The ubiquitous nature of mitochondria, the dual genetic control of the resp
iratory chain, and the peculiar rules of mitochondrial genetics contribute
to explain the extraordinary clinical heterogeneity of disorders associated
with defects of oxidative phosphorylation (mitochondrial encephalomyopathi
es). To provide a practical approach to the diagnostic challenge posed by t
hese conditions, we critically review the following criteria: (1) clinical
presentation; (2) family history; (3) laboratory data; (4) neuroradiologic
patterns; (5) standardized exercise testing; (6) muscle morphology; (7) mus
cle biochemistry; and (8) molecular genetic screening. Judicious sequential
application of these tools should provide help in recognizing patients wit
h mitochondrial disease and define the biochemical and molecular basis of t
he disorder for each patient. This knowledge is indispensable for accurate
genetic counseling and prenatal diagnosis and is a prerequisite for the dev
elopment of rational therapies, which are still woefully inadequate.