Parameter estimation in spatially extended systems: The Karhunen-Loeve and Galerkin multiple shooting approach

Parameter estimation for spatiotemporal dynamics for coupled map lattices and continuous time domain systems is shown using a combination of multiple shooting, Karhunen-Loeve decomposition and Galerkin's projection methodologies. The resulting advantages in estimating parameters have been studied and discussed for chaotic and turbulent dynamics using small amounts of data from subsystems, availability of only scalar and noisy time series data, effects of space-time parameter variations, and in the presence of multiple time-scales.Comment: 11 pages, 5 figures, 4 Tables Corresponding Author - V. Ravi Kumar, e-mail address: [email protected]

QoS Analysis for a Non-Preemptive Continuous Monitoring and Event Driven WSN Protocol in Mobile Environments

Evolution in wireless sensor networks (WSNs) has allowed the introduction of new applications with increased complexity regarding communication protocols, which have to ensure that certain QoS parameters are met. Specifically, mobile applications require the system to respond in a certain manner in order to adequately track the target object. Hybrid algorithms that perform Continuous Monitoring (CntM) and Event-Driven (ED) duties have proven their ability to enhance performance in different environments, where emergency alarms are required. In this paper, several types of environments are studied using mathematical models and simulations, for evaluating the performance of WALTER, a priority-based nonpreemptive hybrid WSN protocol that aims to reduce delay and packet loss probability in time-critical packets. First, randomly distributed events are considered. This environment can be used to model a wide variety of physical phenomena, for which report delay and energy consumption are analyzed by means of Markov models. Then, mobile-only environments are studied for object tracking purposes. Here, some of the parameters that determine the performance of the system are identified. Finally, an environment containing mobile objects and randomly distributed events is considered. It is shown that by assigning high priority to time-critical packets, report delay is reduced and network performance is enhanced.This work was partially supported by CONACyT under Project 183370. The research of Vicent Pla has been supported in part by the Ministry of Economy and Competitiveness of Spain under Grant TIN2013-47272-C2-1-R.Leyva Mayorga, I.; Rivero-Angeles, ME.; Carreto-Arellano, C.; Pla, V. (2015). QoS Analysis for a Non-Preemptive Continuous Monitoring and Event Driven WSN Protocol in Mobile Environments. International Journal of Distributed Sensor Networks. 2015:1-16. https://doi.org/10.1155/2015/471307S1162015Arampatzis, T., Lygeros, J., & Manesis, S. (s. f.). A Survey of Applications of Wireless Sensors and Wireless Sensor Networks. Proceedings of the 2005 IEEE International Symposium on, Mediterrean Conference on Control and Automation Intelligent Control, 2005. doi:10.1109/.2005.1467103Ramachandran, C., Misra, S., & Obaidat, M. S. (2008). A probabilistic zonal approach for swarm-inspired wildfire detection using sensor networks. International Journal of Communication Systems, 21(10), 1047-1073. doi:10.1002/dac.937Misra, S., Singh, S., Khatua, M., & Obaidat, M. S. (2013). Extracting mobility pattern from target trajectory in wireless sensor networks. International Journal of Communication Systems, 28(2), 213-230. doi:10.1002/dac.2649Heinzelman, W. B., Chandrakasan, A. P., & Balakrishnan, H. (2002). An application-specific protocol architecture for wireless microsensor networks. IEEE Transactions on Wireless Communications, 1(4), 660-670. doi:10.1109/twc.2002.804190Younis, O., & Fahmy, S. (s. f.). Distributed clustering in ad-hoc sensor networks: a hybrid, energy-efficient approach. IEEE INFOCOM 2004. doi:10.1109/infcom.2004.1354534Manjeshwar, A., & Agrawal, D. P. (s. f.). TEEN: a routing protocol for enhanced efficiency in wireless sensor networks. Proceedings 15th International Parallel and Distributed Processing Symposium. IPDPS 2001. doi:10.1109/ipdps.2001.925197Manjeshwar, A., & Agrawal, D. P. (2002). APTEEN: a hybrid protocol for efficient routing and comprehensive information retrieval in wireless. Proceedings 16th International Parallel and Distributed Processing Symposium. doi:10.1109/ipdps.2002.1016600Sharif, A., Potdar, V., & Rathnayaka, A. J. D. (2010). Prioritizing Information for Achieving QoS Control in WSN. 2010 24th IEEE International Conference on Advanced Information Networking and Applications. doi:10.1109/aina.2010.166Alappat, V. J., Khanna, N., & Krishna, A. K. (2011). Advanced Sensor MAC protocol to support applications having different priority levels in Wireless Sensor Networks. 2011 6th International ICST Conference on Communications and Networking in China (CHINACOM). doi:10.1109/chinacom.2011.6158175Alam, K. M., Kamruzzaman, J., Karmakar, G., & Murshed, M. (2012). Priority Sensitive Event Detection in Hybrid Wireless Sensor Networks. 2012 21st International Conference on Computer Communications and Networks (ICCCN). doi:10.1109/icccn.2012.6289220Raja, A., & Su, X. (2008). A Mobility Adaptive Hybrid Protocol for Wireless Sensor Networks. 2008 5th IEEE Consumer Communications and Networking Conference. doi:10.1109/ccnc08.2007.159Srikanth, B., Harish, M., & Bhattacharjee, R. (2011). An energy efficient hybrid MAC protocol for WSN containing mobile nodes. 2011 8th International Conference on Information, Communications & Signal Processing. doi:10.1109/icics.2011.6173629Lee, Y.-D., Jeong, D.-U., & Lee, H.-J. (2011). Empirical analysis of the reliability of low-rate wireless u-healthcare monitoring applications. International Journal of Communication Systems, 26(4), 505-514. doi:10.1002/dac.1360Deepak, K. S., & Babu, A. V. (2013). Improving energy efficiency of incremental relay based cooperative communications in wireless body area networks. International Journal of Communication Systems, 28(1), 91-111. doi:10.1002/dac.2641Yuan Li, Wei Ye, & Heidemann, J. (s. f.). Energy and latency control in low duty cycle MAC protocols. IEEE Wireless Communications and Networking Conference, 2005. doi:10.1109/wcnc.2005.1424589Bianchi, G. (2000). Performance analysis of the IEEE 802.11 distributed coordination function. IEEE Journal on Selected Areas in Communications, 18(3), 535-547. doi:10.1109/49.840210Wei Ye, Heidemann, J., & Estrin, D. (s. f.). An energy-efficient MAC protocol for wireless sensor networks. Proceedings.Twenty-First Annual Joint Conference of the IEEE Computer and Communications Societies. doi:10.1109/infcom.2002.101940

