Genomic of integrated systems
functions rely upon several protein partners interacting in permanent
or sporadic supramolecular assemblies, referred to as integrated systems.
The team interest concerns the identification, reconstruction and analyses
of these assemblies in completely sequenced bacterial genomes through
the development of bioinformatic strategies. Among them, the integrated
systems encoded by large families of paralogous genes and involved in
the exchange of the bacterial cell with its environment, are of prior
interest. Indeed, the genomic comparative analysis of their repertories
will help to understand the molecular mechanisms that are involved in
the adaptation processes of bacterial genomes. Our first studies focused
on the family of ABC transporters. Most of them mediate the active uptake
or efflux of specific molecules across biological membranes, handling
a wide variety of compounds. This work lead to the design of a specialized
public database (ABCdb). The developed bioinformatic strategies are now
generalized to other systems, such as two component systems involved in
detection and transduction of specific signals that elicit adaptative
responses of the bacterial cell.
Beside the comparative genomic approach, the team is also working on the
modelling of those systems by taking into account
the physical, functional and evolutionary relationships occurring between
the different partners. In this context, we develop a knowledge base under
AROM which integrates, in the same local environment, methods and data.
transporter, integrated system, comparative genomic, genome evolution, bio-informatic,
database, knowledge modelling.
of biological integrated systems : an application to bacterial transport
ABCdb : une base de données sur les ABC transporteurs