Kisho is an information platform, not a medical provider. Nothing on this site constitutes medical advice, diagnosis, or treatment recommendations. All content is aggregated from publicly available sources (including ClinicalTrials.gov, PubMed, FDA.gov, and Orphanet) and is provided for informational purposes only. Clinical trial eligibility, treatment decisions, and any health-related actions should always be discussed with a qualified healthcare professional. Kisho does not endorse any specific therapy, organization, or clinical trial. Terms of use · Privacy policy
Pyruvate dehydrogenase E3 deficiency is a very rare subtype of pyruvate dehydrogenase deficiency (PDHD) characterized by either early-onset lactic acidosis and delayed development, later-onset neurological dysfunction or liver disease.
Features include always present findings: Ketoacidosis, Dystonia, Increased circulating pyruvate concentration, and Low muscle tone (hypotonia) and others; and very common findings: Global developmental delay. 21 total HPO annotations.
Organ System | Phenotype Count | Example Features |
|---|---|---|
Brain and nerves | 5 | Encephalopathy, Dystonia, Seizure |
Lab test results | 5 | Increased circulating pyruvate concentration, Increased CSF leucine concentration, Increased CSF isoleucine concentration |
Digestive system | 4 | Decreased liver function, Feeding difficulties, Enlarged liver (hepatomegaly) |
Head and neck | 1 | Microcephaly |
Muscles | 1 | Low muscle tone (hypotonia) |
Heart and blood vessels | 1 | Thickened heart muscle (hypertrophic cardiomyopathy) |
Metabolism | 1 | Metabolic acidosis |
Persons with dihydrolipoamide dehydrogenase (DLD) deficiency exhibit variable phenotypic and biochemical consequences based on the three affected enzyme complexes. While the spectrum of disease ranges from early-onset neurologic manifestations to isolated adult-onset liver involvement, it represents a continuum and differentiation between discretely defined presentations can occasionally be difficult. Early-Onset Neurologic Presentation The most frequent clinical finding in early-onset DLD deficiency is that of a hypotonic infant with lactic acidosis. Affected infants frequently do not survive their initial metabolic decompensation or die within the first one to two years of life during a recurrent metabolic decompensation. Children who live beyond the first two to three years frequently exhibit growth deficiencies and residual neurologic deficits including intellectual disability, spasticity (hypertonia and/or hyperreflexia), ataxia, and seizures. Typically, seizures are generalized tonic-clonic and occur during episodes of metabolic decompensation and not during periods when affected individuals are metabolically stable . Medication-refractory epilepsy has been seen in one affected individual with neurologic impairment secondary to metabolic decompensation [Author, personal observation]. Of note, normal intellectual functioning has been reported in individuals with certain genotypes . Table 3. Features of the Early-Onset Neurologic Phenotype
Disease Features | Frequency1 |
|---|
DLD encodes dihydrolipoamide dehydrogenase (509 aa). Lipoamide dehydrogenase is a component of the glycine cleavage system as well as an E3 component of three alpha-ketoacid dehydrogenase complexes (pyruvate-, alpha-ketoglutarate-, and branched-chain amino acid-dehydrogenase complex). Highest expression in Cells EBV-transformed lymphocytes (73.2 TPM) and Heart Left Ventricle (70.7 TPM).
Pyruvate dehydrogenase E3 deficiency is caused by mutations in the DLD gene on chromosome 7.
The DLD protein participates in DLD mutant-BCKDH pathway.
DLD is classified as a druggable target (Druggable Genome and Enzyme categories) with score 17.4.
Phenotypic severity is difficult to predict based on genotype and residual enzyme function . However, some correlations have been reported for individuals who have at least one (p.Gly229Cys) pathogenic variant:
Normal intellectual functioning has been reported in individuals with early-onset disease with compound heterozygosity for the (p.Gly229Cys) pathogenic variant and an additional pathogenic allele.
All individuals with an exclusively hepatic presentation have been homozygous for the (p.Gly229Cys) pathogenic variant .
Note: Individuals homozygous for the (p.Gly229Cys) pathogenic variant were initially thought to have a primarily hepatic presentation. Subsequently, individuals homozygous for (p.Gly229Cys) were found to have the early-onset neonatal neurologic presentation as well.
