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The neonatal form of carnitine palmitoyltransferase II (CPT II) deficiency, an inherited disorder that affects mitochondrial oxidation of long chain fatty acids (LCFA), is the lethal form of the disease which presents with multisystem failure.
Features include always present findings: Low muscle tone (hypotonia), Long-chain dicarboxylic aciduria, Elevated circulating aspartate aminotransferase concentration, and Elevated circulating alanine aminotransferase concentration and others; and very common findings: Decreased plasma total carnitine, Decreased plasma free carnitine, Myoglobinuria, and Reduced tissue carnitine O-palmitoyltransferase 2 activity and others. 95 total HPO annotations.
Organ System | Phenotype Count | Example Features |
|---|---|---|
Digestive system | 11 | Macrovesicular hepatic steatosis, Enlarged liver (hepatomegaly), Feeding difficulties in infancy |
Kidneys and urinary system | 8 | Reduced kidney function (renal insufficiency), Polycystic kidney dysplasia, Renal dysplasia |
Lab test results | 7 | Elevated creatine kinase (muscle enzyme) (elevated circulating creatine kinase concentration), Elevated circulating aspartate aminotransferase concentration, Elevated circulating long chain fatty acid concentration |
Muscles | 6 | Low muscle tone (hypotonia), Knee flexion contracture, Increased muscle lipid content |
Arms and legs | 6 | Hypoplastic toenails, Long fingers, Long toe |
Heart and blood vessels | 6 | Enlarged and weakened heart (dilated cardiomyopathy), Arrhythmia, Enlarged heart (cardiomegaly) |
Brain and nerves | 5 | Seizure, Enlarged brain ventricles (ventriculomegaly), Cerebral calcification |
Head and neck | 4 | Microcephaly, Narrow palate, High palate |
Lungs and breathing | 4 | Apnea, Respiratory failure, Difficulty breathing (respiratory insufficiency) |
Metabolism | 3 | Fever, High blood fat levels (hyperlipidemia), Metabolic acidosis |
Pregnancy and birth | 2 | Neonatal hypotonia, Neonatal respiratory distress |
Eyes | 1 | Cataract |
Age of onset: at birth.
Three carnitine palmitoyltransferase II (CPT II) deficiency phenotypes are recognized: a lethal neonatal form; a severe infantile hepatocardiomuscular form; and a myopathic form, in which onset ranges from infancy to adulthood.
Liver failure, hypoketotic hypoglycemia, cardiomyopathy, respiratory distress, and/or cardiac arrhythmias occur. Affected individuals have liver calcifications and cystic dysplastic kidneys . Neuronal migration defects including cystic dysplasia of the basal ganglia have been reported . Among 19 individuals with the neonatal phenotype a characteristic pattern of malformations was seen.
Source: GeneReviews — "Carnitine Palmitoyltransferase II Deficiency"
CPT2 encodes carnitine palmitoyltransferase 2 (658 aa). Involved in the intramitochondrial synthesis of acylcarnitines from accumulated acyl-CoA metabolites. Highest expression in Liver (26.4 TPM) and Cells EBV-transformed lymphocytes (23.2 TPM).
Carnitine palmitoyl transferase II deficiency, neonatal form is associated with mutations in the CPT2 gene on chromosome 1.
The CPT2 protein participates in Expression of CPT2, CPT2 converts acylcarnitine to acyl-CoA, and PPARA activates gene expression pathways.
CPT2 is classified as a druggable target (Druggable Genome and Enzyme categories) with score 1.1.
A consistent genotype-phenotype correlation is found between CPT2 missense pathogenic variants (including the common ) and the myopathic form; these are referred to as pathogenic variants that cause "mild" form of the disease. CPT2 pathogenic null variants leading either to truncation of the protein or to mRNA degradation are referred to as pathogenic variants associated with the lethal neonatal form. However, several pathogenic variants are associated with both the mild and severe forms of CPT II deficiency, suggesting a role for other unknown modulators (intragenic variants; epigenetic or environmental factors) . For a list of variants and their predicted phenotype, see , , and . Lethal neonatal form.
Source: GeneReviews — "Carnitine Palmitoyltransferase II Deficiency"
Carnitine palmitoyltransferase II (CPT II) deficiency should be suspected in individuals with the following clinical features (by age) and supportive laboratory findings.
Clinical features (by age)
Source: GeneReviews — "Carnitine Palmitoyltransferase II Deficiency"
Elevated acylcarnitines. The differential diagnosis of an elevation of C12 to C18 acylcarnitines, notably of C16 and C18:1, includes glutaric acidemia type II (see Multiple Acyl-CoA Dehydrogenase Deficiency) and carnitine-acylcarnitine translocase deficiency, which can be excluded by additional screening of urinary metabolites such as glutaric and 3-OH-glutaric acid.
Carnitine-acylcarnitine translocase (CACT) deficiency. The neonatal phenotype of CACT deficiency, one of the most severe and usually lethal mitochondrial fatty-acid oxidation abnormalities, is characterized by hypoketotic hypoglycemia, hyperammonemia, cardiac abnormalities, and early death.
