Bubble dynamics in double-stranded DNA

被引：74

作者：

Altan-Bonnet, G

Libchaber, A

Krichevsky, O

机构：

[1] Rockefeller Univ, Ctr Studies Phys & Biol, New York, NY 10021 USA

[2] Ben Gurion Univ Negev, Dept Phys, IL-84105 Beer Sheva, Israel

来源：

PHYSICAL REVIEW LETTERS | 2003年 / 90卷 / 13期

关键词：

D O I：

10.1103/PhysRevLEtt.90.138101

中图分类号：

O4 [物理学];

学科分类号：

0702 ;

摘要：

We report the first measurement of the dynamics of bubble formation in double-stranded DNA. Fluctuations of fluorescence of a synthetic DNA construct, internally tagged with a fluorophore and a quencher, are monitored by fluorescence correlation spectroscopy. The relaxation dynamics follow a multistate relaxation kinetics, with a characteristic time scale of 50 mus. A simple model of bubble dynamics based on constant zipping-unzipping rates is proposed to account for our experimental data. The role of different secondary structures stabilizing the open bubble is tested.

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页数：4

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共 19 条

[11] Why is the DNA denaturation transition first order? [J].

Kafri, Y ;

Mukamel, D ;

Peliti, L .

PHYSICAL REVIEW LETTERS, 2000, 85 (23) :4988-4991

[12]

KORNBERG A, 1992, DNA REPLICATION

[13] RecA binding to a single double-stranded DNA molecule: A possible role of DNA conformational fluctuations [J].

Leger, JF ;

Robert, J ;

Bourdieu, L ;

Chatenay, D ;

Marko, JF .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1998, 95 (21) :12295-12299

[14] THERMODYNAMIC FLUCTUATIONS IN A REACTING SYSTEM - MEASUREMENT BY FLUORESCENCE CORRELATION SPECTROSCOPY [J].

MAGDE, D ;

WEBB, WW ;

ELSON, E .

PHYSICAL REVIEW LETTERS, 1972, 29 (11) :705-&

[15] Using DNA to probe nonlinear localized excitations? [J].

Peyrard, M .

EUROPHYSICS LETTERS, 1998, 44 (03) :271-277

[16]

RIGLER R, 1993, EUR BIOPHYS J BIOPHY, V22, P169, DOI 10.1007/BF00185777

[17] A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics [J].

SantaLucia, J .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1998, 95 (04) :1460-1465

[18] SYNTHESIS AND CHARACTERIZATION OF DNA OLIGOMERS AND DUPLEXES CONTAINING COVALENTLY ATTACHED MOLECULAR LABELS - COMPARISON OF BIOTIN, FLUORESCEIN, AND PYRENE LABELS BY THERMODYNAMIC AND OPTICAL SPECTROSCOPIC MEASUREMENTS [J].

TELSER, J ;

CRUICKSHANK, KA ;

MORRISON, LE ;

NETZEL, TL .

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 1989, 111 (18) :6966-6976

[19] Molecular beacons: Probes that fluoresce upon hybridization [J].

Tyagi, S ;

Kramer, FR .

NATURE BIOTECHNOLOGY, 1996, 14 (03) :303-308