<p>Fruit rot of atemoya (Annona × atemoya Hort. & Wester) occurred in Chichijima-island of Tokyo in December 2014. The pathogen isolated from the diseased pod was identified as Colletotrichum theobromicola based on morphological characteristics and molecular analysis of the rDNA-ITS, β-tubulin and actin regions. Inoculation test showed that the fungus was the causal agent of the disease. This is the first report of this disease in Japan.</p>