解析拟南芥中的染色体外环状DNA
Deciphering extrachromosomal circular DNA in Arabidopsis.
作者信息
Wang Keyi, Tian Hui, Wang Lequn, Wang Lin, Tan Yacong, Zhang Ziting, Sun Kai, Yin Meng, Wei Qinggong, Guo Baohua, Han Jinyu, Zhang Peiru, Li Han, Liu Yulong, Zhao Hongwei, Sun Xiaoyong
机构信息
Agricultural Big-Data Research Center, College of Information Science and Engineering, Shandong Agricultural University, Taian 271018, China.
Shanghai ERA Medicine, Shanghai, China.
出版信息
Comput Struct Biotechnol J. 2021 Feb 9;19:1176-1183. doi: 10.1016/j.csbj.2021.01.043. eCollection 2021.
Extrachromosomal circular DNA (eccDNA) is independent of the chromosome and exists in many eukaryotes. However, the nature and origin of eccDNA in plants remains unclear. In this study, we sequenced 12 samples from four tissues (leaf, flower, stem and root) with three biological replicates. In total, we found 743 eccDNAs found in at least two samples. Most of eccDNA have inverted repeats ranging from 4 to 12 bp in the boundaries. Interestingly, eccDNA is not only related to transposon activity, but also hosts tRNA genes, suggesting that the eccDNAs may be associated with tRNA abundance which controls protein synthesis under conditions of stress. Our results provide an unprecedented view of eccDNA, which is still naïve in scope.
染色体外环状DNA（eccDNA）独立于染色体，存在于许多真核生物中。然而，植物中eccDNA的性质和起源仍不清楚。在本研究中，我们对来自四个组织（叶、花、茎和根）的12个样本进行了测序，每个组织有三个生物学重复。总共，我们在至少两个样本中发现了743个eccDNA。大多数eccDNA在边界处有4到12个碱基对的反向重复序列。有趣的是，eccDNA不仅与转座子活性有关，还含有tRNA基因，这表明eccDNA可能与tRNA丰度有关，而tRNA丰度在应激条件下控制蛋白质合成。我们的结果提供了一个关于eccDNA的前所未有的观点，其范围仍然有限。
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