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Author |
Peris, J.B.; Davis, P.; Cuevas, J.M.; Nebot, M.; Sanjuan, R. |
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Title |
Distribution of Fitness Effects Caused by Single-Nucleotide Substitutions in Bacteriophage f1 |
Type |
Journal Article |
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Year |
2010 |
Publication |
Genetics |
Abbreviated Journal |
Genetics |
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Volume |
185 |
Issue |
2 |
Pages |
603-U308 |
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Keywords |
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Abstract |
Empirical knowledge of the fitness effects of mutations is important for understanding many evolutionary processes, yet this knowledge is often hampered by several sources of measurement error and bias. Most of these problems can be solved using site-directed mutagenesis to engineer single mutations, an approach particularly suited for viruses due to their small genomes. Here, we used this technique to measure the fitness effect of 100 single-nucleotide substitutions in the bacteriophage f1, a filamentous single-strand DNA virus. We found that approximately one-fifth of all mutations are lethal. Viable ones reduced fitness by 11% on average and were accurately described by a log-normal distribution. More than 90% of synonymous substitutions were selectively neutral, while those affecting intergenic regions reduced fitness by 14% on average. Mutations leading to amino acid substitutions had an overall mean deleterious effect of 37%, which increased to 45% for those changing the amino acid polarity. Interestingly, mutations affecting early steps of the infection cycle tended to be more deleterious than those affecting late steps. Finally, we observed at least two beneficial mutations. Our results confirm that high mutational sensitivity is a general property of viruses with small genomes, including RNA and single-strand DNA viruses infecting animals, plants, and bacteria. |
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Address |
[Peris, Joan B.; Davis, Paulina; Cuevas, Jose M.; Sanjuan, Rafael] Univ Valencia, Inst Cavanilles Biodiversitat & Biol Evolut, Valencia 46980, Spain, Email: rafael.sanjuan@uv.es |
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Publisher |
Genetics Soc Am |
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English |
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ISSN |
0016-6731 |
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Notes |
ISI:000281905200017 |
Approved |
no |
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Is ISI |
yes |
International Collaboration |
no |
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Call Number |
IFIC @ elepoucu @ |
Serial  |
383 |
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Author |
Aguilar, A.C.; Binosi, D.; Papavassiliou, J. |
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Title |
QCD effective charges from lattice data |
Type |
Journal Article |
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Year |
2010 |
Publication |
Journal of High Energy Physics |
Abbreviated Journal |
J. High Energy Phys. |
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Volume |
07 |
Issue |
7 |
Pages |
002 - 24pp |
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Keywords |
Nonperturbative Effects; QCD |
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Abstract |
We use recent lattice data on the gluon and ghost propagators, as well as the Kugo-Ojima function, in order to extract the non-perturbative behavior of two particular definitions of the QCD effective charge, one based on the pinch technique construction, and one obtained from the standard ghost-gluon vertex. The construction relies crucially on the definition of two dimensionful quantities, which are invariant under the renormalization group, and are built out of very particular combinations of the aforementioned Green's functions. The main non-perturbative feature of both effective charges, encoded in the infrared finiteness of the gluon propagator and ghost dressing function used in their definition, is the freezing at a common finite (non-vanishing) value, in agreement with a plethora of theoretical and phenomenological expectations. We discuss the sizable discrepancy between the freezing values obtained from the present lattice analysis and the corresponding estimates derived from several phenomenological studies, and attribute its origin to the difference in the gauges employed. A particular toy calculation suggests that the modifications induced to the non-perturbative gluon propagator by the gauge choice may indeed account for the observed deviation of the freezing values. |
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Address |
[Aguilar, A. C.] Fed Univ ABC, CCNH, BR-09210170 Santo Andre, Brazil, Email: arlene.aguilar@ufabc.edu.br |
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Publisher |
Springer |
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English |
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ISSN |
1126-6708 |
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Notes |
ISI:000281504500002 |
Approved |
no |
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Is ISI |
yes |
International Collaboration |
yes |
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Call Number |
IFIC @ elepoucu @ |
Serial |
384 |
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Author |
Roszkowski, L.; Ruiz de Austri, R.; Trotta, R. |
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Title |
Efficient reconstruction of constrained MSSM parameters from LHC data: A case study |
Type |
Journal Article |
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Year |
2010 |
Publication |
Physical Review D |
Abbreviated Journal |
Phys. Rev. D |
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Volume |
82 |
Issue |
5 |
Pages |
055003 - 12pp |
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Keywords |
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Abstract |
