Protein-mediated DNA Loop Formation and Breakdown in a Fluctuating Environment

Living cells provide a fluctuating, out-of-equilibrium environment in which genes must coordinate cellular function. DNA looping, which is a common means of regulating transcription, is very much a stochastic process; the loops arise from the thermal motion of the DNA and other fluctuations of the cellular environment. We present single-molecule measurements of DNA loop formation and breakdown when an artificial fluctuating force, applied to mimic a fluctuating cellular environment, is imposed on the DNA. We show that loop formation is greatly enhanced in the presence of noise of only a fraction of $k_B T$, yet find that hypothetical regulatory schemes that employ mechanical tension in the DNA--as a sensitive switch to control transcription--can be surprisingly robust due to a fortuitous cancellation of noise effects

Handling and analysis of ices in cryostats and glove boxes in view of cometary samples

Comet nucleus sample return mission and other return missions from planets and satellites need equipment for handling and analysis of icy samples at low temperatures under vacuum or protective gas. Two methods are reported which were developed for analysis of small icy samples and which are modified for larger samples in cometary matter simulation experiments (KOSI). A conventional optical cryostat system was modified to allow for transport of samples at 5 K, ion beam irradiation, and measurement in an off-line optical spectrophotometer. The new system consists of a removable window plug containing nozzles for condensation of water and volatiles onto a cold finger. This plug can be removed in a vacuum system, changed against another plug (e.g., with other windows (IR, VIS, VUV) or other nozzles). While open, the samples can be treated under vacuum with cooling by manipulators (cut, removal, sample taking, irradiation with light, photons, or ions). After bringing the plug back, the samples can be moved to another site of analysis. For handling the 30 cm diameter mineral-ice samples from the KOSI experiments an 80x80x80 cm glove box made out of plexiglass was used. The samples were kept in a liquid nitrogen bath, which was filled from the outside. A stream a dry N2 and evaporating gas from the bath purified the glove box from impurity gases and, in particular, H2O, which otherwise would condense onto the samples

Candidate Landing Site for the Mars Science Laboratory: Vernal Crater, S.W. ARabia Terra

In the fall of 2009, the Mars Science Laboratory (MSL) will be launched to Mars. The purpose of this mission is to assess biologic potential and geology and to investigate planetary processes of relevance to past habitability. MSL will be able to provide visual, chemical, radiation, and environmental data with its suite of instruments [1]. In order to be selected for the MSL landing site, certain engineering requirements must be met [1] and the area should contain geologic features suggestive of past habitability, so that the overriding science goal of the mission will be attained. There are a total of 33 proposed landing sites as of the first MSL Landing Site Workshop held in Pasadena, CA from May 31st to June 2nd, 2006 [1]. There will be an opportunity to gather high resolution visual and hyperspectral data on all proposed landing sites from the now-orbiting Mars Reconnaissance Orbiter (MRO) which entered martian orbit and began its main science phase in November of 2006 [2]. The data being gathered are from: the high resolution imaging science experiment (HiRISE), the context (CTX) camera and the compact reconnaissance imaging spectrometer (CRISM) onboard the spacecraft. The footprints of these instruments are centered on a single point, and each proposer must submit these coordinates, along with the coordinates of the proposed landing ellipse. Data from these instruments, along with new MOC images and THEMIS mosaics, will be used to enhance our understanding of the geologic and engineering parameters of each site

Sensitivity to the KARMEN Timing Anomaly at MiniBooNE

We present sensitivities for the MiniBooNE experiment to a rare exotic pion decay producing a massive particle, Q^0. This type of decay represents one possible explanation for the timing anomaly reported by the KARMEN collaboration. MiniBooNE will be able to explore an area of the KARMEN signal that has not yet been investigated

Composition and luminescence studies of InGaN epilayers grown at different hydrogen flow rates

