Classification and relationships of rice strains with AA genome by identification of transposable elements at nine loci.

Idengaku zasshi Pub Date : 1993-06-01 DOI:10.1266/jjg.68.205
K Mochizuki, H Ohtsubo, H Hirano, Y Sano, E Ohtsubo
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引用次数: 28

Abstract

We analyzed the presence of p-SINE1 members at five loci in the rice strains belonging to seven species with AA genome in the Oryza genus by the methods including polymerase chain reaction (PCR). Four p-SINE1 members (p-SINE1-r3, r4, r5 and r7) were present at the corresponding loci in all the strains examined. One member (p-SINE1-r6) was, however, not present at the corresponding locus in most of the African strains of O. glaberrima and O. barthii, but was in the other strains. The PCR-amplified fragments containing p-SINE1-r4 in many strains were found to be larger due to insertion of either one of two transposable elements, named Tnr2 and Ret1, within or near p-SINE1-r4, respectively: Tnr2 is 157 bp in length with terminal inverted repeat sequences of about 56 bp; Ret1 is only 13 bp in length with a T stretch at its end. Tnr2 was not present in the corresponding locus in all the strains belonging to O. sativa Japonica and in some strains of O. rufipogon and O. longistaminata, while Ret1 was present only in the two strains of O. longistaminata. These results and previous ones obtained from the analysis of the other two p-SINE1 members (p-SINE1-r1 and r2) in the Wx gene indicate that the elements, such as p-SINE1-r6, Tnr2, Ret1 and p-SINE1-r2, have been inserted into the respective loci during divergence of the rice species with AA genome. The patterns for the presence and absence of the transposable elements at the respective loci enabled us to classify the rice strains with AA genome into ten groups and to infer their relationships.

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水稻AA基因组9个座转座元件的分类与关系研究。
采用聚合酶链反应(PCR)等方法分析了稻属7个AA基因组水稻品系5个位点上p-SINE1成员的存在。4个p-SINE1成员(p-SINE1-r3, r4, r5和r7)存在于所有菌株的相应位点上。然而,一个成员(p-SINE1-r6)在大多数非洲菌株glaberrima和O. barthii的相应位点不存在,但在其他菌株中存在。在许多菌株中含有p-SINE1-r4的pcr扩增片段由于在p-SINE1-r4内或附近分别插入了两个转座元件Tnr2和Ret1中的一个而变大:Tnr2长度为157 bp,末端倒置重复序列约为56 bp;Ret1的长度只有13 bp,末端有一个T形拉伸。在粳稻稻属的所有菌株和部分褐花稻属和长叶稻属的菌株中,相应的位点不存在Tnr2,而Ret1仅在长叶稻属的两个菌株中存在。这些结果和先前对Wx基因中另外两个p-SINE1成员(p-SINE1-r1和r2)的分析结果表明,p-SINE1-r6、Tnr2、Ret1和p-SINE1-r2等元件在具有AA基因组的水稻物种分化过程中被插入到各自的位点上。根据转座元件在各自位点上的存在和缺失模式,我们将具有AA基因组的水稻品系划分为10个类群,并推断它们之间的关系。
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