Observation of non-Markovian micro-mechanical Brownian motion

All physical systems are to some extent open and interacting with their environment. This insight, basic as it may seem, gives rise to the necessity of protecting quantum systems from decoherence in quantum technologies and is at the heart of the emergence of classical properties in quantum physics. The precise decoherence mechanisms, however, are often unknown for a given system. In this work, we make use of an opto-mechanical resonator to obtain key information about spectral densities of its condensed-matter heat bath. In sharp contrast to what is commonly assumed in high-temperature quantum Brownian motion describing the dynamics of the mechanical degree of freedom, based on a statistical analysis of the emitted light, it is shown that this spectral density is highly non-Ohmic, reflected by non-Markovian dynamics, which we quantify. We conclude by elaborating on further applications of opto-mechanical systems in open system identification.Comment: 5+6 pages, 3 figures. Replaced by final versio

Rarity in Astragalus: a California Perspective

Astragalus (Fabaceae), the largest genus of plants in the world with an estimated 3270 species, is known for large numbers of rare endemic species. An inventory of patterns of climatic, topographic, and edaphic diversity of Astragalus taxa in California (98 native species and 144 named taxa) provides a means to understand the occurrence of rarity in relation to climatic equitability and regional species richness of congeneric taxa. Most taxa in the genus have relatively small ranges of distribution, with 50% restricted geographically to a single Jepson Bioregion. The California Native Plant Society lists 51 Astragalus taxa (35% of the native Astragalus taxa) as rare, threatened, or endangered (RTE). Climate characteristics of geographic regions such as rainfall and temperature extremes show no obvious relationship to species richness or the proportion of listed taxa. Species richness is highest in the arid Great Basin (35 species and 53 taxa) combining both its components, followed by 29 species and 39 taxa in the Sierra Nevada East region that includes the White and Inyo Mountains. The Mojave Desert is also high in diversity with 32 species and 39 taxa, but in contrast the Sonoran Desert region is low with only 12 species and 14 taxa. Despite ranking highest in the number of Astragalus taxa present, the Great Basin regions are low in their proportion of RTE taxa (17%) compared to the South Coast Region (39.5%) and Mojave Desert (32%). Strong edaphic specialization is associated with the majority but not all RTE taxa. While no single ecophysiological adaptation can explain this pattern, it is significant that Astragalus taxa have the potential ability to develop symbiotic nitrogen fixation, and this trait is key to success in soils not conducive to growth of many potential competitors. Land use changes, alien grass invasion and grazing, among other threats, are increasing fragmentation of habitats for many rare taxa with consequent impacts on gene flow. The continued survival of rare and locally endemic taxa will require improved knowledge of their individual demographic traits and long-term population dynamics

Discrimination of Potent Inhibitors of Toxoplasma gondii Enoyl-Acyl Carrier Protein Reductase by a Thermal Shift Assay

Many microbial pathogens rely on a type II fatty acid synthesis (FASII) pathway that is distinct from the type I pathway found in humans. Enoyl-acyl carrier protein reductase (ENR) is an essential FASII pathway enzyme and the target of a number of antimicrobial drug discovery efforts. The biocide triclosan is established as a potent inhibitor of ENR and has been the starting point for medicinal chemistry studies. We evaluated a series of triclosan analogues for their ability to inhibit the growth of Toxoplasma gondii, a pervasive human pathogen, and its ENR enzyme (TgENR). Several compounds that inhibited TgENR at low nanomolar concentrations were identified but could not be further differentiated because of the limited dynamic range of the TgENR activity assay. Thus, we adapted a thermal shift assay (TSA) to directly measure the dissociation constant (Kd) of the most potent inhibitors identified in this study as well as inhibitors from previous studies. Furthermore, the TSA allowed us to determine the mode of action of these compounds in the presence of the reduced nicotinamide adenine dinucleotide (NADH) or nicotinamide adenine dinucleotide (NAD+) cofactor. We found that all of the inhibitors bind to a TgENR–NAD+ complex but that they differed in their dependence on NAD+ concentration. Ultimately, we were able to identify compounds that bind to the TgENR–NAD+ complex in the low femtomolar range. This shows how TSA data combined with enzyme inhibition, parasite growth inhibition data, and ADMET predictions allow for better discrimination between potent ENR inhibitors for the future development of medicine

Pasture Forage Quality in West Virginia - 1999 to 2001

WVU-Extension fact shee

Pasture Forage Quality in West Virginia

WVU-Extension fact shee

The SERRATE protein is involved in alternative splicing in <em>Arabidopsis thaliana</em>

Howalternative splicing (AS) is regulated in plants has not yet been elucidated. Previously, we have shown that the nuclear cap-binding protein complex (AtCBC) is involved in AS in Arabidopsis thaliana. Here we show that both subunits of AtCBC (AtCBP20 and AtCBP80) interact with SERRATE (AtSE), a protein involved in the microRNA biogenesis pathway. Moreover, using a high-resolution reverse transcript-ase-polymerase chain reaction AS system we have found that AtSE influences AS in a similar way to the cap-binding complex (CBC), preferentially affecting selection of 50 splice site of first introns. The AtSE protein acts in cooperation with AtCBC: many changes observed in the mutant lacking the correct SERRATE activity were common to those observed in the cbp mutants. Interestingly, significant changes in AS of some genes were also observed in other mutants of plant microRNA biogenesis pathway, hyl1-2 and dcl1-7, but a majority of them did not cor-respond to the changes observed in the se-1mutant. Thus, the role of SERRATE in AS regulation is distinct from that of HYL1andDCL1, and is similar to the regu-lation of AS in which CBC is involved

