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The AMMI Canada organizational structure includes two Standing sections: Infectious Disease and Medical Microbiology (each with their own chairperson). AMMI Canada members can belong to one or the other, or both, of the sections depending on their RCPSC certification. According to AMMI Canada bylaws, the sections are responsible for issues regarding training and Maintenance of Certification.

 "The Society, as a non-profit professional organization, will achieve its mission and goals through the work of its committees and members."