A model for the orientational ordering of the plant microtubule cortical array

The plant microtubule cortical array is a striking feature of all growing plant cells. It consists of a more or less homogeneously distributed array of highly aligned microtubules connected to the inner side of the plasma membrane and oriented transversely to the cell growth axis. Here we formulate a continuum model to describe the origin of orientational order in such confined arrays of dynamical microtubules. The model is based on recent experimental observations that show that a growing cortical microtubule can interact through angle dependent collisions with pre-existing microtubules that can lead either to co-alignment of the growth, retraction through catastrophe induction or crossing over the encountered microtubule. We identify a single control parameter, which is fully determined by the nucleation rate and intrinsic dynamics of individual microtubules. We solve the model analytically in the stationary isotropic phase, discuss the limits of stability of this isotropic phase, and explicitly solve for the ordered stationary states in a simplified version of the model.Comment: 15 pages, 5 figure

Proteolytic regulation of calcium channels - avoiding controversy

The publication of papers containing data obtained with suboptimal rigor in the experimental design and choice of key reagents, such as antibodies, can result in a lack of reproducibility and generate controversy that can both needlessly divert resources and, in some cases, damage public perception of the scientific enterprise. This exemplary paper by Buonarati et al. (2018)1 shows how a previously published, potentially important paper on calcium channel regulation falls short of the necessary mark, and aims to resolve the resulting controversy

A new US polar research vessel for the twenty-first century

Author Posting. © The Oceanography Society, 2012. This article is posted here by permission of The Oceanography Society for personal use, not for redistribution. The definitive version was published in Oceanography 25, no. 3 (2012): 204-207, doi:10.5670/oceanog.2012.96.Scientific and political interests at the poles are significant and rapidly increasing, driven in part by the effects of climate change and emerging geopolitical realities. The polar regions provide important services to global ecosystems and humankind, ranging from food and energy to freshwater and biodiversity. Yet the poles are experiencing changes at rates that far outpace the rest of the planet. Coastal Arctic communities are impacted by climate change through coastal erosion, sea level rise, ice loss, and altered marine food webs, threatening the future of their subsistence lifestyle. Climate change has dramatically increased the melt rate of ice sheets and glaciers at both poles and has the potential to significantly raise sea level worldwide. Oil and gas drilling as well as transportation in the Arctic have reached all-time high levels, in part because of reduced sea ice cover. Tourism is a growing industry at both poles, bringing more than 20,000 tourists each year to the western Antarctic Peninsula alone. The collateral effects of human activities include the potential for pollution of the marine environment, particularly through spills of hydrocarbons. Our ability to understand the effects of such activities and mishaps is limited, particularly in ice-covered areas during winter

Studying the functional conservation of cis-regulatory modules and their transcriptional output

<p>Abstract</p> <p>Background</p> <p><it>Cis</it>-regulatory modules (CRMs) are distinct, genomic regions surrounding the target gene that can independently activate the promoter to drive transcription. The activation of a CRM is controlled by the binding of a certain combination of transcription factors (TFs). It would be of great benefit if the transcriptional output mediated by a specific CRM could be predicted. Of equal benefit would be identifying <it>in silico </it>a specific CRM as the driver of the expression in a specific tissue or situation. We extend a recently developed biochemical modeling approach to manage both prediction tasks. Given a set of TFs, their protein concentrations, and the positions and binding strengths of each of the TFs in a putative CRM, the model predicts the transcriptional output of the gene. Our approach predicts the location of the regulating CRM by using predicted TF binding sites in regions near the gene as input to the model and searching for the region that yields a predicted transcription rate most closely matching the known rate.</p> <p>Results</p> <p>Here we show the ability of the model on the example of one of the CRMs regulating the <it>eve </it>gene, MSE2. A model trained on the MSE2 in <it>D. melanogaster </it>was applied to the surrounding sequence of the <it>eve </it>gene in seven other <it>Drosophila </it>species. The model successfully predicts the correct MSE2 location and output in six out of eight <it>Drosophila </it>species we examine.</p> <p>Conclusion</p> <p>The model is able to generalize from <it>D. melanogaster </it>to other <it>Drosophila </it>species and accurately predicts the location and transcriptional output of MSE2 in those species. However, we also show that the current model is not specific enough to function as a genome-wide CRM scanner, because it incorrectly predicts other genomic regions to be MSE2s.</p

How good are rodent models of carcinogenesis in predicting efficacy in humans? A systematic review and meta-analysis of colon chemoprevention in rats, mice and men

Tumours in rodent and human colon share many histological and genetic features. To know if rodent models of colon carcinogenesis are good predictors of chemopreventive efficacy in humans, we made a meta-analysis of aspirin, beta-carotene, calcium, and wheat bran studies. Controlled intervention studies of adenoma recurrence in human volunteers were compared with chemoprevention studies of carcinogen-induced tumours in rats, and of polyps in Min (Apc(+/-)) mice: 6714 volunteers, 3911 rats and 458 mice were included in the meta-analyses. Difference between models was small since most global relative risks were between 0.76 and 1.00. A closer look showed that carcinogen-induced rat studies matched human trials for aspirin, calcium, carotene, and were compatible for wheat bran. Min mice results were compatible with human results for aspirin, but discordant for calcium and wheat bran (no carotene study). These few results suggest that rodent models roughly predict effect in humans, but the prediction is not accurate for all agents. Based on three cases only, the carcinogen-induced rat model seems better than the Min mouse model. However, rodent studies are useful to screen potential chemopreventive agents, and to study mechanisms of carcinogenesis and chemoprevention

Effects of resocialization on post-weaning social isolation-induced abnormal aggression and social deficits in rats

As previously shown, rats isolated from weaning develop abnormal social and aggressive behavior characterized by biting attacks targeting vulnera- ble body parts of opponents, reduced attack signaling, and increased defensive behavior despite increased attack counts. Here we studied whether this form of violent aggression could be reversed by resocialization in adulthood. During the first weak of resocialization, isolation-reared rats showed multiple social deficits including increased defensiveness and decreased huddling during sleep. Deficits were markedly attenuated in the second and third weeks. Despite improved social functioning in groups, isolated rats readily showed abnormal features of aggres- sion in a resident-intruder test performed after the 3-week-long resocialization. Thus, post-weaning social isolation-induced deficits in prosocial behavior were eliminated by resocialization during adulthood, but abnormal aggression was resilient to this treatment. Findings are compared to those obtained in humans who suffered early social maltreatment, and who also show social deficits and dysfunctional aggression in adulthood

Science Perspectives on the CCSP Strategic Plan

Scientists offer comments on the Climate Change Science Program Strategic Pla