The KATRIN Pre-Spectrometer at reduced Filter Energy

The KArlsruhe TRItium Neutrino experiment, KATRIN, will determine the mass of the electron neutrino with a sensitivity of 0.2 eV (90% C.L.) via a measurement of the beta-spectrum of gaseous tritium near its endpoint of E_0 =18.57 keV. An ultra-low background of about b = 10 mHz is among the requirements to reach this sensitivity. In the KATRIN main beam-line two spectrometers of MAC-E filter type are used in a tandem configuration. This setup, however, produces a Penning trap which could lead to increased background. We have performed test measurements showing that the filter energy of the pre-spectrometer can be reduced by several keV in order to diminish this trap. These measurements were analyzed with the help of a complex computer simulation, modeling multiple electron reflections both from the detector and the photoelectric electron source used in our test setup.Comment: 22 pages, 12 figure

Three-dimensional interferometric, spectrometric, and planetary views of Procyon

We used a new realistic 3D radiative-hydrodynamical model atmosphere of Procyon generated with the Stagger Code and synthetic spectra computed with the radiative transfer code Optim3D to re-analyze interferometric and spectroscopic data from the optical to the infrared of Procyon. We compute intensity maps in two optical filters centered at 500 and 800 nm (MARK III) and one infrared filter centered at 2200 nm (VINCI). We constructed stellar disk images accounting for the center-to-limb variations and used them to derive visibility amplitudes and closure phases. We provide 3D limb-darkening coefficients in the optical as well as in the infrared. We show that visibility curves and closure phases show clear deviations from circular symmetry from the 3rd lobe on. These deviations are detectable with current interferometers using closure phases. We derive new angular diameters at different wavelengths with two independent methods based on 3D simulations. We find a diameter_Vinci = 5.390 \pm 0.03 mas that this is confirmed by an independent asteroseismic estimation. The resulting Teff is 6591 K, which is consistent with the infrared flux method determinations. We find also a value of the surface gravity log g = 4.01 \pm 0.03 that is larger by 0.05 dex from literature values. Spectrophotometric comparisons with observations provide very good agreement with the spectral energy distribution and photometric colors, allowing us to conclude that the thermal gradient of the simulation matches fairly well Procyon. Finally, we show that the granulation pattern of a planet hosting Procyon-like star has a non-negligible impact on the detection of hot Jupiters in the infrared using interferometry closure phases. It is then crucial to have a comprehensive knowledge of the host star to directly detect and characterize hot Jupiters. In this respect, RHD simulations are very important to reach this aim.Comment: Accepted for publication on Astronomy and Astrophysics, 14 pages, 12 figure

Erratum to : Analysis of the mitochondrial maxicircle of Trypanosoma lewisi, a neglected human pathogen

BACKGROUND The haemoflagellate Trypanosoma lewisi is a kinetoplastid parasite which, as it has been recently reported to cause human disease, deserves increased attention. Characteristic features of all kinetoplastid flagellates are a uniquely structured mitochondrial DNA or kinetoplast, comprised of a network of catenated DNA circles, and RNA editing of mitochondrial transcripts. The aim of this study was to describe the kinetoplast DNA of T. lewisi. METHODS/RESULTS In this study, purified kinetoplast DNA from T. lewisi was sequenced using high-throughput sequencing in combination with sequencing of PCR amplicons. This allowed the assembly of the T. lewisi kinetoplast maxicircle DNA, which is a homologue of the mitochondrial genome in other eukaryotes. The assembly of 23,745 bp comprises the non-coding and coding regions. Comparative analysis of the maxicircle sequence of T. lewisi with Trypanosoma cruzi, Trypanosoma rangeli, Trypanosoma brucei and Leishmania tarentolae revealed that it shares 78 %, 77 %, 74 % and 66 % sequence identity with these parasites, respectively. The high GC content in at least 9 maxicircle genes of T. lewisi (ATPase6; NADH dehydrogenase subunits ND3, ND7, ND8 and ND9; G-rich regions GR3 and GR4; cytochrome oxidase subunit COIII and ribosomal protein RPS12) implies that their products may be extensively edited. A detailed analysis of the non-coding region revealed that it contains numerous repeat motifs and palindromes. CONCLUSIONS We have sequenced and comprehensively annotated the kinetoplast maxicircle of T. lewisi. Our analysis reveals that T. lewisi is closely related to T. cruzi and T. brucei, and may share similar RNA editing patterns with them rather than with L. tarentolae. These findings provide novel insight into the biological features of this emerging human pathogen