Source: GeneReviews — "Carnitine Palmitoyltransferase II Deficiency"
Genetic testing for CPT2 is available. Testing is considered confirmatory for diagnosis.
Biomarker and diagnostic research for carnitine palmitoyl transferase II deficiency, neonatal form has been reported in the published literature.
No approved treatments are currently available for carnitine palmitoyl transferase II deficiency, neonatal form. The disease remains an area of unmet medical need.
To establish the extent of disease and needs in an individual diagnosed with carnitine palmitoyltransferase II (CPT II) deficiency, the following are recommended:
Neurologic examination
Strength testing
Review of dietary association of symptoms
Consultation with a clinical geneticist and/or genetic counselor
Current treatment for long-chain fatty-acid oxidation disorders:
Avoid known triggers.
Reduce the amount of long-chain dietary fat while covering the need for essential fatty acids.
Provide carnitine to convert potentially toxic long-chain acyl-CoAs to acylcarnitines.
Provide a large fraction of calories as carbohydrates to reduce body fat utilization and prevent hypoglycemia.
Provide approximately one third of the calories as even-chain medium chain triglycerides (MCT). Metabolism of the eight to ten carbon fatty acids in MCT oil, for example, is independent of CPT I, carnitine-acylcarnitine translocase, CPT II, very long-chain acyl-CoA dehydrogenase (VLCAD), trifunctional protein, and long-chain hydroxy-acyl-CoA dehydrogenase deficiency (LCHAD) enzyme activities.
Appropriate measures include the following:
Infusions of glucose during intercurrent infections to prevent catabolism
Note: Oral glucose cannot achieve this effect.
Source: GeneReviews — "Carnitine Palmitoyltransferase II Deficiency"
Extended fasting and prolonged exercise are to be avoided. Reports of medication-induced side effects in individuals with CPT II deficiency are rare. Relying mostly on case reports, the following agents should be avoided:
Valproic acid
General anesthesia
Ibuprofen
Diazepam in high doses
Source: GeneReviews — "Carnitine Palmitoyltransferase II Deficiency"
Promising results have been obtained with treatment of cardiomyopathy and rhabdomyolysis in long-chain fat oxidation disorders using anaplerotic odd-chain triglycerides . These results were confirmed in seven individuals with CPT II deficiency, who avoided rhabdomyolysis or hospitalization while on the triheptanoin (anaplerotic) diet. Affected individuals returned to normal physical activity including strenuous sports . Fibrates are a class of hypolipidemic drugs that increase high-density lipoprotein levels by mRNA upregulation of many lipid-metabolism genes through interaction with the steroid/thyroid transcription factor PPARa.
Source: GeneReviews — "Carnitine Palmitoyltransferase II Deficiency"
View trials for carnitine palmitoyl transferase II deficiency, neonatal form
Annual or more frequent monitoring to regulate medication and diet is indicated.
Source: GeneReviews — "Carnitine Palmitoyltransferase II Deficiency"
Phenotype severity distribution: 8 always present features, 6 very common features, 28 common features.
Estimated prevalence: <1 in 1,000,000 (VERY_RARE).
No clinical trials have been registered for carnitine palmitoyl transferase II deficiency, neonatal form.
7 publications have been identified in PubMed for carnitine palmitoyl transferase II deficiency, neonatal form. Research spans Case Report / Case Series (43%), Epidemiology / Natural History (29%), and Diagnostic / Biomarker (14%).
Huang XW (2026). [PMID: 41452423](https://pubmed.ncbi.nlm.nih.gov/41452423/). *World journal of pediatrics : WJP*. [Diagnostic / Biomarker]
Upadia J (2025). [PMID: 41440808](https://pubmed.ncbi.nlm.nih.gov/41440808/). *International journal of neonatal screening*. [Epidemiology / Natural History]
Liu X (2025). [PMID: 40104443](https://pubmed.ncbi.nlm.nih.gov/40104443/). *Research (Washington, D.C.)*. [Case Report / Case Series]
Seferi S (2024). [PMID: 39473663](https://pubmed.ncbi.nlm.nih.gov/39473663/). *Cureus*. [Case Report / Case Series]
Tran TCM (2024). [PMID: 39720737](https://pubmed.ncbi.nlm.nih.gov/39720737/). *Molecular genetics and metabolism reports*. [Basic Science / Preclinical]
Serra G (2024). [PMID: 38616285](https://pubmed.ncbi.nlm.nih.gov/38616285/). *Italian journal of pediatrics*. [Case Report / Case Series]
Gonçalves MM (2024). [PMID: 38535129](https://pubmed.ncbi.nlm.nih.gov/38535129/). *International journal of neonatal screening*. [Epidemiology / Natural History]
Data assembled from 7 of 12 sources · Last updated Oct 3, 2026, 8:13 PM UTC
Online Mendelian Inheritance in Man
European rare disease database
Genetic and Rare Diseases Info Center