Near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of mouse liver acinus (jrc_mus-liver-zon-1)

This acquisition is part of the CellMap 2024 Segmentation ChallengeChallenge DOI: https://doi.org/10.25378/janelia.c.7456966Challenge Website: https://cellmapchallenge.janelia.org/Sample: Wild-type, 9 week old mouse, strain: C57BL/6 from Jackson LabSample Description: A dataset featuring isotropic 3D electron microscopy data of the mouse hepatic acinus. The sample was obtained from a wild-type 9 week old C57BL/6 mouse strain sourced from Jackson Laboratory. Mouse anesthesia was performed as IACUC guidelines. Perfusion fixation with glutaraldehyde and vibratome section. After room temperature reducing OTO staining, the sample was subject to dehydration, infiltration with graded ethanol and Durcupan resin, and polymerized in a 60°C oven. The sample was provided by Daniel Feliciano (HHMI/Janelia), stained and resin embedded by Wei-Ping Li (HHMI/Janelia), prepared for FIB-SEM imaging by Song Pang (HHMI/Janelia), and imaged by Wei Qiu (HHMI/Janelia). Post-processing was conducted by Eric Trautman and Stephan Preibisch (HHMI/Janelia).Protocol: Mouse anesthesia was performed as IACUC guidelines. Perfusion fixation with glutaraldehyde and vibratome section followed by room temperature reducing OTO staining. After dehydration and infiltration with graded ethanol and Durcupan resin, polymerize the sample in a 60°C oven.Contributions: Sample provided by Daniel Feliciano (HHMI/Janelia), stained and resin embedded by Wei-Ping Li (HHMI/Janelia), prepared for FIB-SEM imaging by Song Pang (HHMI/Janelia), with imaging by Wei Qiu (HHMI/Janlia) and C. Shan Xu (HHMI/Janelia), and post-processing by Eric Trautman and Stephan Preibisch (HHMI/Janelia).Acquisition ID: jrc_mus-liver-zon-1Voxel size (nm): 8.0 x 8.0 x 8.0 (X, Y, Z)Data dimensions (µm): 397.16 x 171.61 x 188.81 (x, y, z)Imaging start date: 2022-03-23Imaging duration (days): 100Landing energy (eV): 1Imaging current (nA): 3Scanning speed (MHz): 4Dataset URL: s3://janelia-cosem-datasets/jrc_mus-liver-zon-1/jrc_mus-liver-zon-1.zarr/recon-1/em/EM DOI: https://doi.org/10.25378/janelia.24128700Visualization Website: https://openorganelle.janelia.org/datasets/jrc_mus-liver-zon-1Publication: Xu et al., 2017