Automated group assignment in large phylogenetic trees using GRUNT: GRouping, Ungrouping, Naming Tool

<p>Abstract</p> <p>Background</p> <p>Accurate taxonomy is best maintained if species are arranged as hierarchical groups in phylogenetic trees. This is especially important as trees grow larger as a consequence of a rapidly expanding sequence database. Hierarchical group names are typically manually assigned in trees, an approach that becomes unfeasible for very large topologies.</p> <p>Results</p> <p>We have developed an automated iterative procedure for delineating stable (monophyletic) hierarchical groups to large (or small) trees and naming those groups according to a set of sequentially applied rules. In addition, we have created an associated ungrouping tool for removing existing groups that do not meet user-defined criteria (such as monophyly). The procedure is implemented in a program called GRUNT (GRouping, Ungrouping, Naming Tool) and has been applied to the current release of the Greengenes (Hugenholtz) 16S rRNA gene taxonomy comprising more than 130,000 taxa.</p> <p>Conclusion</p> <p>GRUNT will facilitate researchers requiring comprehensive hierarchical grouping of large tree topologies in, for example, database curation, microarray design and pangenome assignments. The application is available at the greengenes website <abbrgrp><abbr bid="B1">1</abbr></abbrgrp>.</p

The mass and age of the first SONG target: the red giant 46 LMi

Context. The Stellar Observation Network Group (SONG) is an initiative to build a worldwide network of 1m telescopes with high-precision radial-velocity spectrographs. Here we analyse the first radial-velocity time series of a red-giant star measured by the SONG telescope at Tenerife. The asteroseismic results demonstrate a major increase in the achievable precision of the parameters for red-giant stars obtainable from ground-based observations. Reliable tests of the validity of these results are needed, however, before the accuracy of the parameters can be trusted. Aims. We analyse the first SONG time series for the star 46 LMi, which has a precise parallax and an angular diameter measured from interferometry, and therefore a good determination of the stellar radius. We use asteroseismic scaling relations to obtain an accurate mass, and modelling to determine the age. Methods. A 55-day time series of high-resolution, high S/N spectra were obtained with the first SONG telescope. We derive the asteroseismic parameters by analysing the power spectrum. To give a best guess on the large separation of modes in the power spectrum, we have applied a new method which uses the scaling of Kepler red-giant stars to 46 LMi. Results. Several methods have been applied: classical estimates, seismic methods using the observed time series, and model calculations to derive the fundamental parameters of 46 LMi. Parameters determined using the different methods are consistent within the uncertainties. We find the following values for the mass M (scaling), radius R (classical), age (modelling), and surface gravity (combining mass and radius): M = 1.09 ± 0.04 M⊙, R = 7.95 ± 0.11 R⊙ age t = 8.2 ± 1.9 Gy, and log g = 2.674 ± 0.013. Conclusions. The exciting possibilities for ground-based asteroseismology of solar-like oscillations with a fully robotic network have been illustrated with the results obtained from just a single site of the SONG network. The window function is still a severe problem which will be solved when there are more nodes in the network

Oscillations in the Sun with SONG: Setting the scale for asteroseismic investigations

Context. We present the first high-cadence multi-wavelength radial-velocity observations of the Sun-as-a-star, carried out during 57 consecutive days using the stellar \'echelle spectrograph at the Hertzsprung SONG Telescope operating at the Teide Observatory. Aims. The aim was to produce a high-quality data set and reference values for the global helioseismic parameters {\nu_{max}}, and {\Delta \nu} of the solar p-modes using the SONG instrument. The obtained data set or the inferred values should then be used when the scaling relations are applied to other stars showing solar-like oscillations which are observed with SONG or similar instruments. Methods. We used different approaches to analyse the power spectrum of the time series to determine {\nu_{max}}; simple Gaussian fitting and heavy smoothing of the power spectrum. {\Delta\nu} was determined using the method of autocorrelation of the power spectrum. The amplitude per radial mode was determined using the method described in Kjeldsen et al. (2008). Results. We found the following values for the solar oscillations using the SONG spectrograph: {\nu_{max}} = 3141 {\pm} 12 {\mu}Hz, {\Delta\nu} = 134.98 {\pm} 0.04 {\mu}Hz and an average amplitude of the strongest radial modes of 16.6 {\pm} 0.4 cm/s. These values are consistent with previous measurements with other techniques.Comment: 5 pages, 5 figures, letter accepted for A&

Precise radial velocities of giant stars XIII. A second Jupiter orbiting in 4:3 resonance in the 7 CMa system

We report the discovery of a second planet orbiting the K giant star 7 CMa based on 166 high-precision radial velocities obtained with Lick, HARPS, UCLES and SONG. The periodogram analysis reveals two periodic signals of approximately 745 and 980 d, associated to planetary companions. A double-Keplerian orbital fit of the data reveals two Jupiter-like planets with minimum masses $m_b\sin i \sim 1.9 \,\mathrm{M_{J}}$ and $m_c\sin i \sim 0.9 \,\mathrm{M_{J}}$, orbiting at semi-major axes of $a_b \sim 1.75\,\mathrm{au}$ and $a_c \sim 2.15\,\mathrm{au}$, respectively. Given the small orbital separation and the large minimum masses of the planets close encounters may occur within the time baseline of the observations, thus, a more accurate N-body dynamical modeling of the available data is performed. The dynamical best-fit solution leads to collision of the planets and we explore the long-term stable configuration of the system in a Bayesian framework, confirming that 13% of the posterior samples are stable for at least 10 Myr. The result from the stability analysis indicates that the two-planets are trapped in a low-eccentricity 4:3 mean-motion resonance. This is only the third discovered system to be inside a 4:3 resonance, making it very valuable for planet formation and orbital evolution models.Comment: Accepted in A&

