We describe fixation, paraffin embedding, and thin sectioning techniques for microbial colony biofilms. In prepared samples, biofilm substructure and reporter expression patterns can be visualized by microscopy.
Cornell, W. C., Morgan, C. J., Koyama, L., Sakhtah, H., Mansfield, J. H., Dietrich, L. E. Paraffin Embedding and Thin Sectioning of Microbial Colony Biofilms for Microscopic Analysis. J. Vis. Exp. (133), e57196, doi:10.3791/57196 (2018).