Sequence-dependent pausing of single lambda exonuclease molecules

Lambda exonuclease processively degrades one strand of duplex DNA, moving 5'-to-3' in an ATP-independent fashion. When examined at the single-molecule level, the speeds of digestion were nearly constant at 4 nanometers per second (12 nucleotides per second), interspersed with pauses of variable duration. Long pauses, occurring at stereotypical locations, were strand-specific and sequence-dependent. Pause duration and probability varied widely. The strongest pause, GGCGAT TCT, was identified by gel electrophoresis. Correlating single-molecule dwell positions with sequence independently identified the motif GGCGA. This sequence is found in the left lambda cohesive end, where exonuclease inhibition may contribute to the reduced recombination efficiency at that end.     

Chemical detection with a single-walled carbon nanotube capacitor

We show that the capacitance of single-walled carbon nanotubes (SWNTs) is highly sensitive to a broad class of chemical vapors and that this transduction mechanism can form the basis for a fast, low-power sorption-based chemical sensor. In the presence of a dilute chemical vapor, molecular adsorbates are polarized by the fringing electric fields radiating from the surface of a SWNT electrode, which causes an increase in its capacitance. We use this effect to construct a high-performance chemical sensor by thinly coating the SWNTs with chemoselective materials that provide a large, class-specific gain to the capacitance response. Such SWNT chemicapacitors are fast, highly sensitive, and completely reversible.     

A Mechanistic Model for Secchi Disk Depth,Driven by Light Scattering Constituents

An optics theory-based mechanistic model for Secchi disk depth (Z _SD) is advanced, tested, and applied for Cayuga Lake, NY. Robust data sets supported the initiative, including for (1) Z _SD, (2) multiple light attenuation metrics, most importantly the beam attenuation (c) and particulate scattering (b _p) coefficients, and (3) measures of constituents responsible for contributions to b _p by phytoplankton (b _o) and minerogenic particles (b _m). The model features two serially connected links. The first link supports predictions of b _p from those for b _o and b _m. The second link provides predictions of Z _SD based on those for b _p, utilizing an earlier optical theory radiative transfer equation. Recent advancements in mechanistically strong estimates of b _m, empirical estimates of b _o, and more widely available bulk measurements of c and b _p have enabled a transformation from a theory-based conceptual to this implementable Z _SD model for lacustrine waters. The successfully tested model was applied to quantify the contributions of phytoplankton biomass, and minerogenic particle groups, such as terrigenous clay minerals and autochthonously produced calcite, to recent b _p and Z _SD levels and dynamics. Moreover, it has utility for integration as a submodel into larger water quality models to upgrade their predictive capabilities for Z _SD.     

Spreading deserts or spatially confined environmental impacts? land degradation and cattle ranching in the kalahari desert of botswana

The Kalahari Desert of Botswana is being increasingly used for livestock production, particularly through the establishment of ranches dependent on borehole water supplies. Reports of the environmental impacts of land use practices in such drylands are conflicting, with livestock systems supplied by boreholes and wells being regarded in some studies as centres for the spread of desertification and in others as having environmental impacts that are overridden by the effects of natural climatic variability. the results of an environmental study focused on a block of borehole ranches established in the eastern Kalahari as part of Botswana's Tribal Grazing Lands Policy dating from the 1970s are reported. the investigations concentrated on ecological, soil chemistry and soil erosion impacts on the study ranches. Although important changes in the ecology and soil nutrient status of the ranches are identified, their contribution to environmental degradation must be viewed in terms of stocking levels, The radial nature of range usage, giving rise to marked spatial variations in impact, and natural climatic variability. Changes are not solely detrimental, but long-term monitoring, especially in relation to climatic fluctuations, needs to be undertaken to fully establish the dynamic interactions of variables.