Dynamic expression of long non-coding RNAs (lncRNAs) in adult zebrafish.
Dynamic expression of long non-coding RNAs (lncRNAs) in adult zebrafish.
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DOI：
10.1371/journal.pone.0083616
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发表时间：
2013
期刊：
影响因子：
3.7
通讯作者：
Sivasubbu S
中科院分区：
文献类型：
--
作者：
Kaushik K;Leonard VE;Kv S;Lalwani MK;Jalali S;Patowary A;Joshi A;Scaria V;Sivasubbu S
长非编码 RNA (lncRNA) 代表一类几乎没有或没有蛋白质编码能力的转录物，最近因其作为基因表达调节因子的功能而变得重要。 lncRNA 的分子研究揭示了与蛋白质编码基因的多方面相互作用。有人认为，lncRNA 是参与发育和疾病过程中基因调控的另一层调控开关。成年阶段在特定组织或细胞类型中表达的LncRNA可以在组织和器官的形态、功能、维护和修复中发挥潜在作用。我们使用 RNA 测序和计算分析来识别来自成年斑马鱼五种不同组织的组织限制性 lncRNA 转录本特征。本研究报告了来自成年斑马鱼组织的 442 个预测的 lncRNA 转录本，其中 419 个是新的 lncRNA 转录本。其中，77 个 lncRNA 在所研究的 5 个主要组织中显示出主要的组织限制性表达。成年斑马鱼大脑表达的组织限制性lncRNA转录物数量最多，其次是心血管组织。我们还使用独立方法验证了 lncRNA 子集的组织限制表达。我们的数据构成了有用的基因组资源，有助于了解成年斑马鱼各种组织中 lncRNA 的表达。因此，我们的研究是一个起点，并为在维持器官形态和功能的背景下发现特定成体组织内基因表达的新分子相互作用开辟了一条道路。
Long non-coding RNAs (lncRNA) represent an assorted class of transcripts having little or no protein coding capacity and have recently gained importance for their function as regulators of gene expression. Molecular studies on lncRNA have uncovered multifaceted interactions with protein coding genes. It has been suggested that lncRNAs are an additional layer of regulatory switches involved in gene regulation during development and disease. LncRNAs expressing in specific tissues or cell types during adult stages can have potential roles in form, function, maintenance and repair of tissues and organs. We used RNA sequencing followed by computational analysis to identify tissue restricted lncRNA transcript signatures from five different tissues of adult zebrafish. The present study reports 442 predicted lncRNA transcripts from adult zebrafish tissues out of which 419 were novel lncRNA transcripts. Of these, 77 lncRNAs show predominant tissue restricted expression across the five major tissues investigated. Adult zebrafish brain expressed the largest number of tissue restricted lncRNA transcripts followed by cardiovascular tissue. We also validated the tissue restricted expression of a subset of lncRNAs using independent methods. Our data constitute a useful genomic resource towards understanding the expression of lncRNAs in various tissues in adult zebrafish. Our study is thus a starting point and opens a way towards discovering new molecular interactions of gene expression within the specific adult tissues in the context of maintenance of organ form and function.
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