The phenomenon of transmissible hypovirulence (virulence attenuation) associated with biological control of natural populations of the chestnut blight fungus Cryphonectria parasitica can be experimentally reproduced by infection with hypovirus cDNA clones (viral hypovirulence) or by mutation of mitochondrial DNA (mtDNA) in the absence of virus infection (mitochondrial hypovirulence). We now report the use of an established C. parasitica cDNA microarray to monitor nuclear transcriptional responses to an mtDNA mutation of C. parasitica strain EP155, designated EP155/mit2, which was previously shown to induce elevated alternative oxidase activity and hypovirulence (C. B. Monterio-Vitorello, J. A. Bell, D. W. Fulbright, and H. A. Bertrand, Proc. Natl. Acad. Sci. USA 92:5935-5939, 1995). Approximately 10% of the 2,200 genes represented on the microarray exhibited altered transcript accumulation as a result of the mit2 mtDNA mutation. While genes involved in mitochondrial function were clearly represented in the EP155/mit2-responsive gene list, direct parallels to the well-characterized Saccharomyces cerevisiae retrograde response to mitochondrial dysfunction were not observed. Remarkably, 47% of the genes that were differentially expressed following the infection of strain EP155 by the prototypic hypovirus CHV1-EP713 had similarly changed transcript accumulation in the virus-free EP155/mit2 mutant. These results establish a linkage between viral and mitochondrial hypovirulence and raise questions regarding the relationship between hypovirus infection and mitochondrial dysfunction. The combined set of transcriptional profile data provides a foundation for future studies on mitochondrionto-nucleus communications in the context of hypovirus infection and senescence associated with mitochondrial dysfunction in filamentous fungi.The term "mitochondrial hypovirulence" refers to a cytoplasmically transmissible form of virulence attenuation (hypovirulence) in the chestnut blight fungus, Cryphonectria parasitica, that is associated with mitochondrial defects (23). The term was introduced to distinguish this form of hypovirulence from the more commonly observed form caused by doublestranded RNA (dsRNA) viruses, most notably viruses in the family Hypoviridae (hypoviruses). Both viral hypovirulence and mitochondrial hypovirulence arose in and are associated with the biological control of natural C. parasitica populations (3,8,17,24).Fulbright et al. (14) reported the first isolation of a dsRNA virus-free hypovirulent strain of C. parasitica recovered from a healing canker in the Kellogg Forest, Mich. Subsequent studies (14, 23) revealed that this and other dsRNA-free hypovirulent C. parasitica strains collected from the same general geographic area exhibited high levels of alternative oxidase activity, a hallmark of mitochondrial dysfunction that is often associated with fungal senescence (15). Monteiro-Vitorello and colleagues (23) were able to provide direct evidence that mutation of mitochondrial DNA (mtDNA) in the laboratory...