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A two-step method for identifying photopigment opsin and rhodopsin gene sequences underlying human color vision phenotypes.
PurposeTo present a detailed, reliable long range-PCR and sequencing (LR-PCR-Seq) procedure to identify human opsin gene sequences for variations in the long wavelength-sensitive (OPN1LW), medium wavelength-sensitive (OPN1MW), short wavelength-sensitive (OPN1SW), and rhodopsin (RHO) genes.MethodsColor vision was assessed for nine subjects using the Farnsworth-Munsell 100 hue test, Ishihara pseudoisochromatic plates, and the Rabin cone-contrast threshold procedure (ColorDX, Konan Medical). The color vision phenotypes were normal trichromacy (n = 3), potential tetrachromacy (n = 3), dichromacy (n = 2), and unexplained low color vision (n = 1). DNA was isolated from blood or saliva and LR-PCR amplified into individual products: OPN1LW (4,045 bp), OPN1MW (4,045 bp), OPN1SW (3,326 bp), and RHO (6,715 bp). Each product was sequenced using specific internal primer sets. Analysis was performed with Mutation Surveyor software.ResultsThe LR-PCR-Seq technique identified known single nucleotide polymorphisms (SNPs) in OPN1LW and OPN1MW gene codons (180, 230, 233, 277, and 285), as well as those for lesser studied codons (174, 178, 236, 274, 279, 298 and 309) in the OPN1LW and OPN1MW genes. Additionally, six SNP variants in the OPN1MW and OPN1LW genes not previously reported in the NCBI dbSNP database were identified. An unreported poly-T region within intron 5(c.36+126) of the rhodopsin gene was also found, and analysis showed it to be highly conserved in mammalian species.ConclusionsThis LR-PCR-Seq procedure (single PCR reaction per gene followed by sequencing) can identify exonic and intronic SNP variants in OPN1LW, OPN1MW, OPN1SW, and rhodopsin genes. There is no need for restriction enzyme digestion or multiple PCR steps that can introduce errors. Future studies will combine the LR-PCR-Seq with perceptual behavior measures, allowing for accurate correlations between opsin genotypes, retinal photopigment phenotypes, and color perception behaviors
Search for cold and hot gas in the ram pressure stripped Virgo dwarf galaxy IC3418
We present IRAM 30m sensitive upper limits on CO emission in the ram pressure
stripped dwarf Virgo galaxy IC3418 and in a few positions covering HII regions
in its prominent 17 kpc UV/Ha gas-stripped tail. In the central few arcseconds
of the galaxy, we report a possible marginal detection of about 1x10^6 M_sun of
molecular gas (assuming a Galactic CO-to-H_2 conversion factor) that could
correspond to a surviving nuclear gas reservoir. We estimate that there is less
molecular gas in the main body of IC3418, by at least a factor of 20, than
would be expected from the pre-quenching UV-based star formation rate assuming
the typical gas depletion timescale of 2 Gyr. Given the lack of star formation
in the main body, we think the H_2-deficiency is real, although some of it may
also arise from a higher CO-to-H_2 factor typical in low-metallicity, low-mass
galaxies. The presence of HII regions in the tail of IC3418 suggests that there
must be some dense gas; however, only upper limits of < 1x10^6 M_sun were found
in the three observed points in the outer tail. This yields an upper limit on
the molecular gas content of the whole tail < 1x10^7 M_sun, which is an amount
similar to the estimates from the observed star formation rate over the tail.
We also present strong upper limits on the X-ray emission of the stripped gas
in IC3418 from a new Chandra observation. The measured X-ray luminosity of the
IC3418 tail is about 280 times lower than that of ESO 137-001, a spiral galaxy
in a more distant cluster with a prominent ram pressure stripped tail.
Non-detection of any diffuse X-ray emission in the IC3418 tail may be due to a
low gas content in the tail associated with its advanced evolutionary state
and/or due to a rather low thermal pressure of the surrounding intra-cluster
medium.Comment: 15 pages, 11 figures, A&A accepte
Large-scale radio continuum properties of 19 Virgo cluster galaxies The influence of tidal interactions, ram pressure stripping, and accreting gas envelopes
Deep scaled array VLA 20 and 6cm observations including polarization of 19
Virgo spirals are presented. This sample contains 6 galaxies with a global
minimum of 20cm polarized emission at the receding side of the galactic disk
and quadrupolar type large-scale magnetic fields. In the new sample no
additional case of a ram-pressure stripped spiral galaxy with an asymmetric
ridge of polarized radio continuum emission was found. In the absence of a
close companion, a truncated HI disk, together with a ridge of polarized radio
continuum emission at the outer edge of the HI disk, is a signpost of ram
pressure stripping. 6 out of the 19 observed galaxies display asymmetric 6cm
polarized emission distributions. Three galaxies belong to tidally interacting
pairs, two galaxies host huge accreting HI envelopes, and one galaxy had a
recent minor merger. Tidal interactions and accreting gas envelopes can lead to
compression and shear motions which enhance the polarized radio continuum
emission. In addition, galaxies with low average star formation rate per unit
area have a low average degree of polarization. Shear or compression motions
can enhance the degree of polarization. The average degree of polarization of
tidally interacting galaxies is generally lower than expected for a given
rotation velocity and star formation activity. This low average degree of
polarization is at least partly due to the absence of polarized emission from
the thin disk. Ram pressure stripping can decrease whereas tidal interactions
most frequently decreases the average degree of polarization of Virgo spiral
galaxies. We found that moderate active ram pressure stripping has no influence
on the spectral index, but enhances the global radio continuum emission with
respect to the FIR emission, while an accreting gas envelope can but not
necessarily enhances the radio continuum emission with respect to the FIR
emission.Comment: 37 pages, 26 figures, accepted for publication in A&
Ram pressure stripping of the multiphase ISM in the Virgo cluster spiral galaxy NGC 4438
Ram pressure stripping of the multiphase ISM is studied in the perturbed
Virgo cluster spiral galaxy NGC 4438. This galaxy underwent a tidal interaction
~100 Myr ago and is now strongly affected by ram pressure stripping. Deep VLA
radio continuum observations at 6 and 20 cm are presented. We detect prominent
extraplanar emission to the west of the galactic center, which extends twice as
far as the other tracers of extraplanar material. The spectral index of the
extraplanar emission does not steepen with increasing distance from the galaxy.
