Adult onset leukodystrophy

Gene: CST3

Amber List (moderate evidence)

CST3 (cystatin C)
EnsemblGeneIds (GRCh38): ENSG00000101439
EnsemblGeneIds (GRCh37): ENSG00000101439
OMIM: 604312, Gene2Phenotype
CST3 is in 5 panels

4 reviews

Achchuthan Shanmugasundram (Genomics England Curator)

Green List (high evidence)

Comment on list classification: There are ten unrelated families reported with a novel adult-onset leukodystrophy disorder. Hence, this gene can be promoted to green rating in the next GMS update.
Created: 14 Apr 2025, 4:54 p.m. | Last Modified: 14 Apr 2025, 4:54 p.m.
Panel Version: 5.8
PMID:38489591 reported 16 patients from eight families with a novel adult-onset leukodystrophy disorder and with one of four different stop-gain or frameshift monoallelic variants in the CST3 gene. The reported variants are c.360del, c.357+1del, c.340C>T and c.376C>T, and none of these variants are found in general population (gnomAD). Clinical and radiological features of these patients differ markedly from the previously described Icelandic cerebral amyloid angiopathy found in patients carrying p.Leu68Asn substitution in CST3. The clinical phenotype consists of recurrent episodes of hemiplegic migraine associated with transient unilateral focal deficits and slowly progressing motor symptoms and cognitive decline in mid to older adult ages.

PMID:38729262 reported two unrelated Chinese individuals with adult-onset leukodystrophy and with monoallelic CST3 variants. One patient had the previously reported c.340C>T variant, while the other had novel c.357+1G>T variant.

This gene has only been reported with Cerebral amyloid angiopathy (MIM #105150) and not yet with the adult-onset leukodystrophy phenotype in OMIM.
Created: 14 Apr 2025, 4:51 p.m. | Last Modified: 14 Apr 2025, 4:51 p.m.
Panel Version: 5.4

Mode of inheritance
MONOALLELIC, autosomal or pseudoautosomal, NOT imprinted

Phenotypes
leukodystrophy, MONDO:0019046

Publications

David Lynch (UCL Institute of Neurology)

Green List (high evidence)

Significant evidence in at least 8 families for a leukodystrophy phenotype in adults without amyloid angiopathy
Created: 18 Mar 2025, 2:04 p.m. | Last Modified: 18 Mar 2025, 2:04 p.m.
Panel Version: 5.4

Mode of inheritance
MONOALLELIC, autosomal or pseudoautosomal, NOT imprinted

Phenotypes
leukodystrophy without amyloid angiopathy

Publications

Sarah Leigh (Genomics England Curator)

I don't know

The rating of this gene has been updated to Amber and the mode of inheritance set to MONOALLELIC, autosomal or pseudoautosomal, imprinted status unknown following NHS Genomic Medicine Service approval.
Created: 30 Jan 2023, 5:56 p.m. | Last Modified: 30 Jan 2023, 5:56 p.m.
Panel Version: 2.46
Associated with Cerebral amyloid angiopathy, OMIM:105150, but not associated with a phenotype in Gen2Phen. A single founder variant (NM_000099.4(CST3):c.281T>A (p.Leu94Gln)) has been associated OMIM:105150 in the Icelandic population (PMIDs: 3495457; 1352269; 8108423).
Created: 5 Jan 2023, 11:04 a.m. | Last Modified: 5 Jan 2023, 11:04 a.m.
Panel Version: 2.13

Eleanor Williams (Genomics England Curator)

Review submitted on behalf of David Lynch, James Polke, Henry Houlden, Lucy Jenkins. Mode of inheritance: AD. Phenotype: Cerebral amyloid angiopathy. Evidence: MIM: 105150. Icelandic founder mutation.
Created: 22 Dec 2022, 2:01 p.m. | Last Modified: 22 Dec 2022, 2:01 p.m.
Panel Version: 2.3

Mode of inheritance
MONOALLELIC, autosomal or pseudoautosomal, imprinted status unknown

Phenotypes
Cerebral amyloid angiopathy

Details

Mode of Inheritance
MONOALLELIC, autosomal or pseudoautosomal, NOT imprinted
Sources
  • Expert Review Amber
  • NHS GMS
  • Expert list
Phenotypes
  • leukodystrophy, MONDO:0019046
  • Cerebral amyloid angiopathy, OMIM:105150
  • ACys amyloidosis, MONDO:0007098
Tags
Q2_25_ promote_green Q2_25_ NHS_review
OMIM
604312
Clinvar variants
Variants in CST3
Penetrance
None
Publications
Panels with this gene

History Filter Activity

14 Apr 2025, Gel status: 2

Added Tag

Achchuthan Shanmugasundram (Genomics England Curator)

Tag Q2_25_ NHS_review tag was added to gene: CST3.

