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Any mitochondrial DNA depletion syndrome in which the cause of the disease is a mutation in the FBXL4 gene.
Features include always present findings: Encephalopathy, Poor head control, Type 2 muscle fiber predominance, and Hydrocephalus and others; and very common findings: Mitochondrial depletion, Low muscle tone (hypotonia), and Global developmental delay. 100 total HPO annotations.
Organ System | Phenotype Count | Example Features |
|---|---|---|
Brain and nerves | 16 | Encephalopathy, Dystonia, Focal impaired awareness seizure |
Muscles | 8 | Type 2 muscle fiber predominance, Damage to the optic nerve (optic atrophy), Shrinkage of the cerebellum (cerebellar atrophy) |
Lab test results | 7 | Decreased activity of mitochondrial complex III, Decreased activity of mitochondrial ATP synthase complex, Increased circulating lactate concentration |
Digestive system | 6 | Gastroesophageal reflux, Enlarged liver (hepatomegaly), Elevated circulating hepatic transaminase concentration |
Eyes | 5 | Strabismus, Cataract, Nystagmus |
Heart and blood vessels | 5 | Right ventricular hypertrophy, High blood pressure in lung arteries (pulmonary arterial hypertension), Thickened left heart wall (left ventricular hypertrophy) |
Head and neck | 3 | Microcephaly, Everted lower lip vermilion, Narrow face |
Growth and development | 2 | Short stature, Failure to thrive |
Kidneys and urinary system | 2 | Renal tubular acidosis, Elevated urinary 3-hydroxybutyric acid |
Bones and joints | 2 | Sideways curvature of the spine (scoliosis), Skeletal muscle atrophy |
Blood and immune system | 2 | Recurrent infections, Low red blood cell count (anemia) |
Ears | 1 | Hearing loss (hearing impairment) |
Metabolism | 1 | Metabolic acidosis |
Lungs and breathing | 1 | High blood pressure in lung arteries (pulmonary arterial hypertension) |
Arms and legs | 1 | Short foot |
FBXL4-related mtDNA depletion syndrome has been reported in 50 individuals to date [, , , , , , , , ]. It mainly presents as congenital lactic acidosis along with developmental delay, other neurologic manifestations, feeding difficulty, growth failure, and variable involvement of other organs. Age of onset was soon after birth in the majority of reported individuals (median age of onset: one day; range 1 day – 13 years). Only five individuals presented after age six months, including a female presenting at age 13 years .
Source: GeneReviews — "FBXL4-Related Encephalomyopathic Mitochondrial DNA Depletion Syndrome"
FBXL4 encodes F-box and leucine rich repeat protein 4 (621 aa). Substrate-recognition component of the mitochondria-localized SCF-FBXL4 ubiquitin E3 ligase complex that plays a role in the restriction of mitophagy by controlling the degradation of BNIP3 and NIX mitophagy receptors. Highest expression in Nerve Tibial (15.8 TPM) and Cells Cultured fibroblasts (11.0 TPM).
Mitochondrial DNA depletion syndrome 13 is associated with mutations in the FBXL4 gene on chromosome 6.
FBXL4 is classified as a druggable target (Kinase category) with score 0.0.
FBXL4-related encephalomyopathic mitochondrial DNA (mtDNA) depletion syndrome should be suspected in individuals with early-onset (often congenital) lactic acidosis along with a combination of the following clinical features, brain MRI findings, and supportive laboratory findings.
Clinical features
Developmental delay. Often global with severe speech impairment and lack of ambulation
Neurologic findings, Hypotonia, seizures, movement disorders, such as ataxia, autonomic dysfunction
Feeding difficulty and failure to thrive
Abnormal growth. Intrauterine growth restriction, short stature, microcephaly (congenital and acquired)
Cardiovascular abnormalities. Hypertrophic cardiomyopathy, congenital heart malformations, arrhythmia, pulmonary hypertension
Brain MRI findings
Source: GeneReviews — "FBXL4-Related Encephalomyopathic Mitochondrial DNA Depletion Syndrome"
FBXL4-related mtDNA depletion syndrome needs to be differentiated from other mtDNA depletion syndromes, a genetically and clinically heterogeneous group of autosomal recessive disorders that are characterized by a severe reduction in mtDNA content leading to impaired energy production in affected tissues and organs. Mitochondrial DNA depletion syndromes occur as a result of defects in mtDNA maintenance caused by pathogenic variants in nuclear genes that function in either mitochondrial nucleotide synthesis (e.g., TK2, SUCLA2, SUCLG1, RRM2B, DGUOK, and TYMP) or mtDNA replication (e.g., POLG and TWNK). The function of FBXL4 is not yet known. Mitochondrial DNA depletion syndromes are phenotypically classified into myopathic, encephalomyopathic, hepatocerebral, and neurogastrointestinal forms . Myopathic forms present in infancy or early childhood with hypotonia, proximal muscle weakness, and feeding difficulty. Cognition is usually spared. Typically, there is rapid progression of muscle weakness with respiratory failure and death within a few years of onset. Encephalomyopathic mtDNA depletion syndromes present in infancy with hypotonia and developmental delay. Depending on the underlying defect, other features, including deafness, movement disorders, Leigh like syndrome, and renal disease, can be observed. Hepatocerebral forms present with early-onset liver dysfunction and neurologic involvement, including developmental delay, abnormal eye movements, and peripheral neuropathy. Neurogastrointestinal forms, the prototype of which is mitochondrial neurogastrointestinal encephalopathy (MNGIE) disease, present in adolescence to early adulthood with progressive gastrointestinal dysmotility, cachexia, and peripheral neuropathy. Table 3. Mitochondrial DNA Depletion Syndromes
Genetic testing for FBXL4 is available. Testing is considered confirmatory for diagnosis.
