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Transcriptional Regulation in Archaea: From Individual Genes to Global Regulatory Networks.

Publication ,  Journal Article
Martinez-Pastor, M; Tonner, PD; Darnell, CL; Schmid, AK
Published in: Annual review of genetics
November 2017

Archaea are major contributors to biogeochemical cycles, possess unique metabolic capabilities, and resist extreme stress. To regulate the expression of genes encoding these unique programs, archaeal cells use gene regulatory networks (GRNs) composed of transcription factor proteins and their target genes. Recent developments in genetics, genomics, and computational methods used with archaeal model organisms have enabled the mapping and prediction of global GRN structures. Experimental tests of these predictions have revealed the dynamical function of GRNs in response to environmental variation. Here, we review recent progress made in this area, from investigating the mechanisms of transcriptional regulation of individual genes to small-scale subnetworks and genome-wide global networks. At each level, archaeal GRNs consist of a hybrid of bacterial, eukaryotic, and uniquely archaeal mechanisms. We discuss this theme from the perspective of the role of individual transcription factors in genome-wide regulation, how these proteins interact to compile GRN topological structures, and how these topologies lead to emergent, high-level GRN functions. We conclude by discussing how systems biology approaches are a fruitful avenue for addressing remaining challenges, such as discovering gene function and the evolution of GRNs.

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Published In

Annual review of genetics

DOI

EISSN

1545-2948

ISSN

0066-4197

Publication Date

November 2017

Volume

51

Start / End Page

143 / 170

Related Subject Headings

  • Transcription, Genetic
  • Transcription Factors
  • Systems Biology
  • Stress, Physiological
  • Metabolic Networks and Pathways
  • Genome, Archaeal
  • Gene-Environment Interaction
  • Gene Regulatory Networks
  • Gene Expression Regulation, Archaeal
  • Developmental Biology
 

Citation

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Martinez-Pastor, M., Tonner, P. D., Darnell, C. L., & Schmid, A. K. (2017). Transcriptional Regulation in Archaea: From Individual Genes to Global Regulatory Networks. Annual Review of Genetics, 51, 143–170. https://doi.org/10.1146/annurev-genet-120116-023413
Martinez-Pastor, Mar, Peter D. Tonner, Cynthia L. Darnell, and Amy K. Schmid. “Transcriptional Regulation in Archaea: From Individual Genes to Global Regulatory Networks.Annual Review of Genetics 51 (November 2017): 143–70. https://doi.org/10.1146/annurev-genet-120116-023413.
Martinez-Pastor M, Tonner PD, Darnell CL, Schmid AK. Transcriptional Regulation in Archaea: From Individual Genes to Global Regulatory Networks. Annual review of genetics. 2017 Nov;51:143–70.
Martinez-Pastor, Mar, et al. “Transcriptional Regulation in Archaea: From Individual Genes to Global Regulatory Networks.Annual Review of Genetics, vol. 51, Nov. 2017, pp. 143–70. Epmc, doi:10.1146/annurev-genet-120116-023413.
Martinez-Pastor M, Tonner PD, Darnell CL, Schmid AK. Transcriptional Regulation in Archaea: From Individual Genes to Global Regulatory Networks. Annual review of genetics. 2017 Nov;51:143–170.

Published In

Annual review of genetics

DOI

EISSN

1545-2948

ISSN

0066-4197

Publication Date

November 2017

Volume

51

Start / End Page

143 / 170

Related Subject Headings

  • Transcription, Genetic
  • Transcription Factors
  • Systems Biology
  • Stress, Physiological
  • Metabolic Networks and Pathways
  • Genome, Archaeal
  • Gene-Environment Interaction
  • Gene Regulatory Networks
  • Gene Expression Regulation, Archaeal
  • Developmental Biology