Source: GeneReviews — "Dihydrolipoamide Dehydrogenase Deficiency"
Dihydrolipoamide dehydrogenase (DLD) functions as the E3 subunit of three mitochondrial enzyme complexes: branched-chain alpha-ketoacid dehydrogenase (BCKDH) complex, -ketoglutarate dehydrogenase (KGDH) complex, and pyruvate dehydrogenase (PDH) complex . The E3 subunit is responsible for the reoxidation of the reduced lipoyl moiety of the E2 subunit. Although DLD also functions as the L protein of the glycine cleavage system, pathogenic variants in DLD do not appear to impair the function of this system in vivo. The phenotypic spectrum of DLD deficiency includes an early-onset neurologic presentation, a primarily hepatic presentation, and a primarily myopathic presentation. No formal clinical diagnostic criteria have been established for dihydrolipoamide dehydrogenase (DLD) deficiency.
Source: GeneReviews — "Dihydrolipoamide Dehydrogenase Deficiency"
Early-onset neurologic presentation Table 5. Genes of Interest in the Differential Diagnosis of Dihydrolipoamide Dehydrogenase Deficiency
Gene(s) | DiffDx Disorder | MOI | Features of DiffDx Disorder | Distinguishing Features |
|---|---|---|---|---|
Maple syrup urine disease (MSUD) types 1 2 | AR | Age 12-24 hrs. Maple syrup odor in cerumen, plasma concentrations of BCAAs2 allo-isoleucine, generalized disturbance of plasma amino acid concentration ratiosAge 2-3 days. Ketonuria, irritability, poor feedingAge 4-5 days. | DLD deficiency causes MSUD type 3 can typically be differentiated from MSUD types 1 2 by the presence of severe lactic acidosis, -ketoglutarate excretion in urine, liver involvement in DLD deficiency; The maple syrup odor frequently assoc w/MSUD types 1 2 is not typically assoc w/DLD deficiency. |
Genetic testing for DLD is available. Testing is considered confirmatory for diagnosis.
No approved treatments are currently available for pyruvate dehydrogenase E3 deficiency. The disease remains an area of unmet medical need.
Consensus recommendations for the management of DLD deficiency do not currently exist. Theoretic difficulties exist for the management of affected individuals based on the various metabolic pathways affected by the three involved enzyme complexes. In practice, these difficulties have been experienced and make empiric treatment recommendations challenging. When dihydrolipoamide dehydrogenase (DLD) deficiency is suspected during the diagnostic evaluation, treatment should be initiated immediately. Development and evaluation of treatment plans, training and education of affected individuals and their families, and avoidance of side effects of dietary treatment (i.e., malnutrition, growth failure) require a multidisciplinary approach including multiple subspecialists, with oversight and expertise from a specialized metabolic center. Evaluations Following Initial Diagnosis To establish the extent of disease and needs in an individual diagnosed with dihydrolipoamide dehydrogenase (DLD) deficiency, the evaluations summarized in the following tables (if not performed as part of the evaluation that led to the diagnosis) are recommended. Table 6. Recommended Evaluations Following Initial Diagnosis of Dihydrolipoamide Dehydrogenase Deficiency in an Ill Neonate
System/Concern | Evaluation | Comment |
|---|---|---|
decompensation | Consultation w/metabolic physician / biochemical geneticist specialist metabolic dietitian1 | Transfer to a specialist center w/experience in mgmt of inherited metabolic diseases (strongly recommended) STAT blood gas (arterial or venous), ammonia, lactic acid, CK, glucose |
Hepatic | Measure liver transaminases (AST, ALT) assess liver synthetic function. | Assessment of liver size |
Neurologic | Evaluate for seizures | Consider EEG if concerned. |
Cardiac | Echocardiogram | To assess for cardiac dysfunction hypertrophy Recommended Evaluations Following Initial Diagnosis of Dihydrolipoamide Dehydrogenase Deficiency in a Stabilized Neonate/Infant |
System/Concern |
Source: GeneReviews — "Dihydrolipoamide Dehydrogenase Deficiency"
Avoid the following:
Fasting
Catabolic stressors
Extremes of dietary intake until dietary tolerance/stressors are identified
Liver-toxic medications
Source: GeneReviews — "Dihydrolipoamide Dehydrogenase 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 — "Dihydrolipoamide Dehydrogenase Deficiency"
View trials for pyruvate dehydrogenase E3 deficiency
Table 12.
