Capillary electrophoresis of DNA in uncrosslinked polymer solutions: Evidence for a new mechanism of DNA separation

Biotechnology and Bioengineering

Volumn 52, Issue 2, 1996, Pages 259-270

  Barron, Annelise E ^a   Sunada, Wade M ^a   Blanch, Harvey W ^a  

^a University of California   (United States)

Author keywords

capillary electrophoresis of DNA

Indexed keywords

CAPILLARY TUBES; CELLULOSE; DNA; FUSED SILICA; POLYAMIDES; SOLUTIONS;

AGAROSE; CAPILLARY ELECTROPHORESIS; DNA RESTRICTION FRAGMENTS; HYDROXYETHYL CELLULOSE POLYMERS; MICROBORE FUSED SILICA CAPILLARY; POLYACRYLAMIDE GEL; TRANSIENT ENTANGLEMENT COUPLING MECHANISM; UNCROSSLINKED POLYMER SOLUTION;

ELECTROPHORESIS;

HYDROXYETHYLCELLULOSE;

CAPILLARY ELECTROPHORESIS; CONFERENCE PAPER; DNA CROSS LINKING; DNA DEGRADATION; DNA DETERMINATION; DNA POLYMORPHISM; MOLECULAR MODEL; POLYMERIZATION;

EID: 10144262542     PISSN: 00063592     EISSN: None     Source Type: Journal    
DOI: 10.1002/(sici)1097-0290(19961020)52:2<259::aid-bit7>3.3.co;2-%23     Document Type: Conference Paper

References (56)

