The total rest-frame UV luminosity function from 3<z<53 < z < 5: A simultaneous study of AGN and galaxies from −28<MUV<−16-28<M_{\rm UV}<-16

We present measurements of the rest-frame ultraviolet luminosity function (UV LF) at redshifts $z=3$, $z=4$ and $z=5$, using 96894, 38655 and 7571 sources respectively to map the transition between AGN and galaxy-dominated ultraviolet emission shortly after the epoch of reionization. Sources are selected using a comprehensive photometric redshift approach, using $10$\ds\, of deep extragalactic legacy fields covered by both HSC and VISTA. The use of template fitting spanning a wavelength range of $0.3\text{--}2.4\mu m$ achieves $80\text{--}90$ per cent completeness, much higher than classical colour-colour cut methodology. The measured LF encompasses $-26<M_{\rm UV}<-19.25(-20.5)$ at $z=3(5)$. This is further extended to $-28.5<M_{\rm UV}<-16$ using complementary results from other studies, allowing for the simultaneous fitting of the combined AGN and galaxy LF. We find that there are fewer UV luminous galaxies ($M_{\rm UV}<-22$) at $z\sim3$ than $z\sim4$, indicative of an onset of widespread quenching alongside dust obscuration, and that the evolution of the AGN LF is much more rapid than the galaxy LF, with their number density rising by around 2 orders of magnitude from $3<z<6$. We also find that it remains difficult to determine if a double power law (DPL) functional form is preferred over the Schechter function to describe the galaxy UV LF with photometric data alone. Estimating the Hydrogen ionizing photon budget from our UV LFs, we find that AGN can contribute to, but cannot solely maintain, the reionization of the Universe at $z=3-5$. However, the rapidly evolving AGN LF strongly disfavours a significant contribution within the EoR.Comment: 20 pages, 5 Tables, 12 Figures, Submitted to MNRA

The bright end of the galaxy luminosity function at z≃7z \simeq 7 from the VISTA VIDEO survey

We have conducted a search for $z\simeq7$ Lyman break galaxies over 8.2 square degrees of near-infrared imaging from the VISTA Deep Extragalactic Observations (VIDEO) survey in the XMM-Newton - Large Scale Structure (XMM-LSS) and the Extended Chandra Deep Field South (ECDF-S) fields. Candidate galaxies were selected from a full photometric redshift analysis down to a $Y+J$ depth of 25.3 ($5\sigma$), utilizing deep auxiliary optical and Spitzer/IRAC data to remove brown dwarf and red interloper galaxy contaminants. Our final sample consists of 28 candidate galaxies at $6.5\le z \le7.5$ with $-23.5 \le M_{\mathrm{UV}} \le -21.6$. We derive stellar masses of $9.1 \le \mathrm{log}_{10}(M/M_{\odot}) \le 10.9$ for the sample, suggesting that these candidates represent some of the most massive galaxies known at this epoch. We measure the rest-frame UV luminosity function (LF) at $z\simeq7$, confirming previous findings of a gradual decline in number density at the bright-end ($M_{\mathrm{UV}} < -22$) that is well described by a double-power law (DPL). We show that quasar contamination in this magnitude range is expected to be minimal, in contrast to conclusions from recent pure-parallel Hubble studies. Our results are up to a factor of ten lower than previous determinations from optical-only ground-based studies at $M_{\rm UV} \lesssim - 23$. We find that the inclusion of $YJHK_{s}$ photometry is vital for removing brown-dwarf contaminants, and $z \simeq 7$ samples based on red-optical data alone could be highly contaminated ($\gtrsim 50$ per cent). In comparison with other robust $z > 5$ samples, our results further support little evolution in the very bright-end of the rest-frame UV LF from $z = 5-10$, potentially signalling a lack of mass quenching and/or dust obscuration in the most massive galaxies in the first Gyr.Comment: 15 pages, 6 figures, 5 tables (plus additional figures/tables in Appendix). Submitted to MNRA

