Microbiology and Bioinformatics

University of Calgary
Calgary, AB, Canada
Job Type:
  • Postdoctoral
Degree Level Required:
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Microbiology and Bioinformatics

We seek a post-doctoral fellow with bioinformatics experience in bacterial whole genome sequence (WGS) analysis to join our research group.
CF is the most common lethal genetic disease of Canadians and most of its attributable morbidity and mortality relate to repeated and eventually chronic bacterial infections involving the airways. The ultimate goal of our CF work is to understand the natural history, clinical impact and infection transmission risk of airways pathogens. For this work, we are actively supported by grants from CIHR, NIH, the Cystic Fibrosis Foundation, and Cystic Fibrosis Canada. Our laboratory maintains a unique resource: the Calgary Adult CF Clinic Biobank – a one-of-a-kind collection containing every bacterial pathogen isolated from CF patient from every clinical encounter (1978-present, n>55,000). Access to this one of-a-kind collection means that our group is uniquely positioned to strategically analyze bacterial infection dynamics in CF on a scale greater than any before.


The candidate will participate in a project which involves WGS of bacterial isolates recovered from the CF airways to understand isolate relatedness between patients and the potential for patient-patient spread. Identifying factors associated with past transmission events will enable future events and their negative consequences to be avoided.


Applicants must have a PhD in microbiology (in the last 3 years), genomics, computational biology, or related field (such as microbial evolution, population genetics, or computational biology). Applicants should have a broad microbiology background and experience with scientific computing (Python, R, Bash) and have a familiarity with working with microbial sequencing data, genomics, and phylogenetics. Prior experience with Bayesian evolutionary analyses and infection transmission dynamics is an advantage. The successful applicant should be highly motivated, have strong communication skills (verbal and written), and have a strong record of peer-reviewed publication(s) demonstrating their skills and creativity through principal authorship. The ability to work as part of a team is integral to the position.

  • How to Apply

    To apply for this position please email your CV and resume to Dr. Michael Parkins