Differences in Sockeye Salmon Antibody Composition: Testing The Immunological Imprinting Hypothesis

Anadromous fish such as sockeye salmon return to their natal streams to spawn, during which they undergo significant physiological changes including the release of cortisol, a known immunosuppressive hormone. Our lab has proposed the Immunological Imprinting Hypothesis, which suggests that juvenile anadromous fish respond to pathogens specific to their natal site by producing protective long lived plasma cells (LLPCs) that constitutively produce antibodies against those pathogens. These LLPCs are believed to be highly cortisol resistant. Thus, fish returning to their natal streams have immunological protection from pathogens found at that specific location. I investigated the Immunological Imprinting Hypothesis through analysis of antibody composition and usage. Since 2009 samples of Sockeye Salmon spleen and anterior kidney have been harvested from two separate salmon runs in Alaska. Using quantitative PCR (qPCR) I examined the relative usage levels of specific VH gene families between fish at different locations. to further investigate the “pathogen fingerprint” of given spawning sites, I also performed qPCR analysis in order to compare the pathogen loads of multiple pathogens from different sites, including Bacterial Kidney Disease (Renibacterium salmoninarum), Bacterial Coldwater Disease (Flavobacterium psychrophilum), and Infectious Hematopoietic Necrosis Virus (IHNV). Analysis of VH family usage suggests that differences exist between certain spawning locations not only for selected individual VH families, but also for multiple VH families analyzed simultaneously. Likewise, pathogen loads and infection rates are found to differ frequently between many spawning sites, while probability of infection is shown to be dependent on location for each pathogen analyzed. Analysis of VH usage and pathogen loads suggests several correlations that exist between specific usage patterns and lower pathogenic loads. Greater understanding of spawning fish immune functioning can potentially suggest a method of natural immunization against common fish pathogens and thus protect both farmed and wild populations. These differences in VH usage patterns and pathogen infection rates between spawning sites provide strong evidence in support of the Immunological Imprinting Hypothesis

Quantitative assessment of pore types and pore size distribution across thermal maturity, Eagle Ford Formation, South Texas

textScanning electron microscopy of Ar-ion milled samples from the Eagle Ford Formation, South Texas shows that the character and abundance of porosity changes significantly across burial conditions as a result of compaction, cementation, bitumen generation, and generation of secondary porosity within organic matter (OM). Samples displaying a range of compositions and maturities are imaged and quantified to provide insight into the effects of these processes. Porosity in low-maturity samples (Ro~0.5%) is volumetrically dominated (0.1% -12.5% bulk volume, average 6.2%) by relatively large, mostly interparticle, primary mineral-associated pores (median sizes range 35.9-52.7 nm). Larger pores are generally associated with coccolith debris that is commonly aggregated into pellets. Porosity and pore size correlate directly with calcite abundance and inversely with OM volumes. OM is dominantly detrital kerogen "stringers" that range in size and have spatial distributions and character suggestive of detrital origin. Destruction of primary porosity in low-maturity samples has occurred due to compaction of ductile kerogen and clays and, to a minor degree, as a result of cementation and infill of early bitumen. Smaller, secondary OM-hosted pores (median size range 11.1-14.9 nm) volumetrically dominate porosity (0.02%-3.6% bulk volume, average of 1.36%), in most high-maturity samples (Ro~1.2%-1.3%). Mineral-associated pores are present, but are typically smaller (median size range from 20.3-40.6 nm) and less abundant (0.0%-10.0% bulk volume, average of 2.5%) than at low maturity. Abundant mineral-associated porosity is present locally in samples where incursion of primary pore space by bitumen has not occurred. OM within high-maturity samples is distributed more evenly throughout the rock fabric, occupying spaces similar in size and morphology to primary interparticle pores, coating euhedral crystals (probable cements), and filling intraparticle porosity. These observations, and positive correlation between calcite and OM volumes (OM-hosted pore volume included) in samples with dominantly OM-hosted pore networks, suggests that a large portion of OM within high-maturity samples is diagenetic in origin and has filled primary pore space. Destruction of primary porosity in high-maturity samples has occurred through cementation, bitumen infill, and, possibly greater compaction. Additional porosity, however, has been generated through maturation of OM.Geological Science

Effects of the criminalization of HIV transmission in Cuerrier on men reporting unprotected sex with men

This paper reports on the perceptions and practices of men who have frequent unprotected sex with men in a socio-legal environment defined by the 1998 decision of the Supreme Court of Canada in R. v. Cuerrier. HIV-positive people are increasingly finding themselves in court since Cuerrier and many are trying to take account of legal reasoning in their own conduct. The judicial construction of behaviour likely to transmit HIV relies on a set of presumptions concerning individual responsibility, rational and contractual interaction, and consenting adults that raise a series of ambiguities and uncertainties among HIV-positive people attempting to implement them in everyday life. While some express support for the reasoning in Cuerrier, others struggle with practical dilemmas in sexual interaction, and a minority strand of ethical reasoning advances a “buyer beware” principle. This latter view occurs in a social environment where HIV-positive people experience strong disincentives to disclose in the face of potential rejection or discrimination once their sero-status is known. Examination of the social consequences of Cuerrier raises questions about the viability of relying on the enforcement of disclosure, through threat of criminal prosecution, as an effective method of HIV prevention, especially when most practical, day-to-day HIV prevention occurs when safer sex is practised consistently regardless of disclosure

When young people in and leaving state care become parents: What happens and why?

