New transposable elements identified as insertions in rice transposon Tnr1

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<i>Tnr1</i> (235 bp long) is a transposable element in rice. Polymerase chain reactions (PCRs) done with a primer(s) that hybridizes to terminal inverted repeat sequences (TIRs) of <i>Tnr1</i> detected new <i>Tnr1</i> members with one or two insertions in rice genomes. Six identified insertion sequences (<i>Tnr4, Tnr5, Tnr11, Tnr12, Tnr13</i> and <i>RIRE9</i>) did not have extensive homology to known transposable elements, rather they had structural features characteristic of transposable elements. <i>Tnr4</i> (1767 bp long) had imperfect 64-bp TIRs and appeared to generate duplication of a 9-bp sequence at the target site. However, the TIR sequences were not homologous to those of known transposable elements, indicative that <i>Tnr4</i> is a new transposable element. <i>Tnr5</i> (209 bp long) had imperfect 46-bp TIRs and appeared to generate duplication of sequence TTA like that of some elements of the <i>Tourist</i> family. <i>Tnr11</i> (811 bp long) had 73-bp TIRs with significant homology to those of <i>Tnr1</i> and <i>Stowaway</i> and appeared to generate duplication of sequence TA, indicative that <i>Tnr11</i> is a transposable element of the <i>Tnr1/Stowaway</i> family. <i>Tnr12</i> (2426 bp long) carried perfect 9-bp TIRs, which began with 5'-CACTA- -3' from both ends and appeared to generate duplication of a 3-bp target sequence, indicative that Tnr<i>12</i> is a transposable element of the <i>En/Spm</i> family. <i>Tnr13</i> (347 bp long) had 31-bp TIRs and appeared to generate duplication of an 8-bp target sequence. Two sequences, one the transposon-like element <i>Crackle</i>, had partial homology in the <i>Tnr13</i> ends. All five insertions appear to be defective elements derived from autonomous ones encoding the transposase gene. All had characteristic tandem repeat sequences which may be recognized by transposase. The sixth insertion sequence, named <i>RIRE9</i> (3852 bp long), which begins with 5'-TG- -3' and ends with 5'- -CA-3', appeared to generate duplication of a 5-bp target sequence. These and other structural features indicate that this insertion is a solo LTR (long terminal repeat) of a retrotransposon. The transposable elements described above could be identified as insertions into <i>Tnr1</i>, which do not deleteriously affect the growth of rice cells.<br>

収録刊行物

  • Genes & genetic systems  

    Genes & genetic systems 75(2), 69-77, 2000-04 

    The Genetics Society of Japan

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各種コード

  • NII論文ID(NAID)
    10004717732
  • NII書誌ID(NCID)
    AA11077421
  • 本文言語コード
    ENG
  • 資料種別
    ART
  • ISSN
    13417568
  • NDL 記事登録ID
    5428578
  • NDL 雑誌分類
    ZR1(科学技術--生物学)
  • NDL 請求記号
    Z53-W539
  • データ提供元
    CJP書誌  CJP引用  NDL  J-STAGE 
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