Abstract
Double-stranded DNA molecules are occasionally found that appear to be straightened and stretched in atomic force microscope (AFM) images. Usually pBS+ plasmid and lambda DNA show relaxed structures with bends and kinks along the strands and have measured contour lengths consistent to about 5-7%; they also appear not to cross over each other, except in very high concentrations. The anomalous molecules observed here, compared with the majority of molecules in the preparation, show contour lengths increased by as much as 80% and have measured heights of about half that of normal relaxed DNA. Some molecules also appear to be in transition between stretched and relaxed forms. These observations are consistent with an uncoiling of the DNA helix without breakage of the covalent bonds in the deoxyribose-phosphate backbone.
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- Allen M. J., Hud N. V., Balooch M., Tench R. J., Siekhaus W. J., Balhorn R. Tip-radius-induced artifacts in AFM images of protamine-complexed DNA fibers. Ultramicroscopy. 1992 Jul;42-44(Pt B):1095–1100. doi: 10.1016/0304-3991(92)90408-c. [DOI] [PubMed] [Google Scholar]
- Bustamante C., Vesenka J., Tang C. L., Rees W., Guthold M., Keller R. Circular DNA molecules imaged in air by scanning force microscopy. Biochemistry. 1992 Jan 14;31(1):22–26. doi: 10.1021/bi00116a005. [DOI] [PubMed] [Google Scholar]
- Hansma H. G., Bezanilla M., Zenhausern F., Adrian M., Sinsheimer R. L. Atomic force microscopy of DNA in aqueous solutions. Nucleic Acids Res. 1993 Feb 11;21(3):505–512. doi: 10.1093/nar/21.3.505. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Hansma H. G., Vesenka J., Siegerist C., Kelderman G., Morrett H., Sinsheimer R. L., Elings V., Bustamante C., Hansma P. K. Reproducible imaging and dissection of plasmid DNA under liquid with the atomic force microscope. Science. 1992 May 22;256(5060):1180–1184. doi: 10.1126/science.256.5060.1180. [DOI] [PubMed] [Google Scholar]
- Henderson E. Imaging and nanodissection of individual supercoiled plasmids by atomic force microscopy. Nucleic Acids Res. 1992 Feb 11;20(3):445–447. doi: 10.1093/nar/20.3.445. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Lyubchenko Y. L., Jacobs B. L., Lindsay S. M. Atomic force microscopy of reovirus dsRNA: a routine technique for length measurements. Nucleic Acids Res. 1992 Aug 11;20(15):3983–3986. doi: 10.1093/nar/20.15.3983. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Lyubchenko Y. L., Oden P. I., Lampner D., Lindsay S. M., Dunker K. A. Atomic force microscopy of DNA and bacteriophage in air, water and propanol: the role of adhesion forces. Nucleic Acids Res. 1993 Mar 11;21(5):1117–1123. doi: 10.1093/nar/21.5.1117. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Shaiu W. L., Larson D. D., Vesenka J., Henderson E. Atomic force microscopy of oriented linear DNA molecules labeled with 5nm gold spheres. Nucleic Acids Res. 1993 Jan 11;21(1):99–103. doi: 10.1093/nar/21.1.99. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Smith S. B., Finzi L., Bustamante C. Direct mechanical measurements of the elasticity of single DNA molecules by using magnetic beads. Science. 1992 Nov 13;258(5085):1122–1126. doi: 10.1126/science.1439819. [DOI] [PubMed] [Google Scholar]
- Thundat T., Allison D. P., Warmack R. J., Brown G. M., Jacobson K. B., Schrick J. J., Ferrell T. L. Atomic force microscopy of DNA on mica and chemically modified mica. Scanning Microsc. 1992 Dec;6(4):911–918. [PubMed] [Google Scholar]
- Thundat T., Allison D. P., Warmack R. J., Ferrell T. L. Imaging isolated strands of DNA molecules by atomic force microscopy. Ultramicroscopy. 1992 Jul;42-44(Pt B):1101–1106. doi: 10.1016/0304-3991(92)90409-d. [DOI] [PubMed] [Google Scholar]
- Vesenka J., Guthold M., Tang C. L., Keller D., Delaine E., Bustamante C. Substrate preparation for reliable imaging of DNA molecules with the scanning force microscope. Ultramicroscopy. 1992 Jul;42-44(Pt B):1243–1249. doi: 10.1016/0304-3991(92)90430-r. [DOI] [PubMed] [Google Scholar]
- Vesenka J., Manne S., Yang G., Bustamante C. J., Henderson E. Humidity effects on atomic force microscopy of gold-labeled DNA on mica. Scanning Microsc. 1993 Sep;7(3):781–788. [PubMed] [Google Scholar]
- Yang J., Shao Z. Effect of probe force on the resolution of atomic force microscopy of DNA. Ultramicroscopy. 1993 Jul;50(2):157–170. doi: 10.1016/0304-3991(93)90006-j. [DOI] [PubMed] [Google Scholar]
- Zenhausern F., Adrian M., ten Heggeler-Bordier B., Emch R., Jobin M., Taborelli M., Descouts P. Imaging of DNA by scanning force microscopy. J Struct Biol. 1992 Jan-Feb;108(1):69–73. doi: 10.1016/1047-8477(92)90008-x. [DOI] [PubMed] [Google Scholar]