Natural language processing techniques can be used to analyze the linguistic content of a document to extract missing pieces of metadata. However, accurate metadata extraction may not depend solely ...on the linguistics, but also on structural problems such as extremely large documents, unordered multi‐file documents, and inconsistency in manually labeled metadata. In this work, we start from two standard machine learning solutions to extract pieces of metadata from Environmental Impact Statements, environmental policy documents that are regularly produced under the US National Environmental Policy Act of 1969. We present a series of experiments where we evaluate how these standard approaches are affected by different issues derived from real‐world data. We find that metadata extraction can be strongly influenced by nonlinguistic factors such as document length and volume ordering and that the standard machine learning solutions often do not scale well to long documents. We demonstrate how such solutions can be better adapted to these scenarios, and conclude with suggestions for other NLP practitioners cataloging large document collections.
Community science is an increasingly integral part of biodiversity research and monitoring, often achieving broad spatial and temporal coverage but lower sampling intensity than studies conducted by ...professional scientists. When designing a community‐science monitoring programme, careful assessment of sampling designs that could be both feasible and successful at meeting programme goals is essential.
Monarch butterflies (Danaus plexippus) are the focus of several successful community‐science projects in the U.S., but broader coverage is needed to monitor breeding areas and explain population declines observed in overwintering areas. The U.S. Monarch Conservation Science Partnership's Integrated Monarch Monitoring Program (IMMP) will representatively monitor monarchs and milkweed across North America. We performed a simulation‐based power analysis to predict trade‐offs between sampling breadth (number of sites and years) and sampling intensity (number of visits or subplots per site and year) for the IMMP. We evaluated whether each sampling design would produce sufficient statistical power to detect population trends and differences among land‐use sectors in densities of milkweed, monarch eggs, and adult monarchs.
Sampling breadth had much stronger effects than sampling intensity on statistical power for all three monitoring targets. Depending on land‐use sector, monitoring 400–800 sites over 10–15 years would detect trends in densities of milkweed and adult monarchs, but no scenarios were successful for monarch eggs. Sampling 400–800 sites would also detect small (for adult monarchs) to large (for milkweed) differences among land‐use sectors in density of all three monitoring targets within the first 2–5 years. As more data become available from the IMMP, the sampling goals can be updated.
Synthesis and applications. Careful sample design is an essential step in developing a successful monitoring programme. For monarchs and milkweed, we found that sampling breadth (number of sites and years) had a much stronger effect on statistical power than sampling intensity (number of visits or subsamples per site), suggesting field protocols could be tailored to maximize recruitment and retention of volunteers by minimizing the effort required to monitor each site. Many long‐term monitoring programmes might similarly benefit from evaluating the statistical trade‐offs between sampling breadth and intensity in their sampling designs.
An adult female monarch butterfly (Danaus plexippus) nectars on purple coneflower (Echinacea purpurea). Severe population declines in North America have prompted development of a continental survey scheme to monitor monarchs and milkweed, their obligate larval host plant. Appropriate sample design can increase the chances of a successful monitoring program by maximizing both statistical robustness and the ability to recruit volunteer citizen scientists to contribute data. Photo by Emily L. Weiser.
Careful sample design is an essential step in developing a successful monitoring programme. For monarchs and milkweed, we found that sampling breadth (number of sites and years) had a much stronger effect on statistical power than sampling intensity (number of visits or subsamples per site), suggesting field protocols could be tailored to maximize recruitment and retention of volunteers by minimizing the effort required to monitor each site. Many long‐term monitoring programmes might similarly benefit from evaluating the statistical trade‐offs between sampling breadth and intensity in their sampling designs.
Editor's Choice
The eastern migratory population of monarch butterflies (Danaus plexippus plexippus) has declined by >80% within the last two decades. One possible cause of this decline is the loss of ≥1.3 billion ...stems of milkweed (Asclepias spp.), which monarchs require for reproduction. In an effort to restore monarchs to a population goal established by the US Fish and Wildlife Service and adopted by Mexico, Canada, and the US, we developed scenarios for amending the Midwestern US landscape with milkweed. Scenarios for milkweed restoration were developed for protected area grasslands, Conservation Reserve Program land, powerline, rail and roadside rights of way, urban/suburban lands, and land in agricultural production. Agricultural land was further divided into productive and marginal cropland. We elicited expert opinion as to the biological potential (in stems per acre) for lands in these individual sectors to support milkweed restoration and the likely adoption (probability) of management practices necessary for affecting restoration. Sixteen of 218 scenarios we developed for restoring milkweed to the Midwestern US were at levels (>1.3 billion new stems) necessary to reach the monarch population goal. One of these scenarios would convert all marginal agriculture to conserved status. The other 15 scenarios converted half of marginal agriculture (730 million stems), with remaining stems contributed by other societal sectors. Scenarios without substantive agricultural participation were insufficient for attaining the population goal. Agricultural lands are essential to reaching restoration targets because they occupy 77% of all potential monarch habitat. Barring fundamental changes to policy, innovative application of economic tools such as habitat exchanges may provide sufficient resources to tip the balance of the agro-ecological landscape toward a setting conducive to both robust agricultural production and reduced imperilment of the migratory monarch butterfly.
