Institute of Bioinformatics, University of Georgia, Athens, GA, USA.
Center for Tropical and Emerging Global Diseases, University of Georgia, Athens, GA, USA.
Microb Genom. 2022 May;8(5). doi: 10.1099/mgen.0.000821.
Small and intermediate-size noncoding RNAs (sRNAs and is-ncRNAs) have been shown to play important regulatory roles in the development of several eukaryotic organisms. However, they have not been thoroughly explored in , an obligate zoonotic protist parasite responsible for the diarrhoeal disease cryptosporidiosis. Using Illumina sequencing of a small RNA library, a systematic identification of novel small and is-ncRNAs was performed in excysted sporozoites. A total of 79 novel is-ncRNA candidates, including antisense, intergenic and intronic is-ncRNAs, were identified, including 7 new small nucleolar RNAs (snoRNAs). Expression of select novel is-ncRNAs was confirmed by RT-PCR. Phylogenetic conservation was analysed using covariance models (CMs) in related and apicomplexan parasite genome sequences. A potential new type of small ncRNA derived from tRNA fragments was observed. Overall, a deep profiling analysis of novel is-ncRNAs in and related species revealed structural features and conservation of these novel is-ncRNAs. Covariance models can be used to detect is-ncRNA genes in other closely related parasites. These findings provide important new sequences for additional functional characterization of novel is-ncRNAs in the protist pathogen .
小和中等大小的非编码 RNA（sRNAs 和 is-ncRNAs）已被证明在几种真核生物的发育中发挥重要的调节作用。然而，它们在 中尚未得到充分的探索， 是一种专性动物源原生动物寄生虫，负责腹泻病隐孢子虫病。本研究通过对小 RNA 文库进行 Illumina 测序，在 出芽的孢子中进行了新型小 RNA 和 is-ncRNA 的系统鉴定。总共鉴定出 79 个新型 is-ncRNA 候选物，包括反义、基因间和内含子 is-ncRNA，包括 7 个新的小核仁 RNA（snoRNAs）。通过 RT-PCR 证实了选定的新型 is-ncRNA 的表达。利用相关 和顶复门寄生虫基因组序列中的协方差模型（CMs）分析了这些新型 is-ncRNA 的系统发育保守性。观察到一种源自 tRNA 片段的潜在新型小 ncRNA。总的来说，对 和相关物种中新型 is-ncRNA 的深度分析揭示了这些新型 is-ncRNA 的结构特征和保守性。协方差模型可用于检测其他密切相关寄生虫中的 is-ncRNA 基因。这些发现为进一步研究原生动物病原体 中的新型 is-ncRNA 的功能特征提供了重要的新序列。