Occurrence of toxigenic microalgal species and phycotoxins accumulation in mesozooplankton in Northern Patagonian gulfs, Argentina

In the Northern Patagonian gulfs of Argentina (Golfo Nuevo and Golfo San José), blooms of toxigenic microalgae and the detection of their associated phycotoxins are recurrent phenomena. The present study evaluated the transfer of phycotoxins from toxigenic microalgae to mesozooplankton in Golfo Nuevo and Golfo San José throughout an annual cycle (December 2014–2015 and January 2015–2016, respectively). In addition, solid‐phase adsorption toxin tracking (SPATT) samplers were deployed for the first time in these gulfs, to estimate the occurrence of phycotoxins in the seawater between the phytoplankton samplings. Domoic acid was present throughout the annual cycle in SPATT samplers, whereas no paralytic shellfish poisoning toxins were detected. Ten toxigenic species were identified: Alexandrium catenella, Dinophysis acuminata, Dinophysis acuta, Dinophysis tripos, Dinophysis caudata, Prorocentrum lima, Pseudo‐nitzschia australis, Pseudo‐nitzschia calliantha, Pseudo‐nitzschia fraudulenta, and Pseudo‐nitzschia pungens. Lipophilic and hydrophilic toxins were detected in phytoplankton and mesozooplankton from both gulfs. Pseudo‐nitzschia spp. were the toxigenic species most frequent in these gulfs. Consequently, domoic acid was the phycotoxin most abundantly detected and transferred to upper trophic levels. Spirolides were detected in phytoplankton and mesozooplankton for the first time in the study area. Likewise, dinophysistoxins were found in mesozooplankton from both gulfs, and this is the first report of the presence of these phycotoxins in zooplankton from the Argentine Sea. The dominance of calanoid copepods indicates that they were the primary vector of phycotoxins in the pelagic trophic web.Fil: D'Agostino, Valeria C.. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Centro Nacional Patagónico. Centro para el Estudio de Sistemas Marinos; ArgentinaFil: Krock, Bernd. Alfred-Wegener-Institut, Helmholtz-Zentrum für Polar- und Meeresforschung; AlemaniaFil: Degrati, Mariana. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Centro Nacional Patagónico. Centro para el Estudio de Sistemas Marinos; Argentina. Universidad Nacional de la Patagonia "San Juan Bosco"; ArgentinaFil: Sastre, Viviana. Universidad Nacional de la Patagonia "San Juan Bosco"; ArgentinaFil: Santinelli, Norma Herminia. Universidad Nacional de la Patagonia "San Juan Bosco"; ArgentinaFil: Krohn, Torben. Alfred-Wegener-Institut, Helmholtz-Zentrum für Polar- und Meeresforschung; AlemaniaFil: Hoffmeyer, Mónica S.. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Instituto Argentino de Oceanografía. Universidad Nacional del Sur. Instituto Argentino de Oceanografía; Argentina. Universidad Tecnológica Nacional. Facultad Regional Bahía Blanca; Argentin

