A Two-Enzyme Adaptive Unit within Bacterial Folate Metabolism

Andrew F. Schober, Andrew D. Mathis, Christine Ingle, Junyoung O. Park, Li Chen, Joshua D. Rabinowitz, Ivan Junier, Olivier Rivoire, Kimberly A Reynolds

Research output: Contribution to journalArticle

Abstract

Enzyme function and evolution are influenced by the larger context of a metabolic pathway. Deleterious mutations or perturbations in one enzyme can often be compensated by mutations to others. We used comparative genomics and experiments to examine evolutionary interactions with the essential metabolic enzyme dihydrofolate reductase (DHFR). Analyses of synteny and co-occurrence across bacterial species indicate that DHFR is coupled to thymidylate synthase (TYMS) but relatively independent from the rest of folate metabolism. Using quantitative growth rate measurements and forward evolution in Escherichia coli, we demonstrate that the two enzymes adapt as a relatively independent unit in response to antibiotic stress. Metabolomic profiling revealed that TYMS activity must not exceed DHFR activity to prevent the depletion of reduced folates and the accumulation of the intermediate dihydrofolate. Comparative genomics analyses identified >200 gene pairs with similar statistical signatures of modular co-evolution, suggesting that cellular pathways may be decomposable into small adaptive units.

Original languageEnglish (US)
Pages (from-to)3359-3370.e7
JournalCell Reports
Volume27
Issue number11
DOIs
StatePublished - Jun 11 2019

Fingerprint

Folic Acid
Metabolism
Tetrahydrofolate Dehydrogenase
Thymidylate Synthase
Enzymes
Genomics
Synteny
Mutation
Metabolomics
Metabolic Networks and Pathways
Escherichia coli
Genes
Anti-Bacterial Agents
Growth
Experiments

Keywords

  • adaptive unit
  • co-evolution
  • comparative genomics
  • DHFR
  • dihydrofolate reductase
  • experimental evolution
  • folate metabolism
  • forward evolution
  • synteny
  • thymidylate synthase
  • trimethoprim
  • TYMS

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)

Cite this

Schober, A. F., Mathis, A. D., Ingle, C., Park, J. O., Chen, L., Rabinowitz, J. D., ... Reynolds, K. A. (2019). A Two-Enzyme Adaptive Unit within Bacterial Folate Metabolism. Cell Reports, 27(11), 3359-3370.e7. https://doi.org/10.1016/j.celrep.2019.05.030

A Two-Enzyme Adaptive Unit within Bacterial Folate Metabolism. / Schober, Andrew F.; Mathis, Andrew D.; Ingle, Christine; Park, Junyoung O.; Chen, Li; Rabinowitz, Joshua D.; Junier, Ivan; Rivoire, Olivier; Reynolds, Kimberly A.

In: Cell Reports, Vol. 27, No. 11, 11.06.2019, p. 3359-3370.e7.

Research output: Contribution to journalArticle

Schober, AF, Mathis, AD, Ingle, C, Park, JO, Chen, L, Rabinowitz, JD, Junier, I, Rivoire, O & Reynolds, KA 2019, 'A Two-Enzyme Adaptive Unit within Bacterial Folate Metabolism', Cell Reports, vol. 27, no. 11, pp. 3359-3370.e7. https://doi.org/10.1016/j.celrep.2019.05.030
Schober AF, Mathis AD, Ingle C, Park JO, Chen L, Rabinowitz JD et al. A Two-Enzyme Adaptive Unit within Bacterial Folate Metabolism. Cell Reports. 2019 Jun 11;27(11):3359-3370.e7. https://doi.org/10.1016/j.celrep.2019.05.030
Schober, Andrew F. ; Mathis, Andrew D. ; Ingle, Christine ; Park, Junyoung O. ; Chen, Li ; Rabinowitz, Joshua D. ; Junier, Ivan ; Rivoire, Olivier ; Reynolds, Kimberly A. / A Two-Enzyme Adaptive Unit within Bacterial Folate Metabolism. In: Cell Reports. 2019 ; Vol. 27, No. 11. pp. 3359-3370.e7.
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