Ly-alpha/H-alpha Ratio of Singly Ionized Helium in Quasars

He II Ly-alpha 304/H-alpha 1640 emission lines are mainly produced by recombination, and their canonical ratio of about 10 may be a sensitive reddening indicator. We obtain the high S/N optical spectra of two quasars and combine them with the far-UV spectra that show the He II 304 emission. For HS 1700+64, the He II 1640 emission is not detected, and an upper limit to it sets the ratio greater than 20. For Q0302-003, the ratio is very low, on the order of unity. The most plausible cause for such a low ratio is extinction in the EUV band by very fine grains of dust. Q0302-003 has a prominent narrow component of FWHM ~ 2000 km/s in its major emission lines, and it appears that reddening is associated only with the line-emitting region. We suggest that the geometry of the line-emitting region in high-z quasars resembles that in the low-luminosity active galaxies, with the presence of dust mostly in the outer part.Comment: 18 pages, including 2 figures To appear in Astrophysical Journa

Remarkable fly (Diptera) diversity in a patch of Costa Rican cloud forest : Why inventory is a vital science

Study of all flies (Diptera) collected for one year from a four-hectare (150 x 266 meter) patch of cloud forest at 1,600 meters above sea level at Zurqui de Moravia, San Jose Province, Costa Rica (hereafter referred to as Zurqui), revealed an astounding 4,332 species. This amounts to more than half the number of named species of flies for all of Central America. Specimens were collected with two Malaise traps running continuously and with a wide array of supplementary collecting methods for three days of each month. All morphospecies from all 73 families recorded were fully curated by technicians before submission to an international team of 59 taxonomic experts for identification. Overall, a Malaise trap on the forest edge captured 1,988 species or 51% of all collected dipteran taxa (other than of Phoridae, subsampled only from this and one other Malaise trap). A Malaise trap in the forest sampled 906 species. Of other sampling methods, the combination of four other Malaise traps and an intercept trap, aerial/hand collecting, 10 emergence traps, and four CDC light traps added the greatest number of species to our inventory. This complement of sampling methods was an effective combination for retrieving substantial numbers of species of Diptera. Comparison of select sampling methods (considering 3,487 species of non-phorid Diptera) provided further details regarding how many species were sampled by various methods. Comparison of species numbers from each of two permanent Malaise traps from Zurqui with those of single Malaise traps at each of Tapanti and Las Alturas, 40 and 180 km distant from Zurqui respectively, suggested significant species turnover. Comparison of the greater number of species collected in all traps from Zurqui did not markedly change the degree of similarity between the three sites, although the actual number of species shared did increase. Comparisons of the total number of named and unnamed species of Diptera from four hectares at Zurqui is equivalent to 51% of all flies named from Central America, greater than all the named fly fauna of Colombia, equivalent to 14% of named Neotropical species and equal to about 2.7% of all named Diptera worldwide. Clearly the number of species of Diptera in tropical regions has been severely underestimated and the actual number may surpass the number of species of Coleoptera. Various published extrapolations from limited data to estimate total numbers of species of larger taxonomic categories (e.g., Hexapoda, Arthropoda, Eukaryota, etc.) are highly questionable, and certainly will remain uncertain until we have more exhaustive surveys of all and diverse taxa (like Diptera) from multiple tropical sites. Morphological characterization of species in inventories provides identifications placed in the context of taxonomy, phylogeny, form, and ecology. DNA barcoding species is a valuable tool to estimate species numbers but used alone fails to provide a broader context for the species identified.Peer reviewe

Physical Conditions in Low Ionization Regions of the Orion Nebula

We reexamine the spectroscopic underpinnings of recent suggestions that [O I] and [Fe II] lines from the Orion H II region are produced in gas where the iron-carrying grains have been destroyed and the electron density is surprisingly high. Our new observations show that previous detections of [O I] 5577 were dominated by telluric emission. Our limits are consistent with a moderate density (10^4 cm^{-3}) photoionized gas. We show that a previously proposed model of the Orion H II region reproduces the observed [O I] and [Fe II] spectrum. These lines are fully consistent with formation in a dusty region of moderate density.Comment: 12 pages, latex (aaspp4.sty), 1 figure. To appear in ApJ Letter

Periodontitis as a risk factor for systemic disease: Are microparticles the missing link?

