The diversity of Porcine Reproductive and Respiratory Syndrome virus type 1 and 2 in Denmark

Session - Viral Heterogeneity and EvolutionBoth Type 1 and Type 2 PRRS viruses are circulating among Danish pigs. The first appearance of Type 1 PRRSV in Denmark was in 1992 whereas the Type 2 PRRSV was introduced in 1996 after the use of a live attenuated vaccine that reverted to virulence. Since then, vaccination to control the disease for both PRRSV genotypes has been widely used in Denmark and it is therefore highly relevant to monitor the diversity of currently circulating PRRSV strains. Only subtype 1 of the Type 1 PRRSV strains and vaccine-like Type 2 PRRSV strains were previously detected in Denmark, however, only few Danish PRRSV strains were sequenced. Denmark exports more than 50.000 living pigs each month. A portion of these pigs inevitably harbor PRRSV. Thus, the diversity of PRRSV in Denmark is of interest to other countries besides Denmark. The main objective of the present study was to close the gap in knowledge on the genetic diversity of currently circulating PRRSV stains in Danish pigs by sequencing ORF5 and ORF7 of approximately 41 Type 1 and 50 Type 2 strains isolated between 2003 and 2013. Furthermore, full genome analysis was performed on nine Type 1 and nine Type 2 selected strains. The preliminary assessment of the results showed that the Type 1 strains all belonged to subtype 1. Based on the ORF5 sequences, the Danish Type 1 viruses clustered into two groups. These two groups shared 84 % to 92 % and 94 % to 99 % nucleotide identity to the Lelystad virus, respectively. The sequenced Type 2 viruses showed a significant higher level of identity in that the ORF5 sequences were 94 - >99 % identical at the nucleotide level. Most of the Type 2 viruses, shared high level of identity to the VR2332 vaccine strain (Ingelvac MLV), but a few more diverse isolates were also identified, including strains with interesting deletions in NSP2 and other genes. The full genome sequences of Danish strains showed an overall nucleotide identity of 88-98 % (Type 1) and 94 % to >99 % (Type 2). The impact of these results will be discussed.postprin

Herschel / HIFI observations of CO, H2O and NH3 in Mon R2

Context. Mon R2 is the only ultracompact HII region (UCHII) where the associated photon-dominated region (PDR) can be resolved with Herschel. Due to its brightness and proximity, it is the best source to investigate the chemistry and physics of highly UV-irradiated PDRs. Aims. Our goal is to estimate the abundance of H2O and NH3 in this region and investigate their origin. Methods. We present new observations obtained with HIFI and the IRAM-30m telescope. Using a large velocity gradient approach, we model the line intensities and derive an average abundance of H2O and NH3 across the region. Finally, we model the line profiles with a non-local radiative transfer model and compare these results with the abundance predicted by the Meudon PDR code. Results. The variations of the line profiles and intensities indicate complex geometrical and kinematical patterns. The H2O lines present a strong absorption at the ambient velocity and emission in high velocity wings towards the HII region. The spatial distribution of the o-H2^18O line shows that the its emission arises in the PDR surrounding the HII region. By modeling the o-H2^18O emission we derive a mean abundance of o-H2O of ~10^-8 relative to H2. The ortho-H2O abundance is however larger, ~1x10^-7, in the high velocity wings. Possible explanations for this larger abundance include an expanding hot PDR and/or an outflow. Ammonia seems to be present only in the envelope with an average abundance of ~2x10^-9 relative to H2. Conclusions. The Meudon PDR code can account for the measured water abundance in the high velocity gas as long as we assume that it originates from a <1 mag hot expanding layer of the PDR, i.e. that the outflow has only a minor contribution to this emission. To explain the abundances in the rest of the cloud the molecular freeze out and grain surface chemistry would need to be included.Comment: 12 pages, 7 figures, 3 tables. Accepted for publication in A&A. Abstract shortened. Updated references, language editing applied in v