This paper is concerned with outcomes for young parents in and leaving care and draws on findings from a post-doctoral fellowship study conducted within the Children's Social Care Research and Development Centre (CASCADE) at Cardiff University. Over the course of the research, 258 parents in and leaving care were identified aged between 16 and 21 were identified by 20 out of the 22 local authorities in Wales. These parents had a total of 238 children and there were 44 on-going pregnancies. 74% of children were living with at least one biological parent, however 26% of children identified in the study were separated from their parents at the time of data collection; 10% of children were in the care of local authority carers, 9% with adoptive carers and a further 7% living with friends and family. Interviews with social care professionals suggested that success in parenthood is possible for young people in and leaving care if they are prepared to do ‘whatever is required’. Typically, this meant engaging with professionals, evidencing personal responsibility and demonstrating a commitment to positive parenting. Yet despite such emphasis on individual choice and determination, a wide range of support needs were identified by professionals and it was acknowledged that young people had limited control over key factors influencing parenting success

Integrated multi-trophic aquaculture mitigates the effects of ocean acidification: Seaweeds raise system pH and improve growth of juvenile abalone

Integrated multi-trophic aquaculture (IMTA) has the potential to enhance growth, reduce nutrient loads, and mitigate environmental conditions compared to traditional single-species culture techniques. The goal of this project was to develop a land-based system for the integrated culture of seaweeds and shellfish, to test the efficacy of integrated versus non-integrated designs, and to assess the potential for IMTA to mitigate the effects of climate change from ocean acidification on shellfish growth and physiology. We utilized the red abalone (Haliotis rufescens) and the red seaweed dulse (Devaleraea mollis) as our study species and designed integrated tanks at three different recirculation rates (0%, 30%, and 65% recirculation per hour) to test how an integrated design would affect growth rates of the abalone and seaweeds, modify nutrient levels, and change water chemistry. We specifically hypothesized that IMTA designs would raise seawater pH to benefit calcifying species. Our results indicated that juvenile abalone grew significantly faster in weight (22% increase) and shell area (11% increase) in 6 months in tanks with the highest recirculation rates (65%). The 65% recirculation treatment also exhibited a significant increase in mean seawater pH (0.2 pH units higher) due to the biological activity of the seaweed in the connected tanks. We found a significant positive relationship between the mean pH of seawater in the tanks and juvenile abalone growth rates across all treatments. There were no significant differences in the growth of dulse among treatments, but dulse growth did vary seasonally. Seawater phosphate and nitrate concentrations were depleted in the highest recirculation rate treatment, but ammonium concentrations were elevated, likely due to the abalone effluent. Overall, our results indicate that there are benefits to IMTA culture of seaweeds and abalone in terms of improving growth in land-based systems, which will reduce the time to market and buffer commercial abalone operations against the effects of ocean acidification during vulnerable early life stages

Brain-age in midlife is associated with accelerated biological aging and cognitive decline in a longitudinal birth-cohort

An individual’s brainAGE is the difference between chronological age and age predicted from machine-learning models of brain-imaging data. BrainAGE has been proposed as a biomarker of age-related deterioration of the brain. Having an older brainAGE has been linked to Alzheimer’s, dementia and mortality. However, these findings are largely based on cross-sectional associations which can confuse age differences with cohort differences. To illuminate the validity of brainAGE as a biomarker of accelerated brain aging, a study is needed of a large cohort all born in the same year who nevertheless vary on brainAGE. In the Dunedin Study, a population-representative 1972–73 birth cohort, we measured brainAGE at age 45 years, as well as the pace of biological aging and cognitive decline in longitudinal data from childhood to midlife (N=869). In this cohort, all chronological age 45 years, brainAGE was measured reliably (ICC=.81) and ranged from 24 to 72 years. Those with older midlife brainAGEs tended to have poorer cognitive function in both adulthood and childhood, as well as impaired brain health at age 3. Furthermore, those with older brainAGEs had an accelerated pace of biological aging, older facial appearance and early signs of cognitive decline from childhood to midlife. These findings help to validate brainAGE as a potential surrogate biomarker for midlife intervention studies that seek to measure dementia-prevention efforts in midlife. However, the findings also caution against the assumption that brainAGE scores represent only age-related deterioration of the brain as they may also index central nervous system variation present since childhood

Manacled to Identity: Cosmopolitanism, Class, and ‘The Culture Concept’ in Stephen Crane

