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Supramolecularly Multicolor DNA Decoding Using an Indicator Competition Assay.

Yufeng Zhou1, Longlong Gao1, Xingyu Tong1

  • 1Key Laboratory of the Ministry of Education for Advanced Catalysis Materials, Institute of Physical Chemistry, College of Chemistry and Life Sciences , Zhejiang Normal University , Jinhua , Zhejiang 321004 , China.

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This study introduces a multicolor DNA sensor using cucurbituril-based supramolecular chemistry. The sensor achieves high selectivity for detecting nucleotide variations and abasic sites in DNA.

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Area of Science:

  • Supramolecular Chemistry
  • Biotechnology
  • Analytical Chemistry

Background:

  • Multicolor fluorescence sensors offer enhanced signaling contrast compared to intensity-dependent strategies.
  • Indicator Competition Assay (ICA) is a versatile method for developing competitive binding assays.

Purpose of the Study:

  • To develop a supramolecular, multicolor DNA recognition system using cucurbituril-based indicator competition assay (ICA).
  • To achieve selective detection of nucleotide transversions and abasic sites in DNA.

Main Methods:

  • Utilized cucurbit[7]uril (CB[7]) as a host molecule for supramolecular complexation.
  • Employed coptisine (COP) and palmatine (PAL) alkaloids as fluorescent indicators.
  • Introduced abasic (AP) sites in DNA as contestants to compete with indicators for CB[7] binding.

Main Results:

  • DNA with pyrimidines opposite an AP site induced a green-to-yellow brown color change with COP, indicating selective nucleotide transversion recognition.
  • DNA containing AP sites caused a blue-to-green emission shift with PAL, enabling AP site detection independent of nucleotide identity.
  • Demonstrated high selectivity for both nucleotide transversion and AP site detection.

Conclusions:

  • Developed a novel ICA-based multicolor DNA sensor leveraging supramolecular cucurbituril complexation.
  • The sensor provides a highly selective and sensitive platform for DNA analysis.
  • This approach offers a new strategy for developing advanced molecular diagnostic tools.