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181.
Background
In the last decade, there have been many applications of formal language theory in bioinformatics such as RNA structure prediction and detection of patterns in DNA. However, in the field of proteomics, the size of the protein alphabet and the complexity of relationship between amino acids have mainly limited the application of formal language theory to the production of grammars whose expressive power is not higher than stochastic regular grammars. However, these grammars, like other state of the art methods, cannot cover any higher-order dependencies such as nested and crossing relationships that are common in proteins. In order to overcome some of these limitations, we propose a Stochastic Context Free Grammar based framework for the analysis of protein sequences where grammars are induced using a genetic algorithm. 相似文献182.
Fran?oise Lazarini Marc-André Mouthon Gilles Gheusi Fabrice de Chaumont Jean-Christophe Olivo-Marin Stéphanie Lamarque Djoher Nora Abrous Fran?ois D. Boussin Pierre-Marie Lledo 《PloS one》2009,4(9)
Background
In mammals, new neurons are added to the olfactory bulb (OB) throughout life. Most of these new neurons, granule and periglomerular cells originate from the subventricular zone (SVZ) lining the lateral ventricles and migrate via the rostral migratory stream toward the OB. Thousands of new neurons appear each day, but the function of this ongoing neurogenesis remains unclear.Methodology/Principal Findings
In this study, we irradiated adult mice to impair constitutive OB neurogenesis, and explored the functional impacts of this irradiation on the sense of smell. We found that focal irradiation of the SVZ greatly decreased the rate of production of new OB neurons, leaving other brain areas intact. This effect persisted for up to seven months after exposure to 15 Gray. Despite this robust impairment, the thresholds for detecting pure odorant molecules and short-term olfactory memory were not affected by irradiation. Similarly, the ability to distinguish between odorant molecules and the odorant-guided social behavior of irradiated mice were not affected by the decrease in the number of new neurons. Only long-term olfactory memory was found to be sensitive to SVZ irradiation.Conclusion/Significance
These findings suggest that the continuous production of adult-generated neurons is involved in consolidating or restituting long-lasting olfactory traces. 相似文献183.
184.
Martine Grenier Isabelle Lavoie Alain N. Rousseau Stéphane Campeau 《Ecological Indicators》2010,10(5):980-989
Most bioassessment tools are based on the Reference Condition Approach (RCA), where the biological integrity of a site is defined by the “distance” between current conditions and its reference condition status. Among them, the Eastern Canadian Diatom Index (IDEC) was developed to evaluate the ecological integrity of streams along an alteration gradient, as a function of the dissimilarity of their diatom community from their suitable reference communities. In the first version of the IDEC, the alteration gradient was arbitrarily divided, like most traditional approaches, into five classes of equal size representing the qualitative statuses of the site. In this article, we propose a remodeling of those classes by introducing ecologically meaningful thresholds, reducing the subjectivity in the determination of the number and the range (widths) of classes. We developed a new approach which uses biotypes issued from a classification technique (Self-Organizing Maps) to determine thresholds between integrity classes of the IDEC. These biotypes represent relatively homogenous ecological entities composed of taxa adapted to a particular biological integrity status. Based on these biotypes, four classes were established. The new limits between classes are now based on the maximum ecological distance between diatom groups, and the transition from one class to another may be related to major ecological thresholds that induce important shifts in community structure. The proposed biotype-based approach allows for the identification of ecologically meaningful differences among biological communities and provides a more relevant interpretation of the community changes along the alteration gradient. 相似文献
185.
Frantz A Plantegenest M Simon JC 《Proceedings. Biological sciences / The Royal Society》2006,273(1603):2887-2891
The evolutionary maintenance of sex, despite competition from asexual reproduction, has long intrigued the evolutionary biologists owing to its numerous apparent short-term costs. In aphids, winter climate is expected to determine the maintenance of sexual lineages in the high latitude zones owing to their exclusive ability to produce frost-resistant eggs. However, diverse reproductive modes may coexist at a local scale where climatic influence is counteracted by microgeographical factors. In this study, we tested the influence of local habitat characteristics on regional coexistence of reproductive modes in the pea aphid, Acyrthosiphon pisum. In the laboratory, the induction of sexual morph production of many pea aphid genotypes from the local fields of annual (pea and faba bean) and perennial (alfalfa and red clover) crops in Western France indicated that A. pisum lineages from annual crops had a significantly higher investment in sexual reproduction than A. pisum lineages from the perennial hosts. We propose that temporal habitat variability exerts a selective pressure to maintain the sexual reproduction in A. pisum. The ecological and evolutionary consequences of the association between the mode of reproduction and the host population on gene flow restriction and on ecological specialization are discussed. 相似文献
186.
187.
Ribba B Saut O Colin T Bresch D Grenier E Boissel JP 《Journal of theoretical biology》2006,243(4):532-541
With the aim of inhibiting cancer growth and reducing the risk of metastasis, pharmaceutical companies in the early 1990s developed anti-metastatic agents called inhibitors of metalloproteinases (MMPi). Despite the promising results obtained in pre-clinical studies, results of Phase III trials have been somewhat disappointing for late stage cancer patients. With the aim of mathematically investigating this therapeutic failure, we developed a mechanistically based model which integrates cell cycle regulation and macroscopic tumor dynamics. By simulating the model, we evaluated the efficacy of MMPi therapy. Simulation results predict the lack of efficacy of MMPi in advanced cancer patients. The theoretical model may aid in evaluating the efficacy of anti-metastatic therapies, thus benefiting the design of prospective clinical trials. 相似文献
188.
We consider a host-parasitoid system with individuals moving on a square grid of patches. We study the effects of increasing movement frequency of hosts and parasitoids on the spatial dynamics of the system. We show that there exists a threshold value of movement frequency above which spatial synchrony occurs and the dynamics of the system can be described by an aggregated model governing the total population densities on the grid. Numerical simulations show that this threshold value is usually small. This allows using the aggregated model to make valid predictions about global host-parasitoid spatial dynamics. 相似文献
189.
Grégory Dubar Elie Azria Antoine Tesnière Hervé Dupont Camille Le Ray Thomas Baugnon Sophie Matheron Dominique Luton Jean-Christophe Richard Odile Launay Vassilis Tsatsaris Fran?ois Goffinet Alexandre Mignon for the French Registry on A/HNv during pregnancy 《PloS one》2010,5(10)
Background
The first reports on the pandemic influenza 2009 A/H1N1v from the USA, Mexico, and Australia indicated that this disease was associated with a high mortality in pregnant women. The aim of this study was to describe and compare the characteristics of severe critically ill and non-severe pregnant women with 2009 A/H1N1v-related illness in France.Methodology/Principal Findings
A national registry was created to screen pregnant women with laboratory-confirmed 2009 A/H1N1v influenza. Three hundred and fifteen patients from 46 French hospitals were included: 40 patients were admitted to intensive care units (severe outcomes), 111 were hospitalized in obstetric or medical wards (moderate outcomes), and 164 were outpatients (mild outcomes). The 2009 A/H1N1v influenza illness occurred during all pregnancy trimesters, but most women (54%), notably the severe patients (70%), were in the third trimester. Among the severe patients, twenty (50%) underwent mechanical ventilation, and eleven (28%) were treated with extracorporeal membrane oxygenation. Three women died from A/H1N1v influenza. We found a strong association between the development of a severe outcome and both co-existing illnesses (adjusted odds ratio [OR], 5.1; 95% confidence interval [CI], 2.2–11.8) and a delay in oseltamivir treatment after the onset of symptoms (>3 or 5 days) (adjusted OR, 4.8; 95% CI, 1.9–12.1 and 61.2, 95% CI; 14.4–261.3, respectively). Among the 140 deliveries after 22 weeks of gestation known to date, 19 neonates (14%) were admitted to a neonatal intensive care unit, mainly for preterm delivery, and two neonates died. None of these neonates developed 2009 A/H1N1v infection.Conclusions
This series confirms the high incidence of complications in pregnant women infected with pandemic A/H1N1v observed in other countries but depicts a lower overall maternal and neonatal mortality and morbidity than indicated in the USA or Australia. Moreover, our data demonstrate the benefit of early oseltamivir treatment in this specific population. 相似文献190.
Juliette Pavie Anne Rachline Bénédicte Loze Laurence Niedbalski Constance Delaugerre Eric Laforgerie Jean-Christophe Plantier Willy Rozenbaum Sylvie Chevret Jean-Michel Molina Fran?ois Simon 《PloS one》2010,5(7)