Distribution and characterization of over 1000 T-DNA tags in rice genome
Distribution and characterization of over 1000 T-DNA tags in rice genome
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DOI：
10.1046/j.1365-313x.2003.01860.x
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发表时间：
2003-10-01
期刊：
影响因子：
7.2
通讯作者：
Wu, P
中科院分区：
文献类型：
--
作者：
Chen, SY;Jin, WZ;Wu, P
我们在整个水稻基因组中产生T-DNA插入以进行饱和诱变。在水稻12条染色体上定位了1000多个侧翼序列。我们的研究结果表明，T-DNA标签不是随机分布在水稻染色体上，并优先插入在基因丰富的区域。在重复区域发现很少的插入（2.4%）。T-DNA在基因区（58.1%）和基因间区（41.9%）的插入与预测的这些序列在水稻基因组中的大小分布有很好的相关性。而在500 bp大小的编码区外的5 '和3'调控区以及内含子中的插入比外显子中的插入有明显的偏向性。水稻中T-DNA整合的分布模式和偏好性与拟南芥中的相似，可能是T-DNA整合机制本身的结果。水稻需要与拟南芥大致相同数量的T-DNA插入来进行饱和突变。水稻中T-DNA插入位点的数据库可在我们的网站（http：//www.genomics.zju.edu.cn/ricetdna）上公开获得。
We generated T-DNA insertions throughout the rice genome for saturation mutagenesis. More than 1000 flanking sequences were mapped on 12 rice chromosomes. Our results showed that T-DNA tags were not randomly spread on rice chromosomes and were preferentially inserted in gene-rich regions. Few insertions (2.4%) were found in repetitive regions. T-DNA insertions in genic (58.1%) and intergenic regions (41.9%) showed a good correlation with the predicted size distribution of these sequences in the rice genome. Whereas, obvious biases were found for the insertions in the 5'- and 3'-regulatory regions outside the coding regions both at 500-bp size and in introns rather than in exons. Such distribution patterns and biases for T-DNA integration in rice are similar to that of the previous report in Arabidopsis, which may result from T-DNA integration mechanism itself. Rice will require approximately the same number of T-DNA insertions for saturation mutagenesis as will Arabidopsis. A database of the T-DNA insertion sites in rice is publicly available at our web site (http://www.genomics.zju.edu.cn/ricetdna).