PinR mediates the generation of reversible population diversity in Streptococcus zooepidemicus

Opportunistic pathogens must adapt to and survive in a wide range of complex ecosystems. Streptococcus zooepidemicus is an opportunistic pathogen of horses and many other animals, including humans. The assembly of different surface architecture phenotypes from one genotype is likely to be crucial to the successful exploitation of such an opportunistic lifestyle. Construction of a series of mutants revealed that a serine recombinase, PinR, inverts 114 bp of the promoter of SZO_08560, which is bordered by GTAGACTTTA and TAAAGTCTAC inverted repeats. Inversion acts as a switch, controlling the transcription of this sortase-processed protein, which may enhance the attachment of S. zooepidemicus to equine trachea. The genome of a recently sequenced strain of S. zooepidemicus, 2329 (Sz2329), was found to contain a disruptive internal inversion of 7 kb of the FimIV pilus locus, which is bordered by TAGAAA and TTTCTA inverted repeats. This strain lacks pinR and this inversion may have become irreversible following the loss of this recombinase. Active inversion of FimIV was detected in three strains of S. zooepidemicus, 1770 (Sz1770), B260863 (SzB260863) and H050840501 (SzH050840501), all of which encoded pinR. A deletion mutant of Sz1770 that lacked pinR was no longer capable of inverting its internal region of FimIV. The data highlight redundancy in the PinR sequence recognition motif around a short TAGA consensus and suggest that PinR can reversibly influence the wider surface architecture of S. zooepidemicus, providing this organism with a bet-hedging solution to survival in fluctuating environments

Explaining additional genetic variation in complex traits

Genome-wide association studies (GWAS) have provided valuable insights into the genetic basis of complex traits, discovering >6000 variants associated with >500 quantitative traits and common complex diseases in humans. The associations identified so far represent only a fraction of those that influence phenotype, because there are likely to be many variants across the entire frequency spectrum, each of which influences multiple traits, with only a small average contribution to the phenotypic variance. This presents a considerable challenge to further dissection of the remaining unexplained genetic variance within populations, which limits our ability to predict disease risk, identify new drug targets, improve and maintain food sources, and understand natural diversity. This challenge will be met within the current framework through larger sample size, better phenotyping, including recording of nongenetic risk factors, focused study designs, and an integration of multiple sources of phenotypic and genetic information. The current evidence supports the application of quantitative genetic approaches, and we argue that one should retain simpler theories until simplicity can be traded for greater explanatory power

Free Fermionic Heterotic Model Building and Root Systems

We consider an alternative derivation of the GSO Projection in the free fermionic construction of the weakly coupled heterotic string in terms of root systems, as well as the interpretation of the GSO Projection in this picture. We then present an algorithm to systematically and efficiently generate input sets (i.e. basis vectors) in order to study Landscape statistics with minimal computational cost. For example, the improvement at order 6 is approximately 10^{-13} over a traditional brute force approach, and improvement increases with order. We then consider an example of statistics on a relatively simple class of models.Comment: Standard Latex, 12 page

The far-infrared energy distributions of Seyfert and starburst galaxies in the Local Universe: ISO photometry of the 12 micron active galaxy sample

New far-infrared photometry with ISOPHOT, onboard the Infrared Space Observatory, is presented for 58 galaxies with homogeneous published data for another 32 galaxies all belonging to the 12 micron galaxy sample. In total 29 Seyfert 1's, 35 Seyfert 2's and 12 starburst galaxies, about half of the 12 micron active galaxy sample, plus 14 normal galaxies for comparison. The ISO and the IRAS data are used to define color-color diagrams and spectral energy distributions (SED). Thermal dust emission at two temperatures (one cold at 15-30K and one warm at 50-70K) can fit the 60-200 micron SED, with a dust emissivity law proportional to the inverse square of the wavelength. Seyfert 1's and Seyfert 2's are indistinguishable longward of 100 micron, while, as already seen by IRAS, the former have flatter SEDs shortward of 60 micron. A mild anti-correlation is found between the [200 - 100] color and the "60 micron excess". We infer that this is due to the fact that galaxies with a strong starburst component, and thus a strong 60 micron flux, have a steeper far-infrared turnover. In non-Seyfert galaxies, increasing the luminosity corresponds to increasing the star formation rate, that enhances the 25 and 60 micron emission. This shifts the peak emission from around 150 micron in the most quiescent spirals to shorter than 60 micron in the strongest starburst galaxies.Comment: Accepted for publication in The Astrophysical Journal AASTeX preprint with 49 pages and 20 figures Also available at http://orion.ifsi.rm.cnr.it/publ.htm

