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Primary immunodeficiency

Gene: C17orf62

Amber List (moderate evidence)

C17orf62 (chromosome 17 open reading frame 62)
EnsemblGeneIds (GRCh38): ENSG00000178927
EnsemblGeneIds (GRCh37): ENSG00000178927
C17orf62 is in 2 panels

4 reviews

Arina Puzriakova (Genomics England Curator)

Comment on list classification: Changed rating from Green to Amber so that Green genes on this panel reflect the NHS signed-off version. This will be reviewed at the next GMS panel update (added 'for-review' tag).
Created: 20 Oct 2020, 3:30 p.m. | Last Modified: 20 Oct 2020, 3:30 p.m.
Panel Version: 2.352

Eleanor Williams (Genomics England Curator)

Comment on list classification: Changing rating from red to green. 6 Icelandic related cases with same variant, another variant identified in Saudia Arabian individual with related phenotype. Mouse model and functional studies support the role of this gene in Chronic granulomatous disease
Created: 22 Apr 2020, 3:21 p.m. | Last Modified: 22 Apr 2020, 3:21 p.m.
Panel Version: 2.123
Not associated with any disease phenotype in OMIM (under gene name of CYBC1).
C17orf62 is also known as CYBC1/EROS.

PMID: 30361506 - Arnadottir et al 2018 - in 2 brothers with chronic granulomatous disease (CGD) ( a rare primary immunodeficiency characterized by severe recurrent bacterial and fungal infections, along with manifestations of chronic granulomatous inflammation) WGS identified a homozygous loss-of-function mutation, p.Tyr2Ter, in CYBC1. A further 6 unrelated Icelandic additional homozygotes were found to have signs of CGD, manifesting as colitis, rare infections, or a severely impaired PMA-induced neutrophil oxidative burst.

PMID: 30312704 - Thomas et al 2019 - functional studies show that when human ortholog of Eros, CYBC1 is knocked out of human cells there is a lack/lower level of gp91phox and p22phox expression. These two proteins are needed for the phagocyte respiratory burst. A patient from Saudi Arabian with a homozygous CYBC1/EROS mutation who presented with fever, splenomegaly, lymphadenopathy and short stature. He was found to have a homozygous variant that affects splicing and likely results in a retained intron. The patient had undetectable levels of EROS protein compared with cells from the healthy control or the primary T cells/PBMC, while his heterozygous sister had intermediate levels.

PMID: 28351984 - Thomas et al 2017 - Eros -/- mice succumb quickly following infection with Salmonella Typhimurium or Listeria Monocytogenes. Eros is an essential regulator of the phagocyte respiratory burst.

Summary: 6 cases from Iceland with the same variant, plus another different variant found in an individual originally from Saudia Arabia. Mouse model and some functional studies.
Created: 22 Apr 2020, 3:17 p.m. | Last Modified: 22 Apr 2020, 3:17 p.m.
Panel Version: 2.120

Zornitza Stark (Australian Genomics)

Green List (high evidence)

Seven Icelandic families reported with same homozygous variant, p.Tyr2Ter and an additional family from different ethnic background with different homozygous splice site variant. Functional data, including mouse model. Gene also known as EROS and CYBC1 (HGNC approved name)
Created: 10 Apr 2020, 1:58 a.m. | Last Modified: 10 Apr 2020, 1:58 a.m.
Panel Version: 2.51

Mode of inheritance
BIALLELIC, autosomal or pseudoautosomal

Phenotypes
Chronic granulomatous disease

Publications

Louise Daugherty (Genomics England Curator)

I don't know

Added publication referenced by IUIS december 2019 update
Created: 28 Feb 2020, 8:49 p.m. | Last Modified: 28 Feb 2020, 8:49 p.m.
Panel Version: 2.36
Approved HGNC gene symbol for C17orf62 is CYBC1 (as submitted by IUIS update December 2019)
Created: 28 Feb 2020, 12:27 p.m. | Last Modified: 28 Feb 2020, 12:27 p.m.
Panel Version: 2.11

Publications

Details

Mode of Inheritance
BIALLELIC, autosomal or pseudoautosomal
Sources
  • Expert Review Amber
  • IUIS Classification December 2019
Phenotypes
  • Autosomal recessive CGD EROS
  • Congenital defects of phagocyte number or function
  • Chronic granulomatous disease
Tags
new-gene-name for-review
Clinvar variants
Variants in C17orf62
Penetrance
None
Publications
Panels with this gene

History Filter Activity

20 Oct 2020, Gel status: 2

Entity classified by Genomics England curator

Arina Puzriakova (Genomics England Curator)

Gene: c17orf62 has been classified as Amber List (Moderate Evidence).

20 Oct 2020, Gel status: 3

Added Tag

Arina Puzriakova (Genomics England Curator)

Tag for-review tag was added to gene: C17orf62.

22 Apr 2020, Gel status: 3

Entity classified by Genomics England curator

Eleanor Williams (Genomics England Curator)

Gene: c17orf62 has been classified as Green List (High Evidence).

22 Apr 2020, Gel status: 1

Set Phenotypes

Eleanor Williams (Genomics England Curator)

Phenotypes for gene: C17orf62 were changed from Autosomal recessive CGD EROS; Congenital defects of phagocyte number or function to Autosomal recessive CGD EROS; Congenital defects of phagocyte number or function; Chronic granulomatous disease

22 Apr 2020, Gel status: 1

Set publications

Eleanor Williams (Genomics England Curator)

Publications for gene: C17orf62 were set to 30312704; 30361506; 32086639; 32048120

28 Feb 2020, Gel status: 1

Set publications

Louise Daugherty (Genomics England Curator)

Publications for gene C17orf62 were updated from 32086639; 32048120 to 30312704; 30361506; 32086639; 32048120

28 Feb 2020, Gel status: 1

Added Tag

Louise Daugherty (Genomics England Curator)

Tag new-gene-name tag was added to gene: C17orf62.

26 Feb 2020, Gel status: 1

Created, Added New Source, Set mode of inheritance, Set publications, Set Phenotypes

Louise Daugherty (Genomics England Curator)

gene: C17orf62 was added gene: C17orf62 was added to Primary immunodeficiency. Sources: IUIS Classification December 2019 Mode of inheritance for gene: C17orf62 was set to BIALLELIC, autosomal or pseudoautosomal Publications for gene: C17orf62 were set to 32086639; 32048120 Phenotypes for gene: C17orf62 were set to Autosomal recessive CGD EROS; Congenital defects of phagocyte number or function