Collections / A spatiotemporal molecular atlas of mouse spinal cord injury identifies a distinct astrocyte subpopulation and therapeutic potential of IGFBP2

A spatiotemporal molecular atlas of mouse spinal cord injury identifies a distinct astrocyte subpopulation and therapeutic potential of IGFBP2

Spinal cord injury (SCI) triggers a cascade of intricate molecular and cellular changes that determine the outcome. In this study, we resolve the spatiotemporal organization of the injured mouse spinal cord and quantitatively assess in situ cell-cell communication following SCI. By analyzing existing single-cell RNA-sequencing datasets alongside our spatial data, we delineate a subpopulation of Igfbp2-expressing astrocytes that migrate from the white matter (WM) to grey matter (GM) and become reactive upon SCI, termed as Astro-GMii. Further, Igfbp2 upregulation promotes astrocyte migration, proliferation and reactivity, and the secreted IGFBP2 protein fosters neurite outgrowth. Finally, we show that IGFBP2 significantly reduces neuronal loss and remarkably improves the functional recovery in a mouse model of SCI in vivo. Together, this study not only provides a comprehensive molecular atlas of SCI but also exemplifies how the rich resource can be applied to endow cells and genes with functional insight and therapeutic potential.

Datasets16
Size~414 MB
AssayVisium
Samplemouse · spinal cord
KindComparison
PMID:39029468 ↗
Python · lamindb
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="geo-gse256397")
coll.ordered_artifacts.df()                 # the 16 members, ordered

# download every member .zarr to the local cache:
paths = [a.cache() for a in coll.ordered_artifacts.all()]

# …or load each straight into memory as a SpatialData object:
sdatas = {a.key: sd.read_zarr(a.cache()) for a in coll.ordered_artifacts.all()}
Open in Vitessce
Visium
Mouse spinal cord
GSM8097058
mouse spinal cord 25 MB 1,440 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuespinal cord
Size25 MB
Obs1,440
Magnificationother · 3.318 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse spinal cord
GSM8097060
mouse spinal cord spinal cord injury 24 MB 1,691 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuespinal cord
Conditionspinal cord injury
Size24 MB
Obs1,691
Magnificationother · 3.306 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse spinal cord
GSM8097064
mouse spinal cord spinal cord injury 20 MB 1,401 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuespinal cord
Conditionspinal cord injury
Size20 MB
Obs1,401
Magnificationother · 3.288 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse spinal cord
GSM8097070
mouse spinal cord spinal cord injury 46 MB 4,992 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuespinal cord
Conditionspinal cord injury
Size46 MB
Obs4,992
Magnificationother · 3.297 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse spinal cord
GSM8097065
mouse spinal cord spinal cord injury 26 MB 1,500 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuespinal cord
Conditionspinal cord injury
Size26 MB
Obs1,500
Magnificationother · 3.309 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse spinal cord
GSM8097067
mouse spinal cord spinal cord injury 27 MB 1,264 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuespinal cord
Conditionspinal cord injury
Size27 MB
Obs1,264
Magnificationother · 3.286 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse spinal cord
GSM8097056
mouse spinal cord 26 MB 1,417 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuespinal cord
Size26 MB
Obs1,417
Magnificationother · 3.350 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse spinal cord
GSM8097066
mouse spinal cord spinal cord injury 44 MB 4,992 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuespinal cord
Conditionspinal cord injury
Size44 MB
Obs4,992
Magnificationother · 3.296 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse spinal cord
GSM8097057
mouse spinal cord 18 MB 1,273 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuespinal cord
Size18 MB
Obs1,273
Magnificationother · 3.354 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse spinal cord
GSM8097061
mouse spinal cord spinal cord injury 21 MB 1,558 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuespinal cord
Conditionspinal cord injury
Size21 MB
Obs1,558
Magnificationother · 3.297 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse spinal cord
GSM8097055
mouse spinal cord 26 MB 1,455 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuespinal cord
Size26 MB
Obs1,455
Magnificationother · 3.285 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse spinal cord
GSM8097059
mouse spinal cord spinal cord injury 25 MB 1,474 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuespinal cord
Conditionspinal cord injury
Size25 MB
Obs1,474
Magnificationother · 3.291 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse spinal cord
GSM8097063
mouse spinal cord spinal cord injury 28 MB 1,433 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuespinal cord
Conditionspinal cord injury
Size28 MB
Obs1,433
Magnificationother · 3.296 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse spinal cord
GSM8097068
mouse spinal cord spinal cord injury 19 MB 1,080 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuespinal cord
Conditionspinal cord injury
Size19 MB
Obs1,080
Magnificationother · 3.299 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse spinal cord
GSM8097069
mouse spinal cord spinal cord injury 15 MB 1,304 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuespinal cord
Conditionspinal cord injury
Size15 MB
Obs1,304
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse spinal cord
GSM8097062
mouse spinal cord spinal cord injury 23 MB 1,488 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuespinal cord
Conditionspinal cord injury
Size23 MB
Obs1,488
Magnificationother · 3.336 µm/px
bronze H&E Open in Vitessce

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