Correlation of Sikora and Smith-McLean- Pratt Soil Buffer pH Measurements

Historically, the K-State Research and Extension Soil Testing Laboratory has used the Smith-McLean-Pratt (SMP) buffer solution to estimate total soil acidity and estimate lime recommendations. The SMP solution contains hazardous chemicals and poses a health risk to lab workers. The Sikora buffer solution was designed as a replacement for SMP and contains no hazardous chemicals. A study was conducted to investigate the relationship between these two buffers in Kansas soils. A strong positive correlation was observed between SMP and Sikora buffer pH measurements. However, linear regression suggests that the relationship is not 1:1 (slope = 0.88). Therefore recommendation equations using the Sikora buffer would require different equations than those currently used for the SMP buffer pH measurements

Low State, Phase-Resolved IR Spectroscopy of VV Puppis

We present phase-resolved low resolution $JHK$ and higher resolution $K$-band spectroscopy of the polar VV Pup. All observations were obtained when VV Pup was in a low accretion state having a K magnitude near 15. The low resolution observations reveal cyclotron emission in the $J$ band during some phases, consistent with an origin near the active 30.5 MG pole on the white dwarf. The secondary in VV Pup appears to be a normal M7V star and we find that the $H$ and $K$ band fluxes are entirely due to this star at all orbital phases during the low accretion state. We use our higher resolution Keck spectroscopy to produce the first $K$-band radial velocity curve for VV Pup. Our orbital solution yields $K_2$=414$\pm27$ km sec$^{-1}$ and leads to mass estimates of M$_1$=0.73$\pm$0.05 M$_{\odot}$ and M$_2$=0.10$\pm$0.02 M$_{\odot}$. We find that the mass accretion rates during the normal low states of the polars VV Pup, EF Eri, and EQ Cet are near 10$^{-13}$ M$_{\odot}$ yr$^{-1}$. The fact that \.M is not zero in low state polars indicates active secondary stars in these binary systems, including the sub-stellar donor star present in EF Eri.Comment: Accepted in Astronomical Journal 5 figure

Amphotericin forms an extramembranous and fungicidal sterol sponge.

For over 50 years, amphotericin has remained the powerful but highly toxic last line of defense in treating life-threatening fungal infections in humans with minimal development of microbial resistance. Understanding how this small molecule kills yeast is thus critical for guiding development of derivatives with an improved therapeutic index and other resistance-refractory antimicrobial agents. In the widely accepted ion channel model for its mechanism of cytocidal action, amphotericin forms aggregates inside lipid bilayers that permeabilize and kill cells. In contrast, we report that amphotericin exists primarily in the form of large, extramembranous aggregates that kill yeast by extracting ergosterol from lipid bilayers. These findings reveal that extraction of a polyfunctional lipid underlies the resistance-refractory antimicrobial action of amphotericin and suggests a roadmap for separating its cytocidal and membrane-permeabilizing activities. This new mechanistic understanding is also guiding development of what are to our knowledge the first derivatives of amphotericin that kill yeast but not human cells

Genome-wide association of familial late-onset alzheimer's disease replicates BIN1 and CLU and nominates CUGBP2 in interaction with APOE

Late-onset Alzheimer's disease (LOAD) is the most common form of dementia in the elderly. The National Institute of Aging-Late Onset Alzheimer's Disease Family Study and the National Cell Repository for Alzheimer's Disease conducted a joint genome-wide association study (GWAS) of multiplex LOAD families (3,839 affected and unaffected individuals from 992 families plus additional unrelated neurologically evaluated normal subjects) using the 610 IlluminaQuad panel. This cohort represents the largest family-based GWAS of LOAD to date, with analyses limited here to the European-American subjects. SNPs near APOE gave highly significant results (e.g., rs2075650, p = 3.2×10-81), but no other genome-wide significant evidence for association was obtained in the full sample. Analyses that stratified on APOE genotypes identified SNPs on chromosome 10p14 in CUGBP2 with genome-wide significant evidence for association within APOE ε4 homozygotes (e.g., rs201119, p = 1.5×10-8). Association in this gene was replicated in an independent sample consisting of three cohorts. There was evidence of association for recently-reported LOAD risk loci, including BIN1 (rs7561528, p = 0.009 with, and p = 0.03 without, APOE adjustment) and CLU (rs11136000, p = 0.023 with, and p = 0.008 without, APOE adjustment), with weaker support for CR1. However, our results provide strong evidence that association with PICALM (rs3851179, p = 0.69 with, and p = 0.039 without, APOE adjustment) and EXOC3L2 is affected by correlation with APOE, and thus may represent spurious association. Our results indicate that genetic structure coupled with ascertainment bias resulting from the strong APOE association affect genome-wide results and interpretation of some recently reported associations. We show that a locus such as APOE, with large effects and strong association with disease, can lead to samples that require appropriate adjustment for this locus to avoid both false positive and false negative evidence of association. We suggest that similar adjustments may also be needed for many other large multi-site studies. © 2011 Wijsman et al

