Chromatin Preparation and Chromatin Immuno-precipitation from Drosophila Embryos

This protocol provides specific details on how to perform Chromatin immunoprecipitation (ChIP) from Drosophila embryos. ChIP allows the matching of proteins or histone modifications to specific genomic regions. Formaldehyde-cross-linked chromatin is isolated and antibodies against the target of interest are used to determine whether the target is associated with a specific DNA sequence. This can be performed in spatial and temporal manner and it can provide information about the genome-wide localization of a given protein or histone modification if coupled with deep sequencing technology (ChIP-Seq)

HP1 drives de novo 3D genome reorganization in early Drosophila embryos

Fundamental features of 3D genome organization are established de novo in the early embryo, including clustering of pericentromeric regions, the folding of chromosome arms and the segregation of chromosomes into active (A-) and inactive (B-) compartments. However, the molecular mechanisms that drive de novo organization remain unknown. Here, by combining chromosome conformation capture (Hi-C), chromatin immunoprecipitation with high-throughput sequencing (ChIP–seq), 3D DNA fluorescence in situ hybridization (3D DNA FISH) and polymer simulations, we show that heterochromatin protein 1a (HP1a) is essential for de novo 3D genome organization during Drosophila early development. The binding of HP1a at pericentromeric heterochromatin is required to establish clustering of pericentromeric regions. Moreover, HP1a binding within chromosome arms is responsible for overall chromosome folding and has an important role in the formation of B-compartment regions. However, depletion of HP1a does not affect the A-compartment, which suggests that a different molecular mechanism segregates active chromosome regions. Our work identifies HP1a as an epigenetic regulator that is involved in establishing the global structure of the genome in the early embryo

Magnetic behavior of single crystalline Ho2_2PdSi3_3

The magnetic behavior of single-crystal Ho$_2$PdSi$_3$, crystallizing in an AlB$_2$-derived hexagonal structure, is investigated by magnetic susceptibility ($\chi$) and electrical resistivity ($\rho$) measurements along two directions. There is no dramatic anisotropy in the high temperature Curie-Weiss parameter or in the $\rho$ and isothermal magnetization data, though there is a noticeable anisotropy in the magnitude of $\rho$ between two perpendicular orientations. The degree of anisotropy is overall less prominent than in the Gd (which is an S-state ion!) and Tb analogues. A point of emphasis is that this compound undergoes long range magnetic ordering below 8 K as in the case of analogous Gd and Dy compounds. Considering this fact for these compounds with well-localised f-orbital, the spin glass freezing noted for isomorphous U compounds in the recent literature could be attributed to the role of the f-ligand hybridization, rather than just Pd-Si disorder.Comment: Physical Review B, in pres

Super Bloch oscillations in the Peyrard-Bishop-Holstein model

Recently, polarons in the Peyrard-Bishop-Holstein model under DC electric fields were established to perform Bloch oscillations, provided the charge-lattice coupling is not large. In this work, we study this model when the charge is subjected to an applied field with both DC and AC components. Similarly to what happens in the rigid lattice, we find that the carrier undergoes a directed motion or coherent oscillations when the AC field is resonant or detuned with respect to the Bloch frequency, respectively. The electric density current and its Fourier spectrum are also studied to reveal the frequencies involved in the polaron dynamics

Tunable magnetic properties of arrays of Fe(110) nanowires grown on kinetically-grooved W(110) self-organized templates

We report a detailed magnetic study of a new type of self-organized nanowires disclosed briefly previously [B. Borca et al., Appl. Phys. Lett. 90, 142507 (2007)]. The templates, prepared on sapphire wafers in a kinetically-limited regime, consist of uniaxially-grooved W(110) surfaces, with a lateral period here tuned to 15nm. Fe deposition leads to the formation of (110) 7 nm-wide wires located at the bottom of the grooves. The effect of capping layers (Mo, Pd, Au, Al) and underlayers (Mo, W) on the magnetic anisotropy of the wires was studied. Significant discrepancies with figures known for thin flat films are evidenced and discussed in terms of step anisotropy and strain-dependent surface anisotropy. Demagnetizing coeffcients of cylinders with a triangular isosceles cross-section have also been calculated, to estimate the contribution of dipolar anisotropy. Finally, the dependence of magnetic anisotropy with the interface element was used to tune the blocking temperature of the wires, here from 50K to 200 K

A Manually Curated Database on Clinical Studies Involving Cell Products Derived from Human Pluripotent Stem Cells

The last 5 years have witnessed a significant increase in the number of clinical studies based on human pluripotent stem cells (hPSCs). In parallel, concern is increasing about the proliferation of unregulated stem cell treatments worldwide. Regulated clinical testing is a de facto standard to establish the safety and efficacy of new cell therapies, yet reliable information on clinical studies involving hPSCs is scattered. Our analysis of a multitude of resources found 54 clinical studies involving several types of hPSCs, which are performed in ten countries. While the majority of those studies is based on human embryonic stem cells (hESCs), clinical studies involving human induced pluripotent stem cells increased more strongly in the past 2 years than the number of hESC-based studies. A publicly accessible database was created using the human pluripotent stem cell registry (https://hpscreg.eu) platform, providing a steadily updated comprehensive overview on hPSC-based clinical studies performed worldwide

Field-induced delocalization and Zener breakdown in semiconductor superlattices

We investigate the energy spectrum and the electron dynamics of a band in a semiconductor superlattice as a function of the electric field. Linear optical spectroscopy shows that, for high fields, the well-known localization of the Bloch states is followed by a field-induced delocalization, associated with Zener breakdown. Using time-resolved measurements, we observe Bloch oscillations in a regime where they are damped by Zener breakdown