This article begins with a close reading of Stephen Crane’s short story ‘Manacled’ from 1900, which situates this rarely considered short work within the context of contemporary debates about realism. I then proceed to argue that many of the debates raised by the tale have an afterlife in our own era of American literary studies, which has frequently focused on questions of ‘identity’ and ‘culture’ in its reading of realism and naturalism to the exclusion of the importance of cosmopolitan discourses of diffusion and exchange across national borders. I then offer a brief reading of Crane’s novel George’s Mother, which follows Walter Benn Michaels in suggesting that the recent critical attention paid to particularities of cultural difference in American studies have come to conflate ideas of class and social position with ideas of culture in ways that have ultimately obscured the presence of genuine historical inequalities in US society. In order to challenge this critical commonplace, I situate Crane’s work within a history of transatlantic cosmopolitanism associated with the ideas of Franz Boas and Matthew Arnold to demonstrate the ways in which Crane’s narratives sought out an experience of the universal within their treatments of the particular

Perioperative complications among head and neck surgery patients with COVID-19

Background: Patients undergoing surgery for head and neck cancer (HNC) have potentially high perioperative complication rates. Recent studies indicate that preoperative COVID-19 infection poses increased risk for postoperative complications in other fields. However, to date, there has not been data showing the effect of COVID-19 on complication rates for HNC. Here, a large database was employed to assess if perioperative COVID-19 increased the risk of perioperative complications among those undergoing HNC surgery. Methods: A retrospective investigation was conducted using a multi-institutional research database. Subjects who underwent HNC surgery from January 2020 to September 2022 were identified using the International Classification of Diseases and Current Procedure Terminology codes. Thirty-day surgical and medical complications were assessed for those diagnosed with COVID-19 infection from 7 days before or after surgery compared to those who were COVID-19 negative. Cohorts were propensity scores matched by age, sex, and race. Results: Perioperative COVID-19 was present in n = 208 and absent in n = 15 158 subjects that underwent HNC surgery. For unmatched analyses, there was a statistically significant increased risk in the 30-day postoperative period in COVID-19-positive patients for the following surgical complications: surgical site fistula, free tissue transfer (FTT) complication, FTT failure, and death. Additionally, there was a statistically significant increased risk in the 30-day postoperative period in COVID-19-positive patients for the following medical complications: ventilator support, pneumonia, vasopressor, acute renal failure, and myocardial infarction. Conclusion: This large, retrospective populational study suggests HNC patients are at increased risk for death and several perioperative complications. This investigation is the first to address this clinical question

Performance Evaluation of Cetacean Species Distribution Models Developed Using Generalized Additive Models and Boosted Regression Trees

Species distribution models (SDMs) are important management tools for highly mobile marine species because they provide spatially and temporally explicit information on animal distribution. Two prevalent modeling frameworks used to develop SDMs for marine species are generalized additive models (GAMs) and boosted regression trees (BRTs), but comparative studies have rarely been conducted; most rely on presence-only data; and few have explored how features such as species distribution characteristics affect model performance. Since the majority of marine species BRTs have been used to predict habitat suitability, we first compared BRTs to GAMs that used presence/absence as the response variable. We then compared results from these habitat suitability models to GAMs that predict species density (animals per km2) because density models built with a subset of the data used here have previously received extensive validation. We compared both the explanatory power (i.e., model goodness of fit) and predictive power (i.e., performance on a novel dataset) of the GAMs and BRTs for a taxonomically diverse suite of cetacean species using a robust set of systematic survey data (1991–2014) within the California Current Ecosystem. Both BRTs and GAMs were successful at describing overall distribution patterns throughout the study area for the majority of species considered, but when predicting on novel data, the density GAMs exhibited substantially greater predictive power than both the presence/absence GAMs and BRTs, likely due to both the different response variables and fitting algorithms. Our results provide an improved understanding of some of the strengths and limitations of models developed using these two methods. These results can be used by modelers developing SDMs and resource managers tasked with the spatial management of marine species to determine the best modeling technique for their question of interest

Performance evaluation of cetacean species distribution models developed using generalized additive models and boosted regression trees

Species distribution models (SDMs) are important management tools for highly mobile marine species because they provide spatially and temporally explicit information on animal distribution. Two prevalent modeling frameworks used to develop SDMs for marine species are generalized additive models (GAMs) and boosted regression trees (BRTs), but comparative studies have rarely been conducted; most rely on presence-only data; and few have explored how features such as species distribution characteristics affect model performance. Since the majority of marine species BRTs have been used to predict habitat suitability, we first compared BRTs to GAMs that used presence/absence as the response variable. We then compared results from these habitat suitability models to GAMs that predict species density (animals per km2) because density models built with a subset of the data used here have previously received extensive validation. We compared both the explanatory power (i.e., model goodness of fit) and predictive power (i.e., performance on a novel dataset) of the GAMs and BRTs for a taxonomically diverse suite of cetacean species using a robust set of systematic survey data (1991–2014) within the California Current Ecosystem. Both BRTs and GAMs were successful at describing overall distribution patterns throughout the study area for the majority of species considered, but when predicting on novel data, the density GAMs exhibited substantially greater predictive power than both the presence/absence GAMs and BRTs, likely due to both the different response variables and fitting algorithms. Our results provide an improved understanding of some of the strengths and limitations of models developed using these two methods. These results can be used by modelers developing SDMs and resource managers tasked with the spatial management of marine species to determine the best modeling technique for their question of interest