Biomarker and diagnostic research for mitochondrial DNA depletion syndrome 13 has been reported in the published literature.
No approved treatments are currently available for mitochondrial DNA depletion syndrome 13. The disease remains an area of unmet medical need.
Gene therapy approaches for mitochondrial DNA depletion syndrome 13 have been reported in the published literature.
Evaluations Following Initial Diagnosis To establish the extent of the disease and needs in an individual diagnosed with FBXL4-related mtDNA depletion syndrome, the evaluations following diagnosis (if not performed as part of the evaluation that led to diagnosis) listed in are recommended. Table 4. Recommended Evaluations Following Initial Diagnosis
System/Concern | Evaluation | Comment |
|---|---|---|
Eyes | Ophthalmologic eval | — |
ENT | Hearing assessment | — |
Cardiovascular | Cardiac eval w/EKG echocardiography | Consider referral to cardiologist if results are abnormal. |
Gastrointestinal | Nutritional eval; swallowing assessment for feeding difficulties | Eval of liver function w/AST/ALT, bilirubin, total protein, albumin, coagulation profile Neurologic |
Immunologic | Complete blood count to evaluate for neutropenia | Consider more detailed immunologic eval if history of recurrent infections. Miscellaneous/ |
Source: GeneReviews — "FBXL4-Related Encephalomyopathic Mitochondrial DNA Depletion Syndrome"
View trials for mitochondrial DNA depletion syndrome 13
No surveillance guidelines have been published. The following evaluations should be performed on a regular basis, with the treating physician determining the frequency based on initial presentation and severity of the condition.
Table 6.
Recommended Surveillance for Individuals with FBXL4-Related mtDNA Depletion Syndrome
System/Concern | Evaluation
Eyes | Ophthalmologic eval
| Hearing eval
| Echocardiogram electrocardiogram to monitor for development of cardiomyopathy /or arrhythmia, respectively
| Continued assessment of nutrition growth
Measurement of serum lactate, electrolytes, liver function tests w/AST/ALT, bilirubin, total protein, albumin, coagulation profile
| Regular neurologic evals developmental assessments
| Complete blood count
Source: GeneReviews — "FBXL4-Related Encephalomyopathic Mitochondrial DNA Depletion Syndrome"
Phenotype severity distribution: 29 always present features, 3 very common features, 19 common features.
Estimated prevalence: <1 in 1,000,000 (VERY_RARE).
No clinical trials have been registered for mitochondrial DNA depletion syndrome 13.
31 publications have been identified in PubMed for mitochondrial DNA depletion syndrome 13. Research spans Basic Science / Preclinical (42%), Case Report / Case Series (23%), and Review / Meta-Analysis (16%).
