TY - JOUR T1 - Practices for Measuring 3D Organelle Morphology and Generating Surfaces with Amira JF - bioRxiv DO - 10.1101/2021.09.25.461807 SP - 2021.09.25.461807 AU - Edgar Garza Lopez AU - Zer Vue AU - Prasanna Katti AU - Kit Neikirk AU - Michelle Biete AU - Jacob Lam AU - Heather K. Beasley AU - Andrea G. Marshall AU - Taylor Rodman AU - Trace Christensen AU - Jeffrey Salisbury AU - Larry Vang AU - Margaret Mungai AU - Salma AshShareef AU - Sandra Murray AU - Jianqiang Shao AU - Jennifer Streeter AU - Brian Glancy AU - Renata O. Pereira AU - E. Dale Abel AU - Antentor Hinton, Jr. Y1 - 2021/01/01 UR - http://biorxiv.org/content/early/2021/09/28/2021.09.25.461807.abstract N2 - Analysis of 3D structures is of paramount importance in cellular biology. Although light microscopy and transmission electron microscopy (TEM) have remained staples for imaging cellular structures, they lack the ability to image in 3D. However, recent technological advances, such as serial block-face scanning electron microscopy (SBF-SEM) and focused ion beam scanning electron microscopy (FIB-SEM), have allowed researchers to observe cellular ultrastructure in 3D. Here, we propose a standardized protocol using the visualization software Amira to quantify organelle morphologies in 3D; this method allows researchers to produce accurate and reproducible measurements of cellular structure characteristics. We demonstrate this applicability by utilizing SBF-SEM and Amira to quantify mitochondria and endoplasmic reticulum (ER) structures.Competing Interest StatementThe authors have declared no competing interest. ER -