Spectroscopic results from the Life in the Atacama (LITA) project 2004 field season

Analysis of spectroscopy datasets from rover field tests in the Atacama Desert (Chile), focusing on the composition of the surface and identification of potential habitats for life

Sorting of chromosomes by magnetic separation

Chromosomes were isolated from Chinese hamster x human hybrid cell lines containing four and nine human chromosomes. Human genomic DNA was biotinylated by nick translation and used to label the human chromosomes by in situ hybridization in suspension. Streptavidin was covalently coupled to the surface of magnetic beads and these were incubated with the hybridized chromosomes. The human chromosomes were bound to the magnetic beads through the strong biotin-streptavidin complex and then rapidly separated from nonlabeled Chinese hamster chromosomes by a simple permanent magnet. The hybridization was visualized by additional binding of avidin-FITC (fluorescein) to the unoccupied biotinylated human DNA bound to the human chromosomes. After magnetic separation, up to 98% of the individual chromosomes attached to magnetic beads were classified as human chromosomes by fluorescence microscopy

Using Biomarkers to Inform Cumulative Risk Assessment

BACKGROUND: Biomarkers are considered the method of choice for determining exposure to environmental contaminants and relating such exposures to health outcomes. However, the association between many biomarkers and outcome is not direct because of variability in sensitivity and susceptibility in the individual. OBJECTIVES: We explore the relationship between environmental exposures and health outcomes as mitigated by differential susceptibility in individuals or populations and address the question “Can biomarkers enable us to understand and quantify better the population burden of disease and health effects attributable to environmental exposures?” METHODS: We use a case–study approach to develop the thesis that biomarkers offer a pathway to disaggregation of health effects into specific, if multiple, risk factors. We offer the point of view that a series or array of biomarkers, including biomarkers of exposure, biomarkers of susceptibility, and biomarkers of effect, used in concert offer the best means by which to effect this disaggregation. We commence our discussion by developing the characteristics of an ideal biomarker, then give some examples of commonly used biomarkers to show the strengths and weaknesses of current usage. We follow this by more detailed case-study assessment outlining the state-of-the-science in specific cases. We complete our work with recommendations regarding the future use of biomarkers and areas for continued development. CONCLUSIONS: The case studies provide examples of when and how biomarkers can be used to infer the source and magnitude of exposure among a set of competing sources and pathways. The answer to this question is chemical specific and relates to how well the biomarker matches the characteristics of an “ideal” biomarker–in particular ease of collection and persistence. The use of biomarkers in combination provides a better opportunity to disaggregate both source and pathway contributions

Single-mode interband cascade laser with a slotted waveguide

The design of a single-mode interband cascade laser (ICL) using a slotted waveguide is presented. This technique was explored as an inexpensive alternative to distributed feedback lasers since standard photolithography can be used in fabrication and complex techniques, such as e-beam lithography, re-growth steps, and/or metal gratings, can be avoided. The design of slotted waveguides must be carefully simulated before fabrication to ensure the efficacy of the photolithography masks with each ICL growth. Limitations and the behavior of key design parameters are discussed. Single-mode emission was achieved for certain temperature and injected current conditions, validating the operation of an Sb based slotted laser. The slotted ICLs were emitting from a single longitudinal mode at 3.5 μm and 2 mW of power per facet output at 20 °C with threshold currents around 80 mA

Investigating Perceptual Congruence Between Data and Display Dimensions in Sonification

The relationships between sounds and their perceived meaning and connotations are complex, making auditory perception an important factor to consider when designing sonification systems. Listeners often have a mental model of how a data variable should sound during sonification and this model is not considered in most data:sound mappings. This can lead to mappings that are difficult to use and can cause confusion. To investigate this issue, we conducted a magnitude estimation experiment to map how roughness, noise and pitch relate to the perceived magnitude of stress, error and danger. These parameters were chosen due to previous findings which suggest perceptual congruency between these auditory sensations and conceptual variables. Results from this experiment show that polarity and scaling preference are dependent on the data:sound mapping. This work provides polarity and scaling values that may be directly utilised by sonification designers to improve auditory displays in areas such as accessible and mobile computing, process-monitoring and biofeedback