The effects of LIGO detector noise on a 15-dimensional Markov-chain Monte-Carlo analysis of gravitational-wave signals

Gravitational-wave signals from inspirals of binary compact objects (black holes and neutron stars) are primary targets of the ongoing searches by ground-based gravitational-wave (GW) interferometers (LIGO, Virgo, and GEO-600). We present parameter-estimation results from our Markov-chain Monte-Carlo code SPINspiral on signals from binaries with precessing spins. Two data sets are created by injecting simulated GW signals into either synthetic Gaussian noise or into LIGO detector data. We compute the 15-dimensional probability-density functions (PDFs) for both data sets, as well as for a data set containing LIGO data with a known, loud artefact ("glitch"). We show that the analysis of the signal in detector noise yields accuracies similar to those obtained using simulated Gaussian noise. We also find that while the Markov chains from the glitch do not converge, the PDFs would look consistent with a GW signal present in the data. While our parameter-estimation results are encouraging, further investigations into how to differentiate an actual GW signal from noise are necessary.Comment: 11 pages, 2 figures, NRDA09 proceeding

Gravitational-Wave Astronomy with Inspiral Signals of Spinning Compact-Object Binaries

Inspiral signals from binary compact objects (black holes and neutron stars) are primary targets of the ongoing searches by ground-based gravitational-wave interferometers (LIGO, Virgo, GEO-600 and TAMA-300). We present parameter-estimation simulations for inspirals of black-hole--neutron-star binaries using Markov-chain Monte-Carlo methods. For the first time, we have both estimated the parameters of a binary inspiral source with a spinning component and determined the accuracy of the parameter estimation, for simulated observations with ground-based gravitational-wave detectors. We demonstrate that we can obtain the distance, sky position, and binary orientation at a higher accuracy than previously suggested in the literature. For an observation of an inspiral with sufficient spin and two or three detectors we find an accuracy in the determination of the sky position of typically a few tens of square degrees.Comment: v2: major conceptual changes, 4 pages, 1 figure, 1 table, submitted to ApJ

Type Ia Supernovae and Accretion Induced Collapse

Using the population synthesis binary evolution code StarTrack, we present theoretical rates and delay times of Type Ia supernovae arising from various formation channels. These channels include binaries in which the exploding white dwarf reaches the Chandrasekhar mass limit (DDS, SDS, and helium-rich donor scenario) as well as the sub-Chandrasekhar mass scenario, in which a white dwarf accretes from a helium-rich companion and explodes as a SN Ia before reaching the Chandrasekhar mass limit. We find that using a common envelope parameterization employing energy balance with alpha=1 and lambda=1, the supernova rates per unit mass (born in stars) of sub-Chandrasekhar mass SNe Ia exceed those of all other progenitor channels at epochs t=0.7 - 4 Gyr for a burst of star formation at t=0. Additionally, the delay time distribution of the sub-Chandrasekhar model can be divided in to two distinct evolutionary channels: the `prompt' helium-star channel with delay times < 500 Myr, and the `delayed' double white dwarf channel with delay times > 800 Myr spanning up to a Hubble time. These findings are in agreement with recent observationally-derived delay time distributions which predict that a large number of SNe Ia have delay times < 1 Gyr, with a significant fraction having delay times < 500 Myr. We find that the DDS channel is also able to account for the observed rates of SNe Ia. However, detailed simulations of white dwarf mergers have shown that most of these mergers will not lead to SNe Ia but rather to the formation of a neutron star via accretion-induced collapse. If this is true, our standard population synthesis model predicts that the only progenitor channel which can account for the rates of SNe Ia is the sub-Chandrasekhar mass scenario, and none of the other progenitors considered can fully account for the observed rates.Comment: 6 pages, 1 figure, 1 table, to appear in proceedings for "Binary Star Evolution: Mass Loss, Accretion and Mergers