Ataxin-1 Fusion Partners Alter PolyQ Lethality and Aggregation

Intranuclear inclusion bodies (IBs) are the histopathologic markers of multiple protein folding diseases. IB formation has been extensively studied using fluorescent fusion products of pathogenic polyglutamine (polyQ) expressing proteins. These studies have been informative in determining the cellular targets of expanded polyQ protein as well as the methods by which cells rid themselves of IBs. The experimental thrust has been to intervene in the process of polyQ aggregation in an attempt to alleviate cytotoxicity. However new data argues against the notion that polyQ aggregation and cytotoxicity are inextricably linked processes. We reasoned that changing the protein context of a disease causing polyQ protein could accelerate its precipitation as an IB, potentially reducing its cytotoxicity. Our experimental strategy simply exploited the fact that conjoined proteins influence each others folding and aggregation properties. We fused a full-length pathogenic ataxin-1 construct to fluorescent tags (GFP and DsRed1-E5) that exist at different oligomeric states. The spectral properties of the DsRed1-E5-ataxin-1 transfectants had the additional advantage of allowing us to correlate fluorochrome maturation with cytotoxicity. Each fusion protein expressed a distinct cytotoxicity and IB morphology. Flow cytometric analyses of transfectants expressing the greatest fluorescent signals revealed that the DsRed1-E5-ataxin-1 fusion was more toxic than GFP fused ataxin-1 (31.8±4.5% cell death versus 12.85±3%), although co-transfection with the GFP fusion inhibited maturation of the DsRed1-E5 fluorochrome and diminished the toxicity of the DsRed1-E5-ataxin-1 fusion. These data show that polyQ driven aggregation can be influenced by fusion partners to generate species with different toxic properties and provide new opportunities to study IB aggregation, maturation and lethality

The Arg233Lys AQP0 Mutation Disturbs Aquaporin0-Calmodulin Interaction Causing Polymorphic Congenital Cataract

Calmodulin (CaM) directly interacts with the aquaporin 0 (AQP0) C-terminus in a calcium dependent manner to regulate the water permeability of AQP0. We previously identified a missense mutation (p.R233K) in the putative CaM binding domain of AQP0 C-terminus in a congenital cataract family. This study was aimed at exploring the potential pathogenesis of this mutation causative of cataract and mainly identifying how it influenced the binding of AQP0 to CaM. Wild type and R233K mutant AQP0 with EGFP-tag were transfected separately into Hela cells to determine the expression and subcellular localizations. The co-immunoprecipitation (CoIP) assay was used to detect the interaction between AQP0 and CaM. AQP0 C-terminus peptides were synthesized with and without R233K, and the binding abilities of these peptides to CaM were assessed using a fluorescence binding assay. Localizations of wild type and R233K mutant AQP0 were determined from EGFP fluorescence, and the chimeric proteins were both localized abundantly in the plasma membrane. Protein expression levels of the culture cells showed no significant difference between them. The results from CoIP assay implied that R233K mutant presented more weakly in association with CaM than wild type AQP0. The AQP0 C-terminal mutant peptide was found to have 2.5-fold lower binding affinity to CaM than wild type peptide. These results suggested that R233K mutation did not affect the expression, location and trafficking of the protein but did influence the interaction between AQP0 and CaM. The binding affinity of AQP0 C-terminus to CaM was significantly reduced. Due to lack of the modulation of the Ca2+-calmodulin complex, the water permeability of AQP0 was subsequently augmented, which might lead to the development of this cataract

Erratum to: Is Sensory Loss an Understudied Risk Factor for Frailty? A Systematic Review and Meta-analysis

In the article “Is Sensory Loss an Understudied Risk Factor for Frailty? A Systematic Review and Meta-analysis,” an author was missing. Ana Maseda should be listed as the 11th author. The correct author list is: Benjamin Kye Jyn Tan, Ryan Eyn Kidd Man, Alfred Tau Liang Gan, Eva K Fenwick, Varshini Varadaraj, Bonnielin K Swenor, Preeti Gupta, Tien Yin Wong, Caterina Trevisan, Laura Lorenzo-López, Ana Maseda, José Carlos Millán-Calenti, Carla Helena Augustin Schwanke, Ann Liljas, Soham Al Snih, Yasuharu Tokuda, Ecosse Luc Lamoureux. This error has been corrected