The issue of online prescribing through the use of telemedicine raises ethical concerns. In particular, several studies suggest a correlation between telemedicine and overprescribing. Meanwhile, new ...developments in the law also have the potential to significantly impact online prescribing using telemedicine. In the absence of concrete federal guidance and a continued delay in issuing required federal regulations, states have developed their own laws, which vary considerably, regarding the ability of physicians to engage in online prescribing through telemedicine. As legal developments open doors for physicians to prescribe through telemedicine, current evidence of overprescribing, although limited, suggests the need to carefully balance access to health care and quality of care in this context, especially when crafting innovative legislative responses.
This article attempts to explore this dynamic issue by closely evaluating the research on overprescribing involving telemedicine and the ethical issues surrounding online prescribing. It will continue by analyzing the current legal landscape for online prescribing for telemedicine at both the federal and state levels. Next, this article will examine ethics opinions offered by medical groups that touch this issue. Finally, this article will suggest several recommendations for law and policy moving forward by shedding light on the ethical issues surrounding telemedicine and online prescribing and how to strike a balance between access and quality of care.
Mechanical cues activate p38 MAPK signaling to phosphorylate the small heat shock protein HspB1 which is required for normal mechanically stimulated actin remodeling, cell spreading, and cell ...motility.
The small heat shock protein HspB1, also known as Hsp25/27, is a ubiquitously expressed molecular chaperone that responds to mechanical cues. Uniaxial cyclic stretch activates the p38 mitogen-activated protein kinase (MAPK) signaling cascade and increases the phosphorylation of HspB1. Similar to the mechanosensitive cytoskeletal regulator zyxin, phospho-HspB1 is recruited to features of the stretch-stimulated actin cytoskeleton. To evaluate the role of HspB1 and its phosphoregulation in modulating cell function, we utilized CRISPR/Cas9-edited HspB1-null cells and determined they were altered in behaviors such as actin cytoskeletal remodeling, cell spreading, and cell motility. In our model system, expression of WT HspB1, but not nonphosphorylatable HspB1, rescued certain characteristics of the HspB1-null cells including the enhanced cell motility of HspB1-null cells and the deficient actin reinforcement of stretch-stimulated HspB1-null cells. The recruitment of HspB1 to high-tension structures in geometrically constrained cells, such as actin comet tails emanating from focal adhesions, also required a phosphorylatable HspB1. We show that mechanical signals activate posttranslational regulation of the molecular chaperone, HspB1, and are required for normal cell behaviors including actin cytoskeletal remodeling, cell spreading, and cell migration.
Contractile actomyosin stress fibers are critical for maintaining the force balance between the interior of the cell and its environment. Consequently, the actin cytoskeleton undergoes dynamic ...mechanical loading. This results in spontaneous, stochastic, highly localized strain events, characterized by thinning and elongation within a discrete region of stress fiber. Previous work showed the LIM-domain adaptor protein, zyxin, is essential for repair and stabilization of these sites. Using live imaging, we show paxillin, another LIM-domain adaptor protein, is also recruited to stress fiber strain sites. Paxillin recruitment to stress fiber strain sites precedes zyxin recruitment. Zyxin and paxillin are each recruited independently of the other. In cells lacking paxillin, actin recovery is abrogated, resulting in slowed actin recovery and increased incidence of catastrophic stress fiber breaks. For both paxillin and zyxin, the LIM domains are necessary and sufficient for recruitment. This work provides further evidence of the critical role of LIM-domain proteins in responding to mechanical stress in the actin cytoskeleton.
