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NM_000432.4(MYL2):c.173G>A (p.Arg58Gln) AND Hypertrophic cardiomyopathy 10

Germline classification:
Pathogenic (5 submissions)
Last evaluated:
Jan 15, 2024
Review status:
2 stars out of maximum of 4 stars
criteria provided, multiple submitters, no conflicts
Somatic classification
of clinical impact:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Somatic classification
of oncogenicity:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Record status:
current
Accession:
RCV000015111.42

Allele description [Variation Report for NM_000432.4(MYL2):c.173G>A (p.Arg58Gln)]

NM_000432.4(MYL2):c.173G>A (p.Arg58Gln)

Gene:
MYL2:myosin light chain 2 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
12q24.11
Genomic location:
Preferred name:
NM_000432.4(MYL2):c.173G>A (p.Arg58Gln)
Other names:
p.R58Q:CGA>CAA
HGVS:
  • NC_000012.12:g.110914287C>T
  • NG_007554.1:g.11291G>A
  • NM_000432.4:c.173G>AMANE SELECT
  • NP_000423.2:p.Arg58Gln
  • NP_000423.2:p.Arg58Gln
  • LRG_393t1:c.173G>A
  • LRG_393:g.11291G>A
  • LRG_393p1:p.Arg58Gln
  • NC_000012.11:g.111352091C>T
  • NM_000432.3:c.173G>A
  • P10916:p.Arg58Gln
  • c.173G>A
  • p.(Arg58Gln)
Protein change:
R58Q; ARG58GLN
Links:
Leiden Muscular Dystrophy (MYL2): MYL2_00005; UniProtKB: P10916#VAR_004604; OMIM: 160781.0004; dbSNP: rs104894369
NCBI 1000 Genomes Browser:
rs104894369
Molecular consequence:
  • NM_000432.4:c.173G>A - missense variant - [Sequence Ontology: SO:0001583]
Functional consequence:
functional variant [Sequence Ontology: SO:0001536]
Observations:
1

Condition(s)

Name:
Hypertrophic cardiomyopathy 10
Synonyms:
CARDIOMYOPATHY, HYPERTROPHIC, MID-LEFT VENTRICULAR CHAMBER TYPE, 2; Familial hypertrophic cardiomyopathy 10; MYL2-Related Familial Hypertrophic Cardiomyopathy
Identifiers:
MONDO: MONDO:0012112; MedGen: C1834460; OMIM: 608758

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000035368OMIM
no assertion criteria provided
Pathogenic
(Nov 1, 2002)
germlineliterature only

PubMed (2)
[See all records that cite these PMIDs]

SCV000045757Leiden Muscular Dystrophy (MYL2)
no classification provided
not providedgermlinecuration

PubMed (5)
[See all records that cite these PMIDs]

SCV000549157Invitae
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))
Pathogenic
(Jan 15, 2024)
germlineclinical testing

PubMed (12)
[See all records that cite these PMIDs]

SCV000611288Fulgent Genetics, Fulgent Genetics
criteria provided, single submitter

(ACMG Guidelines, 2015)
Pathogenic
(May 18, 2017)
unknownclinical testing

PubMed (1)
[See all records that cite this PMID]

SCV0023185783billion
criteria provided, single submitter

(ACMG Guidelines, 2015)
Pathogenic
(Mar 22, 2022)
germlineclinical testing

PubMed (3)
[See all records that cite these PMIDs]

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknownnot providednot providednot providednot providednot providedclinical testing
not providedgermlineyes1not providednot provided1not providedclinical testing
not providedunknownunknownnot providednot providednot providednot providednot providedclinical testing
not providedgermlinenot providednot providednot providednot providednot providednot providedliterature only, curation

Citations

PubMed

Identification of two novel mutations in the ventricular regulatory myosin light chain gene (MYL2) associated with familial and classical forms of hypertrophic cardiomyopathy.

Flavigny J, Richard P, Isnard R, Carrier L, Charron P, Bonne G, Forissier JF, Desnos M, Dubourg O, Komajda M, Schwartz K, Hainque B.

J Mol Med (Berl). 1998 Mar;76(3-4):208-14.

