Dr. Andreas Müller , DZD - Paul Langerhans Institute Dresden of the Helmholtz Zentrum München at TU Dresden
Strategies for organelle-specific segmentation of 3D electron microscopy datasets
, 15:00 - 16:30
Barkhausenbau, Raum BAR E64A , Helmholtzstraße 18 , 01069 Dresden
Electron microscopy provides the most detailed information on cellular ultrastructure. Recently, three-dimensional electron microscopy methods, such as focused ion beam electron microscopy, have become more available leading to an increase in large raw datasets of cells and tissues. However, annotation of cells and their organelles together with spatial analysis is extremely cumbersome. Ultimately, this poses a limit to the available amount of data we get out of the raw volumes leaving many datasets un-analyzed. Recently, we have published the ultrastructural analysis of the interaction of microtubules and organelles in primary beta cells. This enabled us to visualize the specialized microtubule network of beta cells and its connection with insulin secretory granules. Our data have demonstrated the supporting role of microtubules in insulin secretion. Based on this work I will present strategies for organelle-specific segmentation using freely available, user-friendly software tools together with detailed instructions for manual, semi-automatic and automatic 3D segmentation suited best for the specific organelle.