Genome-wide identification and characterization of transfer RNA-derived small RNAs in Plasmodium falciparum
| العنوان: | Genome-wide identification and characterization of transfer RNA-derived small RNAs in Plasmodium falciparum |
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| المؤلفون: | Lianhui Zhang, Weiwei Deng, Zeng-Lei Wang, Heng Wang, Chunyan Wei, Zhensheng Wang, Xiao Hao |
| المصدر: | Parasites & Vectors, Vol 12, Iss 1, Pp 1-10 (2019) Parasites & Vectors |
| بيانات النشر: | BMC, 2019. |
| سنة النشر: | 2019 |
| مصطلحات موضوعية: | 0301 basic medicine, Small RNA, 030231 tropical medicine, Plasmodium falciparum, Short RNAs, Virulence, Genome, Plasmodium, Polymerase Chain Reaction, lcsh:Infectious and parasitic diseases, 03 medical and health sciences, 0302 clinical medicine, RNA, Transfer, tRFs, parasitic diseases, lcsh:RC109-216, Gene, Genetics, biology, Research, Small RNAs, Computational Biology, High-Throughput Nucleotide Sequencing, Sequence Analysis, DNA, biology.organism_classification, Reverse transcription polymerase chain reaction, 030104 developmental biology, Infectious Diseases, Transfer RNA, RNA, Small Untranslated, Parasitology, Genome, Protozoan |
| الوصف: | Background Transfer RNA (tRNA)-derived fragments (tRFs) have been widely identified in nature, functioning in diverse biological and pathological situations. Yet, the presence of these small RNAs in Plasmodium spp. remains unknown. Systematic identification and characterization of tRFs is therefore highly needed to understand further their roles in Plasmodium parasites, particularly in the virulent Plasmodium falciparum parasite. Results Genome-wide small RNAs with sizes ranging from 18–30 nucleotides from P. falciparum were deep-sequenced via Illumina HiSeq 2000 technology. In-depth analysis revealed the presence of a vast number of small RNAs originating from tRNA-coding genes, responsible for 22.4% of the total reads as the second predominant group. Three P. falciparum-derived tRF types (ptRFs) were identified as 5'ptRFs, mid-ptRFs and 3'ptRFs. The majority (90%) of ptRFs were derived from tRNAs that coded eight amino acids: Pro, Phe, Asn, Gly, Cys, Gln, His and Ala. Stem-loop reverse transcription polymerase chain reaction further confirmed the presence of tRFs in the blood stages of P. falciparum. Four new motifs with an enriched G/C feature were determined at cleavage sites that might guide the generation of ptRFs. Conclusions To our knowledge, this is the first report of a genome-wide investigation of ptRFs from Plasmodium species. The identification of ptRFs reveals a complex small RNA system manipulated by the malaria parasite, and might promote research on the function of tRFs in the pathogenesis of Plasmodium infections. Electronic supplementary material The online version of this article (10.1186/s13071-019-3301-6) contains supplementary material, which is available to authorized users. |
| اللغة: | English |
| تدمد: | 1756-3305 |
| الوصول الحر: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::8267c689971ea9624c5ec764dfca39e4Test http://link.springer.com/article/10.1186/s13071-019-3301-6Test |
| حقوق: | OPEN |
| رقم الانضمام: | edsair.doi.dedup.....8267c689971ea9624c5ec764dfca39e4 |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 17563305 |
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