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<p>We describe a novel DNA extraction protocol based on the ionic liquid 1-octylpyridinium bromide ([C<sub>8</sub>Pyr]Br), offering a rapid and reproducible alternative to column-based commercial kits. The method involves a selective DNA precipitation via charge neutralization and groove binding, followed by a displacement of the ionic liquid using phosphate-buffered saline. This process results in high-quality DNA with A260/A280 and A260/A230 ratios within optimal analytical ranges. The method was tested on eukaryotic cell lines and Drosophila tissue, consistently achieving two- to fivefold higher DNA yields than QIAGEN kits. Extracted DNA was validated by UV spectrophotometry, gel electrophoresis, and PCR. Additionally, dye displacement assays and circular dichroism confirmed preservation of DNA structure and suggested a minor groove binding mechanism for [C<sub>8</sub>Pyr]Br. This efficient, low-cost protocol may be of particular interest in diagnostics, molecular biology workflows, and resource-limited laboratories.</p> Graphical abstract <p></p>

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A high-yield, SPE-free DNA extraction method using a pyridinium-based ionic liquid compatible with downstream PCR analysis

  • 期刊论文

  • 发表日期：

    2026年5月11日

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  • Guillaume Barnoin,
  • Nicolas Papaiconomou,
  • Fabienne De Graeve,
  • Florence Besse,
  • Benoît Y. Michel,
  • Nadine Martinet,
  • Alain Burger

摘要

We describe a novel DNA extraction protocol based on the ionic liquid 1-octylpyridinium bromide ([C8Pyr]Br), offering a rapid and reproducible alternative to column-based commercial kits. The method involves a selective DNA precipitation via charge neutralization and groove binding, followed by a displacement of the ionic liquid using phosphate-buffered saline. This process results in high-quality DNA with A260/A280 and A260/A230 ratios within optimal analytical ranges. The method was tested on eukaryotic cell lines and Drosophila tissue, consistently achieving two- to fivefold higher DNA yields than QIAGEN kits. Extracted DNA was validated by UV spectrophotometry, gel electrophoresis, and PCR. Additionally, dye displacement assays and circular dichroism confirmed preservation of DNA structure and suggested a minor groove binding mechanism for [C8Pyr]Br. This efficient, low-cost protocol may be of particular interest in diagnostics, molecular biology workflows, and resource-limited laboratories.

Graphical abstract