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A metabolic disease characterized by the accumulation of homogentisic acid (HGA) and its oxidized product, benzoquinone acetic acid (BQA), in various tissues (e.g. cartilage, connective tissue) and body fluids (urine, sweat), causing urine to darken when exposed to air as well as grey-blue coloration of the sclera and ear helix (ochronosis), and a disabling joint disease involving both the axial and peripheral joints (ochronotic arthropathy).
Features include very common findings: Elevated urinary homogentisic acid, Joint inflammation (arthritis), Ochronosis, and Arthralgia and others; and common findings: Mitral valve calcification, Aortic valve calcification, Dark urine, and Thickened Achilles tendon and others. 62 total HPO annotations.
Organ System | Phenotype Count | Example Features |
|---|---|---|
Heart and blood vessels | 11 | Mitral valve calcification, Aortic valve calcification, Coronary artery calcification |
Bones and joints | 11 | Joint inflammation (arthritis), Arthralgia, Excessive outward curvature of the upper spine (kyphosis) |
Eyes | 6 | Brown pigmentation of the conjunctiva, Abnormality of vision, Oil-drop brown pigmentation of the corneal limbus |
Kidneys and urinary system | 3 | Elevated urinary homogentisic acid, Decreased glomerular filtration rate, Nephrolithiasis |
Muscles | 3 | Limitation of knee mobility, Thickened Achilles tendon, Tendon rupture |
Skin | 3 | Skin color changes (abnormality of skin pigmentation), Irregular hyperpigmentation, Abnormal nail morphology |
Growth and development | 1 | Growth abnormality |
Ears | 1 | Hearing abnormality |
Arms and legs | 1 | Oil-drop brown pigmentation of the corneal limbus |
Hormones | 1 | Hypothyroidism |
Blood and immune system | 1 | Red blood cell destruction (hemolytic anemia) |
Digestive system | 1 | Black pigment gallstones |
Age of onset: adulthood.
The clinical findings of alkaptonuria include connective tissue ochronosis and arthritis of the spine and larger joints. Urinary excretion of homogentisic acid (HGA) and disease severity can vary significantly within the same family. Alkaptonuria does not cause developmental delay or cognitive impairment and does not generally reduce the life span of affected individuals.
In general, pigmentary changes are observed after age 30 years. Tendon-related findings, including a thickened Achilles tendon, tendonitis, and rupture, have also been observed clinically and are demonstrable by MRI.
Ochronotic arthritis is a regular manifestation of longstanding alkaptonuria. Involvement of the spine usually appears in the third decade. In one large series, low back pain was observed...
Source: GeneReviews — "Alkaptonuria"
HGD encodes homogentisate 1,2-dioxygenase (445 aa). Catalyzes the conversion of homogentisate to maleylacetoacetate Highest expression in Liver (186.2 TPM) and Thyroid (52.3 TPM).
Alkaptonuria is caused by mutations in the HGD gene on chromosome 3.
The HGD protein participates in HGD dioxygenates homogentisate pathway.
HGD is classified as a druggable target (Enzyme category) with score 26.1.
No correlation is observed between the type of HGD pathogenic variant and amount of HGA excreted or disease severity. While analysis of HGD variants from 172 individuals with alkaptonuria revealed that residual HGA activity ranged from 1% to more than 30%, there was no observed difference in serum HGA, urinary excretion of HGA, or clinical manifestations .
Source: GeneReviews — "Alkaptonuria"
No consensus clinical diagnostic criteria for alkaptonuria have been published.
Alkaptonuria should be suspected in individuals with the following clinical findings and family history.
Clinical findings
Dark urine or urine that turns dark on standing. Oxidation of homogentisic acid (HGA) excreted in the urine produces a melanin-like product and causes the urine to turn dark on standing or exposure to an alkaline agent. However, darkening may not occur for several hours after voiding and many individuals never observe any abnormal color to their urine.
Ochronosis
(bluish-black pigmentation of connective tissue). Accumulation of HGA and its oxidation products (e.g., benzoquinone acetic acid) in connective tissue leads to ochronosis.
Source: GeneReviews — "Alkaptonuria"
Ochronosis. Ochronosis resulting from alkaptonuria may be confused with acquired, reversible pigmentary changes following prolonged use of carbolic acid dressings for chronic cutaneous ulcers . Chemically induced ochronosis has also been described following long-term use of either the antimalarial agent Atabrine® , the skin-lightening agent hydroquinone, or the antibiotic minocycline . A thorough history combined with lack of excessive HGA excretion in the urine should eliminate false positive diagnoses. Arthritis. While the arthritis of alkaptonuria resembles ankylosing spondylitis in its damage to the spine and large joints, it differs in sparing the sacroiliac joint and in its radiographic appearance.
Source: GeneReviews — "Alkaptonuria"
Genetic testing for HGD is available. Testing is considered confirmatory for diagnosis.
Biomarker and diagnostic research for alkaptonuria has been reported in the published literature.
1 FDA-approved treatment is available for alkaptonuria, including NITISINONE (ORFADIN, approved 2002).
Brand Name | Generic Name | Mechanism | Approved | Market Status |
|---|---|---|---|---|
NITYR | NITISINONE | Blocks 4-hydroxyphenylpyruvate dioxygenase | 2017 | Available |
ORFADIN | NITISINONE | — | 2002 | Available |
FDA adverse event reports (FAERS) include all outcomes reported during treatment and do not establish causation. Report counts reflect all approved indications for each drug, not only this disease.
979 adverse event reports have been filed with the FDA for NITISINONE (across all indications). Most commonly reported: attention deficit/hyperactivity disorder, nervous system disorder, and abdominal pain upper.
