The Amino Terminus of the Yeast F_1-ATPase β-Subunit Precursor Functions as a Mitochondrial Import Signal

The ATP2 gene of Saccharomyces cerevisiae codes for the cytoplasmically synthesized beta-subunit protein of the mitochondrial F1-ATPase. To define the amino acid sequence determinants necessary for the in vivo targeting and import of this protein into mitochondria, we have constructed gene fusions between the ATP2 gene and either the Escherichia coli lacZ gene or the S. cerevisiae SUC2 gene (which codes for invertase). The ATP2-lacZ and ATP2-SUC2 gene fusions code for hybrid proteins that are efficiently targeted to yeast mitochondria in vivo. The mitochondrially associated hybrid proteins fractionate with the inner mitochondrial membrane and are resistant to proteinase digestion in the isolated organelle. Results obtained with the gene fusions and with targeting-defective ATP2 deletion mutants provide evidence that the amino-terminal 27 amino acids of the beta-subunit protein precursor are sufficient to direct both specific sorting of this protein to yeast mitochondria and its import into the organelle. Also, we have observed that certain of the mitochondrially associated Atp2-LacZ and Atp2-Suc2 hybrid proteins confer a novel respiration-defective phenotype to yeast cells

Used-habitat calibration plots: a new procedure for validating species distribution, resource selection, and step-selection models

“Species distribution modeling” was recently ranked as one of the top five “research fronts” in ecology and the environmental sciences by ISI's Essential Science Indicators (Renner and Warton 2013), reflecting the importance of predicting how species distributions will respond to anthropogenic change. Unfortunately, species distribution models (SDMs) often perform poorly when applied to novel environments. Compounding on this problem is the shortage of methods for evaluating SDMs (hence, we may be getting our predictions wrong and not even know it). Traditional methods for validating SDMs quantify a model's ability to classify locations as used or unused. Instead, we propose to focus on how well SDMs can predict the characteristics of used locations. This subtle shift in viewpoint leads to a more natural and informative evaluation and validation of models across the entire spectrum of SDMs. Through a series of examples, we show how simple graphical methods can help with three fundamental challenges of habitat modeling: identifying missing covariates, non-linearity, and multicollinearity. Identifying habitat characteristics that are not well-predicted by the model can provide insights into variables affecting the distribution of species, suggest appropriate model modifications, and ultimately improve the reliability and generality of conservation and management recommendations

On the estimation of brain signal entropy from sparse neuroimaging data

Multi-scale entropy (MSE) has been recently established as a promising tool for the analysis of the moment-to-moment variability of neural signals. Appealingly, MSE provides a measure of the predictability of neural operations across the multiple time scales on which the brain operates. An important limitation in the application of the MSE to some classes of neural signals is MSE’s apparent reliance on long time series. However, this sparse-data limitation in MSE computation could potentially be overcome via MSE estimation across shorter time series that are not necessarily acquired continuously (e.g., in fMRI block-designs). In the present study, using simulated, EEG, and fMRI data, we examined the dependence of the accuracy and precision of MSE estimates on the number of data points per segment and the total number of data segments. As hypothesized, MSE estimation across discontinuous segments was comparably accurate and precise, despite segment length. A key advance of our approach is that it allows the calculation of MSE scales not previously accessible from the native segment lengths. Consequently, our results may permit a far broader range of applications of MSE when gauging moment-to- moment dynamics in sparse and/or discontinuous neurophysiological data typical of many modern cognitive neuroscience study designs

Intraindividual reaction time variability is malleable: feedback- and education-related reductions in variability with age

Intraindividual variability (IIV) in trial-to-trial reaction time (RT) is a robust and stable within-person marker of aging. However, it remains unknown whether IIV can be modulated experimentally. In a sample of healthy younger and older adults, we examined the effects of motivation- and performance-based feedback, age, and education level on IIV in a choice RT task (four blocks over 15 min). We found that IIV was reduced with block-by-block feedback, particularly for highly educated older adults. Notably, the baseline difference in IIV levels between this group and the young adults was reduced by 50% by the final testing block, this advantaged older group had improved such that they were statistically indistinguishable from young adults on two of three preceding testing blocks. Our findings confirmed that response IIV is indeed modifiable, within mere minutes of feedback and testing

MCViNE -- An object oriented Monte Carlo neutron ray tracing simulation package

MCViNE (Monte-Carlo VIrtual Neutron Experiment) is a versatile Monte Carlo (MC) neutron ray-tracing program that provides researchers with tools for performing computer modeling and simulations that mirror real neutron scattering experiments. By adopting modern software engineering practices such as using composite and visitor design patterns for representing and accessing neutron scatterers, and using recursive algorithms for multiple scattering, MCViNE is flexible enough to handle sophisticated neutron scattering problems including, for example, neutron detection by complex detector systems, and single and multiple scattering events in a variety of samples and sample environments. In addition, MCViNE can take advantage of simulation components in linear-chain-based MC ray tracing packages widely used in instrument design and optimization, as well as NumPy-based components that make prototypes useful and easy to develop. These developments have enabled us to carry out detailed simulations of neutron scattering experiments with non-trivial samples in time-of-flight inelastic instruments at the Spallation Neutron Source. Examples of such simulations for powder and single-crystal samples with various scattering kernels, including kernels for phonon and magnon scattering, are presented. With simulations that closely reproduce experimental results, scattering mechanisms can be turned on and off to determine how they contribute to the measured scattering intensities, improving our understanding of the underlying physics.Comment: 34 pages, 14 figure

