Probing quantum coherence in a biological system by means of DNA amplification

Erhard Bieberich

Research output: Contribution to journalArticle

11 Citations (Scopus)

Abstract

As a result of rapid decoherence, quantum effects in biological systems are usually confined to single electron or hydrogen delocalizations. In principle, molecular interactions at high temperatures can be guided by quantum coherence if embedded in a dynamics preventing decoherence. This was experimentally investigated by analyzing the thermodynamics, kinetics, and quantum mechanics of the primer/template duplex formation during DNA amplification by polymerase chain reaction. The structures of the two oligonucleotide primers used for amplification of a cDNA template were derived either from a repetitive motif or a fractal distribution of nucleotide residues. Contrary to the computer-based calculation of the primer melting temperatures (T(m)) that predicted a higher T(m) for the non-fractal primer due to nearest-neighbor effects, it was found that the T(m) of the non-fractal primer was actually 2°C lower than that of its fractal counterpart. A thermodynamic analysis of the amplification reaction indicated that the primer annealing process followed Bose-Einstein instead of Boltzmann statistics, with an additional binding potential of μ = 500 J/mol or 10- 21 J/molecule due to a superposition of binding states within the primer/template duplex. The temporal evolution of the Bose-Einstein state was determined by enzyme kinetic analysis of the association of the primer/template duplex to Taq polymerase. Assuming that collision with the enzyme interrupted the superposition, it was found that the Bose-Einstein state lasted for t(dec) = 0.7 x 10-12 s, corresponding to the energy dispersion (ΔE) of quantum coherent states (μ = ΔE ≥ h/t(dec)). A quantum mechanical analysis revealed that the coherent state was stabilized by almost vanishing separation energies between distinct binding states during a temperature-driven shifting of the two DNA strands in the primer/template duplex. The additional binding potential is suggested to arise from a short- lived electron tunneling as the result of overlapping orbitals along the axis of the primer/template duplex. This effect was unique to the fractal primer due to the number of binding states that remained almost constant, irrespective of the size of shifting. It is suggested that fractal structures found in proteins or other macromolecules may facilitate a short-lived quantum coherent superposition of binding states. This may stabilize molecular complexes for rapid sorting of correct-from-false binding, e.g. during folding or association of macromolecules. The experimental model described in this paper provides a low-cost tool for simulating and probing quantum coherence in a biological system. (C) 2000 Elsevier Science Ireland Ltd.

Original languageEnglish (US)
Pages (from-to)109-124
Number of pages16
JournalBioSystems
Volume57
Issue number2
DOIs
StatePublished - Jul 1 2000

Fingerprint

Biological systems
Fractals
Biological Systems
Amplification
DNA
Template
Temperature
Macromolecules
Thermodynamics
Albert Einstein
Superposition
Fractal
Taq Polymerase
Decoherence
Enzyme kinetics
DNA Primers
Electron tunneling
Coherent States
Molecular interactions
Oligonucleotides

Keywords

  • Enzyme kinetics
  • Fractal
  • Polymerase chain reaction
  • Quantum biology
  • Quantum mechanics
  • Thermodynamics

ASJC Scopus subject areas

  • Statistics and Probability
  • Modeling and Simulation
  • Biochemistry, Genetics and Molecular Biology(all)
  • Applied Mathematics

Cite this

Probing quantum coherence in a biological system by means of DNA amplification. / Bieberich, Erhard.

In: BioSystems, Vol. 57, No. 2, 01.07.2000, p. 109-124.

Research output: Contribution to journalArticle

Bieberich, Erhard. / Probing quantum coherence in a biological system by means of DNA amplification. In: BioSystems. 2000 ; Vol. 57, No. 2. pp. 109-124.
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