Welcome to the website of the Bioinformatics and Molecular Evolution Unit, NUI Maynooth

Sample Publications from the Unit

  • Alvarez-Ponce, D., Lopez, P., Bapteste, E. and McInerney, J.O. (2013). Gene similarity networks provide new tools for understanding eukaryote origins and evolution.Proceedings of the National Academy of Sciences USA doi: 10.1073/pnas.1211371110.[pdf]
  • Nelson-Sathi, S., Dagan, T., Landan, G., Janssen, A., Steel, M., McInerney, J. O., Deppenmeier, U., and Martin, W.F. (2012) Acquisition of 1,000 eubacterial genes physiologically transformed a methanogen at the origin of Haloarchaea. Proceedings of the National Academy of Sciences USA. 109 (50) 20537-20542 doi: 10.1073/pnas.1209119109.[pdf]
  • Feuda, R., Hamilton, S.C., McInerney, J.O. and Pisani, D. (2012) Metazoan opsin evolution reveals a simple route to animal vision. Proceedings of the National Academy of Sciences, USA 109:(46) 18868-18872 doi: 10.1073/pnas.1204609109 [pdf]
  • Bapteste, E., Bouchard F., Baquero F., McInerney J.O., Lopez P. and Burian R.M. (2012). Evolutionary analyses of non-genealogical bonds produced by introgressive descent. Proceedings of the National Academy of Sciences, USA. 109:(45) 18266-18272 doi:10.1073/pnas.1206541109.
  • Erwin, D.H., Laflamme, M., Tweedt, S.M., Sperling, E.A., Pisani, D. and Peterson, K.J. (2011) The Cambrian Conundrum: Early Divergence and Later Ecological Success in the Early History of Animals. Science Vol. 334 (6059) pp. 1091-1097. DOI: 10.1126/science.1206375 [link]
  • Campbell, L.I., Rota-Stabelli, O., Edgecombe, G.D., Marchioro, T., Longhorn, S.J., Telford, M.J., Philippe, H., Rebecchi, L., Peterson, K.J., and Pisani D. (2011) MicroRNAs and phylogenomics resolve the relationships of Tardigrada and suggest that velvet worms are the sister group of Arthropoda. Proceedings of the National Academy of Sciences, USA. doi: 10.1073/pnas.1105499108 [link].
  • Cotton, J.A., and McInerney, J.O. (2010) Eukaryotic genes of archaebacterial origin are more important than the more numerous eubacterial genes, irrespective of function. Proceedings of the National Academy of Sciences, USA 107:40 17252-17255. [link]
  • Butler G, Rasmussen MD, Lin MF, Santos MA, Sakthikumar S, Munro CA, Rheinbay E, Grabherr M, Forche A, Reedy JL, Agrafioti I, Arnaud MB, Bates S, Brown AJ, Brunke S, Costanzo MC, Fitzpatrick DA, de Groot PW, Harris D, Hoyer LL, Hube B, Klis FM, Kodira C, Lennard N, Logue ME, Martin R, Neiman AM, Nikolaou E, Quail MA, Quinn J, Santos MC, Schmitzberger FF, Sherlock G, Shah P, Silverstein KA, Skrzypek MS, Soll D, Staggs R, Stansfield I, Stumpf MP, Sudbery PE, Srikantha T, Zeng Q, Berman J, Berriman M, Heitman J, Gow NA, Lorenz MC, Birren BW, Kellis M, Cuomo CA. (2009) Evolution of pathogenicity and sexual reproduction in eight Candida genomes. Nature. 459(7247):657-662. [link]
  • McInerney, J.O. and Pisani, D (2007) Genetics: Paradigm for Life. Science 318:1390-1391. [link]
  • Kinsella, R.J., Fitzpatrick, D.A., Creevey, C.J. and McInerney J.O. (2003). Fatty acid biosynthesis in Mycobacterium tuberculosis: Lateral gene transfer, adaptive evolution and gene duplication. Proceedings of the National Academy of Sciences, USA, 100, 10320-10325. [link]
  • McInerney, J.O. (1998). Replicational and Transcriptional Selection on Codon Usage in Borrelia burgdorferi. Proceedings of the National Academy of Sciences, USA: 95 10698-10703. [link]


The Research Unit has been generously funded by the European Molecular Biology Organisation, The Wellcome Trust, The Health Research Board, Science Foundation Ireland and the National University of Ireland Maynooth.

Phylogenetics Summer Course 2014

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