1. Adamson, A. W. 1990. Physical chemistry of surfaces, 4th. edition. Wiley, New York.
2. Albin, M., Chen, S.-M., Louie, A., Pairaud, C., Colburn, J., Wiktorowicz, J. 1992. The use of capillary electrophoresis in a micropreparative mode: Methods and applications. Anal. Biochem. 206: 382-388.
3. Altria, K. D., Dave, Y. K. 1993. Peak homogeneity determination and micro-preparative fraction collection by capillary electrophoresis for pharmaceutical analysis. J. Chromatogr. 633: 221-225.
4. Bae, Y. C., Soane, D. S. 1993. Polymeric separation media for electrophoresis: Crosslinked systems or entangled solutions? J. Chromatogr. 652: 17-22.
5. Barnes, H. A., Hutton, J. F., Walters, K. 1989. An introduction to rheology. Elsevier, Amsterdam.
6. Barron, A. E., Blanch, H. W., Soane, D. S., 1994. A transient entanglement coupling mechanism for DNA separation by capillary electrophoresis in ultradilute polymer solutions. Electrophoresis 15: 597-615.
7. Barron, A. E., Soane, D. S., Blanch, H. W. 1993. Capillary electrophoresis of DNA in uncrosslinked polymer solutions. J. Chromatogr. 652: 3-16.
8. Barron, A. E., Sunada, W. M., Blanch, H. W. 1995. The use of coated and uncoated capillaries for the separation of DNA by capillary electrophoresis in dilute polymer solutions. Electrophoresis 16: 64-74.
9. Bode, H.-J. 1976. SDS-polyethyleneglycol electrophoresis: A possible alternative to SDS-polyacrylamide gel electrophoresis. FEBS Lett. 65: 56-58.
10. Bode, H.-J. 1979. A viscosity model of polyacrylamide gel electrophoresis. Z. Naturforschung 34c: 512-528.
11. Brown, W. 1961. Hydroxyethyl cellulose: A study of its macromolecular properties in solution. Arkiv Kemi 18: 227-285.
12. Brumley, R. L. Jr., Smith, L. M. 1991. Rapid DNA sequencing by horizontal ultrathin gel electrophoresis. Nucl. Acids Res. 19: 4121-4126.
13. Bueche, F. 1962. Physical properties of polymers. Wiley, New York.
14. Cantor, C. R., Schimmel, P. R. 1980. Biophysical chemistry, Part III: The behavior of biological macromolecules. W. H. Freeman, New York.
15. Carson, S., Cohen, A. S., Belenkii, A., Ruiz-Martinez, M. C., Berka, J., Karger, B. L. 1993. DNA sequencing by capillary electrophoresis: Use of a two-laser-two-window intensified diode array detection system. Anal. Chem. 65: 3219-3226.
16. Chan, K. C., Whang, C.-W., Yeung, E. S. Y. 1993. Separation of DNA restriction fragments using capillary electrophoresis. J. Liq. Chromatogr. 16: 1941-1962.
17. Chin, A. M., Colbum, J. C. 1989. Counter-migration capillary electrophoresis (CMCE) in DNA restriction fragment analysis. Am. Biotech. Lab., News Ed. 7: 16-16.
18. Chrambach, A., Aldroubi, A. 1993. Relative efficiency of molecular sieving in solutions of four polymers. Electrophoresis 14: 18-22.
19. Chrambach, A., Rodbard, D. 1971. Polyacrylamide gel electrophoresis. Science 172: 440-451.
20. Clark, S. M., Mathies, R. A. 1993. High-speed parallel separation of DNA restriction fragments using capillary array electrophoresis. Anal. Biochem. 215: 163-170.
21. Cohen, A. S., Najarian, D. R., Paulus, A., Guttman, A., Smith, J. A., Karger, B. L. 1988. Rapid separation and purification of oligonucleotides by high-performance capillary gel electrophoresis. Proc. Natl. Acad. Sci. USA 85: 9660-9663.
22. Cohen, A. S., Najarian, D. R., Karger, B. L. 1990. Separation and analysis of DNA sequence reaction products by capillary gel electrophoresis. J. Chromatogr. 516: 49-60.
23. deGennes, P. G. 1979. Scaling concepts in polymer physics. Cornell University Press, Ithaca, NY.
24. Dolnik, V., Novotny, M. 1992. Capillary electrophoresis of DNA fragments in entangled polymer solutions: A study of separation variables. J. Microcol. Sep. 4: 515-519.
25. Drossman, H., Luckey, J. A., Kostichka, A. J., D'Cunha, J., Smith, L. M. 1990. High-speed separations of DNA sequencing reactions by capillary electrophoresis. Anal. Chem. 62: 900-903.
26. Fangman, W. L. 1978. Separation of very large DNA molecules by gel electrophoresis. Nucl. Acids Res. 5: 653-665.
27. Grossman, P. D., Colburn, J. 1992. Capillary electrophoresis: Theory and practice. Academic, San Diego.
28. Grossman, P. D., Soane, D. S. 1991. Capillary electrophoresis of DNA in entangled polymer solutions. J. Chromatogr. 559: 257-266.
29. Grossman, P. D., Colburn, J. C., Lauer, H. H. 1989. A semiempirical model for the electrophoretic mobilities of peptides in free-solution capillary electrophoresis. Anal. Biochem. 179: 28-33.
