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The zebrafish skeleton is composed of craniofacial and axial skeletons. It shares a physiological curvature and consists of a similar number of vertebrae as humans. Bone degeneration and malformations have been widely studied in zebrafish as human disease models. High\u2010resolution imaging and different bone properties such as density and volume can be obtained using micro\u2010computed tomography (micro\u2010CT). This study aimed to understand the possible changes in the structure and bone mineral density (BMD) of the vertebrae and craniofacial skeleton with age (4, 12 and 24\u00a0months post fertilisation [mpf]) in zebrafish. Our data showed that the BMD in the vertebrae and specific craniofacial skeleton (mandibular arch, ceratohyal and ethmoid plate) of 12 and 24\u2009mpf fish were higher than that of the 4 mpf fish. In addition, we found the age\u2010dependent increase in BMD was not ubiquitously observed in facial bones, and such differences were not correlated with bone type. 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