ADAPTIVE PLASTICITY AS A FITNESS BENEFIT OF MATE CHOICE

Phenotypic plasticity and sexual selection can each promote adaptation in variable environments, but their combined influence on adaptive evolution is not well understood. In this dissertation, I propose that sexual selection can facilitate adaptation in variable environments when individuals prefer mates that produce adaptively plastic offspring. I develop this hypothesis and review existing studies showing that diverse groups display both sexual selection and plasticity in non-sexual traits. Thus, plasticity could be a widespread but unappreciated benefit of mate choice. I describe methods and opportunities to test this hypothesis and describe how sexual selection might foster the evolution of phenotypic plasticity. In addition, I detail two empirical examples of correlations between adult sexual traits and adaptive plasticity in offspring nonsexual traits. Understanding this interplay between sexual selection and phenotypic plasticity might help predict which species will adapt to a rapidly changing world.Doctor of Philosoph

Cosmology and Astrophysics from Relaxed Galaxy Clusters II: Cosmological Constraints

We present cosmological constraints from measurements of the gas mass fraction, $f_{gas}$, for massive, dynamically relaxed galaxy clusters. Our data set consists of Chandra observations of 40 such clusters, identified in a comprehensive search of the Chandra archive, as well as high-quality weak gravitational lensing data for a subset of these clusters. Incorporating a robust gravitational lensing calibration of the X-ray mass estimates, and restricting our measurements to the most self-similar and accurately measured regions of clusters, significantly reduces systematic uncertainties compared to previous work. Our data for the first time constrain the intrinsic scatter in $f_{gas}$, $(7.4\pm2.3)$% in a spherical shell at radii 0.8-1.2 $r_{2500}$, consistent with the expected variation in gas depletion and non-thermal pressure for relaxed clusters. From the lowest-redshift data in our sample we obtain a constraint on a combination of the Hubble parameter and cosmic baryon fraction, $h^{3/2}\Omega_b/\Omega_m=0.089\pm0.012$, that is insensitive to the nature of dark energy. Combined with standard priors on $h$ and $\Omega_b h^2$, this provides a tight constraint on the cosmic matter density, $\Omega_m=0.27\pm0.04$, which is similarly insensitive to dark energy. Using the entire cluster sample, extending to $z>1$, we obtain consistent results for $\Omega_m$ and interesting constraints on dark energy: $\Omega_\Lambda=0.65^{+0.17}_{-0.22}$ for non-flat $\Lambda$CDM models, and $w=-0.98\pm0.26$ for flat constant-$w$ models. Our results are both competitive and consistent with those from recent CMB, SNIa and BAO data. We present constraints on models of evolving dark energy from the combination of $f_{gas}$ data with these external data sets, and comment on the possibilities for improved $f_{gas}$ constraints using current and next-generation X-ray observatories and lensing data. (Abridged)Comment: 25 pages, 14 figures, 8 tables. Accepted by MNRAS. Code and data can be downloaded from http://www.slac.stanford.edu/~amantz/work/fgas14/ . v2: minor fix to table 1, updated bibliograph

SN 2015U: A Rapidly Evolving and Luminous Type Ibn Supernova

Supernova (SN) 2015U (also known as PSN J07285387+3349106) was discovered in NGC 2388 on 2015 Feb. 11. A rapidly evolving and luminous event, it showed effectively hydrogen-free spectra dominated by relatively narrow helium P-Cygni spectral features and it was classified as a SN Ibn. In this paper we present photometric, spectroscopic, and spectropolarimetric observations of SN 2015U, including a Keck/DEIMOS spectrum (resolution $\approx$ 5000) which fully resolves the optical emission and absorption features. We find that SN 2015U is best understood via models of shock breakout from extended and dense circumstellar material (CSM), likely created by a history of mass loss from the progenitor with an extreme outburst within $\sim$1-2 yr of core collapse (but we do not detect any outburst in our archival imaging of NGC 2388). We argue that the high luminosity of SN 2015U was powered not through $^{56}$Ni decay but via the deposition of kinetic energy into the ejecta/CSM shock interface. Though our analysis is hampered by strong host-galaxy dust obscuration (which likely exhibits multiple components), our dataset makes SN 2015U one of the best-studied Type Ibn supernovae and provides a bridge of understanding to other rapidly fading transients, both luminous and relatively faint.Comment: 20 pages, 15 figures, 4 table

A unique homologue of the eukaryotic protein-modifier ubiquitin present in the bacterium Bacteroides fragilis, a predominant resident of the human gastrointestinal tract

In the complete genome sequences of Bacteroides fragilis NCTC9343 and 638R, we have discovered a gene, ubb, the product of which has 63 % identity to human ubiquitin and cross-reacts with antibodies raised against bovine ubiquitin. The sequence of ubb is closest in identity (76 %) to the ubiquitin gene from a migratory grasshopper entomopoxvirus, suggesting acquisition by inter-kingdom horizontal gene transfer. We have screened clinical isolates of B. fragilis from diverse geographical regions and found that ubb is present in some, but not all, strains. The gene is transcribed and the mRNA is translated in B. fragilis, but deletion of ubb did not have a detrimental effect on growth. BfUbb has a predicted signal sequence; both full-length and processed forms were detected in whole-cell extracts, while the processed form was found in concentrated culture supernatants. Purified recombinant BfUbb inhibited in vitro ubiquitination and was able to covalently bind the human E1 activating enzyme, suggesting it could act as a suicide substrate in vivo. B. fragilis is one of the predominant members of the normal human gastrointestinal microbiota with estimates of up to >1011 cells per g faeces by culture. These data indicate that the gastro-intestinal tract of some individuals could contain a significant amount of aberrant ubiquitin with the potential to inappropriately activate the host immune system and/or interfere with eukaryotic ubiquitin activity. This discovery could have profound implications in relation to our understanding of human diseases such as inflammatory bowel and autoimmune diseases