Integrating Indigenous Knowledge and Western Science into Forestry, Natural Resources, and Environmental Programs

A new minor titled “Indigenous Studies in Natural Resources and the Environment” (INRE) became available to students at California Polytechnic State University in San Luis Obispo, California, in the fall of 2013. This minor aims to bring together the principles of both Indigenous ecological knowledge and western science. Instruction in these two approaches provides students with practical knowledge, research, and critical thinking skills to address complex environmental issues and natural resources management problems facing both Indigenous and non-Indigenous communities around the world today. The INRE minor seeks to prepare students by providing a balanced education in the arts, sciences, and technology, while encouraging interdisciplinary and co-curricular activities. This article reports on the need for the INRE minor, learning outcomes, curriculum, approval process, student interest surveys, and enrolled INRE students\u27 focus group comments. This program may serve as a model for other academic institutions to bridge the gap between western and Indigenous science regarding the environment. Management and Policy Implications: Society of American Foresters members are called to abide by a Code of Ethics10 whose first Principle and Pledge states: “Foresters have a responsibility to manage land for current and future generations. We pledge to practice and advocate management that will maintain the long-term capacity of the land to provide the variety of materials, uses, and values desired by landowners and society.” How can foresters and land managers achieve this pledge? Integration of Indigenous and western science into university curricula and professional disciplines could lead to enhanced collaboration and stewardship of public and tribal lands. Cal Poly\u27s new Indigenous Studies in Natural Resources and the Environment (INRE) minor works to foster communication and collaboration across academic disciplines and programs by helping people better understand and respect the land, natural resources, and ecosystems. By presenting the INRE minor design and its learn-by-doing approach to resolving land, forest, and natural resource conflicts, we hope other academic institutions will use this program as a model to bridge the gap between western science and Indigenous knowledge of the environment, as well as to instill in the next generations of foresters a broader resource and land ethic

Glassy steel optimized for glass-forming ability and toughness

An alloy development strategy coupled with toughness assessments and ultrasonic measurements is implemented to design a series of iron-based glass-forming alloys that demonstrate improved glass-forming ability and toughness. The combination of good glass-forming ability and high toughness demonstrated by the present alloys is uncommon in Fe-based systems, and is attributed to the ability of these compositions to form stable glass configurations associated with low activation barriers for shear flow, which tend to promote plastic flow and give rise to a toughness higher than other known Fe-based bulk-glass-forming systems

Anthropogenic Disturbance and Population Viability of Woodland Caribou in Ontario

One of the most challenging tasks in wildlife conservation and management is to clarify how spatial variation in land cover due to anthropogenic disturbance influences wildlife demography and long‐term viability. To evaluate this, we compared rates of survival and population growth by woodland caribou (Rangifer tarandus caribou) from 2 study sites in northern Ontario, Canada that differed in the degree of anthropogenic disturbance because of commercial logging and road development, resulting in differences in predation risk due to gray wolves (Canis lupus). We used an individual‐based model for population viability analysis (PVA) that incorporated adaptive patterns of caribou movement in relation to predation risk and food availability to predict stochastic variation in rates of caribou survival. Field estimates of annual survival rates for adult female caribou in the unlogged ( x̄ = 0.90) and logged ( x̄ = 0.76) study sites recorded during 2010–2014 did not differ significantly (P \u3e 0.05) from values predicted by the individual‐based PVA model (unlogged:  x̄ = 0.87; logged:  x̄ = 0.79). Outcomes from the individual‐based PVA model and a simpler stage‐structured matrix model suggest that substantial differences in adult survival largely due to wolf predation are likely to lead to long‐term decline of woodland caribou in the commercially logged landscape, whereas the unlogged landscape should be considerably more capable of sustaining caribou. Estimates of population growth rates (λ) for the 2010–2014 period differed little between the matrix model and the individual‐based PVA model for the unlogged (matrix model  x̄ = 1.01; individual‐based model x̄ = 0.98) and logged landscape (matrix model x̄ = 0.88; individual‐based model x̄ = 0.89). We applied the spatially explicit PVA model to assess the viability of woodland caribou across 14 woodland caribou ranges in Ontario. Outcomes of these simulations suggest that woodland caribou ranges that have experienced significant levels of commercial forestry activities in the past had annual growth rates 0.96. These differences were strongly related to regional variation in wolf densities. Our results suggest that increased wolf predation risk due to anthropogenic disturbance is of sufficient magnitude to cause appreciable risk of population decline in woodland caribou in Ontario. © 2020 The Authors. The Journal of Wildlife Management published by Wiley Periodicals, Inc. on behalf of The Wildlife Society