Reconstruction of microbial transcriptional regulatory networks

Markus J Herrgård, Markus W Covert, Bernhard Ø Palsson
2004 Current Opinion in Biotechnology  
Although metabolic networks can be readily reconstructed through comparative genomics, the reconstruction of regulatory networks has been hindered by the relatively low level of evolutionary conservation of their molecular components. Recent developments in experimental techniques have allowed the generation of vast amounts of data related to regulatory networks. This data together with literature-derived knowledge has opened the way for genome-scale reconstruction of transcriptional regulatory
more » ... networks. Large-scale regulatory network reconstructions can be converted to in silico models that allow systematic analysis of network behavior in response to changes in environmental conditions. These models can further be combined with genome-scale metabolic models to build integrated models of cellular function including both metabolism and its regulation. Abbreviations GWLA genome-wide location analysis TF transcription factor a [28 ]; b MW Covert, et al., unpublished; c [11 ]; d MJ Herrgard, BO Palsson, unpublished; e [48 ]; f [13 ]. g Counting each gene in an operon separately. h Regulatory interactions with P < 0:001. Core metabolic refers to the regulatory network controlling core metabolism in an organism. Full metabolic refers to the regulatory network controlling all metabolic processes in an organism. Reconstruction of regulatory networks Herrgå rd, Covert and Palsson 71 www.sciencedirect.com
doi:10.1016/j.copbio.2003.11.002 pmid:15102470 fatcat:zzadypbtcbchzdtwz7xyzbgaq4