This implies in situ re-acceleration of relativistic electrons. The comparison
with multiwavelength observations shows that the magnetic field and the warm
ionized interstellar medium traced by Halpha emission are closely linked. The
kinematics of the northern extraplanar Halpha emission, which is ascribed to
star formation, follow those of the extraplanar CO emission. In the western and
southern extraplanar regions, the Halpha measured velocities are greater than
those of the CO lines. We suggest that the ionized gas of this region is
excited by ram pressure. The spatial and velocity offsets are consistent with a
scenario where the diffuse ionized gas is more efficiently pushed by ram
pressure stripping than the neutral gas. We suggest that the recently found
radio-deficient regions compared to 24 mum emission are due to this difference
in stripping efficiency.Comment: 8 pages, 6 figures, A&A, accepted for publicatio
Observations of Stripped Edge-on Virgo Cluster Galaxies
We present observations of highly inclined, HI deficient, Virgo cluster
spiral galaxies. Our high-resolution VLA HI observations of edge-on galaxies
allow us to distinguish extraplanar gas from disk gas. All of our galaxies have
truncated H-alpha disks, with little or no disk gas beyond a truncation radius.
While all the gas disks are truncated, the observations show evidence for a
continuum of stripping states: symmetric, undisturbed truncated gas disks
indicate galaxies that were stripped long ago, while more asymmetric disks
suggest ongoing or more recent stripping. We compare these timescale estimates
with results obtained from two-dimensional stellar spectroscopy of the outer
disks of galaxies in our sample. One of the galaxies in our sample, NGC 4522 is
a clear example of active ram-pressure stripping, with 40% of its detected HI
being extraplanar. As expected, the outer disk stellar populations of this
galaxy show clear signs of recent (and, in fact, ongoing) stripping. Somewhat
less expected, however, is the fact that the spectrum of the outer disk of this
galaxy, with very strong Balmer absorption and no observable emission, would be
classified as ``k+a'' if observed at higher redshift. Our observations of NGC
4522 and other galaxies at a range of cluster radii allow us to better
understand the role that clusters play in the structure and evolution of disk
galaxies.Comment: 4 pages, 2 figures, to appear in the proceedings of the Island
Universes conference held in Terschelling, Netherlands, July 2005, ed. R. de
Jong, version with high resolution figures can be downloaded from
ftp://ftp.astro.yale.edu/pub/hugh/papers/iu_crowl_h.ps.g
Invest to Save: Report and Recommendations of the NSF-DELOS Working Group on Digital Archiving and Preservation
Digital archiving and preservation are important areas for research and development, but there is no agreed upon set of priorities or coherent plan for research in this area. Research projects in this area tend to be small and driven by particular institutional problems or concerns. As a consequence, proposed solutions from experimental projects and prototypes tend not to scale to millions of digital objects, nor do the results from disparate projects readily build on each other. It is also unclear whether it is worthwhile to seek general solutions or whether different strategies are needed for different types of digital objects and collections. The lack of coordination in both research and development means that there are some areas where researchers are reinventing the wheel while other areas are neglected.
Digital archiving and preservation is an area that will benefit from an exercise in analysis, priority setting, and planning for future research. The WG aims to survey current research activities, identify gaps, and develop a white paper proposing future research directions in the area of digital preservation. Some of the potential areas for research include repository architectures and inter-operability among digital archives; automated tools for capture, ingest, and normalization of digital objects; and harmonization of preservation formats and metadata. There can also be opportunities for development of commercial products in the areas of mass storage systems, repositories and repository management systems, and data management software and tools.
Influence of Body Weight Category on Outcomes in Candidemia Patients Treated With Anidulafungin
BACKGROUND: Case reports and pharmacokinetic data suggest off-label echinocandin dosing may be needed to reach adequate serum concentrations in obese patients. Few outcome studies exist evaluating this population.
OBJECTIVES: Of this study were to (1) determine the association of body mass index (BMI) with clinical outcomes of candidemia patients on standard doses of anidulafungin and (2) characterize fungal infections by body weight.
METHODS: A retrospective cohort was conducted to evaluate hospitalized patients treated for candidemia with anidulafungin at Food and Drug Administration-labeled dosing for at least 72 hours from January 1, 2014, through January 31, 2018. Candidemia was diagnosed by blood culture or T2 magnetic resonance (T2MR). Patients were compared according to BMI category.
RESULTS: One hundred seventy-three patients were included.
CONCLUSION: There was no difference detected in mortality among patients with candidemia across BMI category. Larger studies are needed to confirm whether standard doses of anidulafungin are sufficient for candidemia in obese patients
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