Characteristics of a Delayed System with Time-dependent Delay Time

The characteristics of a time-delayed system with time-dependent delay time is investigated. We demonstrate the nonlinearity characteristics of the time-delayed system are significantly changed depending on the properties of time-dependent delay time and especially that the reconstructed phase trajectory of the system is not collapsed into simple manifold, differently from the delayed system with fixed delay time. We discuss the possibility of a phase space reconstruction and its applications.Comment: 4 pages, 6 figures (to be published in Phys. Rev. E

Cavitation Bubbles Remove and Inactivate Listeria and Salmonella on the Surface of Fresh Roma Tomatoes and Cantaloupes

Raw produce has frequently been identified as the source of bacterial pathogens that can cause human illnesses, including listeriosis and salmonellosis. Microbial pathogens may attach and form biofilms on raw fruit surfaces and can be difficult to remove. A cavitation process (injection of bubbles into water) was studied for its effectiveness for removal and inactivation of Listeria monocytogenes and Salmonella Newport from the surfaces of fresh Roma tomatoes and cantaloupes. Individual fruit were separately inoculated with each pathogen, then submerged in a water tank and treated with a bubble flow through an air stone using one airflow rate (0–14 liters/min.) for up to 60 s. As airflow increased, L. monocytogenes reduction on tomato and cantaloupe surfaces increased up to 1.2 and 0.8 log CFU/fruit greater than with water alone (no bubbles), respectively. With a 14 L/min flow rate, Salmonella reduction on tomato and cantaloupe surfaces increased up to 0.9 and 0.7 log CFU/fruit greater than when no bubbles applied, respectively. Also, with the bubble treatments, additional pathogen reduction (detached organisms) was observed in the tank water. Therefore, these bubble streams can be used to enhance the detachment of bacteria from fruit surfaces and to inactivate a proportion of these detached microorganisms. Additionally, recoveries of Salmonella from inoculated Roma tomatoes and cantaloupe were determined for treatment water that contained 50 or 150 ppm sodium hypochlorite. Combining both cavitating bubbles and 150 ppm chlorine in the tank water resulted in greater efficacy of removing or inactivating S. Newport from the surface of cantaloupe (2.9 log CFU) than with cavitation (2.5 log CFU) or chlorine (1.9 log CFU) alone. The physical force of a bubble stream on raw produce can effectively detach and inactivate surface bacteria, and has the potential to reduce antimicrobial chemical use and water use in post-harvest packing operations

Generalized Phase Synchronization in unidirectionally coupled chaotic oscillators

We investigate phase synchronization between two identical or detuned response oscillators coupled to a slightly different drive oscillator. Our result is that phase synchronization can occur between response oscillators when they are driven by correlated (but not identical) inputs from the drive oscillator. We call this phenomenon Generalized Phase Synchronization (GPS) and clarify its characteristics using Lyapunov exponents and phase difference plots.Comment: 4 pages, 5 figure

Abbreviation definition identification based on automatic precision estimates

<p>Abstract</p> <p>Background</p> <p>The rapid growth of biomedical literature presents challenges for automatic text processing, and one of the challenges is abbreviation identification. The presence of unrecognized abbreviations in text hinders indexing algorithms and adversely affects information retrieval and extraction. Automatic abbreviation definition identification can help resolve these issues. However, abbreviations and their definitions identified by an automatic process are of uncertain validity. Due to the size of databases such as MEDLINE only a small fraction of abbreviation-definition pairs can be examined manually. An automatic way to estimate the accuracy of abbreviation-definition pairs extracted from text is needed. In this paper we propose an abbreviation definition identification algorithm that employs a variety of strategies to identify the most probable abbreviation definition. In addition our algorithm produces an accuracy estimate, pseudo-precision, for each strategy without using a human-judged gold standard. The pseudo-precisions determine the order in which the algorithm applies the strategies in seeking to identify the definition of an abbreviation.</p> <p>Results</p> <p>On the Medstract corpus our algorithm produced 97% precision and 85% recall which is higher than previously reported results. We also annotated 1250 randomly selected MEDLINE records as a gold standard. On this set we achieved 96.5% precision and 83.2% recall. This compares favourably with the well known Schwartz and Hearst algorithm.</p> <p>Conclusion</p> <p>We developed an algorithm for abbreviation identification that uses a variety of strategies to identify the most probable definition for an abbreviation and also produces an estimated accuracy of the result. This process is purely automatic.</p

Comparative analysis of pepper and tomato reveals euchromatin expansion of pepper genome caused by differential accumulation of Ty3/Gypsy-like elements

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.Abstract Background Among the Solanaceae plants, the pepper genome is three times larger than that of tomato. Although the gene repertoire and gene order of both species are well conserved, the cause of the genome-size difference is not known. To determine the causes for the expansion of pepper euchromatic regions, we compared the pepper genome to that of tomato. Results For sequence-level analysis, we generated 35.6 Mb of pepper genomic sequences from euchromatin enriched 1,245 pepper BAC clones. The comparative analysis of orthologous gene-rich regions between both species revealed insertion of transposons exclusively in the pepper sequences, maintaining the gene order and content. The most common type of the transposon found was the LTR retrotransposon. Phylogenetic comparison of the LTR retrotransposons revealed that two groups of Ty3/Gypsy-like elements (Tat and Athila) were overly accumulated in the pepper genome. The FISH analysis of the pepper Tat elements showed a random distribution in heterochromatic and euchromatic regions, whereas the tomato Tat elements showed heterochromatin-preferential accumulation. Conclusions Compared to tomato pepper euchromatin doubled its size by differential accumulation of a specific group of Ty3/Gypsy-like elements. Our results could provide an insight on the mechanism of genome evolution in the Solanaceae family