Near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of mouse kidney glomerulus (jrc_mus-kidney-glomerulus-2)

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: Kidney glomerulus from a wild-type, 3 months old mouse, strain: C57BL/6 from Jackson LabSample Description: A dataset featuring isotropic 3D electron microscopy date of the mouse kidney glomerulus obtained from a 3-month-old C57BL/6 mouse, sourced from Jackson Laboratory. The mouse underwent anesthesia in accordance with IACUC guidelines. The kidney tissue was prepared through perfusion fixation and reducing osmium. The sample was then subjected to dehydration, infiltration with graded ethanol and Epon resin, and polymerized in a 60°C oven. The sample was provided by Kayvon Pedram and Guoqiang Yu (HHMI/Janelia), prepared for imaging by Wei-Ping Li and Guoqiang Yu (HHMI/Janelia), x-ray imaged and trimmed by Nirmala Iyer (HHMI/Janelia) and imaged by Wei Qiu (HHMI/Janelia) and post-processing by Eric Trautman and Stephan Preibisch (HHMI/Janelia).Protocol: Mouse anesthesia was performed as IACUC guidelines. Following perfusion fixation and reducing osmium, the sample was subjected to dehydration, infiltration with graded ethanol and Epon resin, and polymerized in a 60°C oven.Contributions: Sample provided by Kayvon Pedram and Guoqiang Yu (HHMI/Janelia), prepared for imaging by Wei-Ping Li and Guoqiang Yu (HHMI/Janelia), x-ray imaged and trimmed by Nirmala Iyer (HHMI/Janelia) and imaged by Wei Qiu (HHMI/Janelia) and post-processing by Eric Trautman and Stephan Preibisch (HHMI/Janelia).Acquisition ID: jrc_mus-kidney-glomerulus-2Voxel size (nm): 4 x 4 x 4 (x, y, z)Data dimensions (µm): 18.98 x 24.61 x 26.54 (x, y, z)Imaging start date: 2023-04-12Imaging duration (days): 7Primary energy (eV): 1Imaging current (nA): .75Scanning speed (MHz): .2Dataset URL: s3://janelia-cosem-datasets/jrc_mus-kidney-glomerulus-2/jrc_mus-kidney-glomerulus-2.zarr/recon-1/em/EM DOI: https://doi.org/10.25378/janelia.24164004Visualization Website: https://openorganelle.janelia.org/datasets/jrc_mus-kidney-glomerulus-2Publication: Xu et al., 2021