Recommended Surveillance for Individuals with Dihydrolipoamide Dehydrogenase Deficiency
System/Concern | Evaluation | Frequency/Comment
| Measurement of growth parameters eval of nutritional status safety of oral intake | At each visit
Control of plasma
amino acid levels | Full amino acid profile (either from plasma or filter paper) | • For rapidly growing infants, monitoring weekly or 2x weekly
Routinely in older persons1
Visit w/metabolic specialist | At least monthly in infancy
Delayed acquisition
of developmental
milestones | Monitor developmental milestones.2,3 | At each visit or as needed
| • Physical exam /or US to assess size of liver
Blood measurements of liver transaminases assessment of liver synthetic function
| At each visit
| Physical exam to evaluate for peripheral neuropathy EMG if clinically concerned4
| Physical medicine, OT/PT assessment of mobility, self-help skills
| Echocardiogram | At least annually or based on clinical status
Eyes | Ophthalmologic eval | As clinically indicated
OT = occupational therapy; PT = physical therapy; US = ultrasound
1. The frequency of amino acid monitoring varies by age, metabolic stability, compliance, and regional clinical practice and should be guided by a biochemical geneticist in conjunction with a qualified metabolic nutritionist.
2. The Denver Developmental Screening Test II or a comparable tool is useful for monitoring development of infants and young children.
Source: GeneReviews — "Dihydrolipoamide Dehydrogenase Deficiency"
Phenotype severity distribution: 8 always present features, 1 very common feature.
Estimated prevalence: <1 in 1,000,000 (VERY_RARE).
No clinical trials have been registered for pyruvate dehydrogenase E3 deficiency.
10 publications have been identified in PubMed for pyruvate dehydrogenase E3 deficiency. Research spans Case Report / Case Series (40%), Basic Science / Preclinical (40%), and Epidemiology / Natural History (20%).
Research Type | Count | % of Total |
|---|---|---|
Patient case studies | 4 | 40% |
Laboratory research | 4 | 40% |
Disease patterns and progression | 2 | 20% |
Wang L (2026). [PMID: 40888368](https://pubmed.ncbi.nlm.nih.gov/40888368/). *Clin Genet*. [Case Report / Case Series]
Kokas M (2025). [PMID: 40609475](https://pubmed.ncbi.nlm.nih.gov/40609475/). *Redox Biol*. [Basic Science / Preclinical]
Hammann N (2025). [PMID: 40390331](https://pubmed.ncbi.nlm.nih.gov/40390331/). *J Inherit Metab Dis*. [Case Report / Case Series]
Sprecher U (2025). [PMID: 39802097](https://pubmed.ncbi.nlm.nih.gov/39802097/). *Mol Genet Metab Rep*. [Basic Science / Preclinical]
Haham Zarbib Y (2025). [PMID: 41596078](https://pubmed.ncbi.nlm.nih.gov/41596078/). *Antioxidants (Basel)*. [Basic Science / Preclinical]
Qian C (2025). [PMID: 41428162](https://pubmed.ncbi.nlm.nih.gov/41428162/). *Discov Oncol*. [Epidemiology / Natural History]
Aloulou H (2025). [PMID: 39987041](https://pubmed.ncbi.nlm.nih.gov/39987041/). *BMC Pediatr*. [Case Report / Case Series]
Mihaljević M (2024). [PMID: 39544687](https://pubmed.ncbi.nlm.nih.gov/39544687/). *JIMD Rep*. [Case Report / Case Series]
Lavorato M (2024). [PMID: 39163131](https://pubmed.ncbi.nlm.nih.gov/39163131/). *JCI Insight*. [Basic Science / Preclinical]
Pode-Shakked B (2024). [PMID: 39040027](https://pubmed.ncbi.nlm.nih.gov/39040027/). *J Inherit Metab Dis*. [Epidemiology / Natural History]
Data assembled from 8 of 12 sources · Last updated Sep 19, 2026, 4:29 PM UTC
Online Mendelian Inheritance in Man
European rare disease database
Genetic and Rare Diseases Info Center
%
Clinical presentation2 | Hypotonia | 16/25 |
