyboarding instructional approaches on elementary students over a consecutive 2-year period. One group used Keyboarding Without Tears (KWT; N = 592) both years while the other group used free web-based activities the first year and Keyboarding Without Tears the second year (mixed methods; N = 714). Keyboarding speed, accuracy, and technique were measured at the beginning and end of the 2-year period. Results: The results showed significant improvements in keyboarding speed and accuracy in both groups for all grades favoring the KWT in second, third, and fourth grade. Improvements in keyboarding technique were also noted for both schools in all grades favoring the KWT group in all grades. Conclusion: Although improvements were noted with both approaches, this study suggests stronger outcomes from those using KWT over 2 consecutive years, especially beginning in first grade and ending in fourth grade.
Open Access
Defragmentation of in-vitro fertilization blastocyst stage embryos leading to rescued blastocyst expansion and clinical pregnancy
(2020-10-19) Chae-Kim, Jennifer J.; Waggener, K.; Gavrilova-Jordan, L.
Embryo fragmentation, or extrusion of cell fragments, is a naturally occurring phenomenon that may be associated with impaired embryo development, failed implantation and decreased pregnancy rates. Previous studies have shown improvement in clinical outcomes after microsurgery to aspirate these cell fragments from embryos early during the embryo cleavage process. This case series of three patients with infertility showcases the successful application of the defragmentation technique in blastocyst stage embryos after in-vitro fertilization. The timing of defragmentation allows for better identification of those growth-arrested embryos that would benefit from “rescue” defragmentation. All three embryos demonstrated continued expansion and development after defragmentation, and resulted in clinical pregnancies.
Open Access
Exploring Interactive Survivorship Care Plans to Support Breast Cancer Survivors: Protocol for a Randomized Controlled Trial
(2020-12-04) Kapoor, A.; Nambisan, P.
Background: Breast cancer is the most common form of cancer among American women, accounting for 23% of all cancer survivors nationally. Yet, the availability of adequate resources and tools for supporting breast cancer survivors has not kept up with the rapid advancement in treatment options, resulting in unmet supportive care needs, particularly among low-income and minority populations. This study explores an alternative means of delivering breast cancer survivorship care plans (SCPs), with the aim of improving survivor morbidity, patient knowledge, and self-management of treatment-related symptoms, as well as addressing inconsistencies in follow-up care visits. Objective: The overall goal of this study is to improve the uptake of SCP recommendations via an educational intervention for breast cancer survivors, to improve treatment-related morbidity, patient knowledge, self-management, and adherence to follow-up visits. The specific aims of the study are to (1) evaluate the feasibility of the online SCP, and (2) assess the impact of the online SCP on survivorship outcomes. Methods: We will enroll 50 breast cancer survivors who have completed initial breast cancer treatment into a 2-armed, randomized, waitlist-controlled pilot trial, and collect data at baseline and 6 months. For the first aim, we will use mixed methods, including surveys and personal interviews among the intervention group, to determine the feasibility of providing an online, interactive SCP (called ACESO) based on the survivors’ online user experience and their short-term adoption. For the secondary aim, we will compare the 2 groups to assess the primary outcomes of survivor knowledge, self-efficacy for self-management, perceived peer support, and adherence to SCP-recommended posttreatment follow-up visits to oncology and primary care; and the secondary outcomes of treatment-related morbidity (body weight, fatigue, depression, anxiety, sexual function, distress, and sleep quality). We assess these outcomes by using measurements from validated instruments with robust psychometric properties. Results: We have developed and refined the online breast cancer survivorship plan, ACESO, with consultation from breast cancer oncologists, nurses, and survivors. Approval for the study protocol has been obtained from the Institutional Review Board. An advisory board has also been established to provide oversight and recommendations on the conduct of the study. The study will be completed over a period of 2 years. Conclusions: The results of this pilot study will inform the feasibility and design of a larger-scale pragmatic trial to evaluate the impact of an online breast cancer SCP on treatment-related morbidity and self-efficacy for self-management.
Open Access
In-hospital mortality trends among patients with idiopathic pulmonary fibrosis in the United States between 2013-2017: a comparison of academic and non-academic programs
(2020-11-07) Alqalyoobi, Shehabaldin; Fernández Pérez, E. R.; Oldham, J. M.
Background Idiopathic pulmonary fibrosis (IPF) is a devastating condition characterized by progressive lung function decline and early mortality. While early accurate diagnosis is essential for IPF treatment, data evaluating the impact of hospital academic status on IPF-related mortality remains limited. Here we examined in-hospital mortality trends for patients with IPF from 2013 to 2017. We hypothesized that in-hospital IPF mortality would be influenced by hospital academic setting. Methods Hospitalization data was extracted from the National Inpatient Sample (NIS) for subjects with an international classification of disease code for IPF. In-hospital mortality stratified by hospital setting (academic versus non-academic) was the primary outcome of interest, with secondary analyses performed for subgroups with and without respiratory failure and requiring mechanical ventilation. Predictors of mortality were then assessed. Results Among 93,680 patients with IPF requiring hospitalization, 58,450 (62.4%) were admitted to academic institutions. In-hospital mortality decreased significantly in those admitted to an academic hospital (p < 0.001) but remained unchanged in patients admitted to a non-academic hospital. A plateau in-hospital mortality was observed among all hospitalized patients (p = 0.12), with a significant decrease observed for patients with admitted respiratory failure (p < 0.001) and those placed on mechanic ventilation (p < 0.001). Conclusion In-hospital mortality decreased significantly for patients with IPF admitted to an academic hospital, suggesting that management strategies may differ by hospital setting. Mortality among those with respiratory failure and those requiring mechanical ventilation has dropped significantly. Our findings may underscore the importance of promoting early referral to an academic institution and adherence to international treatment guidelines.

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