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Conjugation of aptamer-toxin for targeting tumour cells. Athyala Prasanna Kumar1, Subramanian Krishnakumar Narayanan Janakiraman1. 2,1, Jagat R. Kanwar3 1. Department of Nano Biotechnology, Vision Research Foundation, Sankara Nethralaya, Chennai, India. 2. Larsen and Turbo Department of Ocular Pathology, Vision Research Foundation, Sankara Nethralaya, Chennai, India. 3. Nanomedicine Laboratory of Immunology and Molecular Biomedical Research (N-LIMBR), School of Medicine (SoM), Molecular and Medical Research (MMR) Strategic Research centre, Faculty of Health, Deakin University, Geelong Technology Precinct (GTP), Geelong, Victoria, Australia. (Funded by Department of Biotechnology, Government of India, New Delhi. BT/PR2285/MED/31/128/2011) PURPOSE: Epithelial cell adhesion molecule (EpCAM) is a transmembrane glycoprotein involved in cell signalling, migration, proliferation and differentiation. It also serves as diagnostic marker for various cancers due to its role in tumorogenesis and metastasis of carcinomas. In a conventional treatment of cancer, the chemotherapic drugs and toxin molecules not only affect the cancer cells but also the normal cells on their way. By conjugating the drug or toxin to the specific tumor targeting ligand, helps in targeted therapy of tumor cells alone. In the present study we have chosen a bacterial toxin Neocarzinostatin (NCS) which is a potential DNA damaging agent and a plant toxin Saporin which acts on ribosomes leading to the ribosomal inactivation, to conjugate with EpCAM RNA aptamer. METHODS: We have found the IC50 value for native toxins molecules on retinoblastoma and breast cancer cell lines using Resazurin (7-Hydroxy-3Hphenoxazin-3-one 10-oxide) reagent. Toxin molecule is being conjugated with the aptamer using hetero-bifunctional cross linker (Sulfo-LC-SPDP). The conjugate was further characterized with Native PAGE, MALDI-TOF, and UV-Vis spectrometry. Binding affinity of native Aptamer and the conjugate was evaluated on cancer cell lines with FACS and Fluorescent microscopy. Apoptosis, cell cycle assay was performed to study the effect of targeted delivery on cancer cells. RESULTS: Aptamer-toxin conjugate was characterized with Native PAGE, and it revealed the shift in the gel with respect to native protein. MALDI-TOF analysis showed increase mass for conjugate by 3.5 KDa with respect to native protein. Conjugate as native Aptamer showed similar binding towards the EpCAM positive cells, and the conjugates were able to target the EpCAM positive cells and shown the effect on cell cycle arrest and Apoptosis. CONCLUSION: In conclusion, we report that toxin-aptamer conjugates showed improved targeting of cancer cells than the native toxins alone.