No clinical practice guidelines for alkaptonuria have been published.
To establish the extent of disease and needs in an individual diagnosed with alkaptonuria, the evaluations summarized in this section (if not performed as part of the evaluation that led to the diagnosis) are recommended:
Complete history and physical examination with particular attention to range of motion in the spine and large joints
Physical medicine and rehabilitation evaluation if limited range of motion or joint pain occurs
Electrocardiogram and echocardiogram in individuals older than age 40 years
Renal ultrasound examination or helical abdominal CT to evaluate for the presence of renal calculi
Measurement of TSH and free thyroxine to evaluate for primary hypothyroidism
Consultation with a medical geneticist, certified genetic counselor, or certified advanced genetic nurse to inform affected individuals and their families about the nature, mode of inheritance, and implications of alkaptonuria in order to facilitate medical and personal decision making
In the US, treatment of alkaptonuria remains symptomatic. While the European Medicines Agency has authorized marketing of nitisinone for treatment of alkaptonuria, to date the US Food and Drug Administration has not approved use of nitisinone for treatment of alkaptonuria.
Avoidance of physical stress to the spine and large joints, including heavy manual labor or high-impact sports, may reduce the progression of severe arthritis. Younger individuals with alkaptonuria should be directed toward non-contact and lower-impact sports.
Source: GeneReviews — "Alkaptonuria"
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 — "Alkaptonuria"
2 trials found
Cardiac. Surveillance for cardiac complications every one to two years is advisable after age 40 years,]; surveillance should include echocardiography to detect aortic dilatation and aortic or mitral valve calcification and stenosis. Individuals with symptoms suggestive of coronary artery disease may be candidates for CT imaging, depending on the recommendation of a medical provider. Urology. Urologic complications become more prevalent after age 40 years:
Routine surveillance is not recommended, but awareness of this potential complication is advised.
Ochronotic prostate stones appear on radiography; kidney stones can be identified by ultrasonography and helical abdominal CT.
Thyroid. Assess thyroid function (using TSH and free thyroxine) at the time of initial diagnosis, and monitor for primary hypothyroidism every one to two years thereafter.
Source: GeneReviews — "Alkaptonuria"
Phenotype severity distribution: 17 very common features, 17 common features.
Estimated prevalence: 1-9 in 1,000,000 (Rare).
2 clinical trials registered, 1 recruiting. Interventions under study include other interventions. Research is primarily sponsored by academic and government institutions.
103 publications have been identified in PubMed for alkaptonuria. Research spans Case Report / Case Series (54%), Basic Science / Preclinical (16%), and Review / Meta-Analysis (9%).
Research Type | Count | % of Total |
|---|---|---|
Patient case studies | 54 | 54% |
Laboratory research | 16 | 16% |
Research summaries | 9 | 9% |
Clinical study results | 5 | 5% |
Disease patterns and progression | 5 | 5% |
Other research | 4 | 4% |
Testing and diagnosis research | 4 | 4% |
New treatment approaches | 3 | 3% |
Moreno CA (2026). [PMID: 42027691](https://pubmed.ncbi.nlm.nih.gov/42027691/). *Mol Genet Metab Rep*. [Basic Science / Preclinical]
Rutland DA (2026). [PMID: 42184121](https://pubmed.ncbi.nlm.nih.gov/42184121/). *Hum Mol Genet*. [Basic Science / Preclinical]
Al-Zagebah A (2026). [PMID: 42130515](https://pubmed.ncbi.nlm.nih.gov/42130515/). *Int J Surg Case Rep*. [Case Report / Case Series]
Sah S (2026). [PMID: 42220729](https://pubmed.ncbi.nlm.nih.gov/42220729/). *Cureus*. [Case Report / Case Series]
León-Sanabria MC (2026). [PMID: 41963999](https://pubmed.ncbi.nlm.nih.gov/41963999/). *BMC Med Genomics*. [Case Report / Case Series]
Liu Z (2026). [PMID: 42180520](https://pubmed.ncbi.nlm.nih.gov/42180520/). *Front Genet*. [Case Report / Case Series]
Chousein C (2026). [PMID: 41844179](https://pubmed.ncbi.nlm.nih.gov/41844179/). *Klin Monbl Augenheilkd*. [Case Report / Case Series]
Moshirfar M (2026). [PMID: 35015405](https://pubmed.ncbi.nlm.nih.gov/35015405/). *Unknown Journal*. [Case Report / Case Series]
Özdemir M (2026). [PMID: 41558493](https://pubmed.ncbi.nlm.nih.gov/41558493/). *Dtsch Med Wochenschr*. [Case Report / Case Series]
Michalak P (2026). [PMID: 42190055](https://pubmed.ncbi.nlm.nih.gov/42190055/). *J Am Acad Orthop Surg Glob Res Rev*. [Case Report / Case Series]
Data assembled from 10 of 12 sources · Last updated Sep 19, 2026, 6:52 PM UTC
Patient Advocacy Groups (PAGs) provide support, resources, and community for patients and caregivers.
Online Mendelian Inheritance in Man
European rare disease database
Genetic and Rare Diseases Info Center
Common questions about alkaptonuria
Joint pain is substantial in individuals with alkaptonuria; close attention to pain control is nec...
Source: GeneReviews — "Alkaptonuria"
AI-curated news mentioning alkaptonuria
Updated Aug 28, 2026
Research explores enhancing the function of human homogentisate 1,2-dioxygenase, which is crucial for treating alkaptonuria. This study employs directed evolution techniques to potentially improve therapeutic outcomes for patients.