Atlas of Plasmodium falciparum intraerythrocytic development using expansion microscopy

Apicomplexan parasites exhibit tremendous diversity in much of their fundamental cell biology, but study of these organisms using light microscopy is often hindered by their small size. Ultrastructural expansion microscopy (U-ExM) is a microscopy preparation method that physically expands the sample ∼4.5x. Here, we apply U-ExM to the human malaria parasite Plasmodium falciparum during the asexual blood stage of its lifecycle to understand how this parasite is organized in three-dimensions. Using a combination of dye-conjugated reagents and immunostaining, we have catalogued 13 different P. falciparum structures or organelles across the intraerythrocytic development of this parasite and made multiple observations about fundamental parasite cell biology. We describe that the microtubule organizing center (MTOC) and its associated proteins anchor the nucleus to the parasite plasma membrane during mitosis. Furthermore, the rhoptries, Golgi, basal complex, and inner membrane complex, which f..., This dataset comprises 647 images of Plasmodium falciparum parasites acquired using Airyscan microscopy on either a Zeiss LSM 800, or Zeiss LSM 900 microscope using a 63x Plan Apochromat 1.4NA objective lens. All images in this dataset have been Airyscan processed in 3D using the \"standard\" filter setting. Raw, non-airyscanned, images are available upon request, but have not been included in this dataset as they cannot be used in many of the most commonly used microscopy image analysis programs. Channels for fluorescent markers have been changed to reflect the colouring system used in the corresponding manuscript. While image colour combinations vary for some images, they broadly follow the trend: Cyan = SYTOX Deep Red (DNA stain), Magenta = antibody stain of interest (typically Alexa Fluor 488), Inverse greyscale = NHS ester Alexa Fluor 405 (protein stain), White = BODIPYTexasRed Ceramide (lipid stain), Yellow = second antibody stain of interest (typically Alexa Fluor 555), or MitoTrac..., , # Atlas of *Plasmodium falciparum* intraerythrocytic development using expansion microscopy

[https://doi.org/10.5061/dryad.9s4mw6mp4](https://doi.org/10.5061/dryad.9s4mw6mp4)

This dataset contains all images that support the study entitled \"Atlas of *Plasmodium falciparum* intraerythrocytic development using expansion microscopy\" published in eLife (https://doi.org/10.7554/eLife.88088.1)

## Description of the data and file structure

Each of the files included in this dataset is a .czi file corresponding to an Airyscan-processed image of a single *Plasmodium falciparum* parasite.
Files are named using the following convention:
Parasite line_ Fluorescence Channel 1_Fluorescence Channel 2_Fluorescence Channel 3_Fluorescence Channel 4_Airyscan Processed (Image number).czi

Fluorescence channels are ordered from shortest wavelength (in nm) to longest. Channels corresponding to antibody stains have the name of the target protein followed by the wavelength of the conjugated fluorophore. Im...