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E-GEOD-47201 - H. salinarum TrmB dynamics
Released on 7 August 2013, last updated on 12 August 2013
Halobacterium sp. NRC-1
Previous work characterized TrmB as a global glucose responsive metabolic transcription factor in archaeal extremophiles. However, it remains unclear how TrmB dynamically regulates its ~100 metabolic enzyme-coding genes. Using a dynamic perturbation approach, we elucidate the topology of the metabolic GRN in Halobacterium salinarum. We assayed gene expression in a wild-type and trmB knockout strain before and immedeatly following glucose perturbation. Clustering dynamic gene expression patterns reveals that TrmB functions alone to regulate central metabolic enzyme-coding genes, but cooperates with various regulators to control peripheral metabolic pathways. Gene expression of 100 genes was assayed in two strains - a wild-type and a trmB knockout. Two biological replicates of each strain were performed. Gene expression was assayed 240, 60, and 0 minutes prior to glucose addition and 5,10,20,45,90,180,360 minutes after.
Horia Todor <firstname.lastname@example.org>, Amy Schmid
Protein-DNA binding dynamics predict transcriptional response to nutrients in archaea. Todor H, Sharma K, Pittman AM, Schmid AK. , PMID:23892291