MOST detects variability on tau Bootis possibly induced by its planetary companion

(abridged) There is considerable interest in the possible interaction between parent stars and giant planetary companions in 51 Peg-type systems. We demonstrate from MOST satellite photometry and Ca II K line emission that there has been a persistent, variable region on the surface of tau Boo A which tracked its giant planetary companion for some 440 planetary revolutions and lies ~68deg (phi=0.8) in advance of the sub-planetary point. The light curves are folded on a range of periods centered on the planetary orbital period and phase dependent variability is quantified by Fourier methods and by the mean absolute deviation (MAD) of the folded data for both the photometry and the Ca II K line reversals. The region varies in brightness on the time scale of a rotation by ~1 mmag. In 2004 it resembled a dark spot of variable depth, while in 2005 it varied between bright and dark. Over the 123 planetary orbits spanned by the photometry the variable region detected in 2004 and in 2005 are synchronised to the planetary orbital period within 0.0015 d. The Ca II K line in 2001, 2002 and 2003 also shows enhanced K-line variability centered on phi=0.8, extending coverage to some 440 planetary revolutions. The apparently constant rotation period of the variable region and its rapid variation make an explanation in terms of conventional star spots unlikely. The lack of complementary variability at phi=0.3 and the detection of the variable region so far in advance of the sub-planetary point excludes tidal excitation, but the combined photometric and Ca II K line reversal results make a good case for an active region induced magnetically on the surface of tau Boo A by its planetary companion.Comment: 7 pages, 7 figures; accepted for publication in A&

The First High-Precision Radial Velocity Search for Extra-Solar Planets

In the late 1970s and early 1980s, the introduction of solid-state, signal-generating detectors and absorption cells to impose wavelength fiducials directly on the starlight, the errors in stellar radial velocity (RV) measurements were reduced to the point where Doppler searches for planets became feasible. In 1980 we began to use a hydrogen fluoride gas cell with the CFHT coud\'{e} spectrograph and, for 12 years, monitored RVs of some 29 solar-type stars. Since extra-solar planets were expected to resemble Jupiter in both mass and orbit, we were awarded only three or four two-night observing runs each year. In 1988 we highlighted a potential planetary companion to $\gamma$ Cep (K1 IV), in 1993 one to $\beta$ Gem (K0 III), and another to $\epsilon$ Eri (K2 V) in 1992. The putative planets all resembled Jovian systems with periods and masses of 2.5 yr and 1.4 $M_{J}$, 1.6 yr and 2.6 $M_{J}$, and 6.9 yr and 0.9 $M_{J}$, respectively. All three were subsequently confirmed from more extensive data by the Texas group led by Cochran and Hatzes who derived the currently accepted orbital elements. None of the systems is simple and some still question $\epsilon$ Eri b.Comment: 23 pages, 7 figure

The distribution of exoplanet masses

The present study derives the distribution of secondary masses M2 for the 67 exoplanets and very low-mass brown dwarf companions of solar-type stars, known as of April 4, 2001. This distribution is related to the distribution of M2 sin i through an integral equation of Abel's type. Although a formal solution exists for this equation, it is known to be ill-behaved, and thus very sensitive to the statistical noise present in the input M2 sin i distribution. To overcome that difficulty, we present two robust, independent approaches: (i) the formal solution of the integral equation is numerically computed after performing an optimal smoothing of the input distribution, (ii) the Lucy-Richardson algorithm is used to invert the integral equation. Both approaches give consistent results. The resulting statistical distribution of exoplanet true masses reveals that there is no reason to ascribe the transition between giant planets and brown dwarfs to the threshold mass for deuterium ignition (about 13 MJ). The M2 distribution shows instead that all the objects have M2 < 10 MJ, except the heavier candidates which cluster around 15 MJ.Comment: Accepted by Astronomy & Astrophysics (7 pages, 4 figures

Protocol for a systematic review and thematic synthesis of patient experiences of central venous access devices in anti-cancer treatment

Background: Three types of central venous access devices (CVADs)—peripherally inserted central catheters (PICCs), skin-tunnelled central catheters (Hickman-type devices), and implantable chest wall Ports (Ports)—are routinely used in the intravenous administration of anti-cancer treatment. These devices avoid the need for peripheral cannulation and allow for home delivery of treatment. Assessments of these devices have tended to focus on medical and economic factors, but there is increased interest in the importance of patient experiences and perspectives in this area. The aim of this systematic review is to synthesise existing research regarding patient experiences of these CVADs to help clinicians guide, prepare, and support patients receiving CVADs for the administration of anti-cancer treatment. Method: A systematic search of MEDLINE, Embase, and CINAHL research databases will be carried out along with a supplementary reference list search. This review will include quantitative, qualitative, and mixed methods studies published in peer-review journals, reporting some aspect(s) of patient experiences or perspectives regarding the use of PICC, Hickman, or Port CVADs for the administration of anti-cancer drugs. The methodological quality and risk of bias of included papers will be assessed using the Mixed Methods Appraisal Tool (MMAT). Relevant outcome data will be extracted from included studies and analysed using a thematic synthesis approach. Discussion: The results section of the review will comprise thematic synthesis of quantitative studies, thematic synthesis of qualitative studies, and the aggregation of the two. Results will aim to offer an account of current understandings of patient experiences and perspective regarding PICC, Hickman-type, and Port devices in the context of anti-cancer treatment. Confidence in cumulative evidence will be assessed using the Confidence in the Evidence from Reviews of Qualitative research (CERQual) approach

Nanoliter Reactors Improve Multiple Displacement Amplification of Genomes from Single Cells

Since only a small fraction of environmental bacteria are amenable to laboratory culture, there is great interest in genomic sequencing directly from single cells. Sufficient DNA for sequencing can be obtained from one cell by the Multiple Displacement Amplification (MDA) method, thereby eliminating the need to develop culture methods. Here we used a microfluidic device to isolate individual Escherichia coli and amplify genomic DNA by MDA in 60-nl reactions. Our results confirm a report that reduced MDA reaction volume lowers nonspecific synthesis that can result from contaminant DNA templates and unfavourable interaction between primers. The quality of the genome amplification was assessed by qPCR and compared favourably to single-cell amplifications performed in standard 50-μl volumes. Amplification bias was greatly reduced in nanoliter volumes, thereby providing a more even representation of all sequences. Single-cell amplicons from both microliter and nanoliter volumes provided high-quality sequence data by high-throughput pyrosequencing, thereby demonstrating a straightforward route to sequencing genomes from single cells

Gene-specific ACMG/AMP classification criteria for germline APC variants: recommendations from the ClinGen InSIGHT Hereditary Colorectal Cancer/Polyposis Variant Curation Expert Panel

Purpose The Hereditary Colorectal Cancer/Polyposis Variant Curation Expert Panel (VCEP) was established by the International Society for Gastrointestinal Hereditary Tumours and the Clinical Genome Resource, who set out to develop recommendations for the interpretation of germline APC variants underlying Familial Adenomatous Polyposis, the most frequent hereditary polyposis syndrome. Methods Through a rigorous process of database analysis, literature review, and expert elicitation, the APC VCEP derived gene-specific modifications to the ACMG/AMP (American College of Medical Genetics and Genomics and Association for Molecular Pathology) variant classification guidelines and validated such criteria through the pilot classification of 58 variants. Results The APC-specific criteria represented gene- and disease-informed specifications, including a quantitative approach to allele frequency thresholds, a stepwise decision tool for truncating variants, and semiquantitative evaluations of experimental and clinical data. Using the APC-specific criteria, 47% (27/58) of pilot variants were reclassified including 14 previous variants of uncertain significance (VUS). Conclusion The APC-specific ACMG/AMP criteria preserved the classification of well-characterized variants on ClinVar while substantially reducing the number of VUS by 56% (14/25). Moving forward, the APC VCEP will continue to interpret prioritized lists of VUS, the results of which will represent the most authoritative variant classification for widespread clinical use

Warm spring reduced carbon cycle impact of the 2012 US summer drought

The global terrestrial carbon sink offsets one-third of the world’s fossil fuel emissions, but the strength of this sink is highly sensitive to large-scale extreme events. In 2012, the contiguous United States experienced exceptionally warm temperatures and the most severe drought since the Dust Bowl era of the 1930s, resulting in substantial economic damage. It is crucial to understand the dynamics of such events because warmer temperatures and a higher prevalence of drought are projected in a changing climate. Here, we combine an extensive network of direct ecosystem flux measurements with satellite remote sensing and atmospheric inverse modeling to quantify the impact of the warmer spring and summer drought on biosphere-atmosphere carbon and water exchange in 2012. We consistently find that earlier vegetation activity increased spring carbon uptake and compensated for the reduced uptake during the summer drought, which mitigated the impact on net annual carbon uptake. The early phenological development in the Eastern Temperate Forests played a major role for the continental-scale carbon balance in 2012. The warm spring also depleted soil water resources earlier, and thus exacerbated water limitations during summer. Our results show that the detrimental effects of severe summer drought on ecosystem carbon storage can be mitigated by warming-induced increases in spring carbon uptake. However, the results also suggest that the positive carbon cycle effect of warm spring enhances water limitations and can increase summer heating through biosphere–atmosphere feedbacks.Data deposition: The eddy-covariance data are available in the AmeriFlux data archive at the Carbon Dioxide Information Analysis Center at the Oak Ridge National Laboratory (cdiac.ornl.gov/ftp/ameriflux/data). This is the publisher’s final pdf. The article is published by National Academy of Sciences and can be found at: http://www.pnas.org/Keywords: ecosystem fluxes, eddy covariance, carbon uptake, biosphere, seasonal climate anomalies, atmosphere feedback

A Continuous Measure of Gross Primary Production for the Conterminous U.S. Derived from MODIS and AmeriFlux Data

The quantification of carbon fluxes between the terrestrial biosphere and the atmosphere is of scientific importance and also relevant to climate-policy making. Eddy covariance flux towers provide continuous measurements of ecosystem-level exchange of carbon dioxide spanning diurnal, synoptic, seasonal, and interannual time scales. However, these measurements only represent the fluxes at the scale of the tower footprint. Here we used remotely-sensed data from the Moderate Resolution Imaging Spectroradiometer (MODIS) to upscale gross primary productivity (GPP) data from eddy covariance flux towers to the continental scale. We first combined GPP and MODIS data for 42 AmeriFlux towers encompassing a wide range of ecosystem and climate types to develop a predictive GPP model using a regression tree approach. The predictive model was trained using observed GPP over the period 2000-2004, and was validated using observed GPP over the period 2005-2006 and leave-one-out cross-validation. Our model predicted GPP fairly well at the site level. We then used the model to estimate GPP for each 1 km x 1 km cell across the U.S. for each 8-day interval over the period from February 2000 to December 2006 using MODIS data. Our GPP estimates provide a spatially and temporally continuous measure of gross primary production for the U.S. that is a highly constrained by eddy covariance flux data. Our study demonstrated that our empirical approach is effective for upscaling eddy flux GPP data to the continental scale and producing continuous GPP estimates across multiple biomes. With these estimates, we then examined the patterns, magnitude, and interannual variability of GPP. We estimated a gross carbon uptake between 6.91 and 7.33 Pg C yr{sup -1} for the conterminous U.S. Drought, fires, and hurricanes reduced annual GPP at regional scales and could have a significant impact on the U.S. net ecosystem carbon exchange. The sources of the interannual variability of U.S. GPP were dominated by these extreme climate events and disturbances

Energy source, protein metabolism, and hunter-gatherer subsistence strategies

During late winter and spring, hunter-gatherers in temperate, subarctic, and arctic environments often relied on diets that provided marginal or inadequate caloric intakes. During such periods, particularly when stored food supplies dwindled or were used up entirely, lean meat became the principal source of energy. Nutritional problems associated with high-protein, low-energy diets are discussed. These problems include elevated metabolic rates, with correspondingly higher caloric requirements, and deficiencies in essential fatty acids. The relative benefits of adding fat or carbohydrate to a diet of lean meat are evaluated in light of the protein-sparing capacities of these two nutrients. Experimental data indicate that although both enhance high-protein, low-energy diets, carbohydrate is a more effective supplement than fat. Given the nutritional inadequacies of a lean-meat diet, the paper concludes with a discussion of alternative subsistence strategies that increase the availability of carbohydrate or fat at the critical time of year.Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/25268/1/0000711.pd