VLT/NACO near-infrared imaging and spectroscopy of N88A in the SMC

We present near-infrared imaging and spectroscopic high spatial resolution observations of the SMC region N88 containing the bright, excited, extincted and compact H II region N88A of size ~ 1 pc. To investigate its stellar content and reddening, N88 was observed using spectroscopy and imagery in the JHKs- and L'-band at a spatial resolution of ~ 0.1-0.3", using the VLT UT4 equipped with the NAOS adaptive optics system. In order to attempt to establish if the origin of the infra-red (IR) excess is due to bright nebulosity, circumstellar material and/or local dust, we used Ks vs J-K colour-magnitude (CM) and JHK colour-colour (CC) diagrams, as well as L' imagery.Our IR-data reveal in the N88 area an IR-excess fraction of geq 30 per cent of the detected stars,as well as an unprecedently detailed morphology of N88A. It consists of an embedded cluster of ~3.5" (~ 1 pc) in diameter, of at least thirteen resolved stars superposed with an unusual bright continuum centered on a very bright star. The four brightest stars in this cluster lie red-ward of H-K geq 0.45 mag, and could be classified as young stellar object (YSO) candidates. Four other probable YSO candidates are also detected in N88 along a south-north bow-shaped thin H2 filament at ~ 7" east of the young central bright star. At 0.2" east of this star, a heavily embedded core is detected that could be a massive class I protostar candidate. The 2.12 mu H2 image of N88A resembles a shell of diameter ~ 3" ~ 0.9 pc) centered on the bright star. The line ratios of H2 2-1 S(1) and 1-0 S(0) relative to 1-0 S(1), as well as the presence of high v lines, are indicative of photodissociation regions, rather than shocks.Comment: 15 pages, 14 figures, accepted by Astronomy and Astrophysics, uses pdflatex, aa.cl

BRCA2 polymorphic stop codon K3326X and the risk of breast, prostate, and ovarian cancers

Background: The K3326X variant in BRCA2 (BRCA2*c.9976A&gt;T; p.Lys3326*; rs11571833) has been found to be associated with small increased risks of breast cancer. However, it is not clear to what extent linkage disequilibrium with fully pathogenic mutations might account for this association. There is scant information about the effect of K3326X in other hormone-related cancers. Methods: Using weighted logistic regression, we analyzed data from the large iCOGS study including 76 637 cancer case patients and 83 796 control patients to estimate odds ratios (ORw) and 95% confidence intervals (CIs) for K3326X variant carriers in relation to breast, ovarian, and prostate cancer risks, with weights defined as probability of not having a pathogenic BRCA2 variant. Using Cox proportional hazards modeling, we also examined the associations of K3326X with breast and ovarian cancer risks among 7183 BRCA1 variant carriers. All statistical tests were two-sided. Results: The K3326X variant was associated with breast (ORw = 1.28, 95% CI = 1.17 to 1.40, P = 5.9x10- 6) and invasive ovarian cancer (ORw = 1.26, 95% CI = 1.10 to 1.43, P = 3.8x10-3). These associations were stronger for serous ovarian cancer and for estrogen receptor–negative breast cancer (ORw = 1.46, 95% CI = 1.2 to 1.70, P = 3.4x10-5 and ORw = 1.50, 95% CI = 1.28 to 1.76, P = 4.1x10-5, respectively). For BRCA1 mutation carriers, there was a statistically significant inverse association of the K3326X variant with risk of ovarian cancer (HR = 0.43, 95% CI = 0.22 to 0.84, P = .013) but no association with breast cancer. No association with prostate cancer was observed. Conclusions: Our study provides evidence that the K3326X variant is associated with risk of developing breast and ovarian cancers independent of other pathogenic variants in BRCA2. Further studies are needed to determine the biological mechanism of action responsible for these associations

Resonant nonlinear magneto-optical effects in atoms

In this article, we review the history, current status, physical mechanisms, experimental methods, and applications of nonlinear magneto-optical effects in atomic vapors. We begin by describing the pioneering work of Macaluso and Corbino over a century ago on linear magneto-optical effects (in which the properties of the medium do not depend on the light power) in the vicinity of atomic resonances, and contrast these effects with various nonlinear magneto-optical phenomena that have been studied both theoretically and experimentally since the late 1960s. In recent years, the field of nonlinear magneto-optics has experienced a revival of interest that has led to a number of developments, including the observation of ultra-narrow (1-Hz) magneto-optical resonances, applications in sensitive magnetometry, nonlinear magneto-optical tomography, and the possibility of a search for parity- and time-reversal-invariance violation in atoms.Comment: 51 pages, 23 figures, to appear in Rev. Mod. Phys. in Oct. 2002, Figure added, typos corrected, text edited for clarit