Phylodynamics focuses on the problem of reconstructing past population size dynamics from current genetic samples taken from the population of interest. This technique has been extensively used in many areas of biology, but is particularly useful for
studying the spread of quickly evolving infectious diseases agents, e.g., influenza virus. Phylodynamics inference uses a coalescent model that defines a probability density for the genealogy of randomly sampled individuals from the population. When we assume that such a genealogy is known, the coalescent model, equipped with a Gaussian process prior on population size trajectory, allows for nonparametric Bayesian estimation of population size dynamics. While this approach is quite powerful, large data sets collected during infectious disease surveillance challenge the state-of-the-art of Bayesian phylodynamics and demand computationally more efficient inference framework. To satisfy this demand, we provide a computationally efficient Bayesian inference framework based on Hamiltonian Monte Carlo for coalescent process models. Moreover, we show that by splitting the Hamiltonian function we can further improve the efficiency of this approach. Using several simulated and real datasets, we show that our method provides accurate estimates of population size dynamics and is substantially faster than alternative methods based on elliptical slice sampler and Metropolis-adjusted Langevin algorithm.
Coherent light pulses of few to hundreds of femtoseconds (fs) duration have prolifically served the field of ultrafast phenomena. While fs pulses address mainly dynamics of nuclear motion in molecules or lattices in the gas, liquid or condensed matte
r phase, the advent of attosecond pulses has in recent years provided direct experimental access to ultrafast electron dynamics. However, there are processes involving nuclear motion in molecules and in particular coupled electronic and nuclear motion that possess few fs or even sub-fs dynamics. In the present work we have succeeded in addressing simultaneously vibrational and electronic dynamics in molecular Hydrogen. Utilizing a broadband extreme-ultraviolet (XUV) continuum the entire, Frank-Condon allowed spectrum of H2 is coherently excited. Vibrational, electronic and ionization 1fs scale dynamics are subsequently tracked by means of XUV-pump-XUV-probe measurements. These reflect the intrinsic molecular behavior as the XUV probe pulse hardly distorts the molecular potential.
Weak G-band (WGB) stars are a rare class of cool luminous stars that present a strong depletion in carbon, but also lithium abundance anomalies that have been little explored in the literature since the first discovery of these peculiar objects in th
e early 50s. Here we focus on the Li-rich WGB stars and report on their evolutionary status. We explore different paths to propose a tentative explanation for the lithium anomaly. Using archive data, we derive the fundamental parameters of WGB (Teff, log g, log(L/Lsun)) using Hipparcos parallaxes and recent temperature scales. From the equivalent widths of Li resonance line at 6707 {AA}, we uniformly derive the lithium abundances and apply when possible NLTE corrections following the procedure described by Lind et al. (2009). We also compute dedicated stellar evolution models in the mass range 3.0 to 4.5 Msun, exploring the effects of rotation-induced and thermohaline mixing. These models are used to locate the WGB stars in the H-R diagram and to explore the origin of the abundance anomalies. The location of WGB stars in the H-R diagram shows that these are intermediate mass stars of masses ranging from 3.0 to 4.5 Msun located at the clump, which implies a degeneracy of their evolutionary status between subgiant/red giant branch and core helium burning phases. The atmospheres of a large proportion of WGB stars (more than 50%) exhibit lithium abundances A(Li) geq 1.4 dex similar to Li-rich K giants. The position of WGB stars along with the Li-rich K giants in the H-R diagram however indicates that both are well separated groups. The combined and tentatively consistent analysis of the abundance pattern for lithium, carbon and nitrogen of WGB stars seems to indicate that carbon underabundance could be decorrelated from the lithium and nitrogen overabundances.
