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Pauline Scanlan


Pauline Scanlan graduated in 2002 with a B.Sc. in Plant and Microbiology Biotechnology (1H) from University College Cork (UCC). She continued her education at UCC and graduated with a Ph.D. in Medicine in 2007; this included a one-year Marie Curie studentship at Wageningen University, The Netherlands. In 2008, she moved to the Department of Zoology at the University of Oxford, U.K. as a postdoctoral researcher in the lab of Prof. Angus Buckling to study bacteria and bacteriophage coevolution. Dr Scanlan returned to Ireland in 2012 and following a short postdoctoral research position at UCC she moved to Teagasc, Moorepark after successfully securing a Marie Curie Intra-European Research Fellowship. In 2015, Dr Scanlan was one of the first awardees of the prestigious Royal Society-Science Foundation Ireland University Research Fellowship and moved to the APC Microbiome Institute at UCC to take up the position. Pauline was appointed as a lecturer at the School of Microbiology in 2017.‍


The Scanlan lab studies the ecology and evolution of the human gut microbiome, over short-time scales, and in response to different biotic and abiotic factors. To do so, we use in vitro models, and complement this analysis with the targeted isolation and analysis of longitudinally sampled microbial species isolated from the gut microbiome of human cohorts of interest.


Specific research topics include –

  • Within-host evolution in the human gut microbiome
  • Antimicrobial resistance (AMR) evolution
  • Bacteria – Bacteriophage co-evolution and co-existence
  • Blastocystis and protist diversity associated with the human gut microbiome
  • Inflammatory Bowel Disease

An up to date publication list can be found here -






Pauline Scanlan

Contact Details:


Funded Investigators

APC Microbiome Ireland

Biosciences Building, University College Cork, Ireland,