30. Guttman, A., Cohen, A. S., Heiger, D. N., Karger, B. L. 1990. Analytical and micropreparative ultrahigh resolution of oligonucleotides by polyacrylamide gel high-performance capillary electrophoresis. Anal. Chem. 62: 137-141.
31. Heiger, D. N., Cohen, A. S., Karger, B. L. 1990. Separation of DNA restriction fragments by high performance capillary electrophoresis with low and zero crosslinked polyacrylamide using continuous and pulsed electric fields. J, Chromatogr. 516: 33-48.
32. Hjertén, S. 1967. Free zone electrophoresis. Chromatogr. Rev. 9: 122.
33. Hjertén, S. 1985. High performance electrophoresis: Elimination of electroendoosmosis and solute adsorption. J. Chromatogr. 347: 191-198.
34. Kim, Y., Morris, M. D. 1994a. Pulsed field capillary electrophoresis of multikilobase length nucleic acids in dilute methyl cellulose solutions. Anal. Chem. 66: 3081-3085.
35. Kim, Y., Morris, M. D. 1994b. Rapid pulsed field capillary electrophoretic separation of megabase nucleic acids. Anal. Chem. 34: 784-786.
36. Liu, J., Dolnik, V., Hsieh, Y.-Z., Novotny, M. 1992. Experimental evaluation of the separation efficiency in capillary electrophoresis using open tubular and gel-filled columns. Anal. Chem. 64: 1328.
37. Lumpkin, O. J., Déjardin, P., Zimm, B. H. 1985. Theory of gel electrophoresis of DNA. Biopolymers 24: 1573-1593.
38. Mathies, R. A., Huang, X. C. 1992. Capillary array electrophoresis: An approach to high-speed, high-throughput DNA sequencing. Nature 359: 167-169.
39. Olivera, B. M., Baine, P., Davidson, N. 1964. Electrophoresis of the nucleic acids. Biopolymers 2: 245-257.
40. Pulyaeva, H., Wheeler, D., Garner, M. M., Chrambach, A. 1992. Molecular sieving of lambda phage DNA in polyacrylamide solutions as a function of the molecular weight of the polymer. Electrophoresis 13: 608-614.
41. Rodbard, D., Chrambach, A. 1970. Unified theory for gel electrophoresis and gel filtration. Proc. Nat. Acad. Sci. USA 65: 970-977.
42. Ruiz-Martinez, M. C., Berka, J., Belenkii, A., Foret, F., Miller, A. W., Karger, B. L. 1993. DNA sequencing by capillary electrophoresis with replaceable linear polyacrylamide and laser-induced fluorescence detection. Anal. Chem. 65: 2851-2858.
43. Schwartz, D. C., Cantor, C. R. 1984. Separation of yeast chromosomesized DNAs by pulsed field gradient gel electrophoresis. Cell 37: 67-75.
44. Shi, X., Hammond, R. W., Morris, M. D. 1995. DNA conformational dynamics in polymer solutions above and below the entanglement limit. Anal. Chem. 67: 1132-1138.
45. Slater, G. W., Noolandi, J. 1985. Prediction of chain elongation in the reptation theory of DNA gel electrophoresis. Biopolymers 24: 2181-2184.
46. Slater, G. W., Noolandi, J. 1989. The biased reptation model of DNA gel electrophoresis: Mobility vs. molecular size and gel concentration. Biopolymers 28: 1781-1791.
47. Strege, M., Lagu, A. 1991. Separation of DNA restriction fragments by capillary electrophoresis using coated fused silica capillaries. Anal. Chem. 63: 1233-1236.
48. Sudor, J., Novotny, M. V. 1994. Pulsed-field capillary electrophoresis: Optimizing separation parameters with model mixtures of sulfonated polystyrenes. Anal. Chem. 66: 2139-2147.
49. Swerdlow, H., Gesteland, R. 1990. Capillary gel electrophoresis for rapid, high resolution DNA sequencing. Nucl. Acids Res. 18: 1415-1419.
50. Tietz, D. 1988. Evaluation of mobility data obtained from gel electrophoresis: Strategies in the computation of particle and gel properties on the basis of the extended Ogston model. Adv. Electrophoresis 2: 109-164.
51. Ueno, K., Yeung, E. S. 1994. Simultaneous monitoring of DNA fragments separated by electrophoresis in a multiplexed array of 100 capillaries. Anal. Chem. 66: 1424-1431.
52. Viovy, J.-L., Duke, T. 1993. DNA electrophoresis in polymer solutions: Ogston sieving, reptation and constraint release. Electrophoresis 14: 322-329.
53. Viovy, J.-L., Rubinstein, M., Colby, R. 1991. Constraint release in polymer melts: Tube reorganization versus tube dilation. Macromolecules 24: 3587-3596.
54. Viovy, J. L., Duke, T., Caron, F. 1992. The physics of DNA electrophoresis. Contemp. Phys. 33: 25-40.
55. Yin, H. F., Lux, J. A., Schomburg, G. 1990. Production of polyacrylamide gel filled capillaries for capillary gel electrophoresis (CGE): Influence of capillary surface pretreatment on performance and stability. J. High Resol. Chromatogr. 13: 624-627.
56. Zhu, M., Hansen, D. L., Burd, S., Gannon, F. 1989. Factors affecting free zone electrophoresis and isoelectric focusing in capillary electrophoresis. J. Chromatogr. 480: 311-319.