A generic frequency dependence for the atmospheric tidal torque of terrestrial planets

Thermal atmospheric tides have a strong impact on the rotation of terrestrial planets. They can lock these planets into an asynchronous rotation state of equilibrium. We aim at characterizing the dependence of the tidal torque resulting from the semidiurnal thermal tide on the tidal frequency, the planet orbital radius, and the atmospheric surface pressure. The tidal torque is computed from full 3D simulations of the atmospheric climate and mean flows using a generic version of the LMDZ general circulation model (GCM) in the case of a nitrogen-dominated atmosphere. Numerical results are discussed with the help of an updated linear analytical framework. Power scaling laws governing the evolution of the torque with the planet orbital radius and surface pressure are derived. The tidal torque exhibits i) a thermal peak in the vicinity of synchronization, ii) a resonant peak associated with the excitation of the Lamb mode in the high frequency range, and iii) well defined frequency slopes outside these resonances. These features are well explained by our linear theory. Whatever the star-planet distance and surface pressure, the torque frequency spectrum -- when rescaled with the relevant power laws -- always presents the same behaviour. This allows us to provide a single and easily usable empirical formula describing the atmospheric tidal torque over the whole parameter space. With such a formula, the effect of the atmospheric tidal torque can be implemented in evolutionary models of the rotational dynamics of a planet in a computationally efficient, and yet relatively accurate way.Comment: Accepted for publication in Astronomy & Astrophysics, 23 pages, 9 figure

The Yeast Pif1 Helicase Prevents Genomic Instability Caused by G-Quadruplex-Forming CEB1 Sequences In Vivo

In budding yeast, the Pif1 DNA helicase is involved in the maintenance of both nuclear and mitochondrial genomes, but its role in these processes is still poorly understood. Here, we provide evidence for a new Pif1 function by demonstrating that its absence promotes genetic instability of alleles of the G-rich human minisatellite CEB1 inserted in the Saccharomyces cerevisiae genome, but not of other tandem repeats. Inactivation of other DNA helicases, including Sgs1, had no effect on CEB1 stability. In vitro, we show that CEB1 repeats formed stable G-quadruplex (G4) secondary structures and the Pif1 protein unwinds these structures more efficiently than regular B-DNA. Finally, synthetic CEB1 arrays in which we mutated the potential G4-forming sequences were no longer destabilized in pif1Δ cells. Hence, we conclude that CEB1 instability in pif1Δ cells depends on the potential to form G-quadruplex structures, suggesting that Pif1 could play a role in the metabolism of G4-forming sequences

Generic frequency dependence for the atmospheric tidal torque of terrestrial planets

Thermal atmospheric tides have a strong impact on the rotation of terrestrial planets. They can lock these planets into an asynchronous rotation state of equilibrium. We aim at characterizing the dependence of the tidal torque resulting from the semidiurnal thermal tide on the tidal frequency, the planet orbital radius, and the atmospheric surface pressure. The tidal torque is computed from full 3D simulations of the atmospheric climate and mean flows using a generic version of the LMDZ general circulation model (GCM) in the case of a nitrogen-dominated atmosphere. Numerical results are discussed with the help of an updated linear analytical framework. Power scaling laws governing the evolution of the torque with the planet orbital radius and surface pressure are derived. The tidal torque exhibits i) a thermal peak in the vicinity of synchronization, ii) a resonant peak associated with the excitation of the Lamb mode in the high frequency range, and iii) well defined frequency slopes outside these resonances. These features are well explained by our linear theory. Whatever the star-planet distance and surface pressure, the torque frequency spectrum -- when rescaled with the relevant power laws -- always presents the same behaviour. This allows us to provide a single and easily usable empirical formula describing the atmospheric tidal torque over the whole parameter space. With such a formula, the effect of the atmospheric tidal torque can be implemented in evolutionary models of the rotational dynamics of a planet in a computationally efficient, and yet relatively accurate way

G4access identifies G-quadruplexes and their associations with open chromatin and imprinting control regions

International audienceMetazoan promoters are enriched in secondary DNA structure-forming motifs, such as G-quadruplexes (G4s). Here we describe ‘G4access’, an approach to isolate and sequence G4s associated with open chromatin via nuclease digestion. G4access is antibody- and crosslinking-independent and enriches for computationally predicted G4s (pG4s), most of which are confirmed in vitro. Using G4access in human and mouse cells, we identify cell-type-specific G4 enrichment correlated with nucleosome exclusion and promoter transcription. G4access allows measurement of variations in G4 repertoire usage following G4 ligand treatment, HDAC and G4 helicases inhibitors. Applying G4access to cells from reciprocal hybrid mouse crosses suggests a role for G4s in the control of active imprinting regions. Consistently, we also observed that G4access peaks are unmethylated, while methylation at pG4s correlates with nucleosome repositioning on DNA. Overall, our study provides a new tool for studying G4s in cellular dynamics and highlights their association with open chromatin, transcription and their antagonism to DNA methylation

G-quadruplexes are promoter elements controlling nucleosome exclusion and RNA polymerase II pausing

Despite their central role in transcription, it has been difficult to define universal sequences associated to eukaryotic promoters. Within chromatin context, recruitment of the transcriptional machinery requires opening of the promoter but how DNA elements could contribute to this process has remained elusive. Here, we show that G-quadruplex (G4) secondary structures are highly enriched mammalian core promoter elements. G4s are located at the deepest point of nucleosome exclusion at promoters and correlate with maximum promoter activity. We found that experimental G4s exclude nucleosomes both in vivo and in vitro and display a strong positioning potential. At model promoters, impairing G4s affected both transcriptional activity and chromatin opening. G4 destabilization also resulted in an inactive promoter state and affected transition to effective RNA production in live imaging experiments. Finally, G4 stabilization resulted in global reduction of proximal promoter pausing. Altogether, our data introduce G4s as bona fide promoter elements allowing nucleosome exclusion and facilitating pause release by the RNA Polymerase II