14 Apr 2025, Gel status: 2

Entity classified by Genomics England curator

Achchuthan Shanmugasundram (Genomics England Curator)

Gene: cst3 has been classified as Amber List (Moderate Evidence).

14 Apr 2025, Gel status: 2

Removed Tag, Added Tag

Achchuthan Shanmugasundram (Genomics England Curator)

Tag founder-effect was removed from gene: CST3. Tag Q2_25_ promote_green tag was added to gene: CST3.

14 Apr 2025, Gel status: 2

Set Phenotypes

Achchuthan Shanmugasundram (Genomics England Curator)

Phenotypes for gene: CST3 were changed from Cerebral amyloid angiopathy, OMIM:105150; ACys amyloidosis, MONDO:0007098 to leukodystrophy, MONDO:0019046; Cerebral amyloid angiopathy, OMIM:105150; ACys amyloidosis, MONDO:0007098

14 Apr 2025, Gel status: 2

Set publications

Achchuthan Shanmugasundram (Genomics England Curator)

Publications for gene: CST3 were set to 2900981; 3495457; 1352269; 3673496; 7482672; 8108423

14 Apr 2025, Gel status: 2

Set mode of inheritance

Achchuthan Shanmugasundram (Genomics England Curator)

Mode of inheritance for gene: CST3 was changed from MONOALLELIC, autosomal or pseudoautosomal, imprinted status unknown to MONOALLELIC, autosomal or pseudoautosomal, NOT imprinted

30 Jan 2023, Gel status: 2

Added New Source

Sarah Leigh (Genomics England Curator)

Source NHS GMS was added to CST3.

5 Jan 2023, Gel status: 2

Set publications

Sarah Leigh (Genomics England Curator)

Publications for gene: CST3 were set to 2900981; 3495457; 1352269; 3673496; 7482672

5 Jan 2023, Gel status: 2

Added Tag

Sarah Leigh (Genomics England Curator)

Tag founder-effect tag was added to gene: CST3.

5 Jan 2023, Gel status: 2

Entity classified by Genomics England curator

Sarah Leigh (Genomics England Curator)

Gene: cst3 has been classified as Amber List (Moderate Evidence).

5 Jan 2023, Gel status: 1

Set publications

Sarah Leigh (Genomics England Curator)

Publications for gene: CST3 were set to

5 Jan 2023, Gel status: 1

Set mode of inheritance

Sarah Leigh (Genomics England Curator)

Mode of inheritance for gene: CST3 was changed from to MONOALLELIC, autosomal or pseudoautosomal, imprinted status unknown

5 Jan 2023, Gel status: 1

Set Phenotypes

Sarah Leigh (Genomics England Curator)

Phenotypes for gene: CST3 were changed from Cerebral amyloid angiopathy, OMIM:105150; ACys amyloidosis, MONDO:0007098 to Cerebral amyloid angiopathy, OMIM:105150; ACys amyloidosis, MONDO:0007098

5 Jan 2023, Gel status: 1

Set Phenotypes

Sarah Leigh (Genomics England Curator)

Phenotypes for gene: CST3 were changed from Cerebral amyloid angiopathy, OMIM:105150 to Cerebral amyloid angiopathy, OMIM:105150; ACys amyloidosis, MONDO:0007098

3 Jan 2023, Gel status: 1

Set Phenotypes

Arina Puzriakova (Genomics England Curator)

Phenotypes for gene: CST3 were changed from to Cerebral amyloid angiopathy, OMIM:105150

22 Dec 2022, Gel status: 1

Created, Added New Source, Set mode of inheritance

Eleanor Williams (Genomics England Curator)

gene: CST3 was added gene: CST3 was added to White matter disorders - adult onset. Sources: Expert list Mode of inheritance for gene: CST3 was set to