Periodontitis is an oral inflammatory disease affecting the teeth supportive tissue. Its bacterial infectious etiology is well established. Periodontitis has been associated with increased prevalence of systemic diseases such as cardiovascular diseases, diabetes, rheumatoid arthritis, preeclampsia, preterm birth and inflammatory bowel disease. The rational of considering periodontitis as risk factor for systemic disease is the passage of inflammatory cytokines and/or bacteria in the bloodstream, thus affecting distant organs. Membrane microparticles are released by multiple cells in inflammatory environment. Recent data suggested the role of these microparticles in the pathogenic process of many systemic diseases, that can be also associated to periodontitis. We hypothesized that periodontitis could be a chronic reservoir of microparticles, hence elucidating partially the interaction with systemic diseases initiation or progression

Probing Reionization with Quasar Spectra: the Impact of the Intrinsic Lyman-alpha Emission Line Shape Uncertainty

Arguably the best hope of understanding the tail end of the reionization of the intergalactic medium (IGM) at redshift z > 6 is through the detection and characterization of the Gunn-Peterson (GP) damping wing absorption of the IGM in bright quasar spectra. However, the use of quasar spectra to measure the IGM damping wing requires a model of the quasar's intrinsic Lyman-alpha emission line. Here we quantify the uncertainties in the intrinsic line shapes, and how those uncertainties affect the determination of the IGM neutral fraction. We have assembled a catalog of high-resolution HST spectra of the emission lines of unobscured low-redshift quasars, and have characterized the variance in the shapes of their lines. We then add simulated absorption from the high-redshift IGM to these quasar spectra in order to determine the corresponding uncertainties in reionization constraints using current and future samples of z > 6 quasar spectra. We find that, if the redshift of the Lyman-alpha emission line is presumed to coincide with the systemic redshift determined from metal lines, the inferred IGM neutral fraction is systematically biased to low values due to a systematic blueshift of the Lyman-alpha line relative to the metal lines. If a similar blueshift persists in quasars at z > 6, this bias strengthens previous claims of a significant neutral hydrogen fraction at z ~ 6. This technique is capable of making a robust distinction between a highly ionized (x_IGM ~ 10^-3) and a neutral (x_IGM = 1) IGM with even a few bright quasars.Comment: accepted for publication in MNRAS, full tables available at http://www.astro.columbia.edu/~roban

The Trypanosoma cruzi Sylvio X10 strain maxicircle sequence: the third musketeer

<p>Abstract</p> <p>Background</p> <p>Chagas disease has a diverse pathology caused by the parasite <it>Trypanosoma cruzi</it>, and is indigenous to Central and South America. A pronounced feature of the trypanosomes is the kinetoplast, which is comprised of catenated maxicircles and minicircles that provide the transcripts involved in uridine insertion/deletion RNA editing. <it>T. cruzi </it>exchange genetic material through a hybridization event. Extant strains are grouped into six discrete typing units by nuclear markers, and three clades, A, B, and C, based on maxicircle gene analysis. Clades A and B are the more closely related. Representative clade B and C maxicircles are known in their entirety, and portions of A, B, and C clades from multiple strains show intra-strain heterogeneity with the potential for maxicircle taxonomic markers that may correlate with clinical presentation.</p> <p>Results</p> <p>To perform a genome-wide analysis of the three maxicircle clades, the coding region of clade A representative strain Sylvio X10 (a.k.a. Silvio X10) was sequenced by PCR amplification of specific fragments followed by assembly and comparison with the known CL Brener and Esmeraldo maxicircle sequences. The clade A rRNA and protein coding region maintained synteny with clades B and C. Amino acid analysis of non-edited and 5'-edited genes for Sylvio X10 showed the anticipated gene sequences, with notable frameshifts in the non-edited regions of Cyb and ND4. Comparisons of genes that undergo extensive uridine insertion and deletion display a high number of insertion/deletion mutations that are likely permissible due to the post-transcriptional activity of RNA editing.</p> <p>Conclusion</p> <p>Phylogenetic analysis of the entire maxicircle coding region supports the closer evolutionary relationship of clade B to A, consistent with uniparental mitochondrial inheritance from a discrete typing unit TcI parental strain and studies on smaller fragments of the mitochondrial genome. Gene variance that can be corrected by RNA editing hints at an unusual depth for maxicircle taxonomic markers, which will aid in the ability to distinguish strains, their corresponding symptoms, and further our understanding of the <it>T. cruzi </it>population structure. The prevalence of apparently compromised coding regions outside of normally edited regions hints at undescribed but active mechanisms of genetic exchange.</p