Microbiology and Biotechnology Letters (한국미생물·생명공학회지)

The Korean Society for Microbiology and Biotechnology (한국미생물·생명공학회)
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Antibiofilm Activity and Binding Specificity of Polyclonal DNA Aptamers on Staphylococcus aureus and Escherichia coli

  • Arizah, Kusumawati (Study Program of Veterinary Public Health, IPB Graduate School, IPB University) ;
  • Apon Zaenal, Mustopa (Research Center for Genetic Engineering, National Research and Innovation Agency (BRIN)) ;
  • Rifqiyah Nur, Umami (Research Center for Genetic Engineering, National Research and Innovation Agency (BRIN)) ;
  • Adi, Santoso (Research Center for Genetic Engineering, National Research and Innovation Agency (BRIN)) ;
  • I Wayan Teguh, Wibawan (Department of Animal Diseases and Veterinary Public Health, Faculty of Veterinary Medicine, IPB University) ;
  • Agus, Setiyono ( Department of Veterinary Clinic Reproduction and Pathology, Faculty of Veterinary Medicine, IPB University) ;
  • Mirnawati Bachrum, Sudarwanto (Department of Animal Diseases and Veterinary Public Health, Faculty of Veterinary Medicine, IPB University)
  • Received : 2022.06.02
  • Accepted : 2022.08.23
  • Published : 2022.09.28
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Abstract

Aptamers are short, chemically synthesized, single-stranded DNA or RNA oligonucleotides that fold into unique three-dimensional structures. In this study, we aim to determine the antibiofilm activity and binding specificity of the six polyclonal DNA aptamers (S15K3, S15K4, S15K6, S15K13, S15K15, and S15K20) on Staphylococcus aureus BPA-12 and Escherichia coli EPEC 4. Aptamer S15K6 showed the highest percentage of antibiofilm activity against S. aureus BPA-12 (37.4%) as shown by the lowest OD570 value of 0.313. Aptamer S15K20 showed the highest percentage of antibiofilm activity against E. coli EPEC 4 (15.4%) as shown by the lowest OD570 value of 0.515. Aptamers S15K13 and S15K20 showed antibiofilm activities against both S. aureus BPA-12 and E. coli EPEC4, and thus potentially have broad reactivity. Furthermore, based on the binding capacity and Kd values from our previous study, the binding specificity assay of selected polyclonal DNA aptamers (S15K3 and S15K15) against S. aureus BPA-12, E. coli EPEC 4, S. aureus BPA-6, S. agalactiae, E. coli MHA-6, and Listeria monocytogenes were performed using qPCR. Aptamers S15K3 and S15K15 showed specific binding to S. aureus BPA-12, E. coli EPEC 4, S. aureus BPA-6, and S. agalactiae, but could not bind to E. coli MHA-6 and L. monocytogenes. Therefore, this study showed that the polyclonal DNA aptamers have antibiofilm activity and were able to bind to S. aureus BPA-12 and E. coli EPEC 4 bacteria.

Keywords

Acknowledgement

This research was supported by DIPA project and by Research scheme, National Research and Innovation Agency (BRIN).

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