A system-level model for the microbial regulatory genome.
Mol Syst Biol
; 10: 740, 2014 Jul 15.
Article
en En
| MEDLINE
| ID: mdl-25028489
ABSTRACT
Microbes can tailor transcriptional responses to diverse environmental challenges despite having streamlined genomes and a limited number of regulators. Here, we present data-driven models that capture the dynamic interplay of the environment and genome-encoded regulatory programs of two types of prokaryotes Escherichia coli (a bacterium) and Halobacterium salinarum (an archaeon). The models reveal how the genome-wide distributions of cis-acting gene regulatory elements and the conditional influences of transcription factors at each of those elements encode programs for eliciting a wide array of environment-specific responses. We demonstrate how these programs partition transcriptional regulation of genes within regulons and operons to re-organize gene-gene functional associations in each environment. The models capture fitness-relevant co-regulation by different transcriptional control mechanisms acting across the entire genome, to define a generalized, system-level organizing principle for prokaryotic gene regulatory networks that goes well beyond existing paradigms of gene regulation. An online resource (http//egrin2.systemsbiology.net) has been developed to facilitate multiscale exploration of conditional gene regulation in the two prokaryotes.
Palabras clave
Texto completo:
1
Banco de datos:
MEDLINE
Asunto principal:
Redes Reguladoras de Genes
/
Genoma Microbiano
/
Modelos Genéticos
Tipo de estudio:
Prognostic_studies
Idioma:
En
Revista:
Mol Syst Biol
Asunto de la revista:
BIOLOGIA MOLECULAR
/
BIOTECNOLOGIA
Año:
2014
Tipo del documento:
Article
País de afiliación:
Estados Unidos