A combinatorial TIR1/AFB–Aux/IAA co-receptor system for differential sensing of auxin

The plant hormone auxin regulates virtually every aspect of plant growth and development. Auxin acts by binding the F-box protein transport inhibitor response 1 (TIR1) and promotes the degradation of the AUXIN/INDOLE-3-ACETIC ACID (Aux/IAA) transcriptional repressors. Here we show that efficient auxin binding requires assembly of an auxin co-receptor complex consisting of TIR1 and an Aux/IAA protein. Heterologous experiments in yeast and quantitative IAA binding assays using purified proteins showed that different combinations of TIR1 and Aux/IAA proteins form co-receptor complexes with a wide range of auxin-binding affinities. Auxin affinity seems to be largely determined by the Aux/IAA. As there are 6 TIR1/AUXIN SIGNALING F-BOX proteins (AFBs) and 29 Aux/IAA proteins in Arabidopsis thaliana, combinatorial interactions may result in many co-receptors with distinct auxin-sensing properties. We also demonstrate that the AFB5–Aux/IAA co-receptor selectively binds the auxinic herbicide picloram. This co-receptor system broadens the effective concentration range of the hormone and may contribute to the complexity of auxin response

Dietary effects on multi-element composition of European eel (Anguilla anguilla) otoliths

Otolith microchemistry is widely used as a tool to track individual migration pathways of diadromous fish under the assumption that the elemental composition of fish otoliths is directly influenced by the physicochemical properties of the surrounding water. Nevertheless, several endogenous factors are reported to affect element incorporation into fish otoliths and might lead to misinterpretations of migration studies. This study experimentally examined the influence of eight different diets on the microchemical composition of European eel (Anguilla anguilla) otoliths using laser ablation inductively coupled plasma mass spectrometry (LA-ICP-MS). Seven natural prey types and one artificial diet were fed during 8 weeks in freshwater circuits. Results show for the first time that food has no significant influence on the incorporation of Na, Sr, Ba, Mg, Mn, Cu and Y into European eel otoliths. This indicates that the incorporation of elements usually chosen for migration studies is not affected by diet and that individual feeding behaviour of A. anguilla will not lead to any misinterpretation of migration pathways

The Selaginella Genome Identifies Genetic Changes Associated with the Evolution of Vascular Plants

Vascular plants appeared ~410 million years ago then diverged into several lineages of which only two survive: the euphyllophytes (ferns and seed plants) and the lycophytes (1). We report here the genome sequence of the lycophyte Selaginella moellendorffii (Selaginella), the first non-seed vascular plant genome reported. By comparing gene content in evolutionary diverse taxa, we found that the transition from a gametophyte- to sporophyte- dominated life cycle required far fewer new genes than the transition from a non-seed vascular to a flowering plant, while secondary metabolic genes expanded extensively and in parallel in the lycophyte and angiosperm lineages. Selaginella differs in post- transcriptional gene regulation, including small RNA regulation of repetitive elements, an absence of the tasiRNA pathway and extensive RNA editing of organellar genes

Bottom-up Effects of Substrate on Two Adjacent Shrub Communities and the Distribution of a Rare and Endangered Plant Species, Astragalus jaegerianus Munz.

Edaphic habitats are botanically interesting because of differences in vegetation with neighboring sites and because they tend to harbor rare species. In the central Mojave Desert, there are granite colluvial substrates where creosote bush, the dominant shrub in the area, is sparser and generally smaller than in the neighboring creosote bush communities. It is on these sites that the Lane Mountain milkvetch, a rare and federally endangered species, is restricted. The milkvetch is a nitrogen-fixer and grows under and within the canopy of host shrubs. Our previous studies have demonstrated that the milkvetch has no preference for species of host shrub, except Larrea tridentata, which appears to be an unsuitable host plant for the milkvetch. In this study, we surveyed three transects within milkvetch habitats and three transects in adjacent creosote bush habitats in the year 2000 and again in 2010, a period coincident with long-term drought conditions in the Mojave Desert. Our results show that adjacent milkvetch and creosote bush shrub communities differ significantly in shrub height, shrub volume, and shrub density in the year 2000: the shrubs in milkvetch communities were more numerous but smaller compared to adjacent creosote bush scrub. Species richness also differed between communities in the year 2000: milkvetch communities contained 19 different shrub species and creosote bush communities had only 9 species. Surveys in 2010 show that the drought had significant negative effects on both shrub communities. Total shrub mortality (166 shrubs) was high compared to shrub recruitment (16 shrubs), and the majority of mortality and recruitment occurred in milkvetch communities (131 deaths and 16 recruits). Shrub densities decreased significantly in milkvetch communities in 2010, but were still considerably higher than in creosote bush communities. These results suggest that the restricted distribution of the Lane Mountain milkvetch may be the result of higher shrub densities in milkvetch shrub communities; increased shrub densities increases the proximity of suitable host shrubs, which in turn increase the probability of successful seed dispersal and establishment