Zhou Yujie, Cho Won Kyong, Byun Hee-Seong, Chavan Vivek, Kil Eui-Joon, Lee Sukchan, Hong Seung-Woo
Department of Energy Science, Sungkyunkwan University, Suwon, South Korea.
Research Institute of Agriculture and Life Sciences, College of Agriculture and Life Sciences, Seoul National University, Seoul, South Korea.
PeerJ. 2019 Jan 28;7:e6286. doi: 10.7717/peerj.6286. eCollection 2019.
Long non-coding RNAs (lncRNAs) play an important role in regulating many biological processes. In this study, tomato seeds were first irradiated by neutrons. Eight tomato mutants were then selected and infected by (TYLCV). RNA sequencing followed by bioinformatics analyses identified 1,563 tomato lncRNAs. About half of the lncRNAs were derived from intergenic regions, whereas antisense lncRNAs accounted for 35%. There were fewer lncRNAs identified in our study than in other studies identifying tomato lncRNAs. Functional classification of 794 lncRNAs associated with tomato genes showed that many lncRNAs were associated with binding functions required for interactions with other molecules and localized in the cytosol and membrane. In addition, we identified 19 up-regulated and 11 down-regulated tomato lncRNAs by comparing TYLCV infected plants to non-infected plants using previously published data. Based on these results, the lncRNAs identified in this study provide important resources for characterization of tomato lncRNAs in response to TYLCV infection.
长链非编码RNA（lncRNAs）在调控多种生物学过程中发挥着重要作用。在本研究中，番茄种子首先受到中子辐照。随后挑选出8个番茄突变体并接种番茄黄化曲叶病毒（TYLCV）。通过RNA测序及生物信息学分析鉴定出1563个番茄lncRNAs。约一半的lncRNAs来源于基因间区域，而反义lncRNAs占35%。与其他鉴定番茄lncRNAs的研究相比，本研究鉴定出的lncRNAs数量较少。对794个与番茄基因相关的lncRNAs进行功能分类表明，许多lncRNAs与与其他分子相互作用所需的结合功能相关，且定位于细胞质和细胞膜。此外，通过使用先前发表的数据将感染TYLCV的植株与未感染植株进行比较，我们鉴定出19个上调和11个下调的番茄lncRNAs。基于这些结果，本研究中鉴定出的lncRNAs为表征番茄对TYLCV感染的lncRNAs提供了重要资源。
