A simple method to classify rice [Oryza sativa] strains with AA genome and to infer their relationships by identification of transposable elements at various loci.
1994
Ohtsubo E. | Mochizuki K. | Tenzen T. | Ohtsubo H.
We present here a simple and useful method to classify rice strains with AA genome and to infer their relationships. The method is based on the identification of transposable elements at various loci in the rice chromosomes by considering that members of the transposable elements must have been inserted into the respective loci during divergence of the rice species. Here we first describe several kinds of transposable elements identified in our lab that are very useful for this study. These are retroposons, including a SINE element (called p-SINE1) and Ret-1, and two transposons, Tnr-1 and Tnr-2. We then show our recent results of analyses of the presence or absence of these elements in various rice strains belonging to seven species with AA genome in the Oryza genus. Five p-SINE1 members (r1, r3, r4, r5 and r7) and a Tnr-1 member were present at the corresponding loci in all the stains examined, but two p-SINE1 members (r2 and r6), Ret-1 and Tnr-2 were not present at the corresponding loci in some strains. From the results obtained, the rice strains examined could be classified into 10 groups (A-J). The strains belonging to one species are not always in the same group, and the strains in a group often belong to two or more species. Each group, however, often contained the rice stains belonging to the species which have been assumed to be closely related each other. When the groups are arranged side by side by their patterns for the presence and the absence of transposable elements, such that the pattern of group A is most similar to the pattern of either one of the adjacent groups, B and J, the strains in the two groups placed side by side seemed to be more closely related than those in the distant groups.
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