Gene expression variation in Drosophila melanogaster due to rare transposable element insertion alleles of large effect.
Gene expression variation in Drosophila melanogaster due to rare transposable element insertion alleles of large effect.
复制标题
DOI：
10.1534/genetics.114.170837
复制
发表时间：
2015-01
期刊：
影响因子：
3.3
通讯作者：
Long AD
中科院分区：
文献类型：
--
作者：
Cridland JM;Thornton KR;Long AD
转座因子是遗传变异的一个常见来源，可能在基因表达变异中发挥重要作用。然而，到目前为止，转座因子对表达变异的贡献只有少数几个例子。我们使用先前发表的基因表达数据，从37个近交果蝇基因参考小组进行全基因组评估转座因子对基因表达的影响。我们发现成千上万的转录本中或转录本附近的转座因子插入和转座因子在转录本中或转录本附近的存在与表达的减少显着相关。我们估计，在该示例群体中，约2.2%的转录物具有转座因子插入，这显著降低了含有转座因子的细胞系中的表达。我们还发现，在转录本的500 bp内插入的转录本显示平均0.67标准差的表达水平下降。这些表达水平的大幅度降低对于靠近转录本的转座因子插入最为明显，并且对于更远距离的插入效果减弱。这项工作代表了第一个全基因组的分析，由于转座因子的基因表达变异，并表明转座因子是一个重要的一类突变的基础表达变异在果蝇和可能在其他系统中，这些移动的元素在真核生物基因组中的普遍存在。
Transposable elements are a common source of genetic variation that may play a substantial role in contributing to gene expression variation. However, the contribution of transposable elements to expression variation thus far consists of a handful of examples. We used previously published gene expression data from 37 inbred Drosophila melanogaster lines from the Drosophila Genetic Reference Panel to perform a genome-wide assessment of the effects of transposable elements on gene expression. We found thousands of transcripts with transposable element insertions in or near the transcript and that the presence of a transposable element in or near a transcript is significantly associated with reductions in expression. We estimate that within this example population, ∼2.2% of transcripts have a transposable element insertion, which significantly reduces expression in the line containing the transposable element. We also find that transcripts with insertions within 500 bp of the transcript show on average a 0.67 standard deviation decrease in expression level. These large decreases in expression level are most pronounced for transposable element insertions close to transcripts and the effect diminishes for more distant insertions. This work represents the first genome-wide analysis of gene expression variation due to transposable elements and suggests that transposable elements are an important class of mutation underlying expression variation in Drosophila and likely in other systems, given the ubiquity of these mobile elements in eukaryotic genomes.
登录
查看更多内容
影响因子：
64.8
作者：
MACKAY, TFC;LANGLEY, CH
通讯作者：
LANGLEY, CH
影响因子：
10.7
作者：
Cridland JM;Macdonald SJ;Long AD;Thornton KR
通讯作者：
Thornton KR
影响因子：
30.8
作者：
Ayroles, Julien F.;Carbone, Mary Anna;Stone, Eric A.;Jordan, Katherine W.;Lyman, Richard F.;Magwire, Michael M.;Rollmann, Stephanie M.;Duncan, Laura H.;Lawrence, Faye;Anholt, Robert R. H.;Mackay, Trudy F. C.
通讯作者：
Mackay, Trudy F. C.
影响因子：
5.8
作者：
Baldi, P;Long, AD
通讯作者：
Long, AD
影响因子：
3.3
作者：
Chung, Henry;Bogwitz, Michael R.;Daborn, Phillip J.
通讯作者：
Daborn, Phillip J.