PhD Candidate-Arthur Coakley BSc

Arthur Coakley BSc, PhD Candidate

Arthur Coakley BSc, PhD Candidate


Position                          PhD student
Thesis Title Gene60: Nascent Peptide Effect
Supervisor Professor John Atkins


I studied B.Sc. (Hons) Biochemistry at University College Cork, and graduated in October 2011 with a first class honours degree. In my 3rd year, I was awarded a UREKA fellowship and received the opportunity to complete a 12 week research project under the supervision of Professor John Atkins. During my project, I investigated novel motifs that had the potential to cause transcriptional re-alignment. As part of my Fourth year biochemistry programme, I completed a research project also under the supervision of Professor Atkins. and I investigated in more detail a novel transcriptional slippage site that I had identified during the UREKA project. It was during this time that I developed an interest in the ‘recoding’ field and decided to do a PhD in Professor Atkins’ lab in the School of Biochemistry and Cell Biology, UCC. 

Research Interests

My research in Professor Atkins lab was focused on the non-linear decoding by ribosomes to synthesize a protein from two disconnected open reading frames. Ribosomes translating T4 bacteriophage gene 60 produce a full length topisomerase subunit from two interrupted open reading frames by bypassing fifty non-coding nucleotides. A nascent peptide located immediately upstream of the bypassed 50 nucleotides has an 8-fold effect on bypassing. My work investigated the key features of this peptide that are involved in its function.

My research was supported by an SFI grant awarded to Professor John Atkins.


Antonov, I., Coakley, A., Atkins, J. F., Baranov, P. V., & Borodovsky, M. (2013). Identification of the nature of reading frame transitions observed in prokaryotic genomes. Nucleic Acids Research, gkt274–. doi:10.1093/nar/gkt274



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