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Features include always present findings: Elevated brain lactate level by MRS, Generalized hypotonia, Increased circulating lactate concentration, and Increased CSF lactate and others; and common findings: Vertical nystagmus, Brain atrophy, Thin corpus callosum, and Ventricular septal defect and others. 24 total HPO annotations.
Organ System | Phenotype Count | Example Features |
|---|---|---|
Brain and nerves | 7 | Dystonia, Elevated brain lactate level by MRS, Brain atrophy |
Muscles | 4 | Low muscle tone (hypotonia), Generalized hypotonia, Brain atrophy |
Heart and blood vessels | 3 | Ventricular septal defect, Bradycardia, Thickened heart muscle (hypertrophic cardiomyopathy) |
Eyes | 2 | Vertical nystagmus, Nystagmus |
Lungs and breathing | 2 | Respiratory failure, Apnea |
Lab test results | 2 | Increased circulating lactate concentration, Decreased activity of the pyruvate dehydrogenase complex |
Ears | 1 | Hearing loss (hearing impairment) |
Digestive system | 1 | Feeding difficulties |
Mitochondrial short-chain enoyl-CoA hydratase 1 deficiency (ECHS1D) has been reported in 40 individuals representing 31 families [, , , , , , , , , , , , ]. ECHS1D represents a clinical spectrum in which several phenotypes have been described. The most common phenotype is presentation in the neonatal period with severe encephalopathy and lactic acidosis and later-onset Leigh-like signs and symptoms. A small number of affected individuals have normal development, exercise-induced dystonia, and basal ganglia abnormalities on MRI . Age of onset is soon after birth in a majority of reported individuals (median age of onset: 1 day; range 1 day – 8 years, n=40); only five reported individuals have presented after the first year of life. In five affected individuals, prenatal signs (intrauterine growth restriction and/or oligohydramnios) were identified; two of those individuals were born prematurely . Common clinical manifestations are summarized in and discussed below. Table 2. Common Clinical Manifestations of ECHS1 Deficiency Clinical Manifestation | Frequency Neurologic1
Signal abnormalities in the basal ganglia | 28/32 (88%) |
|---|---|
Growth | Failure to thrive |
ECHS1 encodes enoyl-CoA hydratase, short chain 1 (290 aa). Converts unsaturated trans-2-enoyl-CoA species ((2E)-enoyl-CoA) to the corresponding (3S)-3hydroxyacyl-CoA species through addition of a water molecule to the double bond. Highest expression in Liver (654.1 TPM) and Kidney Cortex (276.4 TPM).
Mitochondrial short-chain Enoyl-Coa hydratase 1 deficiency is caused by mutations in the ECHS1 gene on chromosome 10.
The ECHS1 protein participates in ECHS1 mutant hexamer pathway.
ECHS1 is classified as a druggable target (Enzyme category) with score 1.5.
All affected individuals with the paroxysmal dystonia phenotype have been compound heterozygous for the pathogenic variant and a second pathogenic variant . The c.518CT variant, however, has not been identified in affected individuals with other, more severe clinical phenotypes .
Source: GeneReviews — "Mitochondrial Short-Chain Enoyl-CoA Hydratase 1 Deficiency"
No consensus clinical diagnostic criteria for ECHS1 deficiency (ECHS1D) have been published.
Mitochondrial short-chain enoyl-CoA hydratase 1 deficiency (ECHS1D) should be suspected in individuals with clinical features of Leigh syndrome and/or exercise-induced dystonia who have supportive brain MRI and biochemical findings, including early-onset lactic acidosis.
Clinical features
• Neurologic
Developmental delay, often severe [, , , ]
Infantile encephalopathy (may be epileptic), hypotonia, and/or spasticity [, , , ]
Dystonia (exercise induced) and/or choreoathetotic movements
Growth. Failure to thrive, which may present prenatally as intrauterine growth restriction and/or oligohydramnios in the most severe cases
• Cardiorespiratory
Source: GeneReviews — "Mitochondrial Short-Chain Enoyl-CoA Hydratase 1 Deficiency"
Table 3. Disorders to Consider in the Differential Diagnosis of ECHS1 Deficiency (ECHS1D)
Disorder | Gene(s) | MOI | Clinical Features of Disorder |
|---|---|---|---|
PDP1 | ARXL | Pyruvate dehydrogenase complex deficiency; Lactic acidosis; pyruvate; Nl lactate to pyruvate ratio; Long philtrum; Corpus callosum hypoplasia | May be a complete phenocopy1; Persons w/ECHS1D may have abnl acylcarnitine profile or urine organic acids not typically seen in primary PDCD. 3-hydroxyisobutyryl-CoA hydrolase deficiency (HIBCHD) |
HIBCH |
Genetic testing for ECHS1 is available. Testing is considered confirmatory for diagnosis.
