Publication

Urea Facilitates the Translocation of Single-Stranded DNA and RNA Through the alpha-Hemolysin Nanopore

Japrung, D., Henricus, M., Li, QH., Maglia, G. & Bayley, H., 5-May-2010, In : Biophysical Journal. 98, 9, p. 1856-1863 8 p.

Research output: Contribution to journalArticleAcademicpeer-review

The staphylococcal a-hemolysin (alpha HL) protein nanopore is under investigation as a fast, cheap detector for nucleic acid analysis and sequencing. Although discrimination of all four bases of DNA by the alpha HL pore has been demonstrated, analysis of single-stranded DNAs and RNAs containing secondary structure mediated by basepairing is prevented because these nucleic acids cannot be translocated through the pore. Here, we show that a structured 95-nucleotide single-stranded DNA and its RNA equivalent are translocated through the alpha HL pore in the presence of 4 M urea, a concentration that denatures the secondary structure of the polynucleotides. The alpha HL pore is functional even in 7 M urea, and therefore it is easily stable enough for analyses of challenging DNA and RNA species.
Original languageEnglish
Pages (from-to)1856-1863
Number of pages8
JournalBiophysical Journal
Volume98
Issue number9
Publication statusPublished - 5-May-2010
Externally publishedYes

    Keywords

  • nanometer-scale pore, polynucleotide molecules, secondary structure, hairpin molecules, aqueos solutions, protein pore, discrimination, viscosity, database

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