ATP generated by oxidative phosphorylation is necessary for the normal func
tion of most cells in the body. Partial deficiencies in this system are an
important cause of a large and diverse group of multisystem disorders. As b
oth the nuclear and mitochondrial genomes encode structural components of t
he enzyme complexes of the oxidative phosphorylation system, the disorders
can be transmitted either in a Mendelian fashion or maternally, or can occu
r as sporadic cases. Over the last 12 years more than 100 mutations have be
en uncovered in mtDNA, mostly associated with disease in the adult populati
on. Recently, much attention has turned to the investigation of the nuclear
oxidative phosphorylation gene defects. The majority of these are inherite
d as autosomal recessive traits, producing severe, and usually fatal diseas
e in infants. Adult-onset Mendelian oxidative phosphorylation diseases, whi
ch can be inherited as autosomal recessive or dominant traits, have a milde
r phenotype, and most are associated with multiple mtDNA deletions. Approxi
mately 20 different nuclear gene defects have now been identified in genes
coding for structural components of the complexes, assembly/maintenance fac
tors and factors necessary for the maintenance of mtDNA integrity. Some cle
ar genotype-phenotype associations have emerged, and there is an unexpected
link between some structural gene mutations and rare cancers, implicating
mitochondria as oxygen sensors in the hypoxia response.