Swinburne University of Technology, Hawthorn, Australia.
Australian Genome Research Facility Ltd, The Walter and Eliza Hall Institute, 1G Royal Pde, Parkville, Melbourne, Victoria, Australia.
PLoS One. 2019 Mar 12;14(3):e0212996. doi: 10.1371/journal.pone.0212996. eCollection 2019.
MicroRNAs (miRNAs) are key players in regulation of gene expression at post-transcription level in eukaryotic cells. MiRNAs have been intensively studied in plants, animals and viruses. The investigations of bacterial miRNAs have gained less attention, except for the recent studies on miRNAs derived from Streptococcus mutans ATCC 25175 and Escherichia coli DH10B. In this study, high-throughput sequencing approach was employed to investigate the miRNA population in bacteria of the genus Thalassospira using both the miRDeep2 and CID-miRNA methods. A total of 984 putative miRNAs were identified in 9 species of the genus Thalassospira using both miRDeep and CID-miRNA analyses. Fifty seven conserved putative miRNAs were found in different species of the genus Thalassospira, and up to 6 miRNAs were found to be present at different locations in the T. alkalitolerans JCM 18968T, T. lucentensis QMT2T and T. xianhensis P-4T. None of the putative miRNAs was found to share sequence to the reported miRNAs in E. coli DH10B and S. mutans ATCC 25175. The findings provide a comprehensive list of computationally identified miRNAs in 9 bacterial species of the genus Thalassospira and addressed the existing knowledge gap on the presence of miRNAs in the Thalassospira genomes.
微小 RNA（miRNA）是真核细胞中转录后基因表达调控的关键因子。miRNA 在植物、动物和病毒中得到了广泛研究。除了最近对变形链球菌 ATCC 25175 和大肠杆菌 DH10B 衍生的 miRNA 的研究外，细菌 miRNA 的研究受到的关注较少。在这项研究中，使用 miRDeep2 和 CID-miRNA 方法，通过高通量测序方法研究了海洋螺旋菌属细菌中的 miRNA 群体。使用 miRDeep 和 CID-miRNA 分析，在 9 种海洋螺旋菌属中鉴定出了 984 个推定的 miRNA。在不同的海洋螺旋菌属物种中发现了 57 个保守的推定 miRNA，在 T. alkalitolerans JCM 18968T、T. lucentensis QMT2T 和 T. xianhensis P-4T 中发现多达 6 个 miRNA 存在于不同的位置。在大肠杆菌 DH10B 和变形链球菌 ATCC 25175 中没有发现任何推定 miRNA 与报道的 miRNA 具有序列相似性。这些发现提供了海洋螺旋菌属 9 个细菌物种中计算鉴定的 miRNA 的综合列表，并解决了关于 miRNA 在海洋螺旋菌属基因组中存在的现有知识空白。
