Mitochondria and chloroplast are very important organelles for organism, participating in basic life activity. Their genomes contain many repeats which can lead to a variation of genome structure. Oryza is an important genus for human beings’ nutrition. Several mitochondrial and chloroplast genomes of Oryza have been sequenced, which help us to insight the distribution and evolution of the repeats in Oryza species. In this paper, we compared six mitochondrial and 13 chloroplast genomes of Oryza and found that the structures of mitochondrial genomes were more diverse than chloroplast genomes. Since repeats can change the structure of the genome, resulting in the structural diversity of the genome, we analyzed all repeats and found 31 repeats in mitochondrial and 13 repeats in chloroplast genomes. Further, we developed 21 pairs of MRS molecular markers and 12 pairs of CRS molecular markers based on mitochondrial repeats and chloroplast repeats, respectively. These molecular markers can be used to detect the repeat-mediated recombination in Oryza mitochondrial and chloroplast genomes by PCR or fluorescence quantification.

线粒体和叶绿体是生物体非常重要的细胞器，参与基本的生命活动。它们的基因组包含许多重复，这可能导致基因组结构的变化。水稻是人类营养的重要属。稻的几个线粒体和叶绿体基因组已被测序，这有助于我们了解稻物种中重复序列的分布和进化。在本文中，我们比较了稻的6个线粒体和13个叶绿体基因组，发现线粒体基因组的结构比叶绿体基因组更加多样化。由于重复可以改变基因组的结构，从而导致基因组的结构多样性，因此我们分析了所有重复，发现线粒体基因组中有31个重复，叶绿体基因组中有13个重复。此外，我们分别基于线粒体重复和叶绿体重复开发了21对MRS分子标记和12对CRS分子标记。这些分子标记可用于通过 PCR 或荧光定量检测Oryza线粒体和叶绿体基因组中重复介导的重组。