Testis transcriptome alterations in zebrafish (Danio rerio) with reduced fertility due to developmental exposure to 17α-ethinyl estradiol.

17α-Ethinylestradiol (EE2) is a ubiquitous aquatic contaminant shown to decrease fish fertility at low concentrations, especially in fish exposed during development. The mechanisms of the decreased fertility are not fully understood. In this study, we perform transcriptome analysis by RNA sequencing of testes from zebrafish with previously reported lowered fertility due to exposure to low concentrations of EE2 during development. Fish were exposed to 1.2 and 1.6 ng/L (measured concentration; nominal concentrations 3 and 10 ng/L) of EE2 from fertilization to 80 days of age, followed by 82 days of remediation in clean water. RNA sequencing analysis revealed 249 and 16 genes to be differentially expressed after exposure to 1.2 and 1.6 ng/L, respectively; a larger inter-sample variation was noted in the latter. Expression of 11 genes were altered by both exposures and in the same direction. The coding sequences most affected could be categorized to the putative functions cell signalling, proteolysis, protein metabolic transport and lipid metabolic process. Several homeobox transcription factors involved in development and differentiation showed increased expression in response to EE2 and differential expression of genes related to cell death, differentiation and proliferation was observed. In addition, several genes related to steroid synthesis, testis development and function were differentially expressed. A number of genes associated with spermatogenesis in zebrafish and/or mouse were also found to be differentially expressed. Further, differences in non-coding sequences were observed, among them several differentially expressed miRNA that might contribute to testis gene regulation at post-transcriptional level. This study has generated insights of changes in gene expression that accompany fertility alterations in zebrafish males that persist after developmental exposure to environmental relevant concentrations of EE2 that persist followed by clean water to adulthood. Hopefully, this will generate hypotheses to test in search for mechanistic explanations.

Benchmark Experiment for Photoionized Plasma Emission from Accretion-Powered X-Ray Sources.

The interpretation of x-ray spectra emerging from x-ray binaries and active galactic nuclei accreted plasmas relies on complex physical models for radiation generation and transport in photoionized plasmas. These models have not been sufficiently experimentally validated. We have developed a highly reproducible benchmark experiment to study spectrum formation from a photoionized silicon plasma in a regime comparable to astrophysical plasmas. Ionization predictions are higher than inferred from measured absorption spectra. Self-emission measured at adjustable column densities tests radiation transport effects, demonstrating that the resonant Auger destruction assumption used to interpret black hole accretion spectra is inaccurate.

Reverse-Engineering Laboratory Astrophysics: Oxygen Inner-shell Absorption in the ISM.

The modeling of X-ray spectra from photoionized astrophysical plasmas has been significantly improved due to recent advancements in the theoretical and numerical frameworks, as well as a consolidated and reliable atomic database of inner-shell transitions for all the relevant ions. We discuss these developments and the current state of X-ray spectral modeling in the context of oxygen cold absorption in the interstellar medium (ISM). Unconventionally, we use high-resolution astrophysical observations to accurately determine line positions, and adjust the theoretical models for a comprehensive interpretation of the observed X-ray spectra. This approach has brought to light standing discrepancies in the neutral oxygen absorption-line positions determined from observations and laboratory measurements. We give an overview of our current efforts to devise a definitive model of oxygen photoabsorption that can help to resolve the existing controversy regarding ISM atomic and molecular fractions.

Speciation of two desert poplar species triggered by Pleistocene climatic oscillations.

Despite the evidence that the Pleistocene climatic fluctuations have seriously affected the distribution of intraspecific diversity, less is known on its impact on interspecific divergence. In this study, we aimed to test the hypothesis that the divergence of two desert poplar species Populus euphratica Oliv. and P. pruinosa Schrenk. occurred during the Pleistocene. We sequenced 11 nuclear loci in 60 individuals from the two species to estimate the divergence time between them and to test whether gene flow occurred after species separation. Divergence time between the two species was estimated to be 0.66-1.37 million years ago (Ma), a time at which glaciation was at its maximum in China and deserts developed widely in central Asia. Isolation-with-Migration model also indicated that the two species had diverged in the presence of gene flow. We also detected evidence of selection at GO in P. euphratica and to a lesser extent at PhyB2. Together, these results underscore the importance of Pleistocene climate oscillations in triggering plant speciation as a result of habitats divergence.

A Census of X-ray gas in NGC 1068: Results from 450ks of Chandra HETG Observations.

