Bioinformatics postdoc - antimicrobial resistance gene mobility

Simon Fraser University
Burnaby, BC, Canada
Job Type:
  • Postdoctoral
Degree Level Required:
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Bioinformatics postdoc - antimicrobial resistance gene mobility

The Genome Canada ARETE project, co-led by Fiona Brinkman, with researchers across Canada, is using rich microbial genomics and metagenomics datasets from the Public Health Agency of Canada, combined with improved prediction of gene mobility, and antimicrobial resistance (AMR) genes, to better track AMR transmission between key habitats of clinical and agricultural interest. See More specifically, this position would involve improving analyses of mobile sequences (with a focus on genomic islands) and analyzing AMR mobility in select microbial datasets (Salmonella, Enterococcus, Pseudomonas, or Burkholderia spp.) where we have a mix of environmental, animal and/or clinical samples, their antimicrobial susceptibility profile, and other data about the isolates (location of isolation, virulence phenotypes). This position would include opportunities to gain leadership experience with the international IRIDA consortium project and contribute to platform development, which is the primary tool now used by the Public Health Agency of Canada (and select international groups) for infectious disease outbreak investigations using microbial genomic data.

The Brinkman lab is committed to providing a positive, family-friendly, research/working environment supporting growth and flexibility. Simon Fraser is located in a beautiful conservation area in metro Vancouver with access to a wide range of recreational opportunities. Contact us to learn more.


  • Further improve our widely used IslandViewer/IslandCompare tools for prediction of mobile sequences, in particular improve the prediction of genomic island boundaries.
  • Apply the improved tools to analyze AMR mobility in select rich microbial datasets from collaborators in public health labs that have a mix of environmental, animal and clinical samples, reflecting “One Health” investigations of infectious disease.
  • Leadership in the project, potentially performing national/international project management activities, as suits interests.
  • This project involves collaboration, and occasional travel, across Canada and also internationally.


Qualified applicants will have a Ph.D. in a relevant biological, bioinformatics, or computational biology discipline, plus demonstrated experience in microbial genomics or metagenomics research. This position is suitable for a researcher with strong leadership and organizational skills.

  • How to Apply

    Please forward a cover letter with a copy of your CV, noting start date(s) you’d prefer and contact information for two references, to the email address, QUOTING THE SUBJECT CODE BRI-2019ARETE2b in the subject line of your email. We thank all applicants, but regret that only those chosen for an interview may be contacted further.