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Cell Structure Observations

Observations about microscopy videos for each of the 16 cell lines available in our Cell Catalog & 3D Cell Viewer.

Histones visualized via Histone H2B type 1-J

8/1/2018

 
Movie. Z-stack of live hiPS cell colony expressing mEGFP-tagged Histone H2B type 1-J protein. Cells were imaged in 3D on a spinning-disk confocal microscope. Movie starts at the bottom of the cells and ends at the top. Scale bar, 5µm.
Movie. Time-lapse movie of live hiPS cell colony expressing mEGFP-tagged Histone H2B type 1-J protein. Cells were imaged in 3D on a spinning-disk confocal microscope every 3 min. A single mid-level z-section is shown. Movie plays at 1260x real time. Scale bar, 5 µm.
Movie. ​Z-stack of live hiPS cell colony expressing mEGFP-tagged Histone H2B type 1-J protein. Cell Mask Deep Red Plasma Membrane dye was applied to mark cell boundaries (magenta). NucBlue Live Ready Probe Reagent was used to compare mEGFP-tagged H2B localization (left panel) to a NucBlue Live (Hoechst) DNA stain (left panel). Cells were imaged in 3D on a spinning-disk confocal microscope. Movie starts at the bottom of the cells and ends at the top. Scale bar, 5µm.
Observations
  • Histone H2B type 1-J is a protein that participates in organizing DNA. It and other histone proteins form a core around which DNA wraps. These structures, called nucleosomes, are the fundamental repeating units within chromatin (DNA and histones). The packing of these structures impacts DNA accessibility, affecting functions like transcription, replication, and repair of DNA.
  • In hiPS cells imaged with spinning-disk light microscopy, mEGFP-tagged Histone H2B type 1-J appears within the nucleus as puncta of varying size and intensity, likely reflecting more densely packed regions of nucleosomes, and in a “haze”, where nucleosomes cannot be resolved.
  • The localization of mEGFP-tagged Histone H2B type 1-J is similar to the pattern of the DNA-binding dye Hoechst. Hoechst binds the minor grove of DNA (with preference for A-T rich regions), while mEGFP-tagged Histone H2B type 1-J localizes to the nucleosomal cores around which the DNA wraps.
  • Histone H2B type 1-J pattern of localization and intensity changes through the cell cycle. During interphase, Histone H2B type 1-J localizes throughout the nucleus, with some regions of greater intensity (reflecting a greater density of protein) near the nuclear periphery and the nucleolus. During cell division, Histone H2B type 1-J localizes to chromosomes.

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  • About
      Institute
      1. News feed
      2. What we do
      3. Publications
      4. Allen Institute | allenInstitute.org
      5. Careers
      Site
      1. Home page
      2. Site updates
      3. Archived content
  • Allen Cell Collection
      Order cells & plasmids
      1. Cell Catalog
      2. Cell Catalog quickview
      3. Cell Shorts (documentaries on labs using our cells)
      4. Support forum
      Lab methods
      1. Instructional videos for success in the lab
      2. Standard operating procedures (written methods)
      3. Illustrated overviews
      About our hiPS cells
      1. hiPS Cell Structure Overview
      2. Visual Guide to Human Cells
      3. Cell structure observations
      4. Why endogenous tagging?
      5. Differentiation into cardiomyocytes
      6. Genomics
      7. Download cell data (images, genomics, features)
  • Data & Digital Tools
      Online image analysis
      1. Cell Feature Explorer (plotting & 3D viewer)
      2. 3D cell viewer (pre2018)
      3. Deep cell zoom (216,016 cells)
      Online modeling viewers
      1. Visual Guide to Human Cells
      2. Simularium (4D visual analysis)
      3. Integrated Mitotic Stem Cell
      4. └ Z-stack viewer
      5. └ 3D viewer
      6. Allen Integrated Cell viewer
      7. Label-free examples viewer
      8. 3D probabilistic model viewer
      Desktop tools
      1. Allen Cell & Structure Segmenter
      2. AGAVE 3D pathtrace image viewer
      Data & code
      1. Download cell data (images, genomics, features)
      2. Code repositories & software
  • Analysis & Modeling
      Allen Integrated Cell models
      1. Overview
      2. Integrated Mitotic Stem Cell
      3. └ Z-stack viewer
      4. └ 3D viewer
      5. Label-free Determination
      6. └ 3D viewer
      7. 3D Probabilistic Modeling
      8. └ 3D viewer
      9. Visual Guide to Human Cells
      4D biology models
      1. Simularium (online 4D viewer)
      Methodologies
      1. Drug perturbation pilot study
      2. hiPS cells during mitosis
      3. Differentiation into cardiomyocytes
  • Publications
      Articles
      1. All journal publications
      2. Preprints (biorxiv, arxiv)
      Posters
      1. Select posters
  • Education
      Education resources
      1. All Resources
      2. Teaching materials
      Online tools popular with teachers
      1. Visual Guide to Human Cells
      2. Integrated Mitotic Stem Cell
      3. Cell Feature Explorer (interactive plotting & 3D viewer)
      4. 3D cell viewer (pre2018 data)
      5. hiPS cell structure overview
  • Support
      Questions
      1. FAQs
      2. Forum
      Tutorials for digital tools
      1. Digital tool tutorials with videos
      2. Visual Guide tutorial
      3. AGAVE user guide
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      2. Standard operating procedures (written methods)
      3. Illustrated overviews
  • 🔍
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