Separation of DNA by length in rotational flow: Lattice-Boltzmann-based simulations

Biomicrofluidics
Faihan AlfahaniJennifer Kreft Pearce

Abstract

We use a lattice-Boltzmann based Brownian dynamics simulation to investigate the separation of different lengths of DNA through the combination of a trapping force and the microflow created by counter-rotating vortices. We can separate most long DNA molecules from shorter chains that have lengths differing by as little as 30%. The sensitivity of this technique is determined by the flow rate, size of the trapping region, and the trapping strength. We expect that this technique can be used in microfluidic devices to separate long DNA fragments that result from techniques such as restriction enzyme digests of genomic DNA.

References

Apr 1, 1984·Proceedings of the National Academy of Sciences of the United States of America·G M Church, W Gilbert
Sep 5, 2002·Electrophoresis·Charles L AsburyGer van den Engh
Aug 9, 2003·Physical Review Letters·Richard M JendrejackJuan J de Pablo
Jun 24, 2004·Proceedings of the National Academy of Sciences of the United States of America·Philippe Marmottant, Sascha Hilgenfeldt
Apr 20, 2005·The Journal of Chemical Physics·O Berk UstaJason E Butler
Oct 13, 2007·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·Jennifer Kreft, Yeng-Long Chen
Mar 5, 2008·The Journal of Chemical Physics·Aslin IzmitliJuan J de Pablo
Jun 4, 2008·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·Jennifer KreftHsueh-Chia Chang
Sep 4, 2008·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·Nobuhiko WatariRonald G Larson
Oct 15, 2008·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·Maria FytaEfthimios Kaxiras
Sep 28, 2010·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·Shui-Jin LiuHsueh-Chia Chang
Jun 5, 2012·Biomicrofluidics·Cheng WangSascha Hilgenfeldt
Jan 10, 2014·Biomicrofluidics·A KarimiA M Ardekani
Aug 20, 2014·Biomedical Optics Express·Jung-Dae Kim, Yong-Gu Lee

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