Reconstruction and analysis of the genetic and metabolic regulatory networks of the central metabolism of Bacillus subtilis

doi:10.1186/1752-0509-2-20

BMC Systems Biology

Volume 2

Viewing options:

Abstract
Full text
PDF (448KB)
Additional files

Associated material:

Related literature:

Articles citing this article
on BioMed Central
on Google Scholar
on ISI Web of Science
on PubMed Central
Other articles by authors
on Google Scholar

Goelzer A
Bekkal Brikci F
Martin-Verstraete I
Noirot P
Bessières P
Aymerich S
Fromion V

on PubMed

Goelzer A
Bekkal Brikci F
Martin-Verstraete I
Noirot P
Bessières P
Aymerich S
Fromion V
Related articles/pages
on Google

on Google Scholar

on PubMed

Tools:

Post to:

Research article

Reconstruction and analysis of the genetic and metabolic regulatory networks of the central metabolism of Bacillus subtilis

Anne Goelzer¹ , Fadia Bekkal Brikci¹ , Isabelle Martin-Verstraete²^,3 , Philippe Noirot⁴ , Philippe Bessières¹ , Stéphane Aymerich⁵ and Vincent Fromion¹

¹Unité Mathématique, Informatique et Génomes, Institut National Recherche Agronomique, UR1077, F-78350 Jouy-en-Josas, France

²Unité de Génétique des Génomes Bactériens, Institut Pasteur, URA CNRS 2171, 28, rue du Docteur Roux, 75724 Paris Cedex 15, France

³Unité de Formation et de Recherche de Biochimie, Université Paris 7-Denis Diderot, 2 place Jussieu, 75251 Paris, France

⁴Unité Génétique Microbienne, Institut National Recherche Agronomique, F-78350 Jouy-en-Josas, France

⁵Microbiologie et Génétique Moléculaire, Institut National Recherche Agronomique Paris-Grignon, CNRS (UMR2585) INRA (UMR1238), F-78850 Thiverval-Grignon, France

author email corresponding author email

BMC Systems Biology 2008, 2:20doi:10.1186/1752-0509-2-20


Published:	26 February 2008

Additional files

Additional File 1:

Model of the central metabolism of Bacillus sub-tilis. This file contains the metabolic pathways description and their regulation, according to our formalism defined in the sections Results and Methods of this paper.

Format: XLS Size: 445KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional File 2:

Review of the reconstruction of Bacillus subtilis. This file details the level of knowledge available for each metabolic pathway. The pathways which have been less characterized are explicitely mentioned.

Format: DOC Size: 66KB Download file

This file can be viewed with: Microsoft Word Viewer

Additional File 3:

Available information on the amino acid metabolism of Bacillus subtilis. This file details the level of knowledge available for each amino acid: genes and kinetic reactions, genetic and enzymatic regulation.

Format: XLS Size: 28KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional File 4:

Predictions based on the reconstruction of Bacillus subtilis. The file details the phenotype analysis of B. subtilis and presents the potential utilization of amino acids as carbon or nitrogen sources.

Format: DOC Size: 55KB Download file

This file can be viewed with: Microsoft Word Viewer

Additional File 5:

Functional representation of the central metabolism of Bacillus subtilis. This file provides for each metabolic pathway: (i) a detailed representation of the kinetic reactions; (ii) the organization of genes in operon; (iii) a functional representation with the formalism detailed in the section Results of this paper.

Format: PDF Size: 3.1MB Download file

This file can be viewed with: Adobe Acrobat Reader

Additional File 6:

Isoenzymes in metabolic pathways and their genetic regulation. This file details all known isoenzymes of the central metabolism of Bacillus subtilis and their genetic regulation.

Format: XLS Size: 24KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional File 7:

Mathematical definition of module. The file presents the study of the steady-state behaviour of the main control structures identified in metabolic pathways.

Format: PDF Size: 140KB Download file

This file can be viewed with: Adobe Acrobat Reader

Additional File 8:

Local versus global regulation of metabolic pathways. This file details the known genetic regulation of each metabolic pathway and precises (i) the "local/global" status of each genetic regulation; (ii) if the regulation is a modulation.

Format: XLS Size: 30KB Download file

This file can be viewed with: Microsoft Excel Viewer