Near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of P7 mouse thymus (jrc_mus-thymus-1)

Sample: Thymus tissue from a wild-type, postnatal day 7 mouse, strain: C57BL/6J from Jackson Lab
Sample Description: A dataset featuring isotropic 3D electron microscopy data of the mouse thymus (jrc_mus-thymus-1). The sample was obtained from a wild-type postnatal day 7 C57BL/6J mouse strain sourced from Jackson Laboratory. Mouse anesthesia was performed as IACUC guidelines. Perfusion fixation with glutaraldehyde and vibratome section. After low 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 Wei-Ping Li (HHMI/Janelia), prepared for imaging by Zhiyuan Lu (HHMI/Janelia), and imaged by Wei Qiu (HHMI/Janelia). Post-processing was conducted by Eric Trautman and Stephan Preibisch (HHMI/Janelia). This dataset offers a comprehensive view of a young mouse thymus cellular architecture.
Protocol: Mouse anesthesia was performed as IACUC guidelines. Perfusion fixation with glutaraldehyde and vibratome section. After low temperature reducing OTO staining, the sample was subject to dehydration, infiltration with graded ethanol and Durcupan resin, and polymerized in a 60°C oven.
Contributions: Sample provided by Wei-Ping Li (HHMI/Janelia), prepared for imaging by Zhiyuan Lu (HHMI/Janelia) and imaged by Wei Qiu (HHMI/Janelia) and post-processing by Eric Trautman and Stephan Preibisch (HHMI/Janelia).
Acquisition ID: jrc_mus-thymus-1
Voxel size (nm): 8 x 8 x 8 (x, y, z)
Data dimensions (µm): 147.2 x 116.3 x 116.0 (X, Y, Z)
Imaging start date: 2023-06-01
Imaging duration (days): 36
Scanning speed (MHz): 3
Dataset URL: s3://janelia-cosem-datasets/jrc_mus-thymus-1/jrc_mus-thymus-1.zarr/recon-1/em/
Visualization Website: https://openorganelle.janelia.org/datasets/jrc_mus-thymus-1
Publication: Xu et al., 2017