Alternative splicing and nonsense-mediated decay modulate expression of important regulatory genes in Arabidopsis.
Alternative splicing and nonsense-mediated decay modulate expression of important regulatory genes in Arabidopsis.
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替代剪接和废话介导的衰减调节拟南芥中重要的调节基因的表达。
DOI：
10.1093/nar/gkr932
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发表时间：
2012-03
影响因子：
14.9
通讯作者：
Brown JW
中科院分区：
文献类型：
--
作者：
Kalyna M;Simpson CG;Syed NH;Lewandowska D;Marquez Y;Kusenda B;Marshall J;Fuller J;Cardle L;McNicol J;Dinh HQ;Barta A;Brown JW
选择性剪接（AS）与无义介导的衰变（NMD）是一种调控基因表达的转录后机制。我们已经使用了一个高分辨率的AS RT-PCR面板，以确定内源性AS异构体增加的丰度时，NMD是在拟南芥NMD因子突变体，upf 1 -5和upf 3 -1受损。在面板上的270个AS基因（950个转录本）中，来自97个基因（32%）的102个转录本被鉴定为NMD靶标。从这些数据推断，拟南芥基因组中约13%的含内含子基因可能受到AS/NMD的调控。这组天然存在的NMD敏感的AS转录物也允许分析植物中NMD的信号。我们发现5′或3′ UTR内含子中的AS在调节mRNA转录物的NMD敏感性中的重要性。特别地，我们鉴定了与主要起始密码子重叠的上游开放阅读框架作为植物中NMD的新触发物，并且确定如果3′-UTR>350 nt，则NMD被诱导。出乎意料的是，尽管许多内含子保留转录本具有NMD特征，但它们对NMD不敏感。最后，我们已经表明，AS/NMD调节许多基因的转录本的丰度重要的植物发育和适应，包括转录因子，RNA加工因子和胁迫反应基因。
Alternative splicing (AS) coupled to nonsense-mediated decay (NMD) is a post-transcriptional mechanism for regulating gene expression. We have used a high-resolution AS RT–PCR panel to identify endogenous AS isoforms which increase in abundance when NMD is impaired in the Arabidopsis NMD factor mutants, upf1-5 and upf3-1. Of 270 AS genes (950 transcripts) on the panel, 102 transcripts from 97 genes (32%) were identified as NMD targets. Extrapolating from these data around 13% of intron-containing genes in the Arabidopsis genome are potentially regulated by AS/NMD. This cohort of naturally occurring NMD-sensitive AS transcripts also allowed the analysis of the signals for NMD in plants. We show the importance of AS in introns in 5′ or 3′UTRs in modulating NMD-sensitivity of mRNA transcripts. In particular, we identified upstream open reading frames overlapping the main start codon as a new trigger for NMD in plants and determined that NMD is induced if 3′-UTRs were >350 nt. Unexpectedly, although many intron retention transcripts possess NMD features, they are not sensitive to NMD. Finally, we have shown that AS/NMD regulates the abundance of transcripts of many genes important for plant development and adaptation including transcription factors, RNA processing factors and stress response genes.
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影响因子：
4.5
作者：
Hansen KD;Lareau LF;Blanchette M;Green RE;Meng Q;Rehwinkel J;Gallusser FL;Izaurralde E;Rio DC;Dudoit S;Brenner SE
通讯作者：
Brenner SE
DOI：
10.1073/pnas.0506139102
发表时间：
2005-09-06
影响因子：
11.1
作者：
Baek, D;Green, P
通讯作者：
Green, P
影响因子：
11.4
作者：
Kerenyi, Zoltan;Merai, Zsuzsanna;Silhavy, Daniel
通讯作者：
Silhavy, Daniel
影响因子：
7.2
作者：
Hori, K;Watanabe, Y
通讯作者：
Watanabe, Y
影响因子：
4.8
作者：
CARTER, MS;DOSKOW, J;WILKINSON, MF
通讯作者：
WILKINSON, MF