Aug 31, 2024

JAX-Sen: Collection and shipment of specimen for Visium Spatial Transcriptomics (vST/Visium ST) V.2

DOI
https://dx.doi.org/10.17504/protocols.io.36wgqn193gk5/v2
  • Laura Robinson1,
  • Susan Sheehan1,
  • Gaven Garland1,
  • Ron Korstanje1
  • 1The Jackson Laboratory, Bar Harbor, ME, USA
  • Cellular Senescence Network (SenNet) Method Development Community
Harshpreet Chandok
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DOI: https://dx.doi.org/10.17504/protocols.io.36wgqn193gk5/v2
Protocol Citation: Laura Robinson, Susan Sheehan, Gaven Garland, Ron Korstanje 2024. JAX-Sen: Collection and shipment of specimen for Visium Spatial Transcriptomics (vST/Visium ST). protocols.io https://dx.doi.org/10.17504/protocols.io.36wgqn193gk5/v2Version created by Harshpreet Chandok
License: This is an open access  protocol  distributed under the terms of the  Creative Commons Attribution License,  which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited
Protocol status: Working
We use this protocol and it's working
Created: August 31, 2024
Last Modified: August 31, 2024
Protocol  Integer ID: 106764
Keywords: JAX-Sen, shipment procedures for visium spatial transcriptomic, visium spatial transcriptomic, visium st, details on specimen collection, sennet consortium, shipment of specimen, sen project in the sennet consortium, part of the jax, specimen collection, vst, visium
Funders Acknowledgements:
National Institute on Aging (NIA) JAX-Sen Senescence Tissue Mapping Center
Grant ID: U54 AG079753
Abstract
These samples are part of the JAX-Sen project in the SenNet Consortium. Here we provide details on specimen collection and shipment procedures for Visium Spatial Transcriptomics (vST/Visium ST).
Reagents and Materials:
  • 10% NBF fixative
  • Tweezers
  • Appropriate container for fixing
Quality Key Points:
  • The tissue specimen should be always kept at 4 degrees Celsius and RNase-free.
  • It is crucial to not store the tissue specimen at RT to avoid any cell death, and tissue and/or RNA degradation. 
Procedure:
Collection/Harvest:
Animal was euthanized via cervical dislocation. 

Animal was pinned to a necropsy tray which remained on wet ice throughout the harvest. 
Animal was perfused with 20ml cold PBS.
Heart, pancreas, and kidney was collected and the specimen was fixed in 10-20 X volume of 10% NBF fixative for 24-48 hours at room temperature.
Samples were kept at 4 degrees Celsius until submission to histology for processing and embedding.