Biominerals are recorders of evolution and palaeoenvironments. Predation is one of the most frequent modes leading to the concentration of small vertebrates in fossil assemblages. Consumption by predators produces damages on bones and teeth from prey species, and one of the greatest challenges to taphonomists is differentiating original biological and secondary, geologically altered attributes of fossils. Excellent morphological preservation is often used to assume that the structure and composition of fossils are not modified. Nevertheless, during predation and fossilization, both the physical structure and chemical composition of enamel, dentine and bone are altered, the degree and extent of which varies from site to site, depending on the nature of the burial environment. A relationship between the surficial alterations and the compositional changes which take place during fossilization has yet to be established. Herein, I present a review of old and recent taphonomic studies that collectively reveal the wide diversity of microstructural and chemical changes that typically take place during fossilization of vertebrate remains, including common taphonomic biases and the challenges inherent to reconstructing the history of vertebrate fossil assemblages.