The Age Spread of Quiescent Galaxies with the NEWFIRM Medium-band Survey: Identification of the Oldest Galaxies out to z~2

With a complete, mass-selected sample of quiescent galaxies from the NEWFIRM Medium-Band Survey (NMBS), we study the stellar populations of the oldest and most massive galaxies (>10^11 Msun) to high redshift. The sample includes 570 quiescent galaxies selected based on their extinction-corrected U-V colors out to z=2.2, with accurate photometric redshifts, sigma_z/(1+z)~2%, and rest-frame colors, sigma_U-V~0.06 mag. We measure an increase in the intrinsic scatter of the rest-frame U-V colors of quiescent galaxies with redshift. This scatter in color arises from the spread in ages of the quiescent galaxies, where we see both relatively quiescent red, old galaxies and quiescent blue, younger galaxies towards higher redshift. The trends between color and age are consistent with the observed composite rest-frame spectral energy distributions (SEDs) of these galaxies. The composite SEDs of the reddest and bluest quiescent galaxies are fundamentally different, with remarkably well-defined 4000A- and Balmer-breaks, respectively. Some of the quiescent galaxies may be up to 4 times older than the average age- and up to the age of the universe, if the assumption of solar metallicity is correct. By matching the scatter predicted by models that include growth of the red sequence by the transformation of blue galaxies to the observed intrinsic scatter, the data indicate that most early-type galaxies formed their stars at high redshift with a burst of star formation prior to migrating to the red sequence. The observed U-V color evolution with redshift is weaker than passive evolution predicts; possible mechanisms to slow the color evolution include increasing amounts of dust in quiescent galaxies towards higher redshift, red mergers at z<1, and a frosting of relatively young stars from star formation at later times.Comment: 20 pages, 20 figures, accepted for publication in Ap

A Cross-Correlation Analysis of Mg II Absorption Line Systems and Luminous Red Galaxies from the SDSS DR5

We analyze the cross-correlation of 2,705 unambiguously intervening Mg II (2796,2803A) quasar absorption line systems with 1,495,604 luminous red galaxies (LRGs) from the Fifth Data Release of the Sloan Digital Sky Survey within the redshift range 0.36<=z<=0.8. We confirm with high precision a previously reported weak anti-correlation of equivalent width and dark matter halo mass, measuring the average masses to be log M_h(M_[solar]h^-1)=11.29 [+0.36,-0.62] and log M_h(M_[solar]h^-1)=12.70 [+0.53,-1.16] for systems with W[2796A]>=1.4A and 0.8A<=W[2796A]<1.4A, respectively. Additionally, we investigate the significance of a number of potential sources of bias inherent in absorber-LRG cross-correlation measurements, including absorber velocity distributions and the weak lensing of background quasars, which we determine is capable of producing a 20-30% bias in angular cross-correlation measurements on scales less than 2'. We measure the Mg II - LRG cross-correlation for 719 absorption systems with v<60,000 km s^-1 in the quasar rest frame and find that these associated absorbers typically reside in dark matter haloes that are ~10-100 times more massive than those hosting unambiguously intervening Mg II absorbers. Furthermore, we find evidence for evolution of the redshift number density, dN/dz, with 2-sigma significance for the strongest (W>2.0A) absorbers in the DR5 sample. This width-dependent dN/dz evolution does not significantly affect the recovered equivalent width-halo mass anti-correlation and adds to existing evidence that the strongest Mg II absorption systems are correlated with an evolving population of field galaxies at z<0.8, while the non-evolving dN/dz of the weakest absorbers more closely resembles that of the LRG population.Comment: 21 pages, 19 figures; Published in Astrophysical Journa

Multi-Scale Stellar Associations across the Star Formation Hierarchy in PHANGS-HST Nearby Galaxies: Methodology and Properties

