Background: Collagen is a prominent structural protein in biological tissue, and little is known about the effect of preservatives, commonly used to preserve and study tissue, on collagen structures. Method: The study determined the effects of commonly used tissue preservatives on measurements of fibril diameter, fibril diameter distribution, and D-spacing of corneal collagen made using small angle X-ray scattering (SAXS) analysis. Results: Compared to control sheep and cats’ corneas that were preserved frozen at -80 °C, those preserved in 5% glutaraldehyde and 10% formalin had significantly larger mean collagen fibril diameters, increased fibril diameter distribution and decreased D-spacing. Corneas preserved in Triton X had significantly increased mean collagen fibril diameters and orientation indexes with decreased fibril diameter distribution. Corneas preserved in 0.9% saline had significantly increased mean collagen fibril diameters and decreased diameter distributions. Subjectively, the corneas preserved in 5% glutaraldehyde and 10% formalin maintained their transparency but those in Triton X and 0.9% saline became opaque. Subjective morphological assessment of transmission electron microscope images of corneas supported the SAXS data. Conclusions: Workers using SAXS analysis to characterize collagen should be alerted to changes that can be introduced by common preservatives in which their samples may have been stored.