ssDNA aptamers that selectively bind oxytetracycline

Javed H. Niazi, Su Jin Lee, Yeon Seok Kim, Man Bock Gu

Research output: Contribution to journalArticlepeer-review

79 Citations (Scopus)

Abstract

Single stranded DNA aptamers that bind with high affinity and specificity to the oxytetracycline (OTC) were identified by selection from an oligonucleotide library of 1015 molecules. The binding affinities of four aptamers were in nanomolar range. The aptamers were highly selective in that, lack of -OH group at 5-position in tetracycline and -H group in place of -OH at 6-position in doxycycline determined the specificity of these aptamers to bind OTC. Three aptamers designated as No. 4, 5, and 20 shared strong affinities with Kd = 9.61, 12.08, and 56.84 nM, respectively, as well as selectivity to bind OTC (72-76%). Aptamer No. 4 had strong affinity among all with high selectivity, whereas No. 2 had relatively weak affinity (Kd = 121.1 nM) and moderate selectivity (52%). Our results indicated that the aptamers No. 4, 5, and 20 with variable 40-base oligonucleotides can be good candidates for selectively binding to OTC with high molecular discrimination over its analogs such as tetracycline and doxycycline.

Original languageEnglish
Pages (from-to)1254-1261
Number of pages8
JournalBioorganic and Medicinal Chemistry
Volume16
Issue number3
DOIs
Publication statusPublished - 2008 Feb 1

Keywords

  • Aptamer
  • Oxytetracycline
  • SELEX
  • ssDNA

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Medicine
  • Molecular Biology
  • Pharmaceutical Science
  • Drug Discovery
  • Clinical Biochemistry
  • Organic Chemistry

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