Relationship Between Irregularities of the Nuclear Envelope and Mitochondria in HeLa cells Observed with Electron Microscopy

This paper describes a methodology to analyse the complexity of HeLa cells as observed with electron microscopy, in particular the relationship between mitochondria and the roughness of the nuclear envelope as reflected by the invaginations of the surface. For this purpose, several segmentation mitochondria algorithms were quantitatively compared, namely: Topology, Image Processing, Topology and Image Processing, and Deep Learning, which provided the highest accuracy. The invaginations were successfully segmented with one image processing algorithm. Metrics were extracted for both structures and correlations between the mitochondria and invaginations were explored for 25 segmented cells. It was found that there was a positive correlation between the volume of invaginations and the volume of mitochondria, and negative correlations between the number and the mean volume of mitochondria, and between the volume of the cytoplasm and the aspect ratio of mitochondria. These results suggest that there is a relationship between the shape of a cell, its nucleus and its mitochondria; as well as a relationship between the number of mitochondria and their shapes. Whilst these results were obtained from a single cell line and a relatively small number of cells, they encourage further study as the methodology proposed can be easily applied to other cells and settings. Code and data are freely available. HeLa images are available from http://dx.doi.org/10.6019/EMPIAR-10094, code from https://github.com/reyesaldasoro/MitoEM, and segmented nuclei, cells, invaginations and mitochondria from https://github.com/reyesaldasoro/HeLa_Cell_Data.