DKRE1—The first full-length Ty1-copia-like retrotransposon in persimmon: Isolation, characteristic and potential involvement in occurrence of bud mutations
DKRE1—The first full-length Ty1-copia-like retrotransposon in persimmon: Isolation, characteristic and potential involvement in occurrence of bud mutations
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DOI：
10.1016/j.scienta.2014.12.024
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发表时间：
2015-03
影响因子：
4.3
通讯作者：
Xiaoyun Du;Yanbo Wang;C. Guan;M. Zeng;Rongli Mo;F. Xie;Qing-lin Zhang;Z. Luo
中科院分区：
文献类型：
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作者：
Xiaoyun Du;Yanbo Wang;C. Guan;M. Zeng;Rongli Mo;F. Xie;Qing-lin Zhang;Z. Luo
本研究的重点是柿子（Diospyros kakiThunb.）逆转录转座子1 (DKRE1)，这是一个从柿子中分离到的完整的长末端重复（LTR）逆转录转座子（RTN）。对其结构、系统发育分类、拷贝数、活性特征及其在柿子芽突变发生中的潜在作用进行了研究。DKRE1全长6235 bp，具有与ty1复制样反转录转座子相关的所有序列特征。系统发育分析显示，大麦反转录转座因子-1 （bare1）、水稻反转录转座因子-1 （RIRE1）和梨反转录转座因子ppcrt组氨基酸序列具有显著但不强的同源性。估计每个单倍体基因组的拷贝数为45拷贝，表明dkre1在柿子基因组中具有较低的构成。此外，dkre1在水杨酸（SA）、茉莉酸甲酯（MJA）和脱落酸（ABA）处理的叶片组织中均能检测到转录，表明其在外源植物激素作用下的活性特征。通过逆转录转座子间扩增多态性（IRAP）或序列特异性扩增多态性（SSAP）分子标记，揭示了几对芽突变之间的多态性，表明它们可能参与了突变的发生。据我们所知，这是首次报道在柿子中分离出具有转录活性的完整LTR反转录转座子。该研究对进一步研究芽突变机制和开发基于反转录转座子的分子标记进行遗传分析具有重要意义。
The focus of this study revolved around persimmon (Diospyros kakiThunb.) retrotransposable element 1 (DKRE1), a complete long terminal repeat (LTR) retrotransposon (RTN) that was isolated from persimmons. Its structure, phylogenetic classification, copy number, active characteristics and potential roles involved in the occurrence of bud mutations in persimmons were investigated. Having a length of 6, 235 bp,DKRE1 possessed all of the sequence features associated with Ty1-copia-like retrotransposons. Phylogenetic analysis showed significant, but not strong, identity in amino acid sequences withBARE1 (barley retrotransposable element-1),RIRE1 (rice retrotransposable element-1) andPpcrt(Pyrus pyrifolia copiaretrotransposon) groups. The estimated copy number of 45 copies per haploid genome suggested thatDKRE1 possesses a low constitution in the persimmon genome. Furthermore, the transcription ofDKRE1 could be detected in leaf tissue treated with salicylic acid (SA), methyl jasmonate (MJA), and abscisic acid (ABA), indicating its active characteristics when subjected to exogenous phytohormones. Polymorphisms were revealed between several pairs of bud mutations by way of either inter-retrotransposon amplified polymorphism (IRAP) or sequence-specific amplified polymorphism (SSAP) retrotransposon-based molecular markers, showing a potential involvement in their occurrence. To our knowledge, this is the first report of the isolation of a complete LTR retrotransposon with transcriptional activity in persimmons. This study is valuable for future research on the mechanisms of bud mutation and development of retrotransposon-based molecular markers for genetic analysis.