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H. salinarum NRC-1 vs TFB knockouts and synthetic TFB constructs

ABSTRACT: Numerous lineage-specific expansions of the transcription factor B (TFB) family in archaea suggests an important role for expanded TFBs in encoding environment-specific gene regulatory programs. Given the characteristics of hypersaline lakes the unusually large numbers of TFBs in halophilic archaea further suggests that they might be especially important in rapid adaptation to the challenges of a dynamically changing environment. Motivated by these observations we have investigated the implications of TFB expansions by correlating sequence variations, regulation, and physical interactions of all seven TFBs in Halobacterium salinarum NRC-1 to their fitness landscapes, functional hierarchies, and genetic interactions across 2,488 experiments covering combinatorial variations in salt, pH, temperature, and Cu-stress. This systems analysis has revealed an elegant scheme in which completely novel fitness landscapes are generated by gene conversion events that introduce subtle changes to the regulation or physical interactions of duplicated TFBs. Based on these insights we have introduced a synthetically redesigned TFB and altered the regulation of existing TFBs to illustrate how archaea can rapidly generate novel phenotypes by simply reprogramming their TFB regulatory network. The purpose of this gene expression study was to show that reprogrammed synthetic TFB (TFBx) variants are rewired into the gene regulatory network and create global transcriptional changes.

ORGANISM(S): Halobacterium salinarum NRC-1

PROVIDER: GSE31308 | GEO | 2011/08/15

SECONDARY ACCESSION(S): PRJNA146103

REPOSITORIES: GEO

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