Programming an in vitro DNA oscillator using a molecular networking strategy

Abstract

Since the publication of the above paper, the authors have noticed an error in the citation of one of the figures. On page 5, in the first paragraph of the right-hand column, the fifth sentence should read as follows:'This created a slightly more complex, but also more realistic model, whose final parameters were optimized by fitting, simultaneously, all the data in Figure 2.'The authors also noticed an error in Figure 2A, where, in the upper part of the schematic called T1, both instances of b should read as a. The corrected figure is shown below.The authors apologise for these errors.

Molecular Building Blocks and Their Architecture in Biologically/Environmentally Compatible Soft Matter Chemical Machinery

“…For the generation of oscillation, a negative feedback reaction that includes generation and degradation of RNA is essential. Similar DNA/RNA-based systems have been reported by several research groups 99,100 .…”

Enzyme-free nucleic acid dynamical systems

“…Since the discovery of well-mixed chemical oscillators (1,2), synthetic reaction networks with complex temporal dynamics have been engineered based on small-molecule interactions, such as redox chemistries (3). More recently, the information-based chemistry underlying the central dogma of molecular biology has been used to create a variety of dynamical systems, such as bistable switches and oscillators in living cells (4)(5)(6)(7) and in simplified cell-free systems (8)(9)(10)(11)(12)(13)(14) that involve a limited number of enzymes. However, the range of dynamical behaviors demonstrated by synthetic systems does not yet approach the complexity and sophistication of biological circuits (15,16).…”

Rational design of functional and tunable oscillating enzymatic networks

“…In recent years it has become possible to design synthetic gene networks to control some of the fundamental properties of living systems 8,9 , but to create synthetic dynamic molecular systems that capture the extraordinary richness in behaviour displayed by living cells remains a major challenge. Significant efforts have been made in applying the principal regulatory motifs of biochemical reaction networks to dissipative systems based on DNA replication and transcription [10][11][12][13][14] . Complex spatiotemporal pattern formation has been observed in the classic example of Belousov-Zhabotinsky (BZ) oscillations 15 and, together with related CRNs, these have been harnessed into a rich variety of self-organizing systems [16][17][18][19] .…”