Histone crosstalk directed by H2B ubiquitination is required for chromatin boundary integrity

Genomic maps of chromatin modifications have provided evidence for the partitioning of genomes into domains of distinct chromatin states, which assist coordinated gene regulation. The maintenance of chromatin domain integrity can require the setting of boundaries. The HS4 insulator element marks the 3′ boundary of a heterochromatin region located upstream of the chicken β-globin gene cluster. Here we show that HS4 recruits the E3 ligase RNF20/BRE1A to mediate H2B mono-ubiquitination (H2Bub1) at this insulator. Knockdown experiments show that RNF20 is required for H2Bub1 and processive H3K4 methylation. Depletion of RNF20 results in a collapse of the active histone modification signature at the HS4 chromatin boundary, where H2Bub1, H3K4 methylation, and hyperacetylation of H3, H4, and H2A.Z are rapidly lost. A remarkably similar set of events occurs at the HSA/HSB regulatory elements of the FOLR1 gene, which mark the 5′ boundary of the same heterochromatin region. We find that persistent H2Bub1 at the HSA/HSB and HS4 elements is required for chromatin boundary integrity. The loss of boundary function leads to the sequential spreading of H3K9me2, H3K9me3, and H4K20me3 over the entire 50 kb FOLR1 and β-globin region and silencing of FOLR1 expression. These findings show that the HSA/HSB and HS4 boundary elements direct a cascade of active histone modifications that defend the FOLR1 and β-globin gene loci from the pervasive encroachment of an adjacent heterochromatin domain. We propose that many gene loci employ H2Bub1-dependent boundaries to prevent heterochromatin spreading

Mixed Linear Layouts of Planar Graphs

A $k$-stack (respectively, $k$-queue) layout of a graph consists of a total order of the vertices, and a partition of the edges into $k$ sets of non-crossing (non-nested) edges with respect to the vertex ordering. In 1992, Heath and Rosenberg conjectured that every planar graph admits a mixed $1$-stack $1$-queue layout in which every edge is assigned to a stack or to a queue that use a common vertex ordering. We disprove this conjecture by providing a planar graph that does not have such a mixed layout. In addition, we study mixed layouts of graph subdivisions, and show that every planar graph has a mixed subdivision with one division vertex per edge.Comment: Appears in the Proceedings of the 25th International Symposium on Graph Drawing and Network Visualization (GD 2017

Backlash Compensation for Plants With Saturating Actuators

A compensation scheme is proposed for plants subject to both saturation and backlash in series at the actuator. It is shown that the series connection of a backlash inverse, saturation and the backlash itself is equivalent to a saturation function at a different level to the original saturation, and we call this the ‘saturation equivalence’. Therefore, it is proposed to include such a backlash inverse in the compensator. This is shown to be optimal in a sense defined in the article. It is then straightforward to devise a compensator scheme based on traditional anti-windup. This is illustrated in both simulation and on a laboratory scale rig with severe backlash. A correction for the chattering observed in the control signal due to the discontinuous nature of the nonlinearity inverse is also presented. </jats:p

Mapping the optoelectronic property space of small aromatic molecules

Small aromatic molecules and their quinone derivatives find use in organic transistors, solar-cells, thermoelectrics, batteries and photocatalysts. These applications exploit the optoelectronic properties of these molecules and the ease by which such properties can be tuned by the introduction of heteroatoms and/or the addition of functional groups. We perform a high-throughput virtual screening using the xTB family of density functional tight-binding methods to map the optoelectronic property space of ~250,000 molecules. The large volume of data generated allows for a broad understanding of how the presence of heteroatoms and functional groups affect the ionisation potential, electron affinity and optical gap values of these molecular semiconductors, and how the structural features – on their own or in combination with one another – allow access to particular regions of the optoelectronic property space. Finally, we identify the apparent boundaries of the optoelectronic property space for these molecules: regions of property space that appear off limits for any small aromatic molecule

The Mass Power Spectrum in Quintessence Cosmological Models

We present simple analytic approximations for the linear and fully evolved nonlinear mass power spectrum for spatially flat cold dark matter (CDM) cosmological models with quintessence (Q). Quintessence is a time evolving, spatially inhomogeneous energy component with negative pressure and an equation of state w_Q < 0. It clusters gravitationally on large length scales but remains smooth like the cosmological constant on small length scales. We show that the clustering scale is determined by the Compton wavelength of the Q-field and derive a shape parameter, \Gamma_Q, to characterize the linear mass power spectrum. The growth of linear perturbations as functions of redshift, w_Q, and matter density \Omega_m is also quantified. Calibrating to N-body simulations, we construct a simple extension of the formula by Ma (1998) that closely approximates the nonlinear power spectrum for a range of plausible QCDM models.Comment: 5 pages with 3 inserted postscript figures, AAS LaTeX v4.0 emulateapj.sty. Astrophysical Journal Letters, in pres

Using high-throughput virtual screening to explore the optoelectronic property space of organic dyes; finding diketopyrrolopyrrole dyes for dye-sensitized water splitting and solar cells

Organic dyes based on conjugated chromophores such as diketopyrrolopyrrole (DPP) have a large range of uses beyond providing colour to other materials, such as in dye-sensitized solar cells, dye-sensitized photoelectrochemical cells, dye-sensitized colloidal photocatalysts and organic photovoltaics. We perform a high-throughput virtual screening using the xTB family of density functional tight-binding methods to map the optoelectronic property space of ∼45 000 DPP dyes. The large volume of data at our disposal allows us to probe the difference between symmetric and asymmetric dyes and to identify the apparent boundaries of the optoelectronic property space for these dyes, as well as which substituents give access to particular combinations of properties. Finally, we use our dataset to screen for DPP dyes that can drive the reduction of protons to molecular hydrogen when illuminated as part of dye-sensitized photoelectrochemical cells or dye-sensitized colloidal photocatalysts, or as dyes for TiO2-based dye-sensitized solar cells

Photochemical Response of Electronically Reconfigurable Molecule-Based Switching Tunnel Junctions

Robust molecular devices may be based on the photo‐switching between spiropyran and merocyanine isomers (see Scheme). The equilibrium has been investigated in a Langmuir–Blodgett film and then succesfully sandwiched into a solid‐state tunnel junction

High-Density, Multiplexed Patterning of Cells at Single-Cell Resolution for Tissue Engineering and Other Applications

Surface chemistry meets tissue engineering: A novel surface-patterning approach for creating arrays of DNA squares is combined with a unique method for DNA-encoding of cells to construct dense arrays of distinct single cells. The cell patterns can be transferred from the substrate surface into thin hydrogel films, and these layers can be stacked to form 3D tissue constructs