Small RNAome sequencing delineates the small RNA landscape of pluripotent adult stem cells in the planarian Schmidtea mediterranea
| Autor: | Ge Li, Qing Jing, Bairong Shen, Yong-Qin Li, An Zeng, Yue Li, Xiao-Shuan Han |
|---|---|
| Rok vydání: | 2017 |
| Předmět: |
0301 basic medicine
Small RNA lcsh:QH426-470 Population Computational biology Biology Biochemistry 03 medical and health sciences 0302 clinical medicine Schmidtea mediterranea microRNA Genetics education Regulation of gene expression education.field_of_study RNA Regular Article biology.organism_classification Long non-coding RNA lcsh:Genetics 030104 developmental biology Planarian 030220 oncology & carcinogenesis Molecular Medicine Biotechnology |
| Zdroj: | Genomics Data, Vol 14, Iss C, Pp 114-125 (2017) Genomics Data |
| ISSN: | 2213-5960 |
| Popis: | Small noncoding RNAs play a pivotal role in the regulation of gene expression, and are key regulators of animal development. Freshwater planarian exhibits an extraordinary ability to regenerate any missing body parts, representing an emerging model for studying mechanism underlying stem cell regulation and tissue regeneration. Here, we utilized next-generation sequencing (NGS) to identify small RNAs that are expressed in planarian adult stem cells, and are implicated in tissue regeneration. We profiled microRNAs (miRNAs), piwi-interacting RNA (piRNAs), small rDNA-derived RNAs (srRNAs) and endogenous interfering RNAs ( endo -siRNAs) population from size 18–30 nt, measured the expression of 244 conserved miRNAs, and identified 41 novel miRNAs and 64 novel endo-siRNAs. Expression profiling analyses revealed that most piRNAs and srRNAs are up-regulated during regeneration, and that the most abundantly expressed srRNAs are from 5.8s and 28s rRNA. Furthermore, a target prediction method was adopted to investigate the anti-correlation of small RNAs and mRNA expression. We built up a gene regulatory network based on the genes that are targeted by dynamically changed small RNAs. These results expand the known small RNA repertoire in planarian, and provide valuable insights and a rich resource for understanding the small RNAs landscape in stem cell-mediated regeneration. |
| Databáze: | OpenAIRE |
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