NAIL-MS reveals the repair of 2-methylthiocytidine by AlkB in E. coli

RNAs contain post-transcriptional modifications, which fulfill a variety of functions in translation, secondary structure stabilization and cellular stress survival. Here, 2-methylthiocytidine (ms(2)C) is identified in tRNA of E. coli and P. aeruginosa using NAIL-MS (nucleic acid isotope labeling coupled mass spectrometry) in combination with genetic screening experiments. ms(2)C is only found in 2-thiocytidine (s(2)C) containing tRNAs, namely tRNA(CCG)(Arg), tRNA(ICG)(Ar)(g), tRNA(UCU)(Arg) and tRNA(GCU)(Ser )at low abundances. ms(2)C is not formed by, commonly known tRNA methyltransferases. Instead, we observe its formation in vitro and in vivo during exposure to methylating agents. More than half of the s(2)C containing tRNA can be methylated to carry ms(2)C. With a pulse-chase NAIL-MS experiment, the repair mechanism by AlkB dependent sulfur demethylation is demonstrated in vivo. Overall, we describe ms(2)C as a bacterial tRNA modification and damage product. Its repair by AlkB and other pathways is demonstrated in vivo by our powerful NAIL-MS approach

L-band Microwave Remote Sensing and Land Data Assimilation Improve the Representation of Prestorm Soil Moisture Conditions for Hydrologic Forecasting

Recent advances in remote sensing and land data assimilation purport to improve the quality of antecedent soil moisture information available for operational hydrologic forecasting. We objectively validate this claim by calculating the strength of the relationship between storm-scale runoff ratio (i.e., total stream flow divided by total rainfall accumulation in depth units) and pre-storm surface soil moisture estimates from a range of surface soil moisture data products. Results demonstrate that both satellite-based, L-band microwave radiometry and the application of land data assimilation techniques have significantly improved the utility of surface soil moisture data sets for forecasting stream flow response to future rainfall events

Bolometry for Divertor Characterization and Control

Operation of the divertor will provide one of the greatest challenges for ITER. Up to 400 MW of power is expected to be produced in the core plasma which must then be handled by plasma facing components. Power flowing across the separatrix and into the scrape-off-layer (SOL) can lead to a heat flux in the divertor of 30 MW/m{sup 2} if nothing is done to dissipate the power. This peak heat flux must be reduced to 5 MW/m{sup 2} for an acceptable engineering design. The current plan is to use impurity radiation and other atomic processes from intrinsic or injected impurities to spread out the power onto the first wall and divertor chamber walls. It is estimated that 300 MW of radiation in the divertor and SOL will be necessary to achieve this solution. Measurement of the magnitude and distribution of this radiated power with bolometry will be important for understanding and controlling the nER divertor. Present experiments have shown intense regions of radiation both in the divertor near the separatrix and in the X-point region. The task of a divertor bolometer system will be to measure the distribution and magnitude of this radiation. First, radiation measurements can be used for machine protection. Intense divertor radiation will heat plasma facing surfaces that are not in direct view of temperature monitors. Measurement of the radiation distribution will provide information about the power flux to these components. Secondly, a bolometer diagnostic is a basic tool for divertor characterization and understanding. Radiation measurements are important for power accounting, as a cross check for other power diagnostics, and gross characterisation of the plasma behavior. A divertor bolometer system can provide a 2-D measurement of the radiation profile for comparison with theory and modeling. Finally a bolometer system can provide realtime signals for control of the divertor operation

Feedback-Optimized Operations with Linear Ion Crystals

We report on transport operations with linear crystals of 40Ca+ ions by applying complex electric time-dependent potentials. For their control we use the information obtained from the ions' fluorescence. We demonstrate that by means of this feedback technique, we can transport a predefined number of ions and also split and unify ion crystals. The feedback control allows for a robust scheme, compensating for experimental errors as it does not rely on a precisely known electrical modeling of the electric potentials in the ion trap beforehand. Our method allows us to generate a self-learning voltage ramp for the required process. With an experimental demonstration of a transport with more than 99.8 % success probability, this technique may facilitate the operation of a future ion based quantum processor

Apoptosis as a Driver of Therapy-Induced Cancer Repopulation and Acquired Cell-Resistance (CRAC): A Simple In Vitro Model of Phoenix Rising in Prostate Cancer

