Exploration et inférence du réseau de régulation de la transcription de la bactérie symbiotique intracellulaire à génome réduit Buchnera aphidicola

Lilia Brinza 1, 2
2 BAMBOO - An algorithmic view on genomes, cells, and environments
Inria Grenoble - Rhône-Alpes, LBBE - Laboratoire de Biométrie et Biologie Evolutive - UMR 5558
Abstract : This thesis is a systemic study of the gene transcription regulation in Buchnera aphidicola, the intracellular obligatory symbiont of the peaaphid, Acyrthosiphon pisum. Several previous experimental studies showed that the bacterium provides to aphid the complementary nutrients absent from its diet, and that Buchnera adapts the supplying to the host demand. Nevertheless, the mechanisms underlying this regulation remain unknown. Our study is composed of four parts. The first one draws up an inventory of the transcription machinery of Buchnera. In the second part, we analyse the Buchnera dynamic genomic architecture, i.e. the organization and the evolution of its operon map. ln this context, we developed a Bayesian operon predictor (Dis Ter), adapted to the Buchnera model, which allowed us to propose a new Buchnera operon map. In the third part, we analysed the sequence-dependent structural properties of the bacterium genome. The results of theses three analyses, which fall within a bottom-up approach, allowed us to build a first mode! of Buchnera aphidicola transcription regulatory network. Finally, the last part followed a top-down modelling approach. We developed a new method for the inference of gene networks named IGOIM and using gene expression data as input data. IGOIM was tested and validated on simulated gene expression data.
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https://tel.archives-ouvertes.fr/tel-00750363
Contributor : Marie-France Sagot <>
Submitted on : Tuesday, January 8, 2013 - 1:52:13 PM
Last modification on : Thursday, March 21, 2019 - 2:51:28 PM

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  • HAL Id : tel-00750363, version 1

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Lilia Brinza. Exploration et inférence du réseau de régulation de la transcription de la bactérie symbiotique intracellulaire à génome réduit Buchnera aphidicola. Bio-informatique [q-bio.QM]. INSA de Lyon, 2010. Français. ⟨tel-00750363⟩

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