Natural antisense transcripts are significantly involved in regulation of drought stress in maize.
Natural antisense transcripts are significantly involved in regulation of drought stress in maize.
复制标题
天然反义转录本显着参与玉米干旱胁迫的调节
DOI：
10.1093/nar/gkx085
复制
发表时间：
2017-05-19
影响因子：
14.9
通讯作者：
Lu Y
中科院分区：
文献类型：
--
作者：
Xu J;Wang Q;Freeling M;Zhang X;Xu Y;Mao Y;Tang X;Wu F;Lan H;Cao M;Rong T;Lisch D;Lu Y
摘要天然反义转录物是一类重要而复杂的调控RNA。使用链特异性RNA测序，我们确定了1769正义和反义转录对（NAT对）在两个玉米自交系不同的敏感性干旱，以及在两个衍生重组自交系（RILs）。相对于非NAT，NAT的显著更高比例在水分胁迫（WS）下特异性表达。令人惊讶的是，NAT对产生的正义和反义转录物的表达显着相关，特别是在WS。我们发现了一个意想不到的大比例的NAT与蛋白质编码的潜力，估计核糖体释放分数。小RNA在NAT对内显著积累，21 nt smRNA特别富集在这些基因对的重叠区域。这些smRNAs的丰度在leafbladeless1突变体中显著改变，表明这些基因可能受到tasiRNA途径的调控。此外，NAT是显著低甲基化的，并且相对于非NAT基因包括更少的转座因子序列。NAT基因区域也表现出较高水平的H3K36me3、H3K9ac和H3K4me3，但较低水平的H3K27me3，表明NAT基因对通常表现出开放的染色质构型。最后，NAT对在368个不同的玉米自交系和19个分离的群体，特别是丰富的多态性与耐旱性。总之，这些数据突出了小RNA和组蛋白修饰在NAT表达调控中的潜在影响，以及NAT在响应WS中的重要性。
Abstract Natural antisense transcripts (NATs) are a prominent and complex class of regulatory RNAs. Using strand-specific RNA sequencing, we identified 1769 sense and antisense transcript pairs (NAT pairs) in two maize inbreds with different sensitivity to drought, as well as in two derivative recombination inbred lines (RILs). A significantly higher proportion of NATs relative to non-NATs are specifically expressed under water stress (WS). Surprisingly, expression of sense and antisense transcripts produced by NAT pairs is significantly correlated, particularly under WS. We found an unexpected large proportion of NATs with protein coding potential, as estimated by ribosome release scores. Small RNAs significantly accumulate within NAT pairs, with 21 nt smRNA particularly enriched in overlapping regions of these pairs of genes. The abundance of these smRNAs is significantly altered in the leafbladeless1 mutant, suggesting that these genes may be regulated by the tasiRNA pathway. Further, NATs are significantly hypomethylated and include fewer transposable element sequences relative to non-NAT genes. NAT gene regions also exhibit higher levels of H3K36me3, H3K9ac, and H3K4me3, but lower levels of H3K27me3, indicating that NAT gene pairs generally exhibit an open chromatin configuration. Finally, NAT pairs in 368 diverse maize inbreds and 19 segregating populations were specifically enriched for polymorphisms associated with drought tolerance. Taken together, the data highlight the potential impact of that small RNAs and histone modifications have in regulation of NAT expression, and the significance of NATs in response to WS.