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North Terrace Campus
Level 3, Molecular Life Sciences
The University of Adelaide
SA 5005
AUSTRALIA
Keith Shearwin

Telephone: +61 8 8303 5361
Facsimile: +61 8 8303 4362

Publications

  • Shearwin, K.E. and Egan, J.B. (2000) Establishment of lysogeny in bacteriophage 186 - DNA binding and transcriptional activation by the CII protein. Journal of Biological Chemistry  275, 29113-29122.
  • Dodd, I.B., Perkins, A.J., Tsemitsidis, D., and Egan, J.B. (2001) Octamerization of lambda CI repressor is needed for effective repression of PRM and efficient switching from lysogeny. Genes & Development 15, 3013-3022.
  • Shearwin, K.E., Dodd, I.B. and Egan, J.B. (2002) The helix-turn-helix motif of the coliphage 186 immunity repressor binds to two distinct recognition sequences. Journal of Biological Chemistry 277, 3186-3194.
  • Dodd, I.B., Shearwin, K.E., Perkins, A., Burr, T., Hochschild, A. and Egan, J.B. (2004) Cooperativity in long range gene regulation by the l CI repressor. Genes and Development 18, 344-354.
  • Callen, B.P., Shearwin, K.E., and Egan, J.B. (2004) Transcriptional interference between convergent promoters caused by elongation over the promoter. Molecular Cell 14, 647-656.
  • Sneppen, K., Dodd, I.B., Shearwin, K.E., Palmer, A., Schubert, R.A., Callen, B.C. and Egan, J.B. (2005) A mathematical model for transcriptional interference by RNA polymerase traffic in Escherichia coli. Journal of Molecular Biology 346, 399-409.
  • Dodd, I.B., Shearwin, K.E. and Egan, J.B. (2005) Revisited gene regulation in bacteriophage lambda. Current Opinion in Genetics and Development 15, 145-152.
  • Shearwin, K.E., Callen, B.P. and Egan, J.B. (2005) Transcriptional interference – a crash course. Trends in Genetics 21, 339-345.
  • Trusina, A., Sneppen, K., Dodd, I.B., Shearwin, K.E. and Egan, J.B. (2005) Functional alignment of regulatory networks – a study of temperate phages. PLOS Computational Biology 1 (7), e74 599-603.
  • Pinkett, H., Shearwin, K.E., Stayrook, S., Dodd., I.B., Burr, T., Hochschild, A., Egan, J.B. and Lewis, M. (2006) The structural basis of cooperative regulation at an alternative genetic switch. Molecular Cell 21, 605-615.
  • Schubert, R.A. and Shearwin, K.E. (2006) How bacterial genes get turned on. Microbiology Australia 27, 109-111.
  • Dodd, I. B., Micheelsen, M. A., Sneppen, K. & Thon, G. (2007). Theoretical analysis of epigenetic cell memory by nucleosome modification. Cell 129, 813-22.
  • Dodd, I.B., Shearwin, K.E. and Sneppen, K. (2007) Modelling transcriptional interference and DNA looping in gene regulation. Journal of Molecular Biology 369, 1200-1213.
  • Schubert*, R.A., Dodd*, I.B., Egan, J.B. and Shearwin, K.E. (2007) Cro’s role in the CI–Cro bistable switch is critical for l’s transition from lysogeny to lytic development. Genes and Development 21, 2461-2472. * equal contributions
  • Sneppen, K. Micheelsen, M.A. and Dodd, I.B. (2008) Ultrasensitive gene regulation by positive feedback loops in nucleosome modification. Molecular Systems Biology 4, Article 182.
  • Mitarai, N., Dodd, I.B., Crooks, M.T. and Sneppen, K. (2008) The generation of promoter-mediated transcriptional noise in bacteria. PLOS Computational Biology 4, e1000109.
  • Palmer, A. and Shearwin, K. (2009) Experimental design and data collection for computational modelling of regulatory networks in Methods in Molecular Biology vol 541, 337-354 Computational Systems Biology.
  • Palmer, A.C., Ahlgren-Berg, A., Egan, J.B., Dodd, I.B. and Shearwin, K.E. (2009) Potent transcriptional interference by pausing of RNA polymerase over a downstream promoter. Molecular Cell 34, 545-555.
  • Avlund M, Dodd IB, Semsey S, Sneppen K, Krishna S. (2009) Why do phage play dice? Journal of
    Virol    ogy     83(22), 11416-20.
  • Avlund M, Dodd IB, Sneppen K, Krishna S. (2009) Minimal gene regulatory circuits that
    can count like bacteriophage lambda. Journal of Molecular Biology 394(4), 681-93.
  • Micheelsen MA, Mitarai N, Sneppen K, Dodd IB. (2010) Theory for the stability and
    regulation of epigenetic landscapes. Phys Biol. 7(2), 026010.
  • Avlund M, Krishna S, Semsey S, Dodd IB, Sneppen K. (2010) Minimal gene regulatory
    circuits for a lysis-lysogeny choice in the presence of noise. PLoS One. 5(12), e15037.
  • Hao N, Whitelaw ML, Shearwin KE, Dodd IB, Chapman-Smith A. (2011) Identification of
    residues in the N-terminal PAS domains important for dimerization of Arnt and
    AhR. Nucleic Acids Research 39(9), 3695-709.
  • Dodd IB, Sneppen K. (2011) Barriers and silencers: a theoretical toolkit for control
    and containment of nucleosome-based epigenetic states. Journal of Molecular Biology 414(4), 624-37.
  • Palmer AC, Egan JB, Shearwin KE. (2011) Transcriptional interference by RNA
    polymerase pausing and dislodgement of transcription factors. Transcription
    2(1), 9-14.

  • Dodd, IB, Sneppen, K (2012) A simple histone code opens many paths to epigenetics. PLOS Computational Biology doi: 10.1371/journal.pcbi.1002643

  • Lun*, C, Murchland*, I, Shearwin, KE, Dodd, IB. (2013) Enhancer-like long-range transcriptional activation by lambda CI-mediated DNA looping. PNAS 110, 2922-2927. * equal contributions

  • Wang, H., Dunlap, DD, Dodd, IB, Shearwin*, KE, Finzi*, L. (2013) Single molecule analysis of DNA wrapping and looping by acircular 14-mer wheel of the bacteriophage 186 CI repressor. Nucleic Acids Research doi:10.1093/nar/gkt298 *co-corresonding authors

  • St. Pierre*, F, Lun*, C, Priest, DG, Endy, D, Dodd, IB, Shearwin, KE. (2013) One-step cloning and chromosomal integration of DNA. ACS Synthetic Biology doi: 10.1021/sb400021j. * equal contributions