College of Life Science, Shandong University, Jinan, China.
Bio-Tech Research Center, Shandong Academy of Agricultural Science/Shandong Provincial Key Laboratory of Genetic Improvement, Ecology and Physiology of Crops, Jinan, China.
BMC Plant Biol. 2018 Jul 4;18(1):139. doi: 10.1186/s12870-018-1339-9.
Alternative splicing (AS) represents a mechanism widely used by eukaryotes for the post-transcriptional regulation of genes. The detailed exploration of AS in peanut has not been documented.
The strand-specific RNA-Seq technique was exploited to characterize the distribution of AS in the four samples of peanut (FH1-seed1, FH1-seed2, FH1-root and FH1-leaf). AS was detected as affecting around 37.2% of the full set of multi-exon genes. Some of these genes experienced AS throughout the plant, while in the case of others, the effect was organ-specific. Overall, AS was more frequent in the seed than in either the root or leaf. The predominant form of AS was intron retention, and AS in transcription start site and transcription terminal site were commonly identified in all the four samples. It is interesting that in genes affected by AS, the majority experienced only a single type of event. Not all of the in silico predicted transcripts appeared to be translated, implying that these are either degraded or sequestered away from the translation machinery. With respect to genes involved in fatty acid metabolism, about 61.6% were shown to experience AS.
Our report contributes significantly in AS analysis of peanut genes in general, and these results have not been mentioned before. The specific functions of different AS forms need further investigation.
可变剪接（AS）是真核生物在转录后调控基因的一种广泛使用的机制。在花生中对 AS 的详细研究尚未有文献记载。
利用链特异性 RNA-Seq 技术来描述花生的四个样本（FH1-种子 1、FH1-种子 2、FH1-根和 FH1-叶）中 AS 的分布。AS 影响了大约 37.2%的全外显子基因。其中一些基因在整个植物中经历了 AS，而另一些基因的作用则是器官特异性的。总的来说，AS 在种子中比在根或叶中更为常见。AS 的主要形式是内含子保留，在所有四个样本中都普遍存在转录起始位点和转录末端位点的 AS。有趣的是，在受 AS 影响的基因中，大多数基因只经历了一种类型的事件。并非所有的计算机预测转录本似乎都被翻译，这意味着这些转录本要么被降解，要么被隔离在翻译机制之外。在涉及脂肪酸代谢的基因中，约有 61.6%的基因经历了 AS。
本报告在花生基因的 AS 分析方面做出了重要贡献，这些结果以前没有被提及过。不同 AS 形式的具体功能需要进一步研究。
