The move will bring about 15 full-time jobs to the area and its offices will be located at the Nova Scotia Community College's Shelburne campus.
Fisheries Minister Sterling Belliveau says using available space at the college is a responsible use of taxpayers' money and will encourage greater collaboration between the department and the school.
Premier Darrell Dexter announced in May that the province would relocate its aquaculture division from Halifax to Shelburne County.
Another 22 positions, along with its headquarters, are moving to the Digby area.
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