Identification and characterization of small RNAs in the hyperthermophilic archaeon Sulfolobus solfataricus.
Identification and characterization of small RNAs in the hyperthermophilic archaeon Sulfolobus solfataricus.
复制标题
超嗜热古菌硫磺叶菌中小 RNA 的鉴定和表征
DOI：
10.1371/journal.pone.0035306
复制
发表时间：
2012
期刊：
影响因子：
3.7
通讯作者：
Guo HS
中科院分区：
文献类型：
--
作者：
Xu N;Li Y;Zhao YT;Guo L;Fang YY;Zhao JH;Wang XJ;Huang L;Guo HS
术语RNA沉默（RNA干扰，RNAi）描述了一套调节真核生物基因表达的机制。小干扰rna （Small interfering rna, siRNA）和微rna （microRNAs, miRNAs）是在大多数真核生物中发现的两种主要类型的rna相关小rna （Small rna, smrna）。尽管在各种古生菌中存在大量长度超过50个核苷酸（nt）的非编码rna，但人们对古生菌中与真核生物中发现的20 - 24个nt长的smrna相似的smrna知之甚少，这些smrna与基因表达的转录后控制有关。在这里，我们报道了基于深度测序从嗜热古菌Sulfolobus solfataricus p2 （Ssp2）中发现了大量长度约为20 nt的smrna，包括阶段性smrna和潜在的miRNAs。一些候选miRNA在Ssp2中的表达得到了证实。与Ssp2的超嗜热特性一致，我们发现在体外系统中，使用假定的折叠前体转录物与Ssp2提取物孵育，更高的温度更有效地诱导miRNA候选物的产生。虽然我们最初预测了一些miRNA候选的假定靶基因，但进一步的分析绘制了miRNA候选互补区域下游的切割位点，类似于植物miRNA介导的TAS转录物切割。我们还从聚集的、有规则间隔的短回文重复（CRISPR）基因座中鉴定出smrna，这些基因座在原核微生物防御系统中起着重要作用。古生菌是仅次于细菌和真核生物的一种独特的生命形式，我们的研究结果可能为进一步深入研究这种特殊生物中smrna的调控和进化提供有用的资源。
The term RNA silencing (RNA interference, RNAi) describes a set of mechanisms that regulate gene expression in eukaryotes. Small interfering RNAs (siRNA) and microRNAs (miRNAs) are two major types of RNAi-associated small RNAs (smRNAs) found in most eukaryotic organisms. Despite the presence of a plethora of non-coding RNAs longer than 50-nucleotide (nt) in length in various species of Archaea, little is known about smRNAs in archaea that resemble the 20–24-nt long smRNAs found in eukaryotes, which have been implicated in the post-transcriptional control of gene expression. Here, we report the finding of a large number of smRNAs approximatelly 20-nt in length, including phased smRNAs and potential miRNAs, from the hyperthermophilic archaeon Sulfolobus solfataricus p2 (Ssp2) based on deep sequencing. The expression of some of the miRNA candidates in Ssp2 was confirmed. Consistent with the Ssp2 hyperthermophilic properties, we found that higher temperatures more efficiently induced the production of the miRNA candidates in an in vitro system using the putative foldback precursor transcripts incubated with Ssp2 extract. Although we initially predicted putative target genes of some miRNA candidates, further analysis mapped the cleavage sites downstream of the miRNA candidate complementary regions, similar to those involved in plant miRNA-mediated TAS transcript cleavage. We also identified smRNAs from clustered, regularly interspaced, short palindromic repeat (CRISPR) loci, which play important roles in prokaryotic microbial defense systems. Archaea represent a unique life form next to Bacteria and Eukarya, and our results may provide a useful resource for further in-depth study on the regulation and evolution of smRNAs in this special organism.
登录
查看更多内容
影响因子：
16
作者：
Hale, Caryn R.;Majumdar, Sonali;Elmore, Joshua;Pfister, Neil;Compton, Mark;Olson, Sara;Resch, Alissa M.;Glover, Claiborne V. C., III;Graveley, Brenton R.;Terns, Rebecca M.;Terns, Michael P.
通讯作者：
Terns, Michael P.
影响因子：
4.5
作者：
Hale, Caryn;Kleppe, Kyle;Terns, Michael P.
通讯作者：
Terns, Michael P.
通过反式编码的小 RNA 和宿主因子 RNase III 进行 CRISPR RNA 成熟。
影响因子：
64.8
作者：
Deltcheva, Elitza;Chylinski, Krzysztof;Sharma, Cynthia M.;Gonzales, Karine;Chao, Yanjie;Pirzada, Zaid A.;Eckert, Maria R.;Vogel, Joerg;Charpentier, Emmanuelle
通讯作者：
Charpentier, Emmanuelle
影响因子：
16
作者：
Jones-Rhoades, MW;Bartel, DP
通讯作者：
Bartel, DP
DOI：
10.1126/science.1159689
发表时间：
2008-08-15
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Brouns SJ;Jore MM;Lundgren M;Westra ER;Slijkhuis RJ;Snijders AP;Dickman MJ;Makarova KS;Koonin EV;van der Oost J
通讯作者：
van der Oost J