Whole-Genome Sequencing of Sake Yeast Saccharomyces cerevisiae Kyokai no. 7

The term ‘sake yeast’ is generally used to indicate the Saccharomyces cerevisiae strains that possess characteristics distinct from others including the laboratory strain S288C and are well suited for sake brewery. Here, we report the draft whole-genome shotgun sequence of a commonly used diploid sake yeast strain, Kyokai no. 7 (K7). The assembled sequence of K7 was nearly identical to that of the S288C, except for several subtelomeric polymorphisms and two large inversions in K7. A survey of heterozygous bases between the homologous chromosomes revealed the presence of mosaic-like uneven distribution of heterozygosity in K7. The distribution patterns appeared to have resulted from repeated losses of heterozygosity in the ancestral lineage of K7. Analysis of genes revealed the presence of both K7-acquired and K7-lost genes, in addition to numerous others with segmentations and terminal discrepancies in comparison with those of S288C. The distribution of Ty element also largely differed in the two strains. Interestingly, two regions in chromosomes I and VII of S288C have apparently been replaced by Ty elements in K7. Sequence comparisons suggest that these gene conversions were caused by cDNA-mediated recombination of Ty elements. The present study advances our understanding of the functional and evolutionary genomics of the sake yeast

The 2009 multiwavelength campaign on Mrk 421: Variability and correlation studies

We performed a 4.5-month multi-instrument campaign (from radio to VHE gamma rays) on Mrk421 between January 2009 and June 2009, which included VLBA, F-GAMMA, GASP-WEBT, Swift, RXTE, Fermi-LAT, MAGIC, and Whipple, among other instruments and collaborations. Mrk421 was found in its typical (non-flaring) activity state, with a VHE flux of about half that of the Crab Nebula, yet the light curves show significant variability at all wavelengths, the highest variability being in the X-rays. We determined the power spectral densities (PSD) at most wavelengths and found that all PSDs can be described by power-laws without a break, and with indices consistent with pink/red-noise behavior. We observed a harder-when-brighter behavior in the X-ray spectra and measured a positive correlation between VHE and X-ray fluxes with zero time lag. Such characteristics have been reported many times during flaring activity, but here they are reported for the first time in the non-flaring state. We also observed an overall anti-correlation between optical/UV and X-rays extending over the duration of the campaign. The harder-when-brighter behavior in the X-ray spectra and the measured positive X-ray/VHE correlation during the 2009 multi-wavelength campaign suggests that the physical processes dominating the emission during non-flaring states have similarities with those occurring during flaring activity. In particular, this observation supports leptonic scenarios as being responsible for the emission of Mrk421 during non-flaring activity. Such a temporally extended X-ray/VHE correlation is not driven by any single flaring event, and hence is difficult to explain within the standard hadronic scenarios. The highest variability is observed in the X-ray band, which, within the one-zone synchrotron self-Compton scenario, indicates that the electron energy distribution is most variable at the highest energies.Comment: Accepted for publication in A&A, 18 pages, 14 figures (v2 has a small modification in the acknowledgments, and also corrects a typo in the field "author" in the metadata

First broadband characterization and redshift determination of the VHE blazar MAGIC J2001+439