We present models for the X-ray spectrum of the Seyfert 2 galaxy NGC 1068. These are fitted to data obtained using the High Energy Transmission Grating (HETG) on the Chandra X-ray observatory. The data show line and radiative recombination continuum (RRC) emission from a broad range of ions and elements. The models explore the importance of excitation processes for these lines including photoionization followed by recombination, radiative excitation by absorption of continuum radiation and inner shell fluorescence. The models show that the relative importance of these processes depends on the conditions in the emitting gas, and that no single emitting component can fit the entire spectrum. In particular, the relative importance of radiative excitation and photoionization/recombination differs according to the element and ion stage emitting the line. This in turn implies a diversity of values for the ionization parameter of the various components of gas responsible for the emission, ranging from log(ξ)=1 - 3. Using this, we obtain an estimate for the total amount of gas responsible for the observed emission. The mass flux through the region included in the HETG extraction region is approximately 0.3 M⊙ yr-1 assuming ordered flow at the speed characterizing the line widths. This can be compared with what is known about this object from other techniques.

ACTIVE GALACTIC NUCLEUS OBSCURATION FROM WINDS: FROM DUSTY INFRARED-DRIVEN TO WARM AND X-RAY PHOTOIONIZED.

We present calculations of AGN winds at ~parsec scales, along with the associated obscuration. We take into account the pressure of infrared radiation on dust grains and the interaction of X-rays from a central black hole with hot and cold plasma. Infrared radiation (IR) is incorporated in radiation-hydrodynamic simulations adopting the flux-limited diffusion approximation. We find that in the range of X-ray luminosities L=0.05 - 0.6Ledd, the Compton-thick part of the flow (aka torus) has an opening angle of approximately 72° - 75° regardless of the luminosity. At L ≳ 0.1 the outflowing dusty wind provides the obscuration with IR pressure playing a major role. The global flow consists of two phases: the cold flow at inclinations θ ≳ 70° and a hot, ionized wind of lower density at lower inclinations. The dynamical pressure of the hot wind is important in shaping the denser IR supported flow. At luminosities ≤0.1Ledd episodes of outflow are followed by extended periods when the wind switches to slow accretion.

New insights on the speciation history and nucleotide diversity of three boreal spruce species and a Tertiary relict.

In all, 10 nuclear loci were re-sequenced in four spruce species. Three of the species are boreal species with very large natural ranges: Picea mariana and P. glauca are North American, and P. abies, is Eurasian. The fourth species, P. breweriana, is a Tertiary relict from Northern California, with a very small natural range. Although the boreal species population sizes have fluctuated through the Ice Ages, P. breweriana is believed to have had a rather stable population size through the Quaternary. Indeed, the average Tajima's D was close to zero in this species and negative in the three boreal ones. Reflecting differences in current population sizes, nucleotide diversity was an order of magnitude lower in P. breweriana than in the boreal species. This is in contrast to the similar and high levels of heterozygosity observed in previous studies at allozyme loci across species. As the species have very different histories and effective population sizes, selection at allozyme loci rather than demography appears to be a better explanation for this discrepancy. Parameters of Isolation-with-Migration (IM) models were also estimated for pairs of species. Shared polymorphisms were extensive and fixed polymorphisms few. Divergence times were much shorter than those previously reported. There was also evidence of historical gene flow between P. abies and P. glauca. The latter was more closely related to P. abies than to its sympatric relative P. mariana. This last result suggests that North American and Eurasian species might have been geographically much closer in the recent past than they are today.

Independent replication and initial fine mapping of 3p21-24 in Asperger syndrome.

BACKGROUND: Asperger syndrome is characterised by abnormalities in social interaction as well as repetitive and stereotyped behaviours and interests. The trait is thought to display complex inheritance, but in a subset of families the inheritance resembles the autosomal dominant model. Linkage to 3p14-24 has recently been reported in Asperger syndrome in Finnish families with a maximum multipoint NPL(all) of 3.32 at D3S2432. METHODS: We have replicated linkage findings to 3p21-24 in 12 new extended Asperger syndrome families. Linkage analyses were performed separately for the 12 new families, and linkage and association analyses were also performed jointly with data from the original genome-wide screen. RESULTS: Best two point and multipoint logarithm of the odds (LOD) scores in analyses of both data sets were obtained at D3S2432 (NPL(all) = 3.83) with both subsets of families contributing to linkage. Association analysis of the combined data set produced a trend towards association with D3S2432 and D3S1619. CONCLUSIONS: This study further validates 3q21-24 as a candidate region for Asperger syndrome.