No approved treatments are currently available for mitochondrial short-chain Enoyl-Coa hydratase 1 deficiency. The disease remains an area of unmet medical need.
Evaluations Following Initial Diagnosis To establish the extent of disease and needs in an individual diagnosed with mitochondrial short-chain enoyl-CoA hydratase 1 deficiency (ECHS1D), the evaluations summarized (if they have not already been completed) are recommended. Table 4. Recommended Evaluations Following Initial Diagnosis in Individuals with ECHS1 Deficiency
System/Concern | Evaluation | Comment |
|---|---|---|
Neurologic | Brain MRI/MRS to evaluate for basal ganglia involvement structural brain anomalies | Electroencephalogram to evaluate for epileptic encephalopathy |
Cardiovascular | Echocardiogram to evaluate for cardiomyopathy in those w/neonatal form | Measurement of pulmonary artery pressure is important to evaluate for pulmonary hypertension. |
Ophthalmologic | Dilated eye exam to evaluate for optic atrophy other findings | In all affected persons |
Audiologic | Audiologic eval for sensorineural hearing loss | In all affected persons |
Biochemical | Lactate blood gas to evaluate acid/base status | In all affected persons; Blood glucose level; Urine organic acids |
Source: GeneReviews — "Mitochondrial Short-Chain Enoyl-CoA Hydratase 1 Deficiency"
Mitochondrial toxins, such as valproic acid and prolonged propofol infusions, should be avoided . The ketogenic diet may be poorly tolerated because of partially impaired fatty acid oxidation ; one preliminary report suggests rapid disease progression following initiation of the ketogenic diet and in two other affected individuals, subjects perished within days of starting a ketogenic diet . Therefore, ketogenic diet may not be effective to control lactic acidosis and may be harmful or even lethal – and thus should be avoided.
Source: GeneReviews — "Mitochondrial Short-Chain Enoyl-CoA Hydratase 1 Deficiency"
Search ClinicalTrials.gov in the US and EU Clinical Trials Register in Europe for access to information on clinical studies for a wide range of diseases and conditions. Note: There may not be clinical trials for this disorder.
Source: GeneReviews — "Mitochondrial Short-Chain Enoyl-CoA Hydratase 1 Deficiency"
View trials for mitochondrial short-chain Enoyl-Coa hydratase 1 deficiency
Table 6. Recommended Surveillance for Individuals with ECHS1 Deficiency
Evaluation | Recommended Interval | Comments |
|---|---|---|
Comprehensive neurologic exam developmental assessment | Depending on symptoms | Repeat MRI EEG warranted only if symptoms concerning for new developments arise |
Standard anthropometric monitoring | W/routine pediatric follow up | — |
Echocardiogram to monitor for cardiomyopathy | At least annually | Children w/cardiomyopathy noted on echocardiogram may need to be followed more closely. |
Dilated eye exam to monitor for optic atrophy other ophthalmologic findings | At ages 6 mos 12 mos, then annually | Children w/ophthalmologic anomalies detected may need to be followed more closely. |
Audiologic eval for sensorineural hearing loss | At least annually | Children w/abnormal hearing screens may need to be followed more closely. |
Sodium bicarbonate lactate levels to monitor for acidosis | W/all illnesses or metabolic stressors | Children on chronic bicarbonate therapy also require routine monitoring of levels. |
Source: GeneReviews — "Mitochondrial Short-Chain Enoyl-CoA Hydratase 1 Deficiency"
Phenotype severity distribution: 7 always present features, 11 common features.
Estimated prevalence: <1 in 1,000,000 (VERY_RARE).
No clinical trials have been registered for mitochondrial short-chain Enoyl-Coa hydratase 1 deficiency.
7 publications have been identified in PubMed for mitochondrial short-chain Enoyl-Coa hydratase 1 deficiency. Research spans Case Report / Case Series (33%), Basic Science / Preclinical (33%), and Review / Meta-Analysis (17%).
