Identification of small non-coding RNAs in the planarian Dugesia japonica via deep sequencing

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• 作者：Yun-Fei Qin¹ ; Jin-Mei Zhao¹ ; Zhen-Xia Bao¹ ; Zhao-Yu Zhu ; Jia Mai ; Yi-Bo Huang ; Jian-Biao Li ; Ge Chen ; Ping Lu ; San-Jun Chen ; Lin-Lin Su ; Hui-Min Fang ; Ji-Ke Lu ; Yi-Zhe Zhang ; Shou-Tao Zhang ; ^{zhangst@zzu.edu.cn}
• 关键词：Deep sequencing ; Dugesia japonica ; Planarian ; Regeneration ; Small non-coding RNAs
• 刊名：Genomics
• 出版年：2012
• 期刊代码：170_08887543
• 类别：bio
• 出版时间：May, 2012
• 卷：99
• 期：5
• 页码：315-321
• 文件大小：696 K

摘要

Freshwater planarian flatworm possesses an extraordinary ability to regenerate lost body parts after amputation; it is perfect organism model in regeneration and stem cell biology. Recently, small RNAs have been an increasing concern and studied in many aspects, including regeneration and stem cell biology, among others. In the current study, the large-scale cloning and sequencing of sRNAs from the intact and regenerative planarian Dugesia japonica are reported. Sequence analysis shows that sRNAs between 18nt and 40nt are mainly microRNAs and piRNAs. In addition, 209 conserved miRNAs and 12 novel miRNAs are identified. Especially, a better screening target method, negative-correlation relationship of miRNAs and mRNA, is adopted to improve target prediction accuracy. Similar to miRNAs, a diverse population of piRNAs and changes in the two samples are also listed. The present study is the first to report on the important role of sRNAs during planarian Dugesia japonica regeneration.