Sugarcane Functional Genomics: Gene Discovery for Agronomic Trait Development

Sugarcane is a highly productive crop used for centuries as the main source of sugar and recently to produce ethanol, a renewable bio-fuel energy source. There is increased interest in this crop due to the impending need to decrease fossil fuel usage. Sugarcane has a highly polyploid genome. Expressed sequence tag (EST) sequencing has significantly contributed to gene discovery and expression studies used to associate function with sugarcane genes. A significant amount of data exists on regulatory events controlling responses to herbivory, drought, and phosphate deficiency, which cause important constraints on yield and on endophytic bacteria, which are highly beneficial. The means to reduce drought, phosphate deficiency, and herbivory by the sugarcane borer have a negative impact on the environment. Improved tolerance for these constraints is being sought. Sugarcane's ability to accumulate sucrose up to 16% of its culm dry weight is a challenge for genetic manipulation. Genome-based technology such as cDNA microarray data indicates genes associated with sugar content that may be used to develop new varieties improved for sucrose content or for traits that restrict the expansion of the cultivated land. The genes can also be used as molecular markers of agronomic traits in traditional breeding programs

Characterization of new IS elements and studies of their dispersion in two subspecies of Leifsonia xyli

<p>Abstract</p> <p>Background</p> <p><it>Leifsonia xyli </it>is a xylem-inhabiting bacterial species comprised of two subspecies: <it>L. xyli </it>subsp. <it>xyli </it>(<it>Lxx</it>) and <it>L. xyli </it>subsp. <it>cynodontis </it>(<it>Lxc</it>). <it>Lxx </it>is the causal agent of ratoon stunting disease in sugarcane commercial fields and <it>Lxc </it>colonizes the xylem of several grasses causing either mild or no symptoms of disease. The completely sequenced genome of <it>Lxx </it>provided insights into its biology and pathogenicity. Since IS elements are largely reported as an important source of bacterial genome diversification and nothing is known about their role in chromosome architecture of <it>L. xyli</it>, a comparative analysis of <it>Lxc </it>and <it>Lxx </it>elements was performed.</p> <p>Results</p> <p>Sample sequencing of <it>Lxc </it>genome and comparative analysis with <it>Lxx </it>complete DNA sequence revealed a variable number of IS transposable elements acting upon genomic diversity. A detailed characterization of <it>Lxc </it>IS elements and a comparative review with IS elements of <it>Lxx </it>are presented. Each genome showed a unique set of elements although related to same IS families when considering features such as similarity among transposases, inverted and direct repeats, and element size. Most of the <it>Lxc </it>and <it>Lxx </it>IS families assigned were reported to maintain transposition at low levels using translation regulatory mechanisms, consistent with our <it>in silico </it>analysis. Some of the IS elements were found associated with rearrangements and specific regions of each genome. Differences were also found in the effect of IS elements upon insertion, although none of the elements were preferentially associated with gene disruption. A survey of transposases among genomes of Actinobacteria showed no correlation between phylogenetic relatedness and distribution of IS families. By using Southern hybridization, we suggested that diversification of <it>Lxc </it>isolates is also mediated by insertion sequences in probably recent events.</p> <p>Conclusion</p> <p>Collectively our data indicate that transposable elements are involved in genome diversification of <it>Lxc </it>and <it>Lxx</it>. The IS elements were probably acquired after the divergence of the two subspecies and are associated with genome organization and gene contents. In addition to enhancing understanding of IS element dynamics in general, these data will contribute to our ongoing comparative analyses aimed at understanding the biological differences of the <it>Lxc </it>and <it>Lxx</it>.</p

Evolutionary Pathways of the Calcitonin (CALC) Genes

Recombinant DNA techniques have made it possible to establish the structure of various genes encoding polypeptide hormones. Comparison of nucleotide sequences of the calcitonin (CALC) genes in man has revealed surprising similarities and variations. These findings and the homologies among the sequences in different species offered an opportunity for speculation about relationships between these genes and about their evolutionary origin. The first gene (CALC-I) directing the synthesis of calcitonin (CT) or CT gene-related peptide (CGRP) comprises six exons and gives rise to two mRNAs by an alternative RNA-processing mechanism. The homology between CGRP and CT reflects their common origin. The human genome contains a second gene (CALC-II) that is structurally related to the CALC-I gene. The CALC-II RNA transcripts do not appear to be differentially processed, as only preproCGRP-II mRNA and not preproCT-II is detected. The first and second CTI CGRP genes probably have evolved from a common ancestor gene early in evolution. Meanwhile, a third genomic locus containing nucleotide sequences highly homologous to exons 2 and 3 of both CALC genes was detected and probably generated by duplication of a part of CALC-II. This locus is not likely to encode a CT- or CGRP-related polypeptide hormone. The CALC genes and this last (pseudo) gene are located on the short arm of chromosome 11. Recently, islet or insulinoma-amyloid polypeptide (IAPP) was isolated as a major constituent of amyloid present in human insulinoma and in pancreatic islet amyloid in noninsulin-dependent diabetes mellitus. lAPP shows 46% amino acid sequence homology with human CGRP-II. In contrast to the CALC-genes, the human IAPP gene is located on chromosome 12. All these findings have provided insight into the mechanisms underlying the increasing diversity of polypeptide hormones

