Gel electrophoresis of an end-labeled DNA. I. Dynamics and trapping in constant fields

Electrophoresis
A D Défontaines, J L Viovy

Abstract

A theory for the gel electrophoresis of a flexible polyelectrolyte, bearing an uncharged bulky label or an uncharged section at one end, is presented. We first consider a gel that is fully permeable to the label: we calculate the degree of stretching of the polyelectrolyte and its mobility as a function of chain size, electric field and label friction. Various regimes are identified, and their "existence domains" are calculated. For increasing friction, we predict a transition from a mobility decreasing with chain size to a mobility increasing with chain size. Secondly, we consider the possibility that the label may get trapped at some locations of the gel, a situation relevant to a method of "trapping electrophoresis" recently proposed by Ulanovsky et al. for DNA sequencing. A molecular model for detrapping by thermally activated "backward reptation" is constructed and solved using the Kramers rate-equation theory. Different closed analytical expressions and approximate scaling laws corresponding to different regimes of stretching and field strengths are predicted. The most striking result is a mobility which exponentially decreases past a critical size Np*, which decreases with increasing field. In the regime relevant to the ...Continue Reading

References

Aug 1, 1992·Electrophoresis·G W Slater, G Drouin
Mar 25, 1992·Nucleic Acids Research·D J Thiele
May 25, 1992·Nucleic Acids Research·C Heller, S Beck
Jan 11, 1990·Nature·L UlanovskyW Gilbert
Jul 1, 1989·Journal of Biochemical and Biophysical Methods·P G Righetti
Aug 1, 1985·Biopolymers·O J LumpkinB H Zimm
Nov 1, 1982·Biopolymers·O J Lumpkin
Oct 15, 1989·Physical Review A: General Physics·P Déjardin
Jun 8, 1987·Physical Review Letters·J NoolandiM Lalande
Sep 14, 1987·Physical Review Letters·J M Deutsch
Oct 17, 1988·Physical Review Letters·M DoiJ Noolandi
Jun 12, 1989·Physical Review Letters·T A Duke

❮ Previous
Next ❯

Citations

Feb 1, 1994·Electrophoresis·A D Défontaines, J L Viovy
Apr 1, 1996·Electrophoresis·C Desruisseaux, G W Slater
Jun 1, 1996·Electrophoresis·T B Kist
Jun 1, 1997·Electrophoresis·R CharlionetJ J Malandain
Aug 27, 1998·Electrophoresis·G W SlaterG Drouin
Sep 3, 1998·Biophysical Journal·C DesruisseauxT B Kist
Feb 10, 1998·Electrophoresis·N J Dovichi
Oct 9, 2013·Biochimica Et Biophysica Acta·Katerina AfanasievaAndrei Sivolob
Feb 24, 2001·Electrophoresis·G W SlaterM P Pépin
Jun 3, 2008·Electrophoresis·Dammika P ManageChristopher J Backhouse
Nov 2, 2007·Chemical Reviews·Karel Kleparník, Petr Bocek
Apr 28, 1995·Journal of Chromatography. a·P SerwerG A Griess

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.