SSBD:database v3

306-Kamei-microglia

OMERO gallery,
OMERO index

Project

Title
In vivo imaging of the phagocytic dynamics underlying efficient clearance of adult-born hippocampal granule cells by ramified microglia
Description
The phagocytosis of dead cells by microglia is essential in brain development and homeostasis. However, the mechanism underlying the efficient removal of cell corpses by ramified microglia remains poorly understood. Here, the authors investigated the phagocytosis of dead cells by ramified microglia in the hippocampal dentate gyrus, where adult neurogenesis and homeostatic cell clearance occur. Two-color imaging of microglia and apoptotic newborn neurons revealed two important characteristics. Firstly, frequent environmental surveillance and rapid engulfment reduced the time required for dead cell clearance. The motile microglial processes frequently contacted and enwrapped apoptotic neurons at the protrusion tips and completely digested them within 3–6 h of the initial contact. Secondly, while a single microglial process engaged in phagocytosis, the remaining processes continued environmental surveil- lance and initiated the removal of other dead cells. The simultaneous removal of multiple dead cells increases the clearance capacity of a single microglial cell.
License
CC BY
Released at
Oct. 20, 2025, midnight
Updated at
Funding
Japan Agency for Medical Research and Development. Grant Numbers: JP19gm1310003, JP22jm0210097, Ministry of Education, Culture, Sports, Science and Technology. Grant Numbers: 20H00481, 20H05894, 20H05895
# of image datasets
20

Papers

Papers
Paper information: Kamei R, Okabe S. In vivo imaging of the phagocytic dynamics underlying efficient clearance of adult-born hippocampal granule cells by ramified microglia. Glia. 2023 Aug;71(8):2005-2023.,
Pubmed ID: 37102766,
DOI: https://doi.org/10.1002/glia.24379,
URL: https://pubmed.ncbi.nlm.nih.gov/37102766/

Contacts

Contacts
Shigeo Okabe (Contact) , Department of Cellular Neurobiology, Graduate School of Medicine , University of Tokyo
Ryosuke Kamei (Imaging Contributor) , Department of Cellular Neurobiology, Graduate School of Medicine , University of Tokyo

Biosamples

Organisms
Mus musculus (NCBI:txid10090)
Strains
CX3CR1^{+/GFP}, Nes-CreER^{T2+/-}, Rosa-CAG-LSL- tdTomato^{+/-}
Cells
neuron, microglial cell (CL_0000129)
Cell lines

Ontologies

UBERON
brain (UBERON_0000955)
Anatomical entities
GO: Biological processes
GO: Cellular components
GO: Molecular functions

Genetics

Gene names
Protein names
Genetic methods
Protein tags
tdTomato (FBbi:00000518)
GFP (FBbi:00000437)
Probes
Oligo Primer
Genotype

Treatments

Reagent or Compound
Concentration
Fold Dilution

Imaging Methods

Dimensions
544x553x67x2x49, 560x541x19x2x97, 539x552x68x2x49, 560x541x61x2x97, 620x544x46x2x26, 519x524x43x2x7, 525x538x61x2x22, 522x523x53x2x22, 520x525x48x2x15, 548x535x57x2x97, 519x517x52x2x10, 553x535x63x2x97, 524x534x56x2x22, 536x518x53x2x69,
X scales
0.499 micrometer/pixel, 0.249 micrometer/pixel,
Y scales
0.499 micrometer/pixel, 0.249 micrometer/pixel,
Z scales
1.0 micrometer/slice, 1.5 micrometer/slice,
T scales
265 second per time interval, 267 second per time interval, 215 second per time interval, 272 second per time interval, 600 second per time interval,
Channels
2 channel,
Microscopy types
two-photon laser scanning microscopy (FBbi:00000254), time lapse microscopy (FBbi:00000249)
Detection methods
Visualization methods
Illumination methods
Sources of contrast
Contrast enhancing methods
Resolution enhancing methods
Imaged parameters
Sample preparation methods

Instruments

Body
A1R MP+ multiphoton microscope (Nikon)
Model
Light source
Spectra-Physics MaiTai Deep See
Detector
Objective
Olympus XLPLN25XSVMP
Filter set
525/50, 629/56
Dichroic

Datasets

Dataset name
Organism
Gene / Protein
Dimensions
File size
SSBD:OMERO
Download
Fig2B_Video1_phagocytosis
Mus musculus (NCBI:txid10090)
560x541x19x2x97
7.17GB
Gallery, Index
zip
Fig3C_engulf
Mus musculus (NCBI:txid10090)
620x544x46x2x26
1.82GB
Gallery, Index
zip
Fig4A_digest_1
Mus musculus (NCBI:txid10090)
560x541x61x2x97
7.17GB
Gallery, Index
zip
Fig4A_digest_2
Mus musculus (NCBI:txid10090)
536x518x53x2x69
4.08GB
Gallery, Index
zip
Fig4A_digest_3
Mus musculus (NCBI:txid10090)
519x517x52x2x10
559MB
Gallery, Index
zip
Fig4A_digest_4
Mus musculus (NCBI:txid10090)
548x535x57x2x97
6.49GB
Gallery, Index
zip
Fig4A_digest_5
Mus musculus (NCBI:txid10090)
553x535x63x2x97
7.23GB
Gallery, Index
zip
Fig4A_digest_6
Mus musculus (NCBI:txid10090)
525x538x61x2x22
1.52GB
Gallery, Index
zip
Fig4A_digest_7
Mus musculus (NCBI:txid10090)
524x534x56x2x22
1.38GB
Gallery, Index
zip
Fig4A_digest_8
Mus musculus (NCBI:txid10090)
539x552x68x2x49
3.97GB
Gallery, Index
zip
Fig4A_digest_9
Mus musculus (NCBI:txid10090)
544x553x67x2x49
3.95GB
Gallery, Index
zip
Fig4A_digest_10
Mus musculus (NCBI:txid10090)
520x525x48x2x15
787MB
Gallery, Index
zip
Fig4A_digest_11
Mus musculus (NCBI:txid10090)
522x523x53x2x22
1.27GB
Gallery, Index
zip
Fig4A_digest_12
Mus musculus (NCBI:txid10090)
519x524x43x2x7
328MB
Gallery, Index
zip
Fig5A_retruct_1
Mus musculus (NCBI:txid10090)
560x541x61x2x97
7.17GB
Gallery, Index
zip
Fig5A_retruct_2
Mus musculus (NCBI:txid10090)
553x535x63x2x97
7.23GB
Gallery, Index
zip
Fig5A_retruct_3
Mus musculus (NCBI:txid10090)
539x552x68x2x49
3.07GB
Gallery, Index
zip
Fig5A_retruct_4
Mus musculus (NCBI:txid10090)
520x525x48x2x15
787MB
Gallery, Index
zip
Fig5A_retruct_5
Mus musculus (NCBI:txid10090)
522x523x53x2x22
1.27GB
Gallery, Index
zip
Fig5G_Video2_multi
Mus musculus (NCBI:txid10090)
560x541x61x2x97
7.17GB
Gallery, Index
zip