Crustal Accretion in the Gulf of California: An Intermediaterate Spreading Axis

An important objective of Deep Sea Drilling Project (DSDP) Leg 65 was to study crustal accretion at an ocean ridge axis with an intermediate-spreading rate for comparison with previously studied sections displaying slowand fast-spreading rates. The southern Gulf of California was selected for this purpose because the basement displays high seismic velocities (comparable to those observed for Cretaceous basement in the western North Atlantic) and high ambient sedimentation rates, which facilitated penetration of zero-age basement. Four sites were drilled, forming an axial transect immediately south of the Tamayo Fracture Zone (Figs. 1 and 2) and providing a series of characteristic sections into the crust. This chapter attempts to provide a brief synthesis of the results from Leg 65, focusing particularly on the lithology, geochemistry, and paleomagnetic properties of the cored basement material. From these data, we present an interpretation of the processes of magmatic evolution and crustal accretion occurring at the Gulf of California spreading axis

Nitrous oxide emissions from a peatbog after 13 years of experimental nitrogen deposition

Nitrogen deposition was experimentally increased on a Scottish peatbog over a period of 13 years (2002–2015). Nitrogen was applied in three forms, NH3 gas, NH4Cl solution, and NaNO3 solution, at rates ranging from 8 (ambient) to 64 kg N ha−1 yr−1, and higher near the NH3 fumigation source. An automated system was used to apply the nitrogen, such that the deposition was realistic in terms of rates and high frequency of deposition events. We measured the response of nitrous oxide (N2O) flux to the increased nitrogen input. Prior expectations, based on the IPCC default emission factor, were that 1 % of the added nitrogen would be emitted as N2O. In the plots treated with NH4+ and NO3− solution, no response was seen, and there was a tendency for N2O fluxes to be reduced by additional nitrogen, though this was not significant. Areas subjected to high NH3 emitted more N2O than expected, up to 8.5 % of the added nitrogen. Differences in the response are related to the impact of the nitrogen treatments on the vegetation. In the NH4+ and NO3− treatments, all the additional nitrogen is effectively immobilised in the vegetation and top 10 cm of peat. In the NH3 treatment, much of the vegetation was killed off by high doses of NH3, and the nitrogen was presumably more available to denitrifying bacteria. The design of the wet and dry experimental treatments meant that they differed in statistical power, and we are less likely to detect an effect of the NH4+ and NO3− treatments, though they avoid issues of pseudo-replication

Mechanism of how augmin directly targets the γ-tubulin ring complex to microtubules

Microtubules (MTs) must be generated from precise locations to form the structural frameworks required for cell shape and function. MTs are nucleated by the γ-tubulin ring complex (γ-TuRC), but it remains unclear how γ-TuRC gets to the right location. Augmin has been suggested to be a γ-TuRC targeting factor and is required for MT nucleation from preexisting MTs. To determine augmin's architecture and function, we purified Xenopus laevis augmin from insect cells. We demonstrate that augmin is sufficient to target γ-TuRC to MTs by in vitro reconstitution. Augmin is composed of two functional parts. One module (tetramer-II) is necessary for MT binding, whereas the other (tetramer-III) interacts with γ-TuRC. Negative-stain electron microscopy reveals that both tetramers fit into the Y-shape of augmin, and MT branching assays reveal that both are necessary for MT nucleation. The finding that augmin can directly bridge MTs with γ-TuRC via these two tetramers adds to our mechanistic understanding of how MTs can be nucleated from preexisting MTs