Electronic Transport and Thermopower in Aperiodic Dna Sequences

Roche, Stephan; Maciá, Enrique

doi:10.1142/s021798490400744x

Cited by 46 publications

(53 citation statements)

References 36 publications

(46 reference statements)

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“…To explain long range charge transport found experimentally, 2 several authors considered spatial correlations of the nucleobasis along the DNA molecule. [3][4][5][6][7][8] Those models are based on the fact that random sequences, having a power-law spectral density S͑k͒ϳ1/k ␣ with ␣ Ͼ 0, result in a phase of extended states at the band center, provided ␣ is larger than a critical value ␣ c . [9][10][11][12] As a consequence, long range charge transport might be feasible even at very low temperature, provided the chemical potential lies within the band of extended states.…”

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confidence: 99%

Absence of extended states in a ladder model of DNA

Díaz

Sedrakyan

et al. 2007

Phys. Rev. B

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We consider a ladder model of DNA for describing carrier transport in a fully coherent regime through finite segments. A single orbital is associated to each base, and both interstrand and intrastrand overlaps are considered within the nearest-neighbor approximation. Conduction through the sugar-phosphate backbone is neglected. We study analytically and numerically the spatial extend of the corresponding states by means of the Landauer and Lyapunov exponents. We conclude that intrinsic-DNA correlations, arising from the natural base pairing, does not suffice to observe extended states, in contrast to previous claims.

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confidence: 99%

Absence of extended states in a ladder model of DNA

Díaz

Sedrakyan

et al. 2007

Phys. Rev. B

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“…The site energies are [16]: ε A = 8.24 eV, ε T = 9.14 eV, ε C = 8.87 eV and ε G = 7.75 eV. Hopping parameters describes the π-π orbitals interactions between base pairs.…”

Section: Resultsmentioning

confidence: 99%

Delocalized states in damaged DNA

Caetano

Schulz

2006

Braz. J. Phys.

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“…In fact, the main effect of quasiperiodic order in Fibonacci DNA is the emergence of a highly fragmented energy spectrum, introducing a characteristic low-energy scale in the electronic structure of aperiodic DNA chains [24]. Nevertheless, this scenario must be refined in order to take into account correlation effects among nucleotides reported in biological DNA samples, since these correlations can enhance charge transport via resonant effects [25,26]. Besides its fundamental importance for the progress of biological condensed-matter theory, several properties of biological interest may be directly related to the presence of sequence correlations in genomic DNA, including gene regulation, cell division, or damage recognition processes due to DNA-mediated charge migration.…”

Section: Helical Geometry and Dynamical Effectsmentioning

confidence: 99%

Charge transfer in DNA: effective Hamiltonian approaches

Maciá¹

2009

Zeitschrift Für Kristallographie - Crystalline Materials

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Abstract. Aperiodic order plays a very significant role in biology, as it determines most informative content of genomes. Amongst the various physical, chemical or biological phenomena that might be inferred from sequence correlations, charge transfer properties deserve particular attention. Indeed, the nature of DNA-mediated charge migration has been related to the understanding of damage recognition process, protein binding, or with the task of engineering biological processes (e.g. designing nanoscale sensing of genomic mutations), opening new challenges for emerging nanobiotechnologies. Nevertheless, the solution of Schrö-dinger's equation with a potential that is given by a onedimensional array of the double-stranded DNA remains as a main open theme in solid state physics of biological macromolecules. In this contribution, I will shortly review several approaches introduced during the last few years in order to describe charge transfer migration in DNA in terms of tightbinding effective Hamiltonians. Conceptual and physical motivationsDuring the 1930s, DNA was considered to be merely a tetranucleotide composed of one unit each of deoxyadenylic, -guanilyc, -thymidylic, and -cytidilic acids (the particular order of appearance of each of these bases being considered as irrelevant). Even when it was subsequently realized that the molecular weight of DNA is actually much higher, it was still widely believed that the tetranucleotide unit was the basic repeating building block of the large DNA polymer, in which the four different kinds of nucleotides recur in periodic sequence i.e., (GACT) n [1]. Thus, DNA was originally viewed as a trivially periodic macromolecule, unable to store the amount of information required for the governance of cell function. The mystery of the nature of the genetic material attracted some physicists to genetics. Thus, Schrödinger suggested that a gene consists of a long sequence of a few repeating elements exhibiting a well defined order without the recourse of periodic repetition, and illustrated the vast combinatorial possibilities of such a structure. In this way, the notion of a one-dimensional aperiodic solid was introduced [2], and we can consider Schrödinger was the first person to put forward the notion of a linear genetic code [1]. Hence, Schrödinger's proposal of considering DNA as a one-dimensional aperiodic chain, with four different nucleotides arranged in a way able to store the required genetic information was progressively incorporated into dominant biophysical thinking. In fact, when macromolecules of biological interest are considered from the viewpoint of condensed matter physics, a fundamental question naturally arises regarding the potential role of certain physical properties on their biological functions. In particular, the role of charge migration in DNA mutation repair has been extensively discussed during the last decade, and the possible existence of correlation effects in electrical conductivity due to the presence of long-range spatial correlations in DNA ha...

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Electronic Transport and Thermopower in Aperiodic Dna Sequences

Cited by 46 publications

References 36 publications

Absence of extended states in a ladder model of DNA

Absence of extended states in a ladder model of DNA

Delocalized states in damaged DNA

Charge transfer in DNA: effective Hamiltonian approaches

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