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Nuclear genome substitutions between subspecies can lead to cytoplasmic male sterility (CMS) through incompatibility between nuclear and mitochondrial genomes. Boro-Taichung (BT)-type CMS rice was obtained by substituting the nuclear genome of  Oryza sativa  subsp.  indica  cultivar Chinsurah Boro II with that of  Oryza sativa  subsp.  japonica  cultivar Taichung 65. In BT-type CMS rice, the mitochondrial gene  orf79  is associated with male sterility. A complete sequence of the Boro-type mitochondrial genome responsible for BT-type CMS has not been determined to date. Here, we used pyrosequencing to construct the Boro-type mitochondrial genome. The contiguous sequences were assembled into five circular DNA molecules, four of which could be connected into a single circle. The two resulting subgenomic circles were unable to form a reliable master circle, as recombination between them was scarcely detected. We also found an unequal abundance of DNA molecules for the two loci of  atp6 . These results indicate the presence of multi-partite DNA molecules in the Boro-type mitochondrial genome. Expression patterns were investigated for Boro-type mitochondria-specific  orf s, which were not found in the mitochondria from the standard  japonica  cultivar Nipponbare. Restorer of fertility 1 (RF1)-dependent RNA processing has been observed in  orf79 -containing RNA but was not detected in other Boro-type mitochondria-specific  orf s, supporting the conclusion that  orf79  is a unique CMS-associated gene in Boro-type mitochondria.

plos one

Whole Mitochondrial Genome Sequencing and Re-Examination of a Cytoplasmic Male Sterility-Associated Gene in Boro-Taichung-Type Cytoplasmic Male Sterile Rice