The free solution mobility of DNA

Stellwagen, Nancy C.; Gelfi, Cecilia; Righetti, Pier Giorgio

doi:10.1002/(sici)1097-0282(199711)42:6<687::aid-bip7>3.0.co;2-q

Cited by 308 publications

(399 citation statements)

References 51 publications

(30 reference statements)

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“…The underlying physics associated with the electrode capture process can be better understood by considering the relative influence of electrophoretic and electroosmotic effects. An estimate of a characteristic electrophoretic migration velocity (u EP ) can be obtained from the free solution mobility of doublestranded DNA [ 0 Ϸ 4.5 ϫ 10 Ϫ4 cm 2 ͞V⅐s in TBE buffer (36)] and the electric field strength (E Ϸ 40 V͞cm), yielding a velocity of u EP ϭ 0 ⅐E Ϸ 180 m͞s. Although this calculation is not expected to provide an exact representation of the observed migration velocities owing to the range of different buffer compositions studied, it nevertheless provides a useful order of magnitude estimate.…”

Section: Resultsmentioning

confidence: 98%

Collection, focusing, and metering of DNA in microchannels using addressable electrode arrays for portable low-power bioanalysis

Shaikh

Ugaz

2006

Proc. Natl. Acad. Sci. U.S.A.

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Although advances in microfluidic technology have enabled increasingly sophisticated biosensing and bioassay operations to be performed at the microscale, many of these applications employ such small amounts of charged biomolecules (DNA, proteins, and peptides) that they must first be preconcentrated to a detectable level. Efficient strategies for precisely handling minute quantities of biomolecules in microchannel geometries are critically needed; however, it has proven challenging to achieve simultaneous concentration, focusing, and metering capabilities with current-generation sample-injection technology. By using microfluidic chips incorporating arrays of individually addressable microfabricated electrodes, we demonstrate that DNA can be sequentially concentrated, focused into a narrow zone, metered, and injected into an analysis channel. This technique transports charged biomolecules between active electrodes upon application of a small potential difference (1 V) and is capable of achieving orders of magnitude concentration increases within a small device footprint. The collected samples are highly focused, with sample zone size and shape defined solely by electrode geometry.sample injection ͉ microfabrication ͉ microfluidics ͉ lab on a chip

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Section: Resultsmentioning

confidence: 98%

Collection, focusing, and metering of DNA in microchannels using addressable electrode arrays for portable low-power bioanalysis

Shaikh

Ugaz

2006

Proc. Natl. Acad. Sci. U.S.A.

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“…First, we note that the mobility of dsDNA in bulk electrolyte is almost three times higher than for fd (m DNA ¼ 3.75 Â 10 À 4 (ref. 34) versus m fd ¼ 1.3 Â 10 À 4 cm 2 V À 1 s À 1 (ref. 35), respectively).…”

Section: Resultsmentioning

confidence: 99%

Stiff filamentous virus translocations through solid-state nanopores

et al. 2014

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The ionic conductance through a nanometer-sized pore in a membrane changes when a biopolymer slides through it, making nanopores sensitive to single molecules in solution. Their possible use for sequencing has motivated numerous studies on how DNA, a semiflexible polymer, translocates nanopores. Here we study voltage-driven dynamics of the stiff filamentous virus fd with experiments and simulations to investigate the basic physics of polymer translocations. We find that the electric field distribution aligns an approaching fd with the nanopore, promoting its capture, but it also pulls fd sideways against the membrane after failed translocation attempts until thermal fluctuations reorient the virus for translocation. fd is too stiff to translocate in folded configurations. It therefore translocates linearly, exhibiting a voltage-independent mobility and obeying first-passage-time statistics. Surprisingly, lengthwise Brownian motion only partially accounts for the translocation velocity fluctuations. We also observe a voltage-dependent contribution whose origin is only partially determined.

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“…In 1997 they confirmed that while the free solution mobility of DNA was independent of molecular mass from around 400 bp through to 48.5 kbp, for shorter fragments it decreased monotonically [102]. Recently, however, this group [103] performed capillary zone electrophoresis measurements of mobility wherein mobility markers were utilized to account for small EOF differences from run to run and thereby uncover very small variations in the mobility of various analytes.…”

Section: Small Dna Moleculesmentioning

confidence: 95%

Theory of DNA electrophoresis (∼ 1999 –2002 ½)

et al. 2002

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Over the last two decades, the introduction of new methods such as pulsed-field gel electrophoresis and capillary array electrophoresis has made it possible to map and sequence entire genomes, including our own. The development of these experimental methods has been helped by the progress of theoretical and computational sciences, and the interactions between these three modi operandi of modern science are still pushing the limits of our technologies. We now see a clear trend towards proteomics and microfluidic (even nanofluidic!) devices. In this review, we take a look at the progress of the field over the last 3 years using the glasses of the theoretical scientist and focusing mostly on new ideas and concepts. About a dozen different subfields are discussed and reviewed. We conclude by giving a commented list of some of the best review articles published over the last 2-3 years.

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The free solution mobility of DNA

Cited by 308 publications

References 51 publications

Collection, focusing, and metering of DNA in microchannels using addressable electrode arrays for portable low-power bioanalysis

Collection, focusing, and metering of DNA in microchannels using addressable electrode arrays for portable low-power bioanalysis

Stiff filamentous virus translocations through solid-state nanopores

Theory of DNA electrophoresis (∼ 1999 –2002 ½)

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