Two-nucleon knockout contributions to the 12^{12}C(e,e′p)(e,e'p) reaction in the dip and {Δ\Delta}(1232) regions

The contributions from $^{12}$C$(e,e'pn)$ and $^{12}$C$(e,e'pp)$ to the semi-exclusive $^{12}$C$(e,e'p)$ cross section have been calculated in an unfactorized model for two-nucleon emission. We assume direct two-nucleon knockout after virtual photon coupling with the two-body pion-exchange currents in the target nucleus. Results are presented at several kinematical conditions in the dip and $\Delta$(1232) regions. The calculated two-nucleon knockout strength is observed to account for a large fraction of the measured $(e,e'p)$ strength above the two-nucleon emission threshold.Comment: 12 Revtex pages, 4 postscript figures (available upon request), University of Gent preprint SSF94-02-0

Mudanças sazonais na histologia do testículo e epidídimo do lagarto tropical Tropidurus itambere, durante seu ciclo reprodutivo

The reproductive cycles of lizards, including Tropidurus species, have been widely studied. However, few studies describe in detail the ultrastructure and the epithelial changes in the epididymis. Using histology and trasmission electron microscopy, we show the seasonal changes in the testis and epididymis of the lizard Tropidurus itambere, during its annual reproductive cycle. The reproductive cycle of T. itambere was analysed from June 1988 to June 1989 and from June 2001 to June 2002. While the frequency of reproductive males in the population varied throughout the year, there were reproductive males in most months except for February through April. During this nonreproductive period, there is a reduction in the mean seminiferous tubule volume and few sperm were found in both the testis and the epididymis.O ciclo reprodutivo de alguns lagartos já foi extensamente estudado, incluindo algumas espécies do gênero Tropidurus. Entretanto, poucos estudos mostram os aspectos morfológicos do testículo e epidídimo, durante o ciclo reprodutivo anual, e não existe nenhuma descrição ultraestrutural das variações epiteliais no epidídimo. O presente estudo foi feito para mostrar, através da histologia e microscopia eletrônica de transmissão, detalhes das mudanças sazonais no testículo e epidídimo durante o ciclo reprodutivo anual. Acompanhamos o ciclo de Tropidurus itambere, na floresta atlântica brasileira, durante o período de junho de 2001 a junho de 2002. Os machos variam em sua atividade reprodutiva, mas foram considerados potencialmente reprodutivos na maioria dos meses, à exceção dos meses de fevereiro a abril. Durante este período, ocorreu uma redução no volume médio dos túbulos seminíferos e uma menor quantidade de espermatozóides no testículo e no epidídimo.429435Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq

Systematic study of Coulomb distortion effects in exclusive (e,e'p) reactions

A technique to deal with Coulomb electron distortions in the analysis of (e,e'p) reactions is presented. Thereby, no approximations are made. The suggested technique relies on a partial-wave expansion of the electron wave functions and a multipole decomposition of the electron and nuclear current in momentum space. In that way, we succeed in keeping the computational times within reasonable limits. This theoretical framework is used to calculate the quasielastic (e,e'p) reduced cross sections for proton knockout from the valence shells in $^{16}$O, $^{40}$Ca, $^{90}$Zr and $^{208}$Pb. The final-state interaction of the ejected proton with the residual nucleus is treated within an optical potential model. The role of electron distortion on the extracted spectroscopic factors is discussed.Comment: 45 pages, 10 encapsulated postscript figures, Revtex, uses epsfig.sty and fancybox.sty, to be published in Physical Review