Bioeconomic Model of Rainbow Trout (\u3cem\u3eOncorhynchus mykiss\u3c/em\u3e) and Humpback Chub (\u3cem\u3eGila cypha\u3c/em\u3e) Management in the Grand Canyon

The Colorado River, from Glen Canyon Dam (GCD) to the Little Colorado River (LCR) confluence, includes both non-native Rainbow Trout (Oncorhynchus mykiss) and endangered native Humpback Chub (Gila cypha). While both Rainbow Trout and Humpback Chub are valued fish species in this system, Rainbow Trout can have a negative effect on Humpback Chub survival. We developed a bioeconomic model to determine management actions that minimize the costs of controlling Rainbow Trout abundance subject to achieving Humpback Chub population goals. The model is compartmentalized into population and management components. The population component characterizes the stylized dynamics of Rainbow Trout and Humpback Chub from GCD to the LCR confluence within the Colorado River. The management component of the model identifies Rainbow Trout mechanical removal strategies that achieve average annual juvenile Humpback Chub survival targets while minimizing management costs. This research is an interdisciplinary effort combining biological models and economic methods to address federal, state and tribal stakeholder resource goals related to Rainbow Trout and Humpback Chub management in this complex social-ecological system

An international effort towards developing standards for best practices in analysis, interpretation and reporting of clinical genome sequencing results in the CLARITY Challenge

There is tremendous potential for genome sequencing to improve clinical diagnosis and care once it becomes routinely accessible, but this will require formalizing research methods into clinical best practices in the areas of sequence data generation, analysis, interpretation and reporting. The CLARITY Challenge was designed to spur convergence in methods for diagnosing genetic disease starting from clinical case history and genome sequencing data. DNA samples were obtained from three families with heritable genetic disorders and genomic sequence data were donated by sequencing platform vendors. The challenge was to analyze and interpret these data with the goals of identifying disease-causing variants and reporting the findings in a clinically useful format. Participating contestant groups were solicited broadly, and an independent panel of judges evaluated their performance. RESULTS: A total of 30 international groups were engaged. The entries reveal a general convergence of practices on most elements of the analysis and interpretation process. However, even given this commonality of approach, only two groups identified the consensus candidate variants in all disease cases, demonstrating a need for consistent fine-tuning of the generally accepted methods. There was greater diversity of the final clinical report content and in the patient consenting process, demonstrating that these areas require additional exploration and standardization. CONCLUSIONS: The CLARITY Challenge provides a comprehensive assessment of current practices for using genome sequencing to diagnose and report genetic diseases. There is remarkable convergence in bioinformatic techniques, but medical interpretation and reporting are areas that require further development by many groups

Vaccine breakthrough hypoxemic COVID-19 pneumonia in patients with auto-Abs neutralizing type I IFNs

Life-threatening `breakthrough' cases of critical COVID-19 are attributed to poor or waning antibody response to the SARS- CoV-2 vaccine in individuals already at risk. Pre-existing autoantibodies (auto-Abs) neutralizing type I IFNs underlie at least 15% of critical COVID-19 pneumonia cases in unvaccinated individuals; however, their contribution to hypoxemic breakthrough cases in vaccinated people remains unknown. Here, we studied a cohort of 48 individuals ( age 20-86 years) who received 2 doses of an mRNA vaccine and developed a breakthrough infection with hypoxemic COVID-19 pneumonia 2 weeks to 4 months later. Antibody levels to the vaccine, neutralization of the virus, and auto- Abs to type I IFNs were measured in the plasma. Forty-two individuals had no known deficiency of B cell immunity and a normal antibody response to the vaccine. Among them, ten (24%) had auto-Abs neutralizing type I IFNs (aged 43-86 years). Eight of these ten patients had auto-Abs neutralizing both IFN-a2 and IFN-., while two neutralized IFN-omega only. No patient neutralized IFN-ss. Seven neutralized 10 ng/mL of type I IFNs, and three 100 pg/mL only. Seven patients neutralized SARS-CoV-2 D614G and the Delta variant (B.1.617.2) efficiently, while one patient neutralized Delta slightly less efficiently. Two of the three patients neutralizing only 100 pg/mL of type I IFNs neutralized both D61G and Delta less efficiently. Despite two mRNA vaccine inoculations and the presence of circulating antibodies capable of neutralizing SARS-CoV-2, auto-Abs neutralizing type I IFNs may underlie a significant proportion of hypoxemic COVID-19 pneumonia cases, highlighting the importance of this particularly vulnerable population

Language-Related Differences in a Contingent Valuation Study: English Versus Spanish

To test the similarity of English- and Spanish-speaking households responses to a contingent valuation survey, phone interviews were conducted in both languages regarding two forest fire prevention programs. While there were similar response rates, there were significant differences in the most frequent reasons given for refusing to pay. In the pooled logit model, the language intercept and bid interaction variables were insignificant in both programs. The likelihood ratio test of separate logit equations showed no statistical difference between English- and Spanish-speaking households responses to either program. Mean benefits reported by Spanish-speaking households were about one-third lower than English-speaking households, although the difference is not statistically significant. Copyright 2002, Oxford University Press.

Incorporating social-ecological considerations into basin-wide responses to climate change in the Colorado River Basin

During the last 50 years, construction of dams in the western United States declined. This is partly because of increasing recognition of diverse and unintended social-ecological consequences of dams. Today, resource managers are recognizing the wide array of tradeoffs and are including a more diverse group of stakeholders in decision making for individual dams. Yet decisions at the regional scale maintain a focus on a limited number of resources and objectives, leading to inefficient and inequitable outcomes. Social-ecological changes compounded by climate change challenge this management paradigm. Increasing water demands for humans and the environment and renewed interest in hydropower present opportunities for operations that include climate change mitigation and adaptation strategies while considering tradeoffs and equitable responses at the regional scale.U.S. Geological Survey Southwest Biological Science Center; National Science Foundation Research Coordination Network Grant [1617413]24 month embargo; published online: 6 May 2019This item from the UA Faculty Publications collection is made available by the University of Arizona with support from the University of Arizona Libraries. If you have questions, please contact us at [email protected]