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Analytical and Bioanalytical Chemistry

, Volume 411, Issue 25, pp 6583–6590 | Cite as

Arabidopsis thaliana ITS sequence-specific DNA extraction by ion-tagged oligonucleotides coupled with a magnetic ionic liquid

  • Arianna Marengo
  • Miranda N. Emaus
  • Cinzia M. Bertea
  • Carlo Bicchi
  • Patrizia Rubiolo
  • Cecilia CaglieroEmail author
  • Jared L. Anderson
Communication
  • 64 Downloads

Abstract

This study reports a follow-up investigation on the capture of specific DNA sequences using ion-tagged oligonucleotides (ITOs) and magnetic ionic liquids (MIL). Five allylimidazolium salts bearing octyl substituents ([AOIM+]-ITOs) were used for the selective extraction of the internal transcribed spacer region (ITS) from Arabidopsis thaliana. In this work, the ability of the [AOIM+]-ITOs to enhance the extraction of longer target sequences (~ 700 bp) of plant origin was shown. Moreover, the independence of the probe binding position and the importance of complementarity to the target region for the extraction performance were demonstrated. To test the specificity of the ITOs, the same experiments were performed using the ITS region from another plant species, with a lower target capture for the probes which were specific for the A. thaliana sequence. Finally, extraction in the presence of interferences (heterogenous DNA, primary and secondary metabolites, proteins) provided interesting and insightful results. This work illustrates the feasibility and versatility of these probes when coupled to MILs for rapid, cost-effective, and environmentally sensitive sample preparation in the extraction of specific target sequences from different origins.

Graphical abstract

Keywords

Sequence-specific DNA extraction Arabidopsis thaliana Ion-tagged oligonucleotide Magnetic ionic liquid Internal transcribed spacer 

Notes

Funding information

JLA received funding from the Chemical Measurement and Imaging Program at the National Science Foundation (grant number CHE-1709372).

Compliance with ethical standards

Conflict of interest

The authors declare that they have no conflict of interest.

Supplementary material

216_2019_2054_MOESM1_ESM.pdf (580 kb)
ESM 1 (PDF 580 kb)

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Copyright information

© Springer-Verlag GmbH Germany, part of Springer Nature 2019

Authors and Affiliations

  • Arianna Marengo
    • 1
  • Miranda N. Emaus
    • 2
  • Cinzia M. Bertea
    • 3
  • Carlo Bicchi
    • 1
  • Patrizia Rubiolo
    • 1
  • Cecilia Cagliero
    • 1
    Email author
  • Jared L. Anderson
    • 2
  1. 1.Dipartimento di Scienza e Tecnologia del FarmacoUniversità di TorinoTurinItaly
  2. 2.Department of ChemistryIowa State UniversityAmesUSA
  3. 3.Dipartimento di Scienze della Vita e Biologia dei Sistemi, Unità di Fisiologia VegetaleUniversità di TorinoTurinItaly

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