PubMed [citation]
PMID:
9535554

Hypertrophic cardiomyopathy: distribution of disease genes, spectrum of mutations, and implications for a molecular diagnosis strategy.

Richard P, Charron P, Carrier L, Ledeuil C, Cheav T, Pichereau C, Benaiche A, Isnard R, Dubourg O, Burban M, Gueffet JP, Millaire A, Desnos M, Schwartz K, Hainque B, Komajda M; EUROGENE Heart Failure Project..

Circulation. 2003 May 6;107(17):2227-32. Epub 2003 Apr 21. Erratum in: Circulation. 2004 Jun 29;109(25):3258.

PubMed [citation]
PMID:
12707239
See all PubMed Citations (17)

Details of each submission

From OMIM, SCV000035368.2

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedliterature only PubMed (2)

Description

In affected members of 2 families with familial hypertrophic cardiomyopathy-10 (CMH10; 608758), Flavigny et al. (1998) identified a 173G-A transition in exon 4 of the MYL2 gene, resulting in an arg58-to-gln (R58Q) substitution. Affected individuals were classified morphologically as Maron type 1 or 3, and the mutation segregated with the hypertrophied phenotype in both families.

In a patient with asymmetric septal hypertrophic cardiomyopathy, Kabaeva et al. (2002) identified heterozygosity for the R58Q mutation. The patient had first been diagnosed at age 7 years with nonobstructive myocardial hypertrophy and underwent implantation of a cardioverter defibrillator at age 25 years after ventricular tachycardia degenerating into ventricular fibrillation was observed. She had recurrent episodes of supraventricular tachycardia, and echocardiography revealed asymmetric septal hypertrophy. DNA was not available from her sister, who had asymmetric obstructive myocardial hypertrophy and died suddenly at the age of 21 years, or from her father, who died unexpectedly at a young age and was found to have myocardial hypertrophy on autopsy. The mutation was not found in the proband's mother, who had normal cardiac findings.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlinenot providednot providednot providednot providednot providednot providednot providednot provided

From Leiden Muscular Dystrophy (MYL2), SCV000045757.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedcuration PubMed (5)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlinenot providednot providednot providednot providednot providednot providednot providednot provided

From Invitae, SCV000549157.11

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (12)

Description

This sequence change replaces arginine, which is basic and polar, with glutamine, which is neutral and polar, at codon 58 of the MYL2 protein (p.Arg58Gln). This variant is present in population databases (rs104894369, gnomAD 0.009%). This missense change has been observed in individuals with hypertrophic cardiomyopathy (HCM) (PMID: 9535554, 12404107, 12818575, 23283745, 24111713). ClinVar contains an entry for this variant (Variation ID: 14067). An algorithm developed to predict the effect of missense changes on protein structure and function (PolyPhen-2) suggests that this variant is likely to be disruptive. Experimental studies have shown that this missense change affects MYL2 function (PMID: 14594949, 19150977, 20855589, 21723297, 23727233, 26116789). For these reasons, this variant has been classified as Pathogenic.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot providednot providednot providednot providednot provided

From Fulgent Genetics, Fulgent Genetics, SCV000611288.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1unknownunknownnot providednot providednot providednot providednot providednot providednot provided

From 3billion, SCV002318578.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not provided1not providednot providedclinical testing PubMed (3)

Description

Same nucleotide change resulting in same amino acid change has been previously reported as pathogenic/likely pathogenic with strong evidence (ClinVar ID: VCV000014067, PMID:9535554). A different missense change at the same codon has been reported as pathogenic/likely pathogenic with strong evidence (ClinVar ID: VCV000532778, PMID:24793961). In silico tool predictions suggest damaging effect of the variant on gene or gene product (3CNET: 0.793>=0.75). A missense variant is a common mechanism . It is observed at an extremely low frequency in the gnomAD v2.1.1 dataset (total allele frequency: 0.000008). Therefore, this variant is classified as pathogenic according to the recommendation of ACMG/AMP guideline.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineyes1not providednot provided1not providednot providednot provided

Last Updated: Feb 28, 2024