Selection and validation of potato candidate genes for maturity corrected resistance to Phytophthora infestans based on differential expression combined with SNP association and linkage mapping.

Late blight of potato (Solanum tuberosum L.) caused by the oomycete Phytophthora infestans (Mont.) de Bary, is one of the most important bottlenecks of potato production worldwide. Cultivars with high levels of durable, race unspecific, quantitative resistance are part of a solution to this problem. However, breeding for quantitative resistance is hampered by the correlation between resistance and late plant maturity, which is an undesirable agricultural attribute. The objectives of our research are (i) the identification of genes that condition quantitative resistance to P. infestans not compromised by late plant maturity and (ii) the discovery of diagnostic single nucleotide polymorphism (SNP) markers to be used as molecular tools to increase efficiency and precision of resistance breeding. Twenty two novel candidate genes were selected based on comparative transcript profiling by SuperSAGE (serial analysis of gene expression) in groups of plants with contrasting levels of maturity corrected resistance (MCR). Reproducibility of differential expression was tested by quantitative real time PCR and allele specific pyrosequencing in four new sets of genotype pools with contrasting late blight resistance levels, at three infection time points and in three independent infection experiments. Reproducibility of expression patterns ranged from 28 to 97%. Association mapping in a panel of 184 tetraploid cultivars identified SNPs in five candidate genes that were associated with MCR. These SNPs can be used in marker-assisted resistance breeding. Linkage mapping in two half-sib families (n = 111) identified SNPs in three candidate genes that were linked with MCR. The differentially expressed genes that showed association and/or linkage with MCR putatively function in phytosterol synthesis, fatty acid synthesis, asparagine synthesis, chlorophyll synthesis, cell wall modification, and in the response to pathogen elicitors

Cluster mean-field study of the parity conserving phase transition

The phase transition of the even offspringed branching and annihilating random walk is studied by N-cluster mean-field approximations on one-dimensional lattices. By allowing to reach zero branching rate a phase transition can be seen for any N <= 12.The coherent anomaly extrapolations applied for the series of approximations results in $\nu_{\perp}=1.85(3)$ and $\beta=0.96(2)$.Comment: 6 pages, 5 figures, 1 table included, Minor changes, scheduled for pubication in PR

ETD on small intact proteins in an ultra high resolution quadrupole TOF mass spectrometer

Comunicaciones a congreso

A supercritical series analysis for the generalized contact process with diffusion

We study a model that generalizes the CP with diffusion. An additional transition is included in the model so that at a particular point of its phase diagram a crossover from the directed percolation to the compact directed percolation class will happen. We are particularly interested in the effect of diffusion on the properties of the crossover between the universality classes. To address this point, we develop a supercritical series expansion for the ultimate survival probability and analyse this series using d-log Pad\'e and partial differential approximants. We also obtain approximate solutions in the one- and two-site dynamical mean-field approximations. We find evidences that, at variance to what happens in mean-field approximations, the crossover exponent remains close to $\phi=2$ even for quite high diffusion rates, and therefore the critical line in the neighborhood of the multicritical point apparently does not reproduce the mean-field result (which leads to $\phi=0$) as the diffusion rate grows without bound

Distinct Scaling Regimes of Energy Release Dynamics in the Nighttime Magnetosphere

Based on a spatiotemporal analysis of POLAR UVI images, we show that the auroral emission events that initiate equatorward of the isotropic boundary (IB) obtained from a time-dependent empirical model, have systematically steeper power-law slopes of energy, power, area and lifetime probability distributions compared to the events that initiate poleward of the IB. The low-latitude group of events contains a distinct subpopulation of substorm-scale disturbances violating the power-law behavior, while the high latitude group is described by nearly perfect power-law statistics over the entire range of scales studied. The results obtained indicate that the inner and outer portions of the plasma sheet are characterized by substantially different scaling regimes of bursty energy dissipation suggestive of different physics in these regions.Comment: 11 pages, 2 figures, 2 table

Critical and Near-Critical Branching Processes

Scale-free dynamics in physical and biological systems can arise from a variety of causes. Here, we explore a branching process which leads to such dynamics. We find conditions for the appearance of power laws and study quantitatively what happens to these power laws when such conditions are violated. From a branching process model, we predict the behavior of two systems which seem to exhibit near scale-free behavior--rank-frequency distributions of number of subtaxa in biology, and abundance distributions of genotypes in an artificial life system. In the light of these, we discuss distributions of avalanche sizes in the Bak-Tang-Wiesenfeld sandpile model.Comment: 9 pages LaTex with 10 PS figures. v.1 of this paper contains results from non-critical sandpile simulations that were excised from the published versio

Development and Validation of a Hierarchical Memory Model Incorporating CPU- and Memory-Operation Overlap

Distributed shared memory architectures (DSM`s) such as the Origin 2000 are being implemented which extend the concept of single-processor cache hierarchies across an entire physically-distributed multiprocessor machine. The scalability of a DSM machine is inherently tied to memory hierarchy performance, including such issues as latency hiding techniques in the architecture, global cache-coherence protocols, memory consistency models and, of course, the inherent locality of reference in algorithms of interest. In this paper, we characterize application performance with a {open_quotes}memory-centric{close_quotes} view. Using a simple mean value analysis (MVA) strategy and empirical performance data, we infer the contribution of each level in the memory system to the application`s overall cycles per instruction (cpi). We account for the overlap of processor execution with memory accesses - a key parameter which is not directly measurable on the Origin systems. We infer the separate contributions of three major architecture features in the memory subsystem of the Origin 2000: cache size, outstanding loads-under-miss, and memory latency

Universal 1/f Noise from Dissipative SOC Models

We introduce a model able to reproduce the main features of 1/f noise: hyper-universality (the power-law exponents are independent on the dimension of the system; we show here results in d=1,2) and apparent lack of a low-frequency cutoff in the power spectrum. Essential ingredients of this model are an activation-deactivation process and dissipation.Comment: 3 Latex pages, 2 eps Figure