Indium gallium nitride (In(x)Ga(1-x)N) is a technologically important material for many optoelectronic devices, including LEDs and solar cells, but it remains a challenge to incorporate high levels of InN into the alloy while maintaining sample quality. A series of InGaN epilayers was grown with different hydrogen flow rates (0-200 sccm) and growth temperatures (680-750 °C) to obtain various InN fractions and bright emission in the range 390-480 nm. These 160-nm thick epilayers were characterized through several compositional techniques (wavelength dispersive x-ray spectroscopy, x-ray diffraction, Rutherford backscattering spectrometry) and cathodoluminescence hyperspectral imaging. The compositional analysis with the different techniques shows good agreement when taking into account compositional gradients evidenced in these layers. The addition of small amounts of hydrogen to the gas flow at lower growth temperatures is shown to maintain a high surface quality and luminescence homogeneity. This allowed InN fractions of up to ~16% to be incorporated with minimal peak energy variations over a mapped area while keeping a high material quality

Picosecond diode-pumped 1.5 μm Er,Yb:glass lasers operating at10-100 GHz repetition rate

Stable ultrafast laser sources at multi-GHz repetition rates are important for various application areas, such as optical sampling, frequency comb metrology, or advanced high-speed return-to-zero telecom systems. We review SESAM-mode-locked Er,Yb:glass lasers operating in the 1.5μm spectral region at multi-GHz repetition rates, discussing the key improvements that have enabled increasing the repetition rate up to 100GHz. We also present further improved results with shorter pulse durations from a 100GHz Er,Yb:glass laser. With an improved SESAM design we achieved 1.1ps pulses with up to 30mW average output power. Moreover, we discuss for the first time the importance of beam quality deteriorations arising from frequency-degenerate higher order spatial modes in such laser

Diversification in the Archean Biosphere: Insight from NanoSIMS of Microstructures in the Farrel Quartzite of Australia

The nature of early life on Earth is difficult to assess because potential Early Archean biosignatures are commonly poorly preserved. Interpretations of such materials have been contested, and abiotic or epigenetic derivations have been proposed (summarized in [1]). Yet, an understanding of Archean life is of astrobiological importance, as knowledge of early evolutionary processes on Earth could provide insight to development of life on other planets. A recently-discovered assemblage of organic microstructures in approx.3 Ga charts of the Farrel Quartzite (FQ) of Australia [2-4] includes unusual spindle-like forms and a variety of spheroids. If biogenicity and syngeneity of these forms could be substantiated, the FQ assemblage would provide a new view of Archean life. Our work uses NanoSIMS to further assess the biogenicity and syngeneity of FQ microstructures. In prior NanoSIMS studies [5-6], we gained an understanding of nano-scale elemental distributions in undisputed microfossils from the Neoproterozoic Bitter Springs Formation of Australia. Those results provide a new tool with which to evaluate poorly preserved materials that we might find in Archean sediments and possibly in extraterrestrial materials. We have applied this tool to the FQ forms

MALDI Imaging Mass Spectrometry (MALDI-IMS)—Application of Spatial Proteomics for Ovarian Cancer Classification and Diagnosis

MALDI imaging mass spectrometry (MALDI-IMS) allows acquisition of mass data for metabolites, lipids, peptides and proteins directly from tissue sections. IMS is typically performed either as a multiple spot profiling experiment to generate tissue specific mass profiles, or a high resolution imaging experiment where relative spatial abundance for potentially hundreds of analytes across virtually any tissue section can be measured. Crucially, imaging can be achieved without prior knowledge of tissue composition and without the use of antibodies. In effect MALDI-IMS allows generation of molecular data which complement and expand upon the information provided by histology including immuno-histochemistry, making its application valuable to both cancer biomarker research and diagnostics. The current state of MALDI-IMS, key biological applications to ovarian cancer research and practical considerations for analysis of peptides and proteins on ovarian tissue are presented in this review

High-throughput and high-precision laser micromachining with ps-pulses in synchronized mode with a fast polygon line scanner

To be competitive in laser micro machining, high throughput is an important aspect. One possibility to increase productivity is scaling up the ablation process i.e. linearly increasing the laser repetition rate together with the average power and the scan speed. In the MHz-regime high scan speeds are required which cannot be provided by commercially available galvo scanners. In this work we will report on the results by using a polygon line scanner having a maximum scan speed of 100 m/s and a 50 W ps-laser system, synchronized via the SuperSync™ technology. We will show the results concerning the removal rate and the surface quality for working at the optimum point i.e. most efficient point at repetition rates up to 8.2 MHz