Model-independent measurements of the sodium magneto-optical trap's excited-state population

We present model-independent measurements of the excited-state population of atoms in a sodium (Na) magneto-optical trap (MOT) using a hybrid ion-neutral trap composed of a MOT and a linear Paul trap (LPT). We photoionize excited Na atoms trapped in the MOT and use two independent methods to measure the resulting ions: directly by trapping them in our LPT, and indirectly by monitoring changes in MOT fluorescence. By measuring the ionization rate via these two independent methods, we have enough information to directly determine the population of MOT atoms in the excited-state. The resulting measurement reveals that there is a range of trapping-laser intensities where the excited-state population of atoms in our MOT follows the standard two-level model intensity-dependence. However, an experimentally determined effective saturation intensity must be used instead of the theoretically predicted value from the two-level model. We measured the effective saturation intensity to be $I_\mathrm{se}=22.9(3)\:\textrm{mW}/\textrm{cm}^2$ for the type-I Na MOT and $I_\mathrm{se}=48.9(7)\;\textrm{mW}/\textrm{cm}^2$ for the type-II Na MOT, approximately 1.7 and 3.6 times the theoretical estimate, respectively. Lastly, at large trapping-laser intensities, our experiment reveals a clear departure from the two-level model at a critical intensity that we believe is due to a state-mixing effect, whose critical intensity can be determined by a simple power broadening model.Comment: 10 pages, 8 figure

ALART: A novel lidar system for vegetation height retrieval from space

We propose a multi-kHz Single-Photon Counting (SPC) space LIDAR, exploiting low energy pulses with high repetition frequency (PRF). The high PRF allows one to overcome the low signal limitations, as many return shots can be collected from nearly the same scattering area. The ALART space instrument exhibits a multi-beam design, providing height retrieval over a wide area and terrain slope measurements. This novel technique, working with low SNRs, allows multiple beam generation with a single laser, limiting mass and power consumption. As the receiver has a certain probability to detect multiple photons from different levels of canopy, a histogram is constructed and used to retrieve the properties of the target tree, by means of a modal decomposition of the reconstructed waveform. A field demonstrator of the ALART space instrument is currently being developed by a European consortium led by cosine | measurement systems and funded by ESA under the TRP program. The demonstrator requirements have been derived to be representative of the target instrument and it will be tested in an equipped tower in woodland areas in the Netherlands. The employed detectors are state-of-the-art CMOS Single-Photon Avalanche Diode (SPAD) matrices with 1024 pixels. Each pixel is independently equipped with an integrated Time-to-Digital Converter (TDC), achieving a timing accuracy that is much lower than the SPAD dead time, resulting in a distance resolution in the centimeter range. The instrument emits nanosecond laser pulses with energy on the order of several J, at a PRF of ~ 10 kHz, and projects on ground a three-beams pattern. An extensive field measurement campaign will validate the employed technologies and algorithms for vegetation height retrieval

One ligand, two regulators and three binding sites: How KDPG controls primary carbon metabolism in Pseudomonas

Effective regulation of primary carbon metabolism is critically important for bacteria to successfully adapt to different environments. We have identified an uncharacterised transcriptional regulator; RccR, that controls this process in response to carbon source availability. Disruption of rccR in the plant-associated microbe Pseudomonas fluorescens inhibits growth in defined media, and compromises its ability to colonise the wheat rhizosphere. Structurally, RccR is almost identical to the Entner-Doudoroff (ED) pathway regulator HexR, and both proteins are controlled by the same ED-intermediate; 2-keto-3-deoxy-6-phosphogluconate (KDPG). Despite these similarities, HexR and RccR control entirely different aspects of primary metabolism, with RccR regulating pyruvate metabolism (aceEF), the glyoxylate shunt (aceA, glcB, pntAA) and gluconeogenesis (pckA, gap). RccR displays complex and unusual regulatory behaviour; switching repression between the pyruvate metabolism and glyoxylate shunt/gluconeogenesis loci depending on the available carbon source. This regulatory complexity is enabled by two distinct pseudo-palindromic binding sites, differing only in the length of their linker regions, with KDPG binding increasing affinity for the 28 bp aceA binding site but decreasing affinity for the 15 bp aceE site. Thus, RccR is able to simultaneously suppress and activate gene expression in response to carbon source availability. Together, the RccR and HexR regulators enable the rapid coordination of multiple aspects of primary carbon metabolism, in response to levels of a single key intermediate

An NF-κB and Slug Regulatory Loop Active in Early Vertebrate Mesoderm

BACKGROUND: In both Drosophila and the mouse, the zinc finger transcription factor Snail is required for mesoderm formation; its vertebrate paralog Slug (Snai2) appears to be required for neural crest formation in the chick and the clawed frog Xenopus laevis. Both Slug and Snail act to induce epithelial to mesenchymal transition (EMT) and to suppress apoptosis. METHODOLOGY & PRINCIPLE FINDINGS: Morpholino-based loss of function studies indicate that Slug is required for the normal expression of both mesodermal and neural crest markers in X. laevis. Both phenotypes are rescued by injection of RNA encoding the anti-apoptotic protein Bcl-xL; Bcl-xL's effects are dependent upon IκB kinase-mediated activation of the bipartite transcription factor NF-κB. NF-κB, in turn, directly up-regulates levels of Slug and Snail RNAs. Slug indirectly up-regulates levels of RNAs encoding the NF-κB subunit proteins RelA, Rel2, and Rel3, and directly down-regulates levels of the pro-apopotic Caspase-9 RNA. CONCLUSIONS/SIGNIFICANCE: These studies reveal a Slug/Snail–NF-κB regulatory circuit, analogous to that present in the early Drosophila embryo, active during mesodermal formation in Xenopus. This is a regulatory interaction of significance both in development and in the course of inflammatory and metastatic disease

Tuning fresh: radiation through rewiring of central metabolism in streamlined bacteria

Most free-living planktonic cells are streamlined and in spite of their limitations in functional flexibility, their vast populations have radiated into a wide range of aquatic habitats. Here we compared the metabolic potential of subgroups in the Alphaproteobacteria lineage SAR11 adapted to marine and freshwater habitats. Our results suggest that the successful leap from marine to freshwaters in SAR11 was accompanied by a loss of several carbon degradation pathways and a rewiring of the central metabolism. Examples for these are C1 and methylated compounds degradation pathways, the Entner–Doudouroff pathway, the glyoxylate shunt and anapleuretic carbon fixation being absent from the freshwater genomes. Evolutionary reconstructions further suggest that the metabolic modules making up these important freshwater metabolic traits were already present in the gene pool of ancestral marine SAR11 populations. The loss of the glyoxylate shunt had already occurred in the common ancestor of the freshwater subgroup and its closest marine relatives, suggesting that the adaptation to freshwater was a gradual process. Furthermore, our results indicate rapid evolution of TRAP transporters in the freshwater clade involved in the uptake of low molecular weight carboxylic acids. We propose that such gradual tuning of metabolic pathways and transporters toward locally available organic substrates is linked to the formation of subgroups within the SAR11 clade and that this process was critical for the freshwater clade to find and fix an adaptive phenotype.This work was supported by the Swedish Research Council (Grant Numbers 2012-4592 to AE and 2012-3892 to SB) and the Communiy Sequencing Programme of the US Department of Energy Joint Genome Institute. The work conducted by the US Department of Energy Joint Genome Institute, a DOE Office of Science User Facility, is supported under Contract No. DE-AC02-05CH11231

Causal Inference by Independent Component Analysis with Applications to Micro- and Macroeconomic Data

Jena Economic Research Papers, 03

Depth-based method for target detection in noisy environments

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