We develop a method to identify and determine the physical properties of stellar associations using Hubble Space Telescope (HST) NUV-U-B-V-I imaging of nearby galaxies from the PHANGS-HST survey. We apply a watershed algorithm to density maps constructed from point source catalogues Gaussian smoothed to multiple physical scales from 8 to 64 pc. We develop our method on two galaxies that span the distance range in the PHANGS-HST sample: NGC 3351 (10 Mpc), NGC 1566 (18 Mpc). We test our algorithm with different parameters such as the choice of detection band for the point source catalogue (NUV or V), source density image filtering methods, and absolute magnitude limits. We characterise the properties of the resulting multi-scale associations, including sizes, number of tracer stars, number of associations, photometry, as well as ages, masses, and reddening from Spectral Energy Distribution fitting. Our method successfully identifies structures that occupy loci in the UBVI colour-colour diagram consistent with previously published catalogues of clusters and associations. The median ages of the associations increases from log(age/yr) = 6.6 to log(age/yr) = 6.9 as the spatial scale increases from 8 pc to 64 pc for both galaxies. We find that the youngest stellar associations, with ages < 3 Myr, indeed closely trace H ii regions in H$\alpha$ imaging, and that older associations are increasingly anti-correlated with the H$\alpha$ emission. Owing to our new method, the PHANGS-HST multi-scale associations provide a far more complete census of recent star formation activity than found with previous cluster and compact association catalogues. The method presented here will be applied to the full sample of 38 PHANGS-HST galaxies.Comment: Submitted to MNRAS. Referee report received with minor comments, and "request to clarify if the smaller associations are always included in the larger ones and how this may affect the photometric fitting of the larger association if the groups have different ages." Revision in progres

PHANGS: Constraining Star Formation Timescales Using the Spatial Correlations of Star Clusters and Giant Molecular Clouds

In the hierarchical view of star formation, giant molecular gas clouds (GMCs) undergo fragmentation to form small-scale structures made up of stars and star clusters. Here we study the connection between young star clusters and cold gas across a range of extragalactic environments by combining the high resolution (1") PHANGS-ALMA catalogue of GMCs with the star cluster catalogues from PHANGS-HST. The star clusters are spatially matched with the GMCs across a sample of 11 nearby star-forming galaxies with a range of galactic environments (centres, bars, spiral arms, etc.). We find that after 4-6 Myr the star clusters are no longer associated with any gas clouds. Additionally, we measure the autocorrelation of the star clusters and GMCs as well as their cross-correlation to quantify the fractal nature of hierarchical star formation. Young ($\leq$ 10 Myr) star clusters are more strongly autocorrelated on kpc and smaller spatial scales than the >10 Myr stellar populations, indicating that the hierarchical structure dissolves over time.Comment: 15 pages, 11 figures, 4 tables. Accepted to MNRAS Sept 6 202

The Seventh Data Release of the Sloan Digital Sky Survey

This paper describes the Seventh Data Release of the Sloan Digital Sky Survey (SDSS), marking the completion of the original goals of the SDSS and the end of the phase known as SDSS-II. It includes 11663 deg^2 of imaging data, with most of the roughly 2000 deg^2 increment over the previous data release lying in regions of low Galactic latitude. The catalog contains five-band photometry for 357 million distinct objects. The survey also includes repeat photometry over 250 deg^2 along the Celestial Equator in the Southern Galactic Cap. A coaddition of these data goes roughly two magnitudes fainter than the main survey. The spectroscopy is now complete over a contiguous area of 7500 deg^2 in the Northern Galactic Cap, closing the gap that was present in previous data releases. There are over 1.6 million spectra in total, including 930,000 galaxies, 120,000 quasars, and 460,000 stars. The data release includes improved stellar photometry at low Galactic latitude. The astrometry has all been recalibrated with the second version of the USNO CCD Astrograph Catalog (UCAC-2), reducing the rms statistical errors at the bright end to 45 milli-arcseconds per coordinate. A systematic error in bright galaxy photometr is less severe than previously reported for the majority of galaxies. Finally, we describe a series of improvements to the spectroscopic reductions, including better flat-fielding and improved wavelength calibration at the blue end, better processing of objects with extremely strong narrow emission lines, and an improved determination of stellar metallicities. (Abridged)Comment: 20 pages, 10 embedded figures. Accepted to ApJS after minor correction

Decoding the regulatory network of early blood development from single-cell gene expression measurements.

