Genome Assembly Improvement and Mapping Convergently Evolved Skeletal Traits in Sticklebacks with Genotyping-by-Sequencing.

Marine populations of the threespine stickleback (Gasterosteus aculeatus) have repeatedly colonized and rapidly adapted to freshwater habitats, providing a powerful system to map the genetic architecture of evolved traits. Here, we developed and applied a binned genotyping-by-sequencing (GBS) method to build dense genome-wide linkage maps of sticklebacks using two large marine by freshwater F2 crosses of more than 350 fish each. The resulting linkage maps significantly improve the genome assembly by anchoring 78 new scaffolds to chromosomes, reorienting 40 scaffolds, and rearranging scaffolds in 4 locations. In the revised genome assembly, 94.6% of the assembly was anchored to a chromosome. To assess linkage map quality, we mapped quantitative trait loci (QTL) controlling lateral plate number, which mapped as expected to a 200-kb genomic region containing Ectodysplasin, as well as a chromosome 7 QTL overlapping a previously identified modifier QTL. Finally, we mapped eight QTL controlling convergently evolved reductions in gill raker length in the two crosses, which revealed that this classic adaptive trait has a surprisingly modular and nonparallel genetic basis

2019 Illinois Turkey Hunter And Landowner Report

A random sample was drawn of 5,000 Illinois residents with a 2019 Illinois spring turkey hunting permit. The sample included 3,000 turkey hunters with a spring turkey shotgun/archery permit (general hunters) and 2,000 hunters with a landowner spring turkey shotgun/archery permit (landowner hunters). Selected individuals were mailed an 8-page self-administered questionnaire designed to understand attitudes, preferences, and behaviors of turkey hunters in Illinois. We received 2,932 questionnaires, 2,733 of which were usable, for a 57% response rate. Turkey hunters on average hunted 4.5 days during the 2019 spring turkey season and harvested an average of .4 turkeys per hunter. Most turkey hunters were satisfied with their overall turkey hunting experience (76%). Fifty percent of respondents believed that the turkey population in the areas that they hunted most often for turkey was too low. Most hunters only hunted on private land during the 2019 spring turkey season (82%). On average, turkey hunters encountered 1.0 other hunters (that were not part of their party) on their most crowded day in the field during the 2019 spring turkey season. Most hunters indicated there was not too much competition from other hunters where they hunted (70%). Enjoying nature and the outdoors, being out in the woods, and experiencing the challenge of the hunt were the most important factors for respondents during the spring turkey season. Only 1% of respondents (n = 30) hunted turkeys on an Illinois Recreational Access Program (IRAP) property during the 2019 spring turkey season. Sixteen percent of respondents indicated that they took a youth (17 years old or younger) hunting during the 2019 spring turkey season.Federal Aid Project Number W-112-R-28unpublishednot peer reviewedOpe

Quantum wires from coupled InAs/GaAs strained quantum dots

The electronic structure of an infinite 1D array of vertically coupled InAs/GaAs strained quantum dots is calculated using an eight-band strain-dependent k-dot-p Hamiltonian. The coupled dots form a unique quantum wire structure in which the miniband widths and effective masses are controlled by the distance between the islands, d. The miniband structure is calculated as a function of d, and it is shown that for d>4 nm the miniband is narrower than the optical phonon energy, while the gap between the first and second minibands is greater than the optical phonon energy. This leads to decreased optical phonon scattering, providing improved quantum wire behavior at high temperatures. These miniband properties are also ideal for Bloch oscillation.Comment: 5 pages revtex, epsf, 8 postscript figure

Parallel developmental genetic features underlie stickleback gill raker evolution.

BackgroundConvergent evolution, the repeated evolution of similar phenotypes in independent lineages, provides natural replicates to study mechanisms of evolution. Cases of convergent evolution might have the same underlying developmental and genetic bases, implying that some evolutionary trajectories might be predictable. In a classic example of convergent evolution, most freshwater populations of threespine stickleback fish have independently evolved a reduction of gill raker number to adapt to novel diets. Gill rakers are a segmentally reiterated set of dermal bones important for fish feeding. A previous large quantitative trait locus (QTL) mapping study using a marine × freshwater F2 cross identified QTL on chromosomes 4 and 20 with large effects on evolved gill raker reduction.ResultsBy examining skeletal morphology in adult and developing sticklebacks, we find heritable marine/freshwater differences in gill raker number and spacing that are specified early in development. Using the expression of the Ectodysplasin receptor (Edar) gene as a marker of raker primordia, we find that the differences are present before the budding of gill rakers occurs, suggesting an early change to a lateral inhibition process controlling raker primordia spacing. Through linkage mapping in F2 fish from crosses with three independently derived freshwater populations, we find in all three crosses QTL overlapping both previously identified QTL on chromosomes 4 and 20 that control raker number. These two QTL affect the early spacing of gill raker buds.ConclusionsCollectively, these data demonstrate that parallel developmental genetic features underlie the convergent evolution of gill raker reduction in freshwater sticklebacks, suggesting that even highly polygenic adaptive traits can have a predictable developmental genetic basis

Interagency Science and Research: Final Project Report

The major accomplishment of this project was the development of the SNAP Science and Research Strategy: an 11-chapter document designed to integrate and coordinate scientific research programs in Southern Nevada and improve the efficiency and effectiveness of these programs. The Strategy is intended to inform and guide SNAP agencies in identifying and articulating highest priority science and research needs, sharing resources and funds from other sources, and eliminating redundancy between research programs within their focus areas. The major focus areas of the Strategy are Fire, Invasive Species, Watersheds and Landscapes, Biodiversity, Cultural Resources, Historic Content, Recreation, Land Use, and Education. The Strategy was approved by the SNAP Board in March 2009