We present an efficient method of reconstructing the parameters of the constrained MSSM from assumed future LHC data, applied both on their own right and in combination with the cosmological determination of the relic dark matter abundance. Focusing on the ATLAS SU3 benchmark point, we demonstrate that our simple Gaussian approximation can recover the values of its parameters remarkably well. We examine two popular noninformative priors and obtain very similar results, although when we use an informative, naturalness-motivated prior, we find some sizeable differences. We show that a further strong improvement in reconstructing the SU3 parameters can by achieved by applying additional information about the relic abundance at the level of WMAP accuracy, although the expected data from Planck will have only a very limited additional impact. Further external data may be required to break some remaining degeneracies. We argue that the method presented here is applicable to a wide class of low-energy effective supersymmetric models, as it does not require one to deal with purely experimental issues, e.g., detector performance, and has the additional advantages of computational efficiency. Furthermore, our approach allows one to distinguish the effect of the model's internal structure and of the external data on the final parameters constraints. |
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Address |
[Roszkowski, Leszek] Univ Sheffield, Dept Phys & Astron, Sheffield S3 7RH, S Yorkshire, England, Email: L.Roszkowski@sheffield.ac.uk |
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Publisher |
Amer Physical Soc |
Place of Publication |
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Editor |
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Language |
English |
Summary Language |
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Original Title |
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Series Editor |
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Series Title |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
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ISSN |
1550-7998 |
ISBN |
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Notes |
ISI:000281517100002 |
Approved |
no |
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Is ISI |
yes |
International Collaboration |
yes |
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Call Number |
IFIC @ elepoucu @ |
Serial |
385 |
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Author |
Xie, J.J.; Wilkin, C. |
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Title |
Associated strangeness production in the pp -> pK(+) K(-)p and pp -> pK(+)pi(0)Sigma(0) reactions |
Type |
Journal Article |
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Year |
2010 |
Publication |
Physical Review C |
Abbreviated Journal |
Phys. Rev. C |
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Volume |
82 |
Issue |
2 |
Pages |
025210 - 6pp |
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Abstract |
The total and differential cross sections for associated strangeness production in the pp -> pK(+) K(-)p and pp -> pK(+)pi(0)Sigma(0) reactions have been studied in a unified approach using an effective Lagrangian model. It is assumed that both the K(-)p and pi(0)Sigma(0) final states originate from the decay of the Lambda(1405) that was formed in the production chain pp -> p(N*(1535). K+ Lambda(1405)). The available experimental data are well reproduced, especially the ratio of the two total cross sections, which is much less sensitive to the particular model of the entrance channel. The significant coupling of the N*(1535) to Lambda(1405)K is further evidence for large ss components in the quark wave function of the N*(1535). |
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Address |
[Xie, Ju-Jun] Univ Valencia, CSIC, Ctr Mixto, Inst Invest Paterna,Inst Fis Corpuscular IFIC, E-46071 Valencia, Spain, Email: xiejujun@ific.uv.es |
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Publisher |
Amer Physical Soc |
Place of Publication |
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Language |
English |
Summary Language |
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Original Title |
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Series Editor |
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Series Title |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
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ISSN |
0556-2813 |
ISBN |
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Conference |
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Notes |
ISI:000281406300005 |
Approved |
no |
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Is ISI |
yes |
International Collaboration |
yes |
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Call Number |
IFIC @ elepoucu @ |
Serial |
386 |
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Author |
Martinez Torres, A.; Oset, E. |
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Title |
Novel Interpretation of the “Theta(+)(1540) Pentaquark” Peak |
Type |
Journal Article |
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Year |
2010 |
Publication |
Physical Review Letters |
Abbreviated Journal |
Phys. Rev. Lett. |
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Volume |
105 |
Issue |
9 |
Pages |
092001 - 4pp |
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Keywords |
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Abstract |
We use a theoretical model of the gamma d --> K+K- np reaction adapted to the experiment done at LEPS where a peak was observed and associated with the Theta(+)(1540) pentaquark. The study shows that the method used in the experiment to assign momenta to the undetected proton and neutron, together with the chosen cuts, necessarily creates an artificial broad peak in the assumed K(+)n invariant mass in the region of the claimed Theta(+)(1540), such that the remaining strength seen for the experimental peak is compatible with a fluctuation of 2 sigma significance. |
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Address |
[Martinez Torres, A.] Univ Valencia, Ctr Mixto, CSIC, Inst Invest Paterna,Dept Fis Teor, Valencia 46071, Spain |
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Publisher |
Amer Physical Soc |
Place of Publication |
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Editor |
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Language |
English |
Summary Language |
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Original Title |
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Series Editor |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
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ISSN |
0031-9007 |
ISBN |
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Medium |
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Conference |
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Notes |
ISI:000281272700005 |
Approved |
no |
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Is ISI |
yes |
International Collaboration |
no |
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Call Number |
IFIC @ elepoucu @ |
Serial |
387 |
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