Hereditary spastic paraplegia
Gene: LYSTEnsemblGeneIds (GRCh38): ENSG00000143669
EnsemblGeneIds (GRCh37): ENSG00000143669
OMIM: 606897, Gene2Phenotype
LYST is in 24 panels
4 reviews
Louise Daugherty (Genomics England Curator)
Gene to be reviewed again after the GMS Neurology specialist test group have reviewed and agreed rating of gene on the Hereditary spastic paraplegia - childhood onset panel on May 2019Created: 3 May 2019, 8:36 a.m.
Rebecca Foulger (Genomics England curator)
Comment on publications: PMIDs:25519960 and 25519961 are in Japanese.Created: 8 Jan 2019, 3:42 p.m.
Comment on list classification: Updated rating from Red to Amber. Gene added to panel by Chris Buxton (Bristol NHS) based on one family in PMID:24521565. In addition, progressive spastic paraparesis seen in affected siblings in PMID:26307451, and PMIDs 25519960 and 25519961 describe LYST as a potential HSP locus. Further cases required for a diagnostic rating.Created: 8 Jan 2019, 3:42 p.m.
PMID:26307451 (Desai et al 2016) report 3 affected siblings with the late-onset form of CHS, and phenotypes including progressive spastic paraparesis.Created: 8 Jan 2019, 3:37 p.m.
PMID:24521565 (Shimazaki et al 2014) include 2 patients in a Japanese family with parents who are first cousins. They detected a homozygous missense variant (c.4189T>G, p.F1397V) in the LYST gene. The patients had adult Chediak-Higashi syndrome (CHS) presenting spastic paraplegia with cerebellar ataxia and neuropathy.Created: 8 Jan 2019, 3:37 p.m.
Sarah Leigh (Genomics England Curator)
Comment on list classification: This gene is awaiting curator evaluation and rating.Created: 19 Dec 2018, 2:12 p.m.
Chris Buxton (North Bristol NHS Trust)
Shimazaki (2014, 24521565), homozygous LYST (c.4189T>G, p.F1397V).
Gene predominantly associated with Chediak-Higashi syndrome. one publication describing a HSP like phenotype.
Diagnostic on Sheffield HSP panel
Sources: LiteratureCreated: 28 Nov 2018, 9:20 a.m.
Mode of inheritance
BIALLELIC, autosomal or pseudoautosomal
Phenotypes
spastic paraplegia
Publications
Details
- Mode of Inheritance
- BIALLELIC, autosomal or pseudoautosomal
- Sources
-
- Expert Review Amber
- Phenotypes
-
- spastic paraplegia
- Chediak-Higashi syndrome, 214500
- OMIM
- 606897
- Clinvar variants
- Variants in LYST
- Penetrance
- unknown
- Publications
- Panels with this gene
-
- Childhood onset hereditary spastic paraplegia
- Ocular and oculo-cutaneous albinism
- Intellectual disability
- Cytopenia - NOT Fanconi anaemia
- Rare genetic inflammatory skin disorders
- Hereditary neuropathy
- Adult onset dystonia, chorea or related movement disorder
- Primary immunodeficiency or monogenic inflammatory bowel disease
- Bleeding and platelet disorders
- DDG2P
- Infantile nystagmus
- Vici Syndrome and other autophagy disorders
- Optic neuropathy
- Pigmentary skin disorders
- COVID-19 research
- Adult onset neurodegenerative disorder
- Parkinson Disease and Complex Parkinsonism
- Hereditary neuropathy or pain disorder
- Hereditary spastic paraplegia
- Albinism or congenital nystagmus
- Inherited bleeding disorders
- Early onset or syndromic epilepsy
- Adult onset hereditary spastic paraplegia
- Fetal anomalies
History Filter Activity
Set Phenotypes
Rebecca Foulger (Genomics England curator)Phenotypes for gene: LYST were changed from spastic paraplegia to spastic paraplegia; Chediak-Higashi syndrome, 214500
Set publications
Rebecca Foulger (Genomics England curator)Publications for gene: LYST were set to 24521565
Entity classified by Genomics England curator
Rebecca Foulger (Genomics England curator)Gene: lyst has been classified as Amber List (Moderate Evidence).
Entity classified by Genomics England curator
Rebecca Foulger (Genomics England curator)Gene: lyst has been classified as Red List (Low Evidence).
Entity classified by Genomics England curator
Sarah Leigh (Genomics England Curator)Gene: lyst has been classified as Red List (Low Evidence).
Created, Added New Source, Set mode of inheritance, Set publications, Set Phenotypes, Set penetrance
Chris Buxton (North Bristol NHS Trust)gene: LYST was added gene: LYST was added to Hereditary spastic paraplegia. Sources: Literature Mode of inheritance for gene: LYST was set to BIALLELIC, autosomal or pseudoautosomal Publications for gene: LYST were set to 24521565 Phenotypes for gene: LYST were set to spastic paraplegia Penetrance for gene: LYST were set to unknown