We aim to characterize the broadband emission from 2FGL J2001.1+4352, which has been associated with the unknown-redshift blazar MG4 J200112+4352. Based on its gamma-ray spectral properties, it was identified as a potential very high energy (VHE; E > 100 GeV) gamma-ray emitter. The source was observed with MAGIC first in 2009 and later in 2010 within a multi-instrument observation campaign. The MAGIC observations yielded 14.8 hours of good quality stereoscopic data. The object was monitored at radio, optical and gamma-ray energies during the years 2010 and 2011. The source, named MAGIC J2001+439, is detected for the first time at VHE with MAGIC at a statistical significance of 6.3 {\sigma} (E > 70 GeV) during a 1.3-hour long observation on 2010 July 16. The multi-instrument observations show variability in all energy bands with the highest amplitude of variability in the X-ray and VHE bands. We also organized deep imaging optical observations with the Nordic Optical Telescope in 2013 to determine the source redshift. We determine for the first time the redshift of this BL Lac object through the measurement of its host galaxy during low blazar activity. Using the observational evidence that the luminosities of BL Lac host galaxies are confined to a relatively narrow range, we obtain z = 0.18 +/- 0.04. Additionally, we use the Fermi-LAT and MAGIC gamma-ray spectra to provide an independent redshift estimation, z = 0.17 +/- 0.10. Using the former (more accurate) redshift value, we adequately describe the broadband emission with a one-zone SSC model for different activity states and interpret the few-day timescale variability as produced by changes in the high-energy component of the electron energy distribution.Comment: 17 pages, 15 figures, Accepted for publication in A&

The Role of the Yap5 Transcription Factor in Remodeling Gene Expression in Response to Fe Bioavailability

The budding yeast Saccharomyces cerevisiae has developed several mechanisms to avoid either the drastic consequences of iron deprivation or the toxic effects of iron excess. In this work, we analysed the global gene expression changes occurring in yeast cells undergoing iron overload. Several genes directly or indirectly involved in iron homeostasis showed altered expression and the relevance of these changes are discussed. Microarray analyses were also performed to identify new targets of the iron responsive factor Yap5. Besides the iron vacuolar transporter CCC1, Yap5 also controls the expression of glutaredoxin GRX4, previously known to be involved in the regulation of Aft1 nuclear localization. Consistently, we show that in the absence of Yap5 Aft1 nuclear exclusion is slightly impaired. These studies provide further evidence that cells control iron homeostasis by using multiple pathways

Expression variability of co-regulated genes differentiates Saccharomyces cerevisiae strains

Background: Saccharomyces cerevisiae (Baker’s yeast) is found in diverse ecological niches and is characterized by high adaptive potential under challenging environments. In spite of recent advances on the study of yeast genome diversity, little is known about the underlying gene expression plasticity. In order to shed new light onto this biological question, we have compared transcriptome profiles of five environmental isolates, clinical and laboratorial strains at different time points of fermentation in synthetic must medium, during exponential and stationary growth phases. Results: Our data unveiled diversity in both intensity and timing of gene expression. Genes involved in glucose metabolism and in the stress response elicited during fermentation were among the most variable. This gene expression diversity increased at the onset of stationary phase (diauxic shift). Environmental isolates showed lower average transcript abundance of genes involved in the stress response, assimilation of nitrogen and vitamins, and sulphur metabolism, than other strains. Nitrogen metabolism genes showed significant variation in expression among the environmental isolates. Conclusions: Wild type yeast strains respond differentially to the stress imposed by nutrient depletion, ethanol accumulation and cell density increase, during fermentation of glucose in synthetic must medium. Our results support previous data showing that gene expression variability is a source of phenotypic diversity among closely related organisms.Fundação para a Ciência e TecnologiaThe authors wish to thank Adega Cooperativa da Bairrada, Cantanhede, Portugal, for providing the commercial strains

Large Scale Comparative Codon-Pair Context Analysis Unveils General Rules that Fine-Tune Evolution of mRNA Primary Structure

BACKGROUND: Codon usage and codon-pair context are important gene primary structure features that influence mRNA decoding fidelity. In order to identify general rules that shape codon-pair context and minimize mRNA decoding error, we have carried out a large scale comparative codon-pair context analysis of 119 fully sequenced genomes. METHODOLOGIES/PRINCIPAL FINDINGS: We have developed mathematical and software tools for large scale comparative codon-pair context analysis. These methodologies unveiled general and species specific codon-pair context rules that govern evolution of mRNAs in the 3 domains of life. We show that evolution of bacterial and archeal mRNA primary structure is mainly dependent on constraints imposed by the translational machinery, while in eukaryotes DNA methylation and tri-nucleotide repeats impose strong biases on codon-pair context. CONCLUSIONS: The data highlight fundamental differences between prokaryotic and eukaryotic mRNA decoding rules, which are partially independent of codon usage