Apoptotic cells stimulate compensatory proliferation through the caspase-3-cPLA-2-COX-2-PGE-2-STAT3 Phoenix Rising pathway as a healing process in normal tissues. Phoenix Rising is however usurped in cancer, potentially nullifying pro-apoptotic therapies. Cytotoxic therapies also promote cancer cell plasticity through epigenetic reprogramming, leading to epithelial-to-mesenchymal-transition (EMT), chemo-resistance and tumor progression. We explored the rela-tionship between such scenarios, setting-up an innovative, straightforward one-pot in vitro model of therapy-induced prostate cancer repopulation. Cancer (castration-resistant PC3 and androgen-sensitive LNCaP), or normal (RWPE-1) prostate cells, are treated with etoposide and left recovering for 18 days. After a robust apoptotic phase, PC3 setup a coordinate tissue-like response, repopulating and acquiring EMT and chemo-resistance; repopulation occurs via Phoenix Rising, being dependent on high PGE-2 levels achieved through caspase-3-promoted signaling; epigenetic inhibitors interrupt Phoenix Rising after PGE-2, preventing repopulation. Instead, RWPE-1 repopulate via Phoenix Rising without reprogramming, EMT or chemo-resistance, indicating that only cancer cells require reprogramming to complete Phoenix Rising. Intriguingly, LNCaP stop Phoenix-Rising after PGE-2, failing repopulating, suggesting that the propensity to engage/complete Phoenix Rising may influence the outcome of pro-apoptotic therapies. Concluding, we established a reliable system where to study prostate cancer repopulation, showing that epigenetic reprogramming assists Phoenix Rising to promote post-therapy cancer repopulation and acquired cell-resistance (CRAC)

Exploiting Soil Moisture, Precipitation and Streamflow Observations to Evaluate Soil Moisture/Runoff Coupling in Land Surface Models

Accurate partitioning of precipitation into infiltration and runoff is a fundamental objective of land surface models tasked with characterizing the surface water and energy balance. Temporal variability in this partitioning is due, in part, to changes in prestorm soil moisture, which determine soil infiltration capacity and unsaturated storage. Utilizing the National Aeronautics and Space Administration Soil Moisture Active Passive Level4 soil moisture product in combination with streamflow and precipitation observations, we demonstrate that land surface models (LSMs) generally underestimate the strength of the positive rank correlation between prestorm soil moisture and event runoff coefficients (i.e., the fraction of rainfall accumulation volume converted into stormflow runoff during a storm event). Underestimation is largest for LSMs employing an infiltrationexcess approach for stormflow runoff generation. More accurate coupling strength is found in LSMs that explicitly represent subsurface stormflow or saturationexcess runoff generation processes

The Effects of an Improved Dynamic Vegetation Phenology Representation in a Global Land Surface Model

Evapotranspiration (ET) is a major driver of the interaction between the land surface and the atmosphere through its component mechanisms, including plant transpiration (T) and soil evaporation. To accurately capture land-atmosphere interactions in global Earth System Models, it is thus critical that the underlying land surface models accurately model both the land hydrology as well as the dynamic response of vegetation to environmental drivers. In an effort to introduce a more realistic vegetation representation, the NASA Catchment land surface model, which is part of the Goddard Earth Observing System (GEOS), has previously been merged with the carbon and nitrogen physics modules of the Community Land Model version 4, resulting in the new Catchment-CN model. Catchment-CN has inherited the advanced treatment of land surface hydrology of Catchment, but is additionally able to dynamically model the response of vegetation to environmental drivers, in contrast to the fixed vegetation climatology that was prescribed in Catchment. Recently, the parameterization of Catchment-CN vegetation has been augmented to better account for variability of vegetation responses to external forcings within existing plant functional types, and vegetation parameters have been calibrated against Moderate Resolution Imaging Spectrometer observations of the fraction of absorbed photosynthetically radiation. These efforts have led to a significant reduction in the RMSE of modeled photosynthetic activity with respect to observations.This presentation investigates the effect of the improved vegetation representation on the partitioning of ET within Catchment-CN. Specifically, we compare global maps of the T:ET ratio across different temporal scales in (1) the original Catchment model, (2) the original Catchment-CN model, and (3) the augmented and calibrated Catchment-CN model. The modeled T and ET estimates are compared against a comprehensive set of ground observations from various field studies, as well as independent global T:ET estimates from different ET algorithms provided in the context of the Water Cycle Observation Multi-mission Strategy ? Evapotranspiration (WACMOS-ET) initiative