Classification of Transcription Boundary-Associated RNAs (TBARs) in Animals and Plants.
Classification of Transcription Boundary-Associated RNAs (TBARs) in Animals and Plants.
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动物和植物转录边界相关 RNA (TBAR) 的分类
DOI：
10.3389/fgene.2018.00168
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发表时间：
2018
影响因子：
3.7
通讯作者：
Meng Y
中科院分区：
文献类型：
--
作者：
Yu D;Ma X;Zuo Z;Wang H;Meng Y
越来越多的证据表明非编码RNA（ncRNA）对生物体的表型和生理复杂性的贡献。在真核生物、细菌和古生菌中蛋白质编码基因的转录边界附近发现了一种新的ncRNA。本文对这些转录边界相关RNA（TBARs）进行了详细的描述，包括它们的分类。根据其基因组分布，TBAR分为两大类：启动子相关RNA（PARs）和末端相关RNA（TARs）。根据序列长度，每组进一步分为长RNA种类（>200 nt）和小RNA种类（<200 nt）。根据TBAR的分类规则，命名混乱的不同ncRNA，如启动子上游转录本（PROMPTs）、上游反义RNA（uaRNA）、稳定的未注释转录本（SUTs）、隐蔽的不稳定转录本（CUTs）、上游非编码转录本（UNTs）、转录起始位点相关RNA（UTs）等，转录起始RNA（tiRNA）和转录终止位点相关RNA（TTSaRNA）被分配到特定的类别。尽管PAR和TAR的生物发生途径尚未明确阐明，但先前的研究表明，一些PAR通过趋异转录或RNA聚合酶暂停起源。有趣的发现有关的TBAR的功能的影响，如长距离的“基因循环”的模型，它解释了它们在蛋白质编码基因的转录调控的作用，也进行了讨论。本文对TBAR的研究现状进行了综述，以期对该领域的进一步研究起到推动作用。
There is increasing evidence suggesting the contribution of non-coding RNAs (ncRNAs) to the phenotypic and physiological complexity of organisms. A novel ncRNA species has been identified near the transcription boundaries of protein-coding genes in eukaryotes, bacteria, and archaea. This review provides a detailed description of these transcription boundary-associated RNAs (TBARs), including their classification. Based on their genomic distribution, TBARs are divided into two major groups: promoter-associated RNAs (PARs) and terminus-associated RNAs (TARs). Depending on the sequence length, each group is further classified into long RNA species (>200 nt) and small RNA species (<200 nt). According to these rules of TBAR classification, divergent ncRNAs with confusing nomenclatures, such as promoter upstream transcripts (PROMPTs), upstream antisense RNAs (uaRNAs), stable unannotated transcripts (SUTs), cryptic unstable transcripts (CUTs), upstream non-coding transcripts (UNTs), transcription start site-associated RNAs (TSSaRNAs), transcription initiation RNAs (tiRNAs), and transcription termination site-associated RNAs (TTSaRNAs), were assigned to specific classes. Although the biogenesis pathways of PARs and TARs have not yet been clearly elucidated, previous studies indicate that some of the PARs have originated either through divergent transcription or via RNA polymerase pausing. Intriguing findings regarding the functional implications of the TBARs such as the long-range “gene looping” model, which explains their role in the transcriptional regulation of protein-coding genes, are also discussed. Altogether, this review provides a comprehensive overview of the current research status of TBARs, which will promote further investigations in this research area.
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