MASCARA-2 b: A hot Jupiter transiting the mV=7.6m_V=7.6 A-star HD185603

In this paper we present MASCARA-2 b, a hot Jupiter transiting the $m_V=7.6$ A2 star HD 185603. Since early 2015, MASCARA has taken more than 1.6 million flux measurements of the star, corresponding to a total of almost 3000 hours of observations, revealing a periodic dimming in the flux with a depth of $1.3\%$. Photometric follow-up observations were performed with the NITES and IAC80 telescopes and spectroscopic measurements were obtained with the Hertzsprung SONG telescope. We find MASCARA-2 b orbits HD 185603 with a period of $3.474119^{+0.000005}_{-0.000006}~\rm{days}$ at a distance of $0.057 \pm 0.006~\rm{AU}$, has a radius of $1.83 \pm 0.07~\rm{R}_{\rm{J}}$ and place a $99\%$ upper limit on the mass of $< 17~\rm{M}_{\rm{J}}$. HD 185603 is a rapidly rotating early-type star with an effective temperature of $8980^{+90}_{-130}~\rm{K}$ and a mass and radius of $1.89^{+0.06}_{-0.05}~M_\odot$, $1.60 \pm 0.06~R_\odot$, respectively. Contrary to most other hot Jupiters transiting early-type stars, the projected planet orbital axis and stellar spin axis are found to be aligned with $\lambda=0.6 \pm 4^\circ$. The brightness of the host star and the high equilibrium temperature, $2260 \pm 50~\rm{K}$, of MASCARA-2 b make it a suitable target for atmospheric studies from the ground and space. Of particular interest is the detection of TiO, which has recently been detected in the similarly hot planets WASP-33 b and WASP-19 b.Comment: 8 pages, 4 figures, Accepted for publication in A&

Unresolved Rossby and gravity modes in 214 A and F stars showing rotational modulation

Here we report an ensemble study of 214 A- and F-type stars observed by \textit{Kepler}, exhibiting the so-called \textit{hump and spike} periodic signal, explained by Rossby modes (r~modes) -- the \textit{hump} -- and magnetic stellar spots or overstable convective (OsC) modes -- the \textit{spike} -- respectively. We determine the power confined in the non-resolved hump features and find additional gravity~modes (g~modes) humps always occurring at higher frequencies than the spike. Furthermore, we derive projected rotational velocities from FIES, SONG and HERMES spectra for 28 stars and the stellar inclination angle for 89 stars. We find a strong correlation between the spike amplitude and the power in the r and g~modes, which suggests that both types of oscillations are mechanically excited by either stellar spots or OsC modes. Our analysis suggests that stars with a higher power in $m=1$ r~modes humps are more likely to also exhibit humps at higher azimuthal orders ($m$ = 2, 3, or 4). Interestingly, all stars that show g~modes humps are hotter and more luminous than the observed red edge of the $\delta$ Scuti instability strip, suggesting that either magnetic fields or convection in the outer layers could play an important role.Comment: 18 pages, 19 figure

Solar-like oscillations in γ\gamma Cephei A as seen through SONG and TESS

Fundamental stellar parameters such as mass and radius are some of the most important building blocks in astronomy, both when it comes to understanding the star itself and when deriving the properties of any exoplanet(s) they may host. Asteroseismology of solar-like oscillations allows us to determine these parameters with high precision. We investigate the solar-like oscillations of the red-giant-branch star $\gamma$ Cep A, which harbours a giant planet on a wide orbit. We did this by utilising both ground-based radial velocities from the SONG network and space-borne photometry from the NASA TESS mission. From the radial velocities and photometric observations, we created a combined power spectrum, which we used in an asteroseismic analysis to extract individual frequencies. We clearly identify several radial and quadrupole modes as well as multiple mixed, dipole modes. We used these frequencies along with spectroscopic and astrometric constraints to model the star, and we find a mass of $1.27^{+0.05}_{-0.07}$ M$_\odot$, a radius of $4.74^{+0.07}_{-0.08}$ R$_\odot$, and an age of $5.7^{+0.8}_{-0.9}$ Gyr. We then used the mass of $\gamma$ Cep A and our SONG radial velocities to derive masses for $\gamma$ Cep B and $\gamma$ Cep Ab of $0.328^{+0.009}_{-0.012}$ M$_\odot$ and $6.6^{+2.3}_{-2.8}$ M$_{\rm Jup}$, respectively.Comment: 17 pages, 13 figures, accepted for publication in A&

Aldebaran b's temperate past uncovered in planet search data

The nearby red giant Aldebaran is known to host a gas giant planetary companion from decades of ground-based spectroscopic radial velocity measurements. Using Gaussian Process-based Continuous Auto-Regressive Moving Average (CARMA) models, we show that these historic data also contain evidence of acoustic oscillations in the star itself, and verify this result with further dedicated ground-based spectroscopy and space-based photometry with the Kepler Space Telescope. From the frequency of these oscillations we determine the mass of Aldebaran to be $1.16 \pm 0.07 \, M_\odot$, and note that this implies its planet will have been subject to insolation comparable to the Earth for some of the star's main sequence lifetime. Our approach to sparse, irregularly sampled time series astronomical observations has the potential to unlock asteroseismic measurements for thousands of stars in archival data, and push to lower-mass planets around red giant stars.Comment: 24 pages, 7 figures (including appendices); submitted to ApJL; paper text, figures, data, and code at https://github.com/farr/Aldebara