ABOUT MTHFR GENE MUTATION

You've been told your homocysteine is high — but nobody tested whether your genes might be making it impossible to metabolize it properly.

Whole genome sequencing identifies both common polymorphisms and rare pathogenic variants in MTHFR, revealing the genetic basis of elevated homocysteine and enabling targeted supplementation strategies.

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About this condition

MTHFR Gene Mutation

MTHFR encodes methylenetetrahydrofolate reductase, an enzyme critical for converting folate into its active form and regulating one-carbon metabolism — the pathway that converts the amino acid homocysteine into methionine. Two common polymorphisms exist: C677T, which reduces enzyme activity to roughly 30% of normal in homozygotes, and A1298C, which reduces activity to about 60%. In the rare severe form, biallelic pathogenic variants cause near-complete loss of enzyme function, leading to severe hyperhomocysteinemia and neurological complications.

Approximately 10% of North Americans are homozygous for the C677T polymorphism. Both polymorphisms are prevalent across populations with ethnogeographic variation. When folate status is low, carriers of these polymorphisms may develop mildly elevated homocysteine, which is associated with increased cardiovascular risk and, in women, modestly increased risk of neural tube defects in offspring. The rare severe form of MTHFR deficiency affects approximately 1 in 10,000 to 50,000 people globally and follows autosomal recessive inheritance.

Understanding MTHFR variants has immediate clinical implications. For individuals with elevated homocysteine, identifying a pathogenic MTHFR variant guides personalized folate and B-vitamin supplementation strategies. For carriers with the common C677T polymorphism, confirming the genotype informs family planning decisions and prenatal counseling. For severe deficiency, a genetic finding enables betaine therapy initiation, confirms the diagnosis, and guides cascade testing in family members — each sibling of an affected individual has a 25% recurrence risk.

MTHFR variants include both common polymorphisms (C677T and A1298C) and rare pathogenic variants causing severe deficiency — each with different enzymatic impact and clinical consequences.

Gene locus
MTHFR (1p36.22)

Standard MTHFR testing checks only two polymorphisms. Research shows it misses over 100 rare pathogenic variants that cause severe homocystinuria.

Rare variants hide in the full gene sequence

Clinical MTHFR testing typically screens only the two common polymorphisms (C677T and A1298C), missing the over 100 rare pathogenic variants in MTHFR that cause severe homocysteinuria and severe methylation defects. Current clinical guidelines (ACMG, American College of Gastroenterology) recommend against routine MTHFR polymorphism testing for thrombophilia, noting that homocysteine level measurement alone is more actionable than genotype. Whole genome sequencing captures the full coding and non-coding sequence, identifying both common polymorphisms and rare pathogenic variants simultaneously.

A finding guides family screening and personalized treatment

When a pathogenic MTHFR variant is confirmed, it enables several clinical actions: targeted folate and B-vitamin supplementation based on the specific enzymatic defect, informed prenatal counseling if the variant affects folate metabolism (reducing neural tube defect risk), family cascade testing to identify other carriers (each sibling of a rare-variant carrier has a 25% recurrence risk), and in severe deficiency, initiation of betaine therapy. For women planning pregnancy with identified C677T homozygosity, periconceptional folate supplementation is now standard care.

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