Significance of Circulating Tumor Cells Detected by the CellSearch System in Patients with Metastatic Breast Colorectal and Prostate Cancer

The increasing number of treatment options for patients with metastatic carcinomas has created a concomitant need for new methods to monitor their use. Ideally, these modalities would be noninvasive, be independent of treatment, and provide quantitative real-time analysis of tumor activity in a variety of carcinomas. Assessment of circulating tumor cells (CTCs) shed into the blood during metastasis may satisfy this need. We developed the CellSearch System to enumerate CTC from 7.5 mL of venous blood. In this review we compare the outcomes from three prospective multicenter studies investigating the use of CTC to monitor patients undergoing treatment for metastatic breast (MBC), colorectal (MCRC), or prostate cancer (MPC) and review the CTC definition used in these studies. Evaluation of CTC at anytime during the course of disease allows assessment of patient prognosis and is predictive of overall survival

Chandra observations of the accretion-driven millisecond X-ray pulsars XTE J0929-314 and XTE J1751-305 in quiescence

(Abridge) We observed the accreting millisecond X-ray pulsars XTE J0929-314 and XTE J1751-305 in their quiescent states using Chandra. From XTE J0929-314 we detected 22 photons (0.3-8 keV) in 24.4 ksec, resulting in a count rate of 9 x 10^{-4} c/s. The small number of photons detected did not allow for a detailed spectral analysis, but we can demonstrate that the spectrum is harder than simple thermal emission which is what is usually presumed to arise from a cooling neutron star that has been heated during the outbursts. Assuming a power-law model for the spectrum, we obtain a power-law index of ~1.8 and an unabsorbed flux of 6 x 10^{-15} ergs/s/cm^2 (0.5-10 keV), resulting in a luminosity of 7 x 10^{31} (d/10 kpc)^2 ergs/s, with d in kpc. No thermal component could be detected; such a component contributed at most 30% to the 0.5-10 keV flux. Variability in the count rate of XTE J0929-314 was observed at the 95% confidence level. We did not conclusively detect XTE J1751-305 in our 43 ksec observation, with 0.5-10 keV flux upper limits between 0.2 and 2.7 x 10^{-14} ergs/s/cm^2 depending on assumed spectral shape, resulting in luminosity upper limits of 0.2 - 2 x 10^{32} (d/8 kpc)^2 ergs/s. We compare our results with those obtained for other neutron-star X-ray transients in their quiescent state. Using simple accretion disk physics in combination with our measured quiescent luminosity of XTE J0929-314 and the luminosity upper limits of XTE J1751-305, and the known spin frequency of the neutron stars, we could constrain the magnetic field of the neutron stars in XTE J0929-314 and XTE J1751-305 to be less than 3 x 10^9 (d/10 kpc) and 3 - 7 x 10^8 (d/8 kpc) Gauss (depending on assumed spectral shape of the quiescent spectrum), respectively.Comment: Accepted for publication in ApJ, 29 September 2004. Added spectral variability search for the data of XTE J0929-314 and added the non-detection with Chandra of XTE J1751-30

The Exceptionally Luminous Type Ia Supernova 2007If

SN 2007if was the third over-luminous Type Ia supernova (SN Ia) detected after 2003fg and 2006gz. We present the photometric and spectroscopic observations of the SN and its host by ROTSE-III, HET, and Keck. From the H a line identified in the host spectra, we determine a redshift of 0.0736. At this distance, the SN reached an absolute magnitude of -20.4, brighter than any other SNe Ia ever observed. If the source of luminosity is radioactive decay, a large amount of radioactive nickel (similar to 1.5 M(circle dot)) is required to power the peak luminosity, more than can be produced realistically in a Chandrasekhar mass progenitor. Low expansion velocity, similar to that of 2003fg, is also measured around the maximum light. The observations may suggest that SN 2007if was from a massive white dwarf progenitor, plausibly exploding with mass well beyond 1.4 M(circle dot). Alternatively, we investigate circumstellar interaction that may contribute to the excess luminosity.NASA NNX-08AN25G, NNX-08AV63GNSF AST-0707769, PHY-0801007Australian Research CouncilUniversity of New South WalesUniversity of TexasUniversity of MichiganAstronom

The hard quiescent spectrum of the neutron-star X-ray transient EXO 1745-248 in the globular cluster Terzan 5

We present a Chandra observation of the globular cluster Terzan 5 during times when the neutron-star X-ray transient EXO 1745-248 located in this cluster was in its quiescent state. We detected the quiescent system with a (0.5-10 keV) luminosity of ~2 x 10^{33} ergs/s. This is similar to several other neutron-star transients observed in their quiescent states. However, the quiescent X-ray spectrum of EXO 1745--48 was dominated by a hard power-law component instead of the soft component that usually dominates the quiescent emission of other neutron-star X-ray transients. This soft component could not conclusively be detected in EXO 1745-248 and we conclude that it contributed at most 10% of the quiescent flux in the energy range 0.5-10 keV. EXO 1745-248 is only the second neutron-star transient whose quiescent spectrum is dominated by the hard component (SAX J1808.4-3658 is the other one). We discuss possible explanations for this unusual behavior of EXO 1745-248, its relationship to other quiescent neutron-star systems, and the impact of our results on understanding quiescent X-ray binaries. We also discuss the implications of our results on the way the low-luminosity X-ray sources in globular clusters are classified.Comment: Accepted by ApJ Main Journal, September 22, 2004. Figure 2 is a color figur