The Sloan Digital Sky Survey Reverberation Mapping Project: Velocity Shifts of Quasar Emission Lines

Quasar emission lines are often shifted from the systemic velocity due to various dynamical and radiative processes in the line-emitting region. The level of these velocity shifts depends both on the line species and on quasar properties. We study velocity shifts for the line peaks of various narrow and broad quasar emission lines relative to systemic using a sample of 849 quasars from the Sloan Digital Sky Survey Reverberation Mapping (SDSS-RM) project. The coadded (from 32 epochs) spectra of individual quasars have sufficient signal-to-noise ratio (SNR) to measure stellar absorption lines to provide reliable systemic velocity estimates, as well as weak narrow emission lines. The sample also covers a large dynamic range in quasar luminosity (~2 dex), allowing us to explore potential luminosity dependence of the velocity shifts. We derive average line peak velocity shifts as a function of quasar luminosity for different lines, and quantify their intrinsic scatter. We further quantify how well the peak velocity can be measured for various lines as a function of continuum SNR, and demonstrate there is no systematic bias in the line peak measurements when the spectral quality is degraded to as low as SNR~3 per SDSS pixel. Based on the observed line shifts, we provide empirical guidelines on redshift estimation from [OII]3728, [OIII]5008, [NeV]3426, MgII, CIII], HeII1640, broad Hbeta, CIV, and SiIV, which are calibrated to provide unbiased systemic redshifts in the mean, but with increasing intrinsic uncertainties of 46, 56, 119, 205, 233, 242, 400, 415, and 477 km/s, in addition to the measurement uncertainties. These more realistic redshift uncertainties are generally much larger than the formal uncertainties reported by the redshift pipelines for spectroscopic quasar surveys, and demonstrate the infeasibility of measuring quasar redshifts to better than ~200 km/s with only broad lines.Comment: matched to the published version; minor changes and conclusions unchange

Robust Weak-lensing Mass Calibration of Planck Galaxy Clusters

In light of the tension in cosmological constraints reported by the Planck team between their SZ-selected cluster counts and Cosmic Microwave Background (CMB) temperature anisotropies, we compare the Planck cluster mass estimates with robust, weak-lensing mass measurements from the Weighing the Giants (WtG) project. For the 22 clusters in common between the Planck cosmology sample and WtG, we find an overall mass ratio of \left = 0.688 \pm 0.072. Extending the sample to clusters not used in the Planck cosmology analysis yields a consistent value of $\left< M_{Planck}/M_{\rm WtG} \right> = 0.698 \pm 0.062$ from 38 clusters in common. Identifying the weak-lensing masses as proxies for the true cluster mass (on average), these ratios are $\sim 1.6\sigma$ lower than the default mass bias of 0.8 assumed in the Planck cluster analysis. Adopting the WtG weak-lensing-based mass calibration would substantially reduce the tension found between the Planck cluster count cosmology results and those from CMB temperature anisotropies, thereby dispensing of the need for "new physics" such as uncomfortably large neutrino masses (in the context of the measured Planck temperature anisotropies and other data). We also find modest evidence (at 95 per cent confidence) for a mass dependence of the calibration ratio and discuss its potential origin in light of systematic uncertainties in the temperature calibration of the X-ray measurements used to calibrate the Planck cluster masses. Our results exemplify the critical role that robust absolute mass calibration plays in cluster cosmology, and the invaluable role of accurate weak-lensing mass measurements in this regard.Comment: 5 pages, 2 figure

Extinction and backscatter measurements of Antarctic PSC's, 1987: Implications for particle and vapor removal

The temperature dependence is examined of optical properties measured in the Antarctic during 1987 at the 70 mb level (near 18 km), a level chosen to correlate the results with in situ measurements made from the NASA-Ames ER-2 aircraft during the 1987 Airborne Antarctic Ozone Experiment (AAOE). The data set consists of extinction measurements by Sam 2 inside the Antarctic polar vortex from May to October 1987; and backscatter measurements by the UV-DIAL (Ultraviolet Differential Absorption Lidar) system aboard the Ames DC-8 aircraft during selected AAOE flights. Observed trends are compared with results from a revised version of Pole and McCormick's model to classify the PSC observations by Type (1 or 2) and infer the temporal behavior of the ambient aerosol and ambient vapor mixing ratios. The sample figures show monthly ensembles of the 70-mb Sam 2 extinction ratio (the ratio of aerosol or PSC extinction to molecule extinction) as a function of NMC temperature at the beginning (June) and (October) of the 1987 Antarctic winter. Both ensembles show two rather distinct clusters of points: one oriented in the near vertical direction which depicts the change with temperature of the ambient aerosol extinction ratio; and a second cluster oriented in the near horizontal direction whose position on the vertical scale marks a change in particle phase (i.e., PSC formation) and whose length (the extinction enhancement related to that of the ambient aerosol) is an indicator of PSC type