Developmental delay | 12/25 | 48 |
Emesis | 12/25 | 48 |
Hepatomegaly | 10/25 | 40 |
Lethargy | 8/25 | 32 |
Seizures | 7/25 | 28 |
Spasticity (hypertonia /or hyperreflexia) | 7/25 | 28 |
Leigh syndrome phenotype | 6/25 | 24 |
Failure to thrive | 6/25 | 24 |
Microcephaly | 5/25 | 20 |
Vision impairment | 4/25 | 16 |
Ataxia | 3/25 | 12 |
Cardiac involvement | 3/25 | 12 |
Laboratory abnormalities | Metabolic acidosis3 | 22/25 |
plasma lactate4 | 18/25 | 72 |
urine -ketoglutarate4 | 13/25 | 52 |
Hypoglycemia5 | 12/25 | 48 |
plasma BCAA4 | 10/25 | 40 |
transaminases | 11/25 | 44 |
urine branched-chain ketoacids4 | 7/25 | 28 |
Hepatic failure | 5/25 | 20 |
plasma allo-isoleucine4 | 4/25 | 16 |
Low free plasma carnitine6 | 3/25 | 12 |
Hyperammonemia7 | 4/25 | 16 Includes only individuals biochemically confirmed to have DLD deficiency BCAA = branched-chain amino acids 1. , Later physical examination and neurologic findings are likely underrepresented, as children with an early-onset presentation frequently die in the first year(s) of life. Arterial pH 7. |
Source: GeneReviews — "Dihydrolipoamide Dehydrogenase Deficiency"
— |
NFU1 | Defects in lipoic acid metabolism (OMIM 605711, 614299, 614462, 615330, 616299) | AR | Neonatal lactic acidosis a biochemical phenotype similar to DLD deficiency3 | Unlike DLD deficiency, children w/defects in lipoic acid metabolism (except LIPT1 deficiency) have glycine in body fluids. DLAT DLD PDHA1 PDHB PDHX PDK3 PDP1 |
Primary pyruvate dehydrogenase complex deficiency | ARXL4 | Most commonly presents w/neurologic impairment, hypotonia, structural brain abnormalities, lactic acidosis w/a normal lactate:pyruvate ratio1 | While clinical findings preliminary lab values are similar, DLD deficiency is often also assoc w/: (a) defective KGDH w/ urine -ketoglutarate (b) BCKDH complex dysfunction w/ plasma BCAAs urine branched-chain ketoacids. | — |
Source: GeneReviews — "Dihydrolipoamide Dehydrogenase Deficiency"
Comment |
Constitutional | Assessment of growth parameters | — |
Neurologic | Neurologic eval | Consider:; Head MRI to assess for brain damage;; EEG if seizures a concern;; Regular developmental assessments to identify impairments resulting from metabolic decompensations. |
Eyes | Ophthalmologic eval | If concerns for vision loss Miscellaneous/ |
Other | Consultation w/psychologist /or social worker | To ensure understanding of diagnosis assessment of parental coping skills resources Recommended Evaluations Following Initial Diagnosis of Dihydrolipoamide Dehydrogenase Deficiency in an Older Child or Adult |
System/Concern | Evaluation | Comment |
Hepatic | Measurement of liver transaminases (AST, ALT) assessment of liver synthetic function | — |
Eyes | Ophthalmologic eval | If concerns for vision loss or ptosis Metabolic |
Neurologic | Assessment for muscular weakness | If myopathic form is suspected Miscellaneous/ |
Other | Consultation w/clinical geneticist /or genetic counselor | To incl genetic counseling Treatment of Manifestations The multiple strategies that have been attempted in children with an early-onset neurologic presentation do not appear to significantly alter the natural history of disease. |
Routine Daily Treatment in Individuals with Early-Onset Neonatal Dihydrolipoamide Dehydrogenase Deficiency Principle/Manifestation | Treatment | Consideration/Other |
Protein/BCAA restriction1,2,3 | Protein intake at RDA if no hyperleucinosis is present | If significant hyperleucinosis is present, consider providing protein that consists of 2-3 g/kg/day from BCAA-free amino acids. |