Thesis of David Vallenet

2007 feb.

“MicroScope, a microbial genome annotation platform. Towards the analysis of three Acinetobacter bacteria.”
  David Vallenet(mail) supported his thesis on Febrary 8th in Evry. His research was carried out in the the “Comparative genomics” team led by Claudine Médigue (mail).

MicroScope is a microbial genome annotation platform based on an annotation pipeline, a relational database and a graphical interface called MaGe. In this integrative approach, the human expertise takes an important place and is supported by the use of gene context and biological process reconstruction methods. Among projects, a comparative study of three Acinetobacter bacteria was undertaken. The genome analysis of A. baylyi ADP1, a soil bacterium, revealed an archipelago of catabolic islands. The genome of A. baumannii SDF which was isolated from human body lice seems to have been subjected to a reduction process. The genome study of A. baumannii AYE, a nosocomial infection agent, revealed the presence of catabolic islands which were previously described in strain ADP1. Furthermore, an amount of specific genes is involved in antibiotic resistance, biofilm formation and iron uptake.

Key words :

Bioinformatics /Bioanalysis /Database /Bacterial genome /Annotation system /Metabolism /Acinetobacter