Reconstruction of the molecular pathways controlling organ development has been hampered by a lack of methods to resolve embryonic progenitor cells. Here we describe a strategy to address this problem that combines gene expression profiling of large numbers of single cells with data analysis based on diffusion maps for dimensionality reduction and network synthesis from state transition graphs. Applying the approach to hematopoietic development in the mouse embryo, we map the progression of mesoderm toward blood using single-cell gene expression analysis of 3,934 cells with blood-forming potential captured at four time points between E7.0 and E8.5. Transitions between individual cellular states are then used as input to develop a single-cell network synthesis toolkit to generate a computationally executable transcriptional regulatory network model of blood development. Several model predictions concerning the roles of Sox and Hox factors are validated experimentally. Our results demonstrate that single-cell analysis of a developing organ coupled with computational approaches can reveal the transcriptional programs that underpin organogenesis.We thank J. Downing (St. Jude Children's Research Hospital, Memphis, TN, USA) for the Runx1-ires-GFP mouse. Research in the authors' laboratory is supported by the Medical Research Council, Biotechnology and Biological Sciences Research Council, Leukaemia and Lymphoma Research, the Leukemia and Lymphoma Society, Microsoft Research and core support grants by the Wellcome Trust to the Cambridge Institute for Medical Research and Wellcome Trust - MRC Cambridge Stem Cell Institute. V.M. is supported by a Medical Research Council Studentship and Centenary Award and S.W. by a Microsoft Research PhD Scholarship.This is the accepted manuscript for a paper published in Nature Biotechnology 33, 269–276 (2015) doi:10.1038/nbt.315

Liver transplantation is a preferable alternative to palliative therapy for selected patients with advanced hepatocellular carcinoma

Background: Patients with hepatocellular carcinoma (HCC) beyond the traditional criteria (advanced HCC) are typically offered palliation, which is associated with a 3-year survival rate lower than 30%. This study aimed to describe the outcomes for a subset of patients with advanced HCC who satisfied the Extended Toronto Criteria (ETC) and were listed for liver transplantation (LT). Materials & Methods: All patients listed in the Toronto liver transplant program with HCC beyond both the Milan and University of California, San Francisco criteria were included in this study. Data were extracted from the prospectively collected electronic database. All radiological images were reviewed by two independent radiologists. The primary endpoint was patient survival. Results: Between January 1999 and August 2014, 96 patients with advanced HCC were listed for LT, and 62 (65%) of these patients received bridging therapy while on the waiting list. Bridging therapy led to a significant reduction in tumor progression (p=0.02) and tumor burden (p <0.001). The majority of those listed underwent LT (n=69, 72%). Both tumor progression on waiting list (HR 4.973 [1.599 – 15.464], p=0.006) and peak AFP ≥400ng/ml (HR 4.604 [1.660 – 12.768], p=0.003) were independently associated with waiting list dropout. Post-LT HCC recurrence occurred in 35% (n=24). Among those with HCC recurrence, survival was significantly better for those who received curative treatment (p=0.004). The overall actuarial survival rates from the listing were 76% at 1 year, 56% at 3 years, and 47% at 5 years, and the corresponding rates from LT were 93%, 71%, and 66%. Conclusion: LT provides significantly better survival rates than palliation for patients with selected advanced HCC

The NEWFIRM Medium-band Survey: Photometric Catalogs, Redshifts and the Bimodal Color Distribution of Galaxies out to z~3