MIGHTEE: multi-wavelength counterparts in the COSMOS field

In this paper we combine the Early Science radio continuum data from the MeerKAT International GHz Tiered Extragalactic Exploration (MIGHTEE) Survey, with optical and near-infrared data and release the cross-matched catalogues. The radio data used in this work covers $0.86$ deg$^2$ of the COSMOS field, reaches a thermal noise of $1.7$ $\mu$Jy/beam and contains $6102$ radio components. We visually inspect and cross-match the radio sample with optical and near-infrared data from the Hyper Suprime-Cam (HSC) and UltraVISTA surveys. This allows the properties of active galactic nuclei and star-forming populations of galaxies to be probed out to $z \approx 5$. Additionally, we use the likelihood ratio method to automatically cross-match the radio and optical catalogues and compare this to the visually cross-matched catalogue. We find that 94 per cent of our radio source catalogue can be matched with this method, with a reliability of $95$ per cent. We proceed to show that visual classification will still remain an essential process for the cross-matching of complex and extended radio sources. In the near future, the MIGHTEE survey will be expanded in area to cover a total of $\sim$20~deg$^2$; thus the combination of automated and visual identification will be critical. We compare redshift distribution of SFG and AGN to the SKADS and T-RECS simulations and find more AGN than predicted at $z \sim 1$.Comment: 15 pages, 15 figures. Accepted for publication in MNRA

DMSO and Betaine Greatly Improve Amplification of GC-Rich Constructs in De Novo Synthesis

In Synthetic Biology, de novo synthesis of GC-rich constructs poses a major challenge because of secondary structure formation and mispriming. While there are many web-based tools for codon optimizing difficult regions, no method currently exists that allows for potentially phenotypically important sequence conservation. Therefore, to overcome these limitations in researching GC-rich genes and their non-coding elements, we explored the use of DMSO and betaine in two conventional methods of assembly and amplification. For this study, we compared the polymerase (PCA) and ligase-based (LCR) methods for construction of two GC-rich gene fragments implicated in tumorigenesis, IGF2R and BRAF. Though we found no benefit in employing either DMSO or betaine during the assembly steps, both additives greatly improved target product specificity and yield during PCR amplification. Of the methods tested, LCR assembly proved far superior to PCA, generating a much more stable template to amplify from. We further report that DMSO and betaine are highly compatible with all other reaction components of gene synthesis and do not require any additional protocol modifications. Furthermore, we believe either additive will allow for the production of a wide variety of GC-rich gene constructs without the need for expensive and time-consuming sample extraction and purification prior to downstream application

pcrEfficiency: a Web tool for PCR amplification efficiency prediction

<p>Abstract</p> <p>Background</p> <p>Relative calculation of differential gene expression in quantitative PCR reactions requires comparison between amplification experiments that include reference genes and genes under study. Ignoring the differences between their efficiencies may lead to miscalculation of gene expression even with the same starting amount of template. Although there are several tools performing PCR primer design, there is no tool available that predicts PCR efficiency for a given amplicon and primer pair.</p> <p>Results</p> <p>We have used a statistical approach based on 90 primer pair combinations amplifying templates from bacteria, yeast, plants and humans, ranging in size between 74 and 907 bp to identify the parameters that affect PCR efficiency. We developed a generalized additive model fitting the data and constructed an open source Web interface that allows the obtention of oligonucleotides optimized for PCR with predicted amplification efficiencies starting from a given sequence.</p> <p>Conclusions</p> <p>pcrEfficiency provides an easy-to-use web interface allowing the prediction of PCR efficiencies prior to web lab experiments thus easing quantitative real-time PCR set-up. A web-based service as well the source code are provided freely at <url>http://srvgen.upct.es/efficiency.html</url> under the GPL v2 license.</p