Research Type | Count | % of Total |
|---|---|---|
Laboratory research | 13 | 42% |
Patient case studies | 7 | 23% |
Research summaries | 5 | 16% |
Disease patterns and progression | 3 | 10% |
New treatment approaches | 2 | 6% |
Testing and diagnosis research | 1 | 3% |
Menacho C (2026). [PMID: 42009687](https://pubmed.ncbi.nlm.nih.gov/42009687/). *Nat Commun*. [Diagnostic / Biomarker]
Stener-Victorin E (2026). [PMID: 42249186](https://pubmed.ncbi.nlm.nih.gov/42249186/). *Diabetologia*. [Review / Meta-Analysis]
Keser M (2026). [PMID: 40352449](https://pubmed.ncbi.nlm.nih.gov/40352449/). *Molecular syndromology*. [Case Report / Case Series]
Yap C (2026). [PMID: 41232577](https://pubmed.ncbi.nlm.nih.gov/41232577/). *Biochimica et biophysica acta. Molecular basis of disease*. [Basic Science / Preclinical]
Soto Albrecht YE (2026). [PMID: 42234733](https://pubmed.ncbi.nlm.nih.gov/42234733/). *Sci Adv*. [Basic Science / Preclinical]
D'Amato G (2026). [PMID: 41635899](https://pubmed.ncbi.nlm.nih.gov/41635899/). *Case reports in genetics*. [Case Report / Case Series]
Smith TB (2025). [PMID: 39701103](https://pubmed.ncbi.nlm.nih.gov/39701103/). *American journal of human genetics*. [Basic Science / Preclinical]
Ros A (2025). [PMID: 40252080](https://pubmed.ncbi.nlm.nih.gov/40252080/). *Prenatal diagnosis*. [Review / Meta-Analysis]
Akiba T (2025). [PMID: 41142849](https://pubmed.ncbi.nlm.nih.gov/41142849/). *Molecular genetics and metabolism reports*. [Case Report / Case Series]
Kahraman AB (2025). [PMID: 40161922](https://pubmed.ncbi.nlm.nih.gov/40161922/). *Molecular genetics and metabolism reports*. [Basic Science / Preclinical]
Data assembled from 7 of 12 sources · Last updated Sep 19, 2026, 12:35 AM UTC
Online Mendelian Inheritance in Man
European rare disease database
Genetic and Rare Diseases Info Center
Gene |
|---|
Mitochondrial DNA Depletion Syndrome #, Type |
|---|
Reference2 |
|---|
DGUOK | 3, hepatocerebral type | Deoxyguanosine Kinase Deficiency | — |
POLG | 4A, Alpers type | POLG-Related Disorders | — |
MPV17 | 6, hepatocerebral type | — | — |
MPV17-Related Hepatocerebral Mitochondrial DNA Depletion Syndrome TWNK (C10orf2) | 7, hepatocerebral type | OMIM 271245 | — |
TFAM | 15, hepatocerebral type | OMIM 617156 Encephalo-myopathic | — |
SUCLA2 | 5, encephalomyopathic type w/methylmalonic aciduria | SUCLA2-Related Mitochondrial DNA Depletion Syndrome, Encephalomyopathic Form with Methylmalonic Aciduria | — |
FBXL4 | 13, encephalomyopathic type | FBXL4-Related Encephalomyopathic Mitochondrial DNA Depletion Syndrome | — |
SUCLG1 | 9, encephalomyopathic type with methylmalonic aciduria | SUCLG1-Related mtDNA Depletion Syndrome, Encephalomyopathic Form with Methylmalonic Aciduria | — |
RRM2B | 8A, encephalomyopathic type w/renal tubulopathy | RRM2B-Related Mitochondrial Disease | — |
OPA1 | 14, encephalocardiomyopathic type | OMIM 616896 | — |
ABAT | Encephalomyopathic type | OMIM 61... | — |
Source: GeneReviews — "FBXL4-Related Encephalomyopathic Mitochondrial DNA Depletion Syndrome"
Other |
Developmental eval to provide baseline level of functioning recommendations for services (speech, occupational, physical therapy) |
Consultation w/clinical geneticist /or genetic counselor Management is best provided by a multidisciplinary team including neurology, nutrition, clinical genetics / metabolism, and developmental pediatrics. |
Treatment of Manifestations in Individuals with FBXL4-related mtDNA depletion syndrome Manifestation/Concern | Treatment | Considerations/Other |
Inadequate nutrition | A nasogastric tube or gastrostomy tube are frequently needed due to feeding difficulties failure to thrive. | In 1 affected child, improved nutrition resulted in improvement in hypogammaglobulinemia neutropenia.1 |
Seizures | Standard treatment w/antiepileptic drugs | — |
Immobility/wheelchair dependence | Consultation w/physical medicine rehab specialists to help w/mobility or assistive devices (e.g., wheelchair) | — |
Cardiomyopathy arrhythmia | Standard treatment per cardiologist recommendations | — |
Neutropenia | Consider granulocyte colony stimulating factor.2 | — |
Significant acidosis | Consider bicarbonate therapy. | — |
Cataract /or strabismus | Surgical treatment if indicated | — |
Hearing loss | Hearing aids | 1. 2. The following information represents typical management recommendations for individuals with developmental delay / intellectual disability in the United States; standard recommendations may vary from country to country. Ages 0-3 years. |