We present deep near-infrared (NIR) medium-bandwidth photometry over the wavelength range 1-1.8 microns in the All-wavelength Extended Groth strip International Survey (AEGIS) and Cosmic Evolution Survey (COSMOS) fields. The observations were carried out as part of the NEWFIRM Medium-Band Survey (NMBS), an NOAO survey program on the Mayall 4m telescope on Kitt Peak using the NOAO Extremely Wide-Field Infrared Imager (NEWFIRM). In this paper, we describe the full details of the observations, data reduction and photometry for the survey. We also present a public K-selected photometric catalog, along with accurate photometric redshifts. The redshifts are computed with 37 (20) filters in the COSMOS (AEGIS) fields, combining the NIR medium-bandwidth data with existing ultraviolet (UV; Galaxy Evolution Explorer), visible and NIR (Canada-France-Hawaii Telescope and Subaru) and mid-IR (Spitzer/IRAC) imaging. We find excellent agreement with publicly available spectroscopic redshifts, with sigma_z/(1+z)~1-2% for ~4000 galaxies at z=0-3. The NMBS catalogs contain ~13,000 galaxies at z>1.5 with accurate photometric redshifts and rest-frame colors. Due to the increased spectral resolution obtained with the five NIR medium-band filters, the median 68% confidence intervals of the photometric redshifts of both quiescent and star-forming galaxies are a factor of ~2 times smaller when comparing catalogs with medium-band NIR photometry to NIR broadband photometry. We show evidence for a clear bimodal color distribution between quiescent and star-forming galaxies that persists to z~3, a higher redshift than has been probed so far.Comment: All NMBS data products and a high resolution version of paper are available for download at http://www.astro.yale.edu/nmbs; Accepted for publication in ApJ; 24 pages, 21 figures, 4 table

CANDELS: The Cosmic Assembly Near-infrared Deep Extragalactic Legacy Survey

The Cosmic Assembly Near-infrared Deep Extragalactic Legacy Survey (CANDELS) is designed to document the first third of galactic evolution, over the approximate redshift (z) range 8--1.5. It will image >250,000 distant galaxies using three separate cameras on the Hubble Space Telescope, from the mid-ultraviolet to the near-infrared, and will find and measure Type Ia supernovae at z>1.5 to test their accuracy as standardizable candles for cosmology. Five premier multi-wavelength sky regions are selected, each with extensive ancillary data. The use of five widely separated fields mitigates cosmic variance and yields statistically robust and complete samples of galaxies down to a stellar mass of 10^9 M_\odot to z \approx 2, reaching the knee of the ultraviolet luminosity function (UVLF) of galaxies to z \approx 8. The survey covers approximately 800 arcmin^2 and is divided into two parts. The CANDELS/Deep survey (5\sigma\ point-source limit H=27.7 mag) covers \sim 125 arcmin^2 within GOODS-N and GOODS-S. The CANDELS/Wide survey includes GOODS and three additional fields (EGS, COSMOS, and UDS) and covers the full area to a 5\sigma\ point-source limit of H \gtrsim 27.0 mag. Together with the Hubble Ultra Deep Fields, the strategy creates a three-tiered "wedding cake" approach that has proven efficient for extragalactic surveys. Data from the survey are nonproprietary and are useful for a wide variety of science investigations. In this paper, we describe the basic motivations for the survey, the CANDELS team science goals and the resulting observational requirements, the field selection and geometry, and the observing design. The Hubble data processing and products are described in a companion paper.Comment: Submitted to Astrophysical Journal Supplement Series; Revised version, subsequent to referee repor

The evolution of the plastid chromosome in land plants: gene content, gene order, gene function

This review bridges functional and evolutionary aspects of plastid chromosome architecture in land plants and their putative ancestors. We provide an overview on the structure and composition of the plastid genome of land plants as well as the functions of its genes in an explicit phylogenetic and evolutionary context. We will discuss the architecture of land plant plastid chromosomes, including gene content and synteny across land plants. Moreover, we will explore the functions and roles of plastid encoded genes in metabolism and their evolutionary importance regarding gene retention and conservation. We suggest that the slow mode at which the plastome typically evolves is likely to be influenced by a combination of different molecular mechanisms. These include the organization of plastid genes in operons, the usually uniparental mode of plastid inheritance, the activity of highly effective repair mechanisms as well as the rarity of plastid fusion. Nevertheless, structurally rearranged plastomes can be found in several unrelated lineages (e.g. ferns, Pinaceae, multiple angiosperm families). Rearrangements and gene losses seem to correlate with an unusual mode of plastid transmission, abundance of repeats, or a heterotrophic lifestyle (parasites or myco-heterotrophs). While only a few functional gene gains and more frequent gene losses have been inferred for land plants, the plastid Ndh complex is one example of multiple independent gene losses and will be discussed in detail. Patterns of ndh-gene loss and functional analyses indicate that these losses are usually found in plant groups with a certain degree of heterotrophy, might rendering plastid encoded Ndh1 subunits dispensable