Despite the importance of a cell's ability to sense and respond to mechanical force, the molecular mechanisms by which physical cues are converted to cell-instructive chemical information to ...influence cell behaviors remain to be elucidated. Exposure of cultured fibroblasts to uniaxial cyclic stretch results in an actin stress fiber reinforcement response that stabilizes the actin cytoskeleton. p38 MAPK signaling is activated in response to stretch, and inhibition of p38 MAPK abrogates stretch-induced cytoskeletal reorganization. Here we show that the small heat shock protein HspB1 (hsp25/27) is phosphorylated in stretch-stimulated mouse fibroblasts via a p38 MAPK-dependent mechanism. Phosphorylated HspB1 is recruited to the actin cytoskeleton, displaying prominent accumulation on actin "comet tails" that emanate from focal adhesions in stretch-stimulated cells. Site-directed mutagenesis to block HspB1 phosphorylation inhibits the protein's cytoskeletal recruitment in response to mechanical stimulation. HspB1-null cells, generated by CRISPR/Cas9 nuclease genome editing, display an abrogated stretch-stimulated actin reinforcement response and increased cell migration. HspB1 is recruited to sites of increased traction force in cells geometrically constrained on micropatterned substrates. Our findings elucidate a molecular pathway by which a mechanical signal is transduced via activation of p38 MAPK to influence actin remodeling and cell migration via a zyxin-independent process.
Long‐term, large‐scale monitoring programs are becoming increasingly common to document status and trends of wild populations. A successful program for monitoring population trend hinges on the ...ability to detect the trend of interest. Power analyses are useful for quantifying the sample size needed for trend detection, given expected variation in the population. Four components of variation (within‐year variation at a given site, interannual variation within a site, variation among sites in the interannual variation, and variation among sites in mean abundance or density) are commonly considered in power analyses for population trend, but a fifth is rarely considered: variation among sites in the local trend. Spatial variation in trend is expected to reduce statistical power, but the magnitude of this reduction has not been fully explored. We used computer simulations to evaluate the consequences of ignoring spatial variation in trend under a variety of sampling designs and wide ranges of other components of variation. The effect of spatial variation in trend on power was minor when other input parameters took extreme values that made the trend either very difficult or very easy to detect. However, at moderate values of the other parameters, spatial variation in trend had a strong effect, reducing statistical power by up to 60%. In some cases, ignoring spatial variation in trend resulted in an 80% probability of a type I error (falsely detecting a trend in a stable population). Spatial variation in trend is therefore an important consideration when designing a long‐term monitoring program for many species, especially those affected by local conditions at sites that are repeatedly surveyed. If variation in trend is ignored, as in many previous power analyses, the recommended sampling design will likely be insufficient to detect the trend of interest and lead to potentially false conclusions of a stable population.
Mechanical stimulation of fibroblasts induces changes in the actin cytoskeleton including stress fiber reinforcement and realignment. Here we characterize the nuclear response to mechanical ...stimulation (uniaxial cyclic stretch). Using fluorescence microscopy and quantitative image analysis we find that stretch-induced nuclear elongation and alignment perpendicular to the stretch vector are dependent on formin-regulated actin polymerization. The mechanosensitive transcription factors YAP/TAZ and MRTF-A (also known as MKL1 and MAL1) accumulate in the nucleus and activate their target genes in response to uniaxial cyclic stretch. We show that Transmembrane Actin Nuclear (TAN) lines are induced by stretch stimulation and nuclear envelope (NE) proteins including nesprins, SUN2, and lamins form Linkers of the Nucleoskeleton and Cytoskeleton (LINCs) aligned with actin stress fibers. These NE structures are altered by pharmacological treatments (Cytochalasin D and Jasplakinolide) or genetic disruption (
gene deletion) that alter actin, and their persistence requires maintenance of stretch stimulation. Nuclear Pore Complexes (NPCs) accumulate at TAN lines providing a potential mechanism for linking mechanical cues to NPC function. Media: see text Media: see text Media: see text Media: see text Media: see text Media: see text Media: see text Media: see text Media: see text Media: see text Media: see text Media: see text Media: see text Media: see text Media: see text.
Reinforcement of actin stress fibers in response to mechanical stimulation depends on a posttranslational mechanism that requires the LIM protein zyxin. The C-terminal LIM region of zyxin directs the ...force-sensitive accumulation of zyxin on actin stress fibers. The N-terminal region of zyxin promotes actin reinforcement even when Rho kinase is inhibited. The mechanosensitive integrin effector p130Cas binds zyxin but is not required for mitogen-activated protein kinase-dependent zyxin phosphorylation or stress fiber remodeling in cells exposed to uniaxial cyclic stretch. α-Actinin and Ena/VASP proteins bind to the stress fiber reinforcement domain of zyxin. Mutation of their docking sites reveals that zyxin is required for recruitment of both groups of proteins to regions of stress fiber remodeling. Zyxin-null cells reconstituted with zyxin variants that lack either α-actinin or Ena/VASP-binding capacity display compromised response to mechanical stimulation. Our findings define a bipartite mechanism for stretch-induced actin remodeling that involves mechanosensitive targeting of zyxin to actin stress fibers and localized recruitment of actin regulatory machinery.
PDF
