Transcriptionally active LTR retroelement-related sequences and their relationship with small RNA in moso bamboo (Phyllostachys edulis)
Transcriptionally active LTR retroelement-related sequences and their relationship with small RNA in moso bamboo (Phyllostachys edulis)
复制标题
毛竹 (Phyllostachys edulis) 转录活性 LTR 逆转录元件相关序列及其与小 RNA 的关系
DOI：
10.1007/s11032-017-0733-6
复制
发表时间：
2017-10
影响因子：
3.1
通讯作者：
孟先文
中科院分区：
文献类型：
--
作者：
周明兵;朱怡航;白有煌;Heikki Hänninen;孟先文
在其悠久的栽培历史中，产生了许多具有不同表型的不同品种或类型的毛竹。毛竹的表型多样性在栽培过程中主要是可逆的和不可预测的，这导致了毛竹表观起源假说。前期研究表明转座因子可能参与了毛竹基因的不同表达模式。长末端重复序列（LTR）是毛竹基因组的主要组成部分。在本研究中，进行了全基因组分析，以解决其对宿主基因表达和调控网络的潜在影响。结果表明，LTR逆转录元件通常插入远离基因区域。转录活性似乎是常见的一些毛竹逆转录相关序列。随着与最近基因距离的增加，逆转录相关序列的表达水平和数量呈下降趋势，表明逆转录相关序列与邻近基因之间的相互作用可能对逆转录相关序列的表达模式起一定作用。在毛竹中，30%以上的siRNA是由逆转录相关序列产生的。21-nt siRNA和24-nt siRNA主要靶向竹子LTR逆转录元件的LTR区域。鉴于LTR逆转录元件的高拷贝数、转录活性和大量的siRNA来源，毛竹LTR逆转录元件可能参与宿主基因的转录调控，这可能是毛竹表型多样性的原因。
Many different cultivars or forms with diverse phenotypes of moso bamboo have been produced during its long cultivation history. The diverse phenotypes of moso bamboo are mainly reversible and unpredictable during cultivation, which lead to the hypothesis of their epigenetic origin. Earlier studies have shown that transposable elements might be involved in the different expression patterns of moso bamboo genes. LTR (long terminal repeat) retroelement populations are the main components of moso bamboo genomes. In the present study, a genome-wide analysis addressing their potential impact on host gene expression and the regulatory network was carried out. The results show that LTR retroelements are usually inserted far away from the gene regions. Transcriptional activity appears to be common in some moso bamboo retroelement-related sequences. The expression level and number of retroelement-related sequences tend to decrease with increasing distance from the closest genes, indicating that the interaction between retroelement-related sequences and near genes might play a role in the expression pattern of retroelement-related sequences. Retroelement-related sequences generate more than 30% of the siRNAs in moso bamboo. Both 21-nt siRNA and 24-nt siRNA mainly target within LTR regions of the bamboo LTR retroelements. Given the high copy number of LTR retroelements, the transcriptional activity of LTR retroelements, and the high number of siRNAs derived from the LTR retroelements, moso bamboo LTR retroelements might be involved in the transcriptional regulation of host genes, and this may be responsible for the diverse phenotypes of moso bamboo.
登录
查看更多内容
DOI：
10.1101/008052
发表时间：
2014-08
期刊：
bioRxiv
影响因子：
--
作者：
I. Makarevitch;Amanda J. Waters;P. T. West;Michelle C. Stitzer;J. Ross-Ibarra;Nathan M. Springer
通讯作者：
I. Makarevitch;Amanda J. Waters;P. T. West;Michelle C. Stitzer;J. Ross-Ibarra;Nathan M. Springer
基于下一代测序的 mRNA 和 microRNA 表达谱分析揭示了毛竹正在发育的茎快速生长的途径
影响因子：
5.3
作者：
He CY;Cui K;Zhang JG;Duan AG;Zeng YF
通讯作者：
Zeng YF
影响因子：
12.3
作者：
Pereira V
通讯作者：
Pereira V
DOI：
10.1016/j.plaphy.2015.10.004
发表时间：
2015-12
期刊：
Plant physiology and biochemistry : PPB
影响因子：
--
作者：
X. Xia;R. Gui;Haiyun Yang;Ying Fu;Fang Wei;Mingbing Zhou
通讯作者：
X. Xia;R. Gui;Haiyun Yang;Ying Fu;Fang Wei;Mingbing Zhou
DOI：
10.4238/2015.october.2.16
发表时间：
2015-10
期刊：
Genetics and molecular research : GMR
影响因子：
--
作者：
H. Y. Yang;X. Xia;W. Fang;Y. Fu;M. An;M. Zhou
通讯作者：
H. Y. Yang;X. Xia;W. Fang;Y. Fu;M. An;M. Zhou