Wu J (2025). [PMID: 40192239](https://pubmed.ncbi.nlm.nih.gov/40192239/). *Mol Genet Genomic Med*. [Review / Meta-Analysis]
Liu Y (2025). [PMID: 40962540](https://pubmed.ncbi.nlm.nih.gov/40962540/). *Zhonghua Er Ke Za Zhi*. [Basic Science / Preclinical]
Wang B (2025). [PMID: 40446940](https://pubmed.ncbi.nlm.nih.gov/40446940/). *Biochim Biophys Acta Mol Basis Dis*. [Basic Science / Preclinical]
Devi ARR (2025). [PMID: 40652483](https://pubmed.ncbi.nlm.nih.gov/40652483/). *Neurol India*. [Case Report / Case Series]
Murofushi Y (2024). [PMID: 39387038](https://pubmed.ncbi.nlm.nih.gov/39387038/). *Radiol Case Rep*. [Case Report / Case Series]
Bernhardt I (2024). [PMID: 38820906](https://pubmed.ncbi.nlm.nih.gov/38820906/). *Mol Genet Metab*. [Epidemiology / Natural History]
Data assembled from 8 of 12 sources · Last updated Sep 20, 2026, 5:39 PM UTC
Online Mendelian Inheritance in Man
European rare disease database
Genetic and Rare Diseases Info Center
Cardiomyopathy |
Ophthalmologic | Nystagmus |
Other | Sensorineural hearing loss |
Enzymatic | Lactic acidemia |
Source: GeneReviews — "Mitochondrial Short-Chain Enoyl-CoA Hydratase 1 Deficiency"
Lactic acidosis; Basal gangliar lesions; 2-methyl-2,3-dihydroxybutyrate |
Organic acid abnormalities typically more pronounced in HIBCHD FBXL4-related encephalomyopathic mitochondrial DNA depletion syndrome |
FBXL4 | AR | Neonatal/primary lactic acidosis; Variable cardiomyopathy | FBXL4 deficiency typically has more striking hyperammonemia.; ECHS1D may be suspected (rather than FBXL4 or TMEM70 deficiency) if 2-methyl-2,3-dihydroxybutyrate is present or lactate-to-pyruvate ratio is nl. Mitochondrial complex V (ATP synthase) deficiency, nuclear type 2 (OMIM 614052) |
ACAD9 Other Leigh syndromes(See Nuclear Gene-Encoded Leigh Syndrome Overview Mitochondrial DNA-Associated Leigh Syndrome and NARP.) | 60 genes | ARmtXL | T2 hyperintensity of the basal ganglia; Dystonia; Developmental regression; Lactic acidosis |
SLC2A1 | ADAR2 | Paroxysmal exercise-induced dystonia | Nl brain MRI Paroxysmal kinesogenic dyskinesia(See PRRT2-Associated Paroxysmal Movement Disorders.) |
PRRT2 | ADAR2 | Paroxysmal dystonia (may be exercise induced) | Nl brain MRI Familial paroxysmal nonkinesigenic dyskinesia |
PC | AR | lactate, pyruvate, ammonia | More striking hyperammonemia; Ketonuria AD = autosomal dominant; AR = autosomal recessive; DiffDx = differential diagnosis; MOI = mode of inheritance; mt = mitochondrial; nl = normal; XL = X-linked 1. , 2. Autosomal recessive inheritance is rare. |
Source: GeneReviews — "Mitochondrial Short-Chain Enoyl-CoA Hydratase 1 Deficiency"
Other | Developmental eval | In all affected persons Physical exam consideration of imaging for possible structural anomalies |
Treatment of Manifestations in Individuals with ECHS1 Deficiency Manifestation/Concern | Treatment | Comments |
Dystonia (paroxysmal) | Benzodiazepines | Levodopa has been tried w/out success in 1 affected person;1 nonetheless, trial of this low-risk, noninvasive therapy is probably reasonable. Dystonia (chronic) |
Seizures | Standard anti-seizure therapy | — |
Inadequate nutrition | Nasogastric tube or gastrostomy tube; feeding therapy w/speech therapist | Cardiomyopathy or |
pulmonary hypertension | Standard treatment per cardiologist | — |
Optic atrophy | Low-vision support for educational settings | N-acetylcysteine vitamin C use may be considered, but evidence for benefit is limited. |
Sensorineural hearing loss | Hearing aids | See Genetic Hearing Loss Overview |
Acidosis | Bicarbonate therapy for correction | Sodium citrate acetate are unlikely to provide sufficient buffering capacity in these children w/secondary impairment of the tricarboxylic acid cycle. |
Hyperammonemia2 | Correction of metabolic acidosis | High-concentration dextrose would result in lacticemia should be used w/caution if at all. Consideration of hemodialysis |