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| Dittami, Simon M.; Barbeyron, Tristan; Boyen, Catherine; Cambefort, Jeanne; Collet, Guillaume; Delage, Ludovic; Gobet, Angelique; Groisillier, Agnes; Leblanc, Catherine; Michel, Gurvan; Scornet, Delphine; Siegel, Anne; Tapia, Javier E.; Tonon, Thierry. |
| Rhizobiales and related orders of Alphaproteobacteria comprise several genera of nodule-inducing symbiotic bacteria associated with plant roots. Here we describe the genome and the metabolic network of "Candidatus Phaeomarinobacter ectocarpi" Ec32, a member of a new candidate genus closely related to Rhizobiales and found in association with cultures of the filamentous brown algal model Ectocarpus. The "Ca. P. ectocarpi" genome encodes numerous metabolic pathways that may be relevant for this bacterium to interact with algae. Notably, it possesses a large set of glycoside hydrolases and transporters, which may serve to process and assimilate algal metabolites. It also harbors several proteins likely to be involved in the synthesis of algal hormones such as... |
| Tipo: Text |
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| Ano: 2014 |
URL: https://archimer.ifremer.fr/doc/00488/59944/63183.pdf |
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| Aite, Meaziane; Chevallier, Marie; Frioux, Cleamence; Trottier, Camille; Got, Jeanne; Paz Cortes, Maria; Mendoza, Sebastian N.; Carrier, Gregory; Dameron, Olivier; Guillaudeux, Nicolas; Latorre, Mauricio; Loira, Nicolas; Markov, Gabriel V.; Maass, Alejandro; Siegel, Anne. |
| Genome-scale metabolic models have become the tool of choice for the global analysis of microorganism metabolism, and their reconstruction has attained high standards of quality and reliability. Improvements in this area have been accompanied by the development of some major platforms and databases, and an explosion of individual bioinformatics methods. Consequently, many recent model s result from "a la carte" pipelines, combining the use of platforms, individual tools and biological expertise to enhance the quality of the reconstruction. Although very useful, introducing heterogeneous tools, that hardly interact with each other, causes loss of traceability and reproducibility in the reconstruction process. This represents a real obstacle, especially when... |
| Tipo: Text |
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| Ano: 2018 |
URL: http://archimer.ifremer.fr/doc/00448/55985/57454.pdf |
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| Laurent, Sebastien; Richard, Adrien; Mulner-lorillon, Odile; Morales, Julia; Flament, Didier; Glippa, Virginie; Bourdon, Jeremie; Gosselin, Pauline; Siegel, Anne; Cormier, Patrick; Belle, Robert. |
| Fertilization of sea urchin eggs involves an increase in protein synthesis associated with a decrease in the amount of the translation initiation inhibitor 4E-BP A highly simple reaction model for the regulation of protein synthesis was built and was used to simulate the physiological changes in the total 4E-BP amount observed during time after fertilization. Our study evidenced that two changes occurring at fertilization are necessary to fit with experimental data. The first change was an 8-fold increase in the dissociation parameter (koffi) of the elF4E:4E-BP complex. The second was an important 32.5-fold activation of the degradation mechanism of the protein 4E-BP Additionally, the changes in both processes should occur in 5 min time interval... |
| Tipo: Text |
Palavras-chave: Translational control; Sea urchin embryos; Mechanisms of fertilization; Deterministic model; Translation simulation. |
| Ano: 2014 |
URL: http://archimer.ifremer.fr/doc/00382/49341/49731.pdf |
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