Orchardgrass (Dactylis glomerata L.) EST and SSR marker development, annotation, and transferability.

Orchardgrass, or cocksfoot [Dactylis glomerata (L.)], has been naturalized on nearly every continent and is a commonly used species for forage and hay production. All major cultivated varieties of orchardgrass are autotetraploid, and few tools or information are available for functional and comparative genetic analyses and improvement of the species. To improve the genetic resources for orchardgrass, we have developed an EST library and SSR markers from salt, drought, and cold stressed tissues. The ESTs were bi-directionally sequenced from clones and combined into 17,373 unigenes. Unigenes were annotated based on putative orthology to genes from rice, Triticeae grasses, other Poaceae, Arabidopsis, and the non-redundant database of the NCBI. Of 1,162 SSR markers developed, approximately 80% showed amplification products across a set of orchardgrass germplasm, and 40% across related Festuca and Lolium species. When orchardgrass subspecies were genotyped using 33 SSR markers their within-accession similarity values ranged from 0.44 to 0.71, with Mediterranean accessions having a higher similarity. The total number of genotyped bands was greater for tetraploid accessions compared to diploid accessions. Clustering analysis indicated grouping of Mediterranean subspecies and central Asian subspecies, while the D. glomerata ssp. aschersoniana was closest related to three cultivated varieties

Medium dependence of the bag constant in the quark-meson coupling model

Possible variations of the quark-meson coupling (QMC) model are examined in which the bag constant decreases in the nuclear medium. The reduction is supposed to depend on either the mean scalar field or the effective mass of the nucleon. It is shown that the electric and magnetic radii of the bound nucleon are almost linearly correlated with the bag constant. Using the fact that the size of the bound nucleon inside a nucleus is strongly constrained by $y$-scaling data in quasielastic, electron-nucleus scattering, we set a limit for the reduction allowed in the bag constant for these two models. The present study implies that the bag constant can decrease up to 10--17 % at average nuclear density, depending on the details of the model.Comment: 31 pages including 4 ps figures, to appear in Nucl.Phys.

Topology, Entropy and Witten Index of Dilaton Black Holes

We have found that for extreme dilaton black holes an inner boundary must be introduced in addition to the outer boundary to give an integer value to the Euler number. The resulting manifolds have (if one identifies imaginary time) topology $S^1 \times R \times S^2$ and Euler number $\chi = 0$ in contrast to the non-extreme case with $\chi=2$. The entropy of extreme $U(1)$ dilaton black holes is already known to be zero. We include a review of some recent ideas due to Hawking on the Reissner-Nordstr\"om case. By regarding all extreme black holes as having an inner boundary, we conclude that the entropy of {\sl all} extreme black holes, including $[U(1)]^2$ black holes, vanishes. We discuss the relevance of this to the vanishing of quantum corrections and the idea that the functional integral for extreme holes gives a Witten Index. We have studied also the topology of ``moduli space'' of multi black holes. The quantum mechanics on black hole moduli spaces is expected to be supersymmetric despite the fact that they are not HyperK\"ahler since the corresponding geometry has torsion unlike the BPS monopole case. Finally, we describe the possibility of extreme black hole fission for states with an energy gap. The energy released, as a proportion of the initial rest mass, during the decay of an electro-magnetic black hole is 300 times greater than that released by the fission of an ${}^{235} U$ nucleus.Comment: 51 pages, 4 figures, LaTeX. Considerably extended version. New sections include discussion of the Witten index, topology of the moduli space, black hole sigma model, and black hole fission with huge energy releas

Svestka's Research: Then and Now

Zdenek Svestka's research work influenced many fields of solar physics, especially in the area of flare research. In this article I take five of the areas that particularly interested him and assess them in a "then and now" style. His insights in each case were quite sound, although of course in the modern era we have learned things that he could not readily have envisioned. His own views about his research life have been published recently in this journal, to which he contributed so much, and his memoir contains much additional scientific and personal information (Svestka, 2010).Comment: Invited review for "Solar and Stellar Flares," a conference in honour of Prof. Zden\v{e}k \v{S}vestka, Prague, June 23-27, 2014. This is a contribution to a Topical Issue in Solar Physics, based on the presentations at this meeting (Editors Lyndsay Fletcher and Petr Heinzel

International consensus recommendations on key outcome measures for organ preservation after (chemo)radiotherapy in patients with rectal cancer

Multimodal treatment strategies for patients with rectal cancer are increasingly including the possibility of organ preservation, through nonoperative management or local excision. Organ preservation strategies can enable patients with a complete response or near-complete clinical responses after radiotherapy with or without concomitant chemotherapy to safely avoid the morbidities associated with radical surgery, and thus to maintain anorectal function and quality of life. However, standardization of the key outcome measures of organ preservation strategies is currently lacking; this includes a lack of consensus of the optimal definitions and selection of primary end points according to the trial phase and design; the optimal time points for response assessment; response-based decision-making; follow-up schedules; use of specific anorectal function tests; and quality of life and patient-reported outcomes. Thus, a consensus statement on outcome measures is necessary to ensure consistency and facilitate more accurate comparisons of data from ongoing and future trials. Here, we have convened an international group of experts with extensive experience in the management of patients with rectal cancer, including organ preservation approaches, and used a Delphi process to establish the first international consensus recommendations for key outcome measures of organ preservation, in an attempt to standardize the reporting of data from both trials and routine practice in this emerging area.Patients with early-stage rectal cancer might potentially benefit from treatment with an organ-sparing approach, which preserves quality of life owing to avoidance of the need for permanent colostomy. Trials conducted to investigate this have so far been hampered by considerable inter-trial heterogeneity in several key features. In this Consensus Statement, the authors provide guidance on the optimal end points, response assessment time points, follow-up procedures and quality of life measures in an attempt to improve the comparability of clinical research in this area

Time-integrated luminosity recorded by the BABAR detector at the PEP-II e+e- collider

This article is the Preprint version of the final published artcile which can be accessed at the link below.We describe a measurement of the time-integrated luminosity of the data collected by the BABAR experiment at the PEP-II asymmetric-energy e+e- collider at the ϒ(4S), ϒ(3S), and ϒ(2S) resonances and in a continuum region below each resonance. We measure the time-integrated luminosity by counting e+e-→e+e- and (for the ϒ(4S) only) e+e-→μ+μ- candidate events, allowing additional photons in the final state. We use data-corrected simulation to determine the cross-sections and reconstruction efficiencies for these processes, as well as the major backgrounds. Due to the large cross-sections of e+e-→e+e- and e+e-→μ+μ-, the statistical uncertainties of the measurement are substantially smaller than the systematic uncertainties. The dominant systematic uncertainties are due to observed differences between data and simulation, as well as uncertainties on the cross-sections. For data collected on the ϒ(3S) and ϒ(2S) resonances, an additional uncertainty arises due to ϒ→e+e-X background. For data collected off the ϒ resonances, we estimate an additional uncertainty due to time dependent efficiency variations, which can affect the short off-resonance runs. The relative uncertainties on the luminosities of the on-resonance (off-resonance) samples are 0.43% (0.43%) for the ϒ(4S), 0.58% (0.72%) for the ϒ(3S), and 0.68% (0.88%) for the ϒ(2S).This work is supported by the US Department of Energy and National Science Foundation, the Natural Sciences and Engineering Research Council (Canada), the Commissariat à l’Energie Atomique and Institut National de Physique Nucléaire et de Physiquedes Particules (France), the Bundesministerium für Bildung und Forschung and Deutsche Forschungsgemeinschaft (Germany), the Istituto Nazionale di Fisica Nucleare (Italy), the Foundation for Fundamental Research on Matter (The Netherlands), the Research Council of Norway, the Ministry of Education and Science of the Russian Federation, Ministerio de Ciencia e Innovación (Spain), and the Science and Technology Facilities Council (United Kingdom). Individuals have received support from the Marie-Curie IEF program (European Union) and the A.P. Sloan Foundation (USA)

Supersymmetry Breaking and the Supersymmetric Flavour Problem: An Analysis of Decoupling the First Two Generation Scalars

The supersymmetric contributions to the Flavor Changing Neutral Current processes may be suppressed by decoupling the scalars of the first and second generations. It is known, however, that the heavy scalars drive the stop mass squareds negative through the two-loop Renormalization Group evolution. This tension is studied in detail. Two new items are included in this analysis: the effect of the top quark Yukawa coupling and the QCD corrections to the supersymmetric contributions to $\Delta m_K$. Even with Cabibbo-like degeneracy between the squarks of the first two generations, these squarks must be heavier than $\sim 40$ TeV to suppress $\Delta m_K$. This implies, in the case of a high scale of supersymmetry breaking, that the boundary value of the stop mass has to be greater than $\sim 7$ TeV to keep the stop mass squared positive at the weak scale. Low-energy supersymmetry breaking at a scale that is of the same order as the mass of the heavy scalars is also considered. In this case the finite parts of the two-loop diagrams are computed to estimate the contribution of the heavy scalar masses to the stop mass squared. It is found that for Cabibbo-like mixing between the squarks, the stop mass at the boundary needs to be larger than $\sim 2$ TeV. Thus, for both cases, the large boundary value of the stop masses leads to an unnatural amount of fine tuning to obtain the correct $Z$ mass.Comment: Latex, 40 pages, 14 figures. Replacing an earlier version of the manuscript. Extra section added discussing limits on $\delta$ from finetuning, positivity and $\Delta m_K$. Earlier version did not include the one-loop hypercharge $D-$term; this has been corrected, and our conclusions remain unchange

Seasonal acclimatization to temperature in cardueline finches

1. Seasonal variation in body constituents and utilization of lipid, protein, and carbohydrate during cold stress in American goldfinches were studied to determine relations of these functions to the pronounced seasonal shift in thermogenic capacity documented in a previous study (Dawson